Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold344
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: 1758742
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:904491 original size:28 final size:29
Alignment explanation
Indices: 904437--906573 Score: 1896
Period size: 28 Copynumber: 76.3 Consensus size: 29
904427 GGCTTTGAAA
*
904437 GGGCTTTGAAAA-GAGTGCCACTGACTTAT
1 GGGCTTTGAAAAGGA-TGCCACTGACTTGT
904466 GGGCTTTGAAAAGG-TGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904494 GGGCTTTG-AAAGGGTGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904522 GGGCTTTAAAAAGG-TGCCATTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904550 GGGCTTTG-AAAGGGTGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904578 GGGCTTT-AAAAAGATGTCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904606 GGGCTTTG-AAATGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
904634 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
904662 GGCCTTT-AAAATGATGCCACCGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904690 GGGCTTT-AAAAGGATGCCATTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
904718 GGGCTTTGAAAA-GTTACCACCGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
904746 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
904774 GGGCTTTGAAAA-GTTACCACCGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904802 GGGCTTT-AAAAGGATGCCATTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904830 GGGCTTTG-AAAGGAAGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
904858 GGACTTTG-AAAGGATGCCACTAACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
904886 GGGCTTT-AAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904914 GGGCTTTG-AAAGGTTGCCACCGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904942 GGG-TTTTAAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
904970 GGGCTTTGAAAAGGGTGCTACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
904999 GGGCTTT-AAAATGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905027 GGGCTTTG-AAATGATGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905055 GGGCTTTG-AAAGGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
905083 GGGCTTTG-AAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905111 GGGCTTT-AAAAAGATGCCACAGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
905139 GGAC-TTAAAAAGG-TGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905166 GGACTTTGAAAATGG-TGCCACTGA-TTCGT
1 GGGCTTTGAAAA-GGATGCCACTGACTT-GT
905195 GGGCTTT-AAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905223 GGGCTTTG-AAATGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905251 GGGCTTTG-AAATGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905279 GAGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905307 GGGCTTTG-AAAGGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905335 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905363 GAGCTTTG-AAATGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905391 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905419 GGGCTTTG-AAAGGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905447 GGGCTTT-AAAAGGATGCCACTGATTTAT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905475 GGGCTTTGAAAA-GTTGCCACCGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905503 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905531 GGGCTTTG-AAAGGTTGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* **
905559 GGGCTTTGAAAATGATGCCACTGACTCAT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
905588 GGGCTTT-AAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905616 GGGCTTTG-AAAGGTTGCCACCGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905644 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905672 GGGCTTTGAAAATGG-TGCCACTGACTCGT
1 GGGCTTTGAAAA-GGATGCCACTGACTTGT
*
905701 GGGCTTTG-AAAGGATGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905729 GGGCTTTG-AAAGAATGCCATTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905757 GGGCTTT-AAAAGGATGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905785 GGGCTTTG-AAAGGTTGCCACCGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905813 GGGCTTTGAAAA-GTTGCCACCGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905841 GGGCTTT-AAAAGGATGCCACTGATTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* *
905869 GGGCTTTG-AAAGGTTGCCACTAACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
*
905897 GGGCTTTG-AAAGGATGCCACTGACTCGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
905925 GGGCTTTGAAAA-GATGCCACTGACTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
905953 GGGCTTT-AAAAAGATGCCACAGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* ** * * *
905981 GGAC-TCAAAAAAG-TGCCACAGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * **
906008 GGACTTT-AAAAGGATGCCACAGTGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
906036 GGAC-TT-AAAAGGGTGCCAC-GAAGTGGT
1 GGGCTTTGAAAAGGATGCCACTG-ACTTGT
* * *
906063 GGACTTT-AAAA-GAGTGCCACAGAGTTGT
1 GGGCTTTGAAAAGGA-TGCCACTGACTTGT
* * *
906091 GGAC-TT-AAAAGGGGTGCCA-TGATGTTGT
1 GGGCTTTGAAAA-GGATGCCACTGA-CTTGT
* * * * *
906119 GGAC-TT-AAAAGGGTGCCACGGAGTGGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * * *
906146 GGACTTTAAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
906175 GGACTTTG-AAATGATGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
906203 GGACTTT-AAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
906231 GGACTTT--AAAGGGTGCCACAGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
906258 GGAC-TT-AAAAGGATGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
906285 GGACTTT-AAAAGGGTGCCAC-GATGTTGT
1 GGGCTTTGAAAAGGATGCCACTGA-CTTGT
* * * *
906313 GGACTTT--AAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* ** *
906340 GGAC-TT-AAAAGGATGCCAAGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
906367 GGACTTT-AAAAGGGTGCCAC-GATGTTGT
1 GGGCTTTGAAAAGGATGCCACTGA-CTTGT
* * * * *
906395 GGAC-TT-AAAAGGGTGCCACGGAGTGGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * * *
906422 GGACTTTAAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * *
906451 GGACTTT-AAAAAGATGCCACGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * * * *
906479 -GGATTTTAAAAGGATGCCACGGAGTTAT
1 GGGCTTTGAAAAGGATGCCACTGACTTGT
* * *
906507 GGAC-TT-AAAAGGATACCA-TGGAGTTGT
1 GGGCTTTGAAAAGGATGCCACT-GACTTGT
* * * *
906534 GGACTTTGAAAAGAAATGCCACTGAATCGT
1 GGGCTTTGAAAAG-GATGCCACTGACTTGT
*
906564 GGACTTTGAA
1 GGGCTTTGAA
906574 GAGGTCACAA
Statistics
Matches: 1816, Mismatches: 213, Indels: 157
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.00
27 267 0.15
28 1330 0.73
29 190 0.10
30 23 0.01
31 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
GGGCTTTGAAAAGGATGCCACTGACTTGT
Found at i:914947 original size:20 final size:20
Alignment explanation
Indices: 914918--914993 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
914908 AAAAAGACAT
*
914918 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
914938 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
914958 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
914978 AATGTATCGATACATT
1 AATGTATCGATACATT
914994 TGGGTAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:914986 original size:40 final size:39
Alignment explanation
Indices: 914915--914993 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
914905 GGTAAAAAGA
* *
914915 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
914954 CATACATGTATCGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
914994 TGGGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:918288 original size:21 final size:21
Alignment explanation
Indices: 918238--918288 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
918228 AGTTTAGAGG
*
918238 TAAAAATATATTTTTAAAAGT
1 TAAAAAAATATTTTTAAAAGT
*
918259 TAAAGAAAT-TTTTTCAAAA-T
1 TAAAAAAATATTTTT-AAAAGT
918279 TCAAAAAAAT
1 T-AAAAAAAT
918289 CACTTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAAAAAAATATTTTTAAAAGT
Found at i:920431 original size:20 final size:20
Alignment explanation
Indices: 920403--920477 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
920393 TTTTACCTTG
920403 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
920423 ATATATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* * *
920443 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
920463 ATGTATCAATACATT
1 ATGTATCGATACATT
920478 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:920475 original size:40 final size:39
Alignment explanation
Indices: 920403--920480 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
920393 TTTTACCTTG
* * *
920403 ATGTATCGATACATTTTTCAATATATCGATACATATATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* *
920443 ATGTATCGATATATTCTACAATGTATCAATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
920481 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:928994 original size:27 final size:27
Alignment explanation
Indices: 928917--929435 Score: 815
Period size: 27 Copynumber: 19.0 Consensus size: 27
928907 TGGCATTTCT
*
928917 TTTTGAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
928945 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
928973 TTTTAAATCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
929000 TTTTAAAGTCCACAACTCTGTGGCACTC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
929028 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
929056 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** *
929083 TTCAAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929110 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
929138 TTTTAAGTCCACAACTCTGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
929164 TTTCAAAGTCCACAACTCCGTAGCACCT
1 TTT-TAAGTCCACAACTCCGTGGCACCC
*
929192 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
929219 TTTTAACTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929246 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929273 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929300 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
929328 TTTTAAGACCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929355 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
929382 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929409 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
929436 ATTTCAAAGC
Statistics
Matches: 456, Mismatches: 30, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
26 5 0.01
27 315 0.69
28 136 0.30
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:929128 original size:82 final size:82
Alignment explanation
Indices: 928922--929433 Score: 800
Period size: 82 Copynumber: 6.3 Consensus size: 82
928912 TTTCTTTTTG
* *
928922 AAGTCCACAACTCCGTGGCA-TCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAATCCACA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
928986 ACTCCGTGGCACTCTTTTA
65 ACTCCGTGGCAC-CCTTTA
*
929005 AAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
929070 CTCCGTGGCACCCTTCA
66 CTCCGTGGCACCCTTTA
929087 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
929152 CTCTGTGGCA-CCTTTCA
66 CTCCGTGGCACCCTTT-A
* * * *
929169 AAGTCCACAACTCCGTAGCAC-CTTTTTAAGTCCACAACTCCGTGGCACCTTTTTAACTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
929233 CTCCGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTA
*
929250 AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
929314 CTCCGTGGCATCCCTTTT
66 CTCCGTGGCA-CCCTTTA
* *
929332 AAGACCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
929396 CTCTGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTA
929413 AAGTCCACAACTCCGTGGCAC
1 AAGTCCACAACTCCGTGGCAC
929434 CCATTTCAAA
Statistics
Matches: 404, Mismatches: 20, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
81 145 0.36
82 187 0.46
83 71 0.18
84 1 0.00
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTA
Found at i:929508 original size:64 final size:58
Alignment explanation
Indices: 928927--930858 Score: 1471
Period size: 64 Copynumber: 33.2 Consensus size: 58
928917 TTTTGAAGTC
* * * * * * * * *
928927 CACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAA--TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * * * *
928982 CACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACTCTTTTAAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * *
929038 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC-TTCAAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * * *
929092 CACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * ** *
929147 CACAACTCTGTGGCA-CCTTTCAAAGTCCACAACTCCGTAGCA-CCTTTTTAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * ** * * * *
929201 CACAACTCCGTGGCA-CCTTTTTAA-CTCCACAACTCCGTGGCACCCTTT-TAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGC-CCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
929255 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCCTTT-TAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
929309 CACAACTCCGTGGCATCCCTTT-TAAGACCACAACTCCGTGGCACCCTTT-TAAG-TC-
1 CACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
929364 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCACCCTTT-TAAG-TC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
929418 CACAACTCCGTGGCACCCATTTCAAAGCTCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGCACCC-TTTCAAAGC-C-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
929481 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
929545 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * *
929609 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
929673 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* *
929737 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * *
929801 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCA
* * * * *
929865 CATAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCC-TTTC-AAAGCC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
929929 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
*
929987 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* *
930045 CACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
930102 CACAAGTTAGTGGCACCCTTTTAGAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
930160 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCCGTGGCACTCCTTTAAAAG-CC-
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * *
930218 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCA
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
*
930278 CA-AA-TCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * *
930332 CACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
930388 CACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
930446 CACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAA-TCC-
1 CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
930505 CACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
930561 CACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
* * * *
930622 CGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* ** * *
930678 CACAAGTCAGTGGCACCCTTTC-AGGCCCATGAGTCAGTGGTACCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * *
930733 CACGAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * *
930788 CACGAGTCAGTGGCATCCTTTTAAAGCCCACGCAAATCAGTGGCACCCTTTTAAAGCTCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCA
*
930848 CGCAAGTCAGT
1 CACAAGTCAGT
930859 AACACTCTTT
Statistics
Matches: 1696, Mismatches: 131, Indels: 95
0.88 0.07 0.05
Matches are distributed among these distances:
53 5 0.00
54 224 0.13
55 266 0.16
56 241 0.14
57 62 0.04
58 256 0.15
59 86 0.05
60 39 0.02
61 61 0.04
62 6 0.00
63 18 0.01
64 428 0.25
65 4 0.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (58 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
Found at i:929540 original size:96 final size:88
Alignment explanation
Indices: 928955--930858 Score: 1457
Period size: 96 Copynumber: 21.8 Consensus size: 88
928945 TTTTAAAGTC
* * * * * * * * * *
928955 CACAACTCTGTGGCACCCTTTTAAA-TCCACAACTCCGTGGCACTCTTTTAAAG-TC-CACAACT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
* * * *
929017 CTGTGGCACTCTTTTAAAG-TC-
66 CAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
929038 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC-TTCAAAG-TC-CACAACT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
* * * *
929099 CCGTGGCACTCTTTTAAAG-TC-
66 CAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
929120 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCA-CCTTTCAAAG-TC-CACAACT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
* * ** *
929181 CCGTAGCA-CCTTTTTAAG-TC-
66 CAGTGGCACCCTTTCAAAGCCCA
* * ** * * * * *
929201 CACAACTCCGTGGCA-CCTTTTTAA-CTCCACAACTCCGTGGCACCCTTT-TAAG-TC-CACAAC
1 CACAAGTCAGTGGCACCCTTTCAAAGC-CCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAG
* * *
929261 TCCGTGGCACCCTTT-TAAG-TC-
65 TCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * * *
929282 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCATCCCTTT-TAAG-AC-CACAAC
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACACAAG
* * *
929343 TCCGTGGCACCCTTT-TAAG-TC-
65 TCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * * *
929364 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCACCCTTT-TAAG-TC-CACAACT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
* *
929425 CCGTGGCACCCATTTCAAAGCTCA
66 CAGTGGCACCC-TTTCAAAGCCCA
* * *
929449 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
929514 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
60 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
929545 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
929610 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
60 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * *
929641 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
929706 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
60 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* *
929737 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
*
929802 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
60 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
* * * *
929833 CACAAGTCGGTGGCAACCTATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAACCCAC
1 CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCAC--AAGTCAGTGGC-ACCC-TTTCAAAGCCCAC
* *
929898 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
60 ACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA
929929 CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAA
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAA
929992 GTCAGTGGCACTCCTTTCAAAG-CC-
64 GTCAGTGGCAC-CCTTTCAAAGCCCA
* * *
930016 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAG-CC-CACAA
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAA
930079 GTCAGTGGCACCCTTTCAAAG-CC-
64 GTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
930102 CACAAGTTAGTGGCACCCTTTTAGAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
930167 CAGTGGCACTCCTTTCAAAG-CC-
66 CAGTGGCAC-CCTTTCAAAGCCCA
* * *
930189 CACAAGTCCGTGGCACTCCTTTAAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA-AA
1 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAA
*
930253 -TCAGTGGCACTCTTTTCAAAGCCCA
64 GTCAGTGGCAC-CCTTTCAAAGCCCA
*
930278 CA-AA-TCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG-CC-CACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
*
930339 CAGTGGCACCCTTTCGAAG-CC-
66 CAGTGGCACCCTTTCAAAGCCCA
* * * * *
930360 CACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAG-CC-CACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
*
930423 CAGTGGCACCCTTTTAAAGCCCA
66 CAGTGGCACCCTTTCAAAGCCCA
* * * * * *
930446 CACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAA-TCC-CACG
1 CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACACA
*
930509 AGTCAGTGGCACTCTTTCAAAG-CC-
63 AGTCAGTGGCACCCTTTCAAAGCCCA
* * *
930533 CACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
930598 CAGTGGCACTCCTTTCAAAGCCCA
66 CAGTGGCAC-CCTTTCAAAGCCCA
* * * *
930622 CGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAG-CC-CACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
*
930685 CAGTGGCACCCTTTC--AGGCC-
66 CAGTGGCACCCTTTCAAAGCCCA
** * * *
930705 CATGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTCAAAG-CC-CACAAGT
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
* *
930767 TAGTGGCACTCTTTCAAAG-CC-
66 CAGTGGCACCCTTTCAAAGCCCA
* * * * * * *
930788 CACGAGTCAGTGGCATCCTTTTAAAGCCCACGCAAATCAGTGGCACCCTTTTAAAGCTCACGCAA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACACAA
930853 GTCAGT
64 GTCAGT
930859 AACACTCTTT
Statistics
Matches: 1639, Mismatches: 123, Indels: 113
0.87 0.07 0.06
Matches are distributed among these distances:
80 5 0.00
81 133 0.08
82 231 0.14
83 114 0.07
84 116 0.07
85 72 0.04
86 129 0.08
87 177 0.11
88 52 0.03
89 120 0.07
90 27 0.02
91 6 0.00
92 11 0.01
93 15 0.01
94 4 0.00
95 29 0.02
96 398 0.24
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (88 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGT
CAGTGGCACCCTTTCAAAGCCCA
Found at i:930104 original size:28 final size:28
Alignment explanation
Indices: 928926--930858 Score: 1569
Period size: 28 Copynumber: 66.4 Consensus size: 28
928916 TTTTTGAAGT
* * * * *
928926 CCACAACTCCGTGGCATCCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
928954 CCACAACTCTGTGGCACCCTTTTAAA-T
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
928981 CCACAACTCCGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
929009 CCACAACTCTGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929037 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
929064 CCACAACTCCGTGGCACCC-TTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
929091 CCACAACTCCGTGGCACTCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929119 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
929146 CCACAACTCTGTGGCA-CCTTTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * ** *
929173 CCACAACTCCGTAGCA-CCTTTTTAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * **
929200 CCACAACTCCGTGGCA-CCTTTTTAA-C
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929226 TCCACAACTCCGTGGCACCCTTT-TAAGT
1 -CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929254 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929281 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929308 CCACAACTCCGTGGCATCCCTTT-TAAGA
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * *
929336 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929363 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
929390 CCACAACTCTGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
929417 CCACAACTCCGTGGCACCCATTTCAAAGC
1 CCACAAGTCAGTGGCACCC-TTTCAAAGC
*
929446 TCACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 -C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929479 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929511 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929543 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929575 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929607 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
929639 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929671 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929703 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
929735 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
929767 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
929799 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
929831 CACACAAGTCGGTGGCAACCTATTTCAAAGC
1 C-CACAAGTCAGTGGC-ACC-CTTTCAAAGC
* *
929862 CCACATAAGTCGGTGGCAACCCATTTCAAAACC
1 CCAC--AAGTCAGTGGC-ACCC-TTTC-AAAGC
* *
929895 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
929927 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
929957 CCACAAGTCAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
929986 CCACAAGTCAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
930015 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
930044 CCACAAGTTAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
930073 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
930101 CCACAAGTTAGTGGCACCCTTTTAGAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
930129 CCATAAGTCAGTGGCACCCTTTTAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
930158 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
930188 CCACAAGTCCGTGGCACTCCTTTAAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
930217 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
930246 CCACAAATCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
930275 CCACAAATCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930303 CCACAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930331 CCACAAGTCAGTGGCACCCTTTCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
930359 CCACAAGTCAGTGGCACCATTGCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
930387 CCACAATTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930415 CCACAAGTCAGTGGCACCCTTTTAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
*
930444 CACACAAGTCAGTGGCACTCCTTTTAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
* * * *
930474 TCACGCAAGTCAGTGGTACCTTTTCAAATC
1 -C-CACAAGTCAGTGGCACCCTTTCAAAGC
* *
930504 CCACGAGTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930532 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
930560 CCACGAGTTAGTGGCACCCTTTCAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
930589 CACACAAGTCAGTGGCACTCCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
*
930619 CCACGCAAGTCAGTGGCACCTTTTCAAAGC
1 CCA--CAAGTCAGTGGCACCCTTTCAAAGC
* *
930649 CCACGAGTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930677 CCACAAGTCAGTGGCACCCTTTC-AGGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
** * *
930704 CCATGAGTCAGTGGTACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
930732 CCACGAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
930759 CCACAAGTTAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
930787 CCACGAGTCAGTGGCATCCTTTTAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
930815 CCACGCAAATCAGTGGCACCCTTTTAAAGC
1 CCA--CAAGTCAGTGGCACCCTTTCAAAGC
*
930845 TCACGCAAGTCAGT
1 -C-CACAAGTCAGT
930859 AACACTCTTT
Statistics
Matches: 1744, Mismatches: 121, Indels: 78
0.90 0.06 0.04
Matches are distributed among these distances:
26 7 0.00
27 356 0.20
28 494 0.28
29 238 0.14
30 107 0.06
31 86 0.05
32 447 0.26
33 6 0.00
34 3 0.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:930874 original size:31 final size:30
Alignment explanation
Indices: 930804--930879 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
930794 TCAGTGGCAT
**
930804 CCTTTTAAAGCCCACGCAAATCAGTGGCAC
1 CCTTTTAAAGCCCACGCAAATCAGTAACAC
* *
930834 CCTTTTAAAGCTCACGCAAGTCAGTAACAC
1 CCTTTTAAAGCCCACGCAAATCAGTAACAC
*
930864 TCTTTTTAAAGCCCAC
1 -CCTTTTAAAGCCCAC
930880 ATGTTTCAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 26 0.67
31 13 0.33
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (30 bp):
CCTTTTAAAGCCCACGCAAATCAGTAACAC
Found at i:931559 original size:40 final size:39
Alignment explanation
Indices: 931487--931564 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 39
931477 TTTTACCTTG
* * *
931487 ATGTATCGATACATTTTTCAATATATCGATACATATATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* * *
931527 ATGTATTGATATATTCTACAATGTATCAATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
931565 TCTTTTTACC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:938308 original size:16 final size:16
Alignment explanation
Indices: 938287--938317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
938277 TCTAAATACC
*
938287 AAAAAAATAGAAAAAA
1 AAAAAAAGAGAAAAAA
938303 AAAAAAAGAGAAAAA
1 AAAAAAAGAGAAAAA
938318 TTGATAAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAA
Found at i:938958 original size:14 final size:15
Alignment explanation
Indices: 938930--938971 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
938920 GTTAGTAGAG
938930 TAAAAAGTAAAAGGA
1 TAAAAAGTAAAAGGA
*
938945 TAAAAAG-AAGAGGA
1 TAAAAAGTAAAAGGA
938959 TGAAAAAGTAAAA
1 T-AAAAAGTAAAA
938972 AAGAGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 13 0.57
16 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (15 bp):
TAAAAAGTAAAAGGA
Found at i:939055 original size:73 final size:72
Alignment explanation
Indices: 938970--939111 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
938960 GAAAAAGTAA
*
938970 AAAAGAGAAATTAATTTTGAA-CATGATTGGTAAGAAAGAAAAAAATGATCGAAAGAAAATGCAA
1 AAAAGAGAAATTAATTTT-AAGCATGATTGGTAAGAAAG--AAAAATGAACGAAAGAAAATGCAA
*
939034 CAAATTAGTG
63 AAAATTAGTG
*
939044 AAAAGAG-AATTAATTTTAAGCATGATTGGTAAGAAAGAAAAATGAACGAAAGAAAATGTAAAAA
1 AAAAGAGAAATTAATTTTAAGCATGATTGGTAAGAAAGAAAAATGAACGAAAGAAAATGCAAAAA
939108 ATTA
66 ATTA
939112 TCATTTTTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
71 28 0.44
72 2 0.03
73 27 0.42
74 7 0.11
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (72 bp):
AAAAGAGAAATTAATTTTAAGCATGATTGGTAAGAAAGAAAAATGAACGAAAGAAAATGCAAAAA
ATTAGTG
Found at i:945205 original size:2 final size:2
Alignment explanation
Indices: 945198--945231 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
945188 TGAGCATAAG
945198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
945232 TGTTCATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:947481 original size:37 final size:37
Alignment explanation
Indices: 947431--947502 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
947421 GTGAAGCACT
947431 AAGCAAGGAAGCATTTCATTACTTAAGGGACATGAAA
1 AAGCAAGGAAGCATTTCATTACTTAAGGGACATGAAA
*
947468 AAGCAAGTAAGCATTTCATTACTTAAGGGACATGA
1 AAGCAAGGAAGCATTTCATTACTTAAGGGACATGA
947503 CACGACACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (37 bp):
AAGCAAGGAAGCATTTCATTACTTAAGGGACATGAAA
Found at i:947851 original size:24 final size:24
Alignment explanation
Indices: 947817--947862 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
947807 ATATAATATC
947817 TTTGTAGATTT-TGTTATTTATTAT
1 TTTGTAGATTTAT-TTATTTATTAT
*
947841 TTTGTATATTTATTTATTTATT
1 TTTGTAGATTTATTTATTTATT
947863 TCTTTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (24 bp):
TTTGTAGATTTATTTATTTATTAT
Found at i:947852 original size:16 final size:16
Alignment explanation
Indices: 947824--947859 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
947814 ATCTTTGTAG
947824 ATTTTGTTATTTA-TT
1 ATTTTGTTATTTATTT
947839 ATTTTGTATATTTATTT
1 ATTTTGT-TATTTATTT
947856 ATTT
1 ATTT
947860 ATTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
ATTTTGTTATTTATTT
Found at i:948401 original size:16 final size:16
Alignment explanation
Indices: 948339--948438 Score: 96
Period size: 16 Copynumber: 6.3 Consensus size: 16
948329 ATTTAGAATT
*
948339 AATTTAAATT-TTATA
1 AATTTAAATTATTTTA
* *
948354 AAATTGAATTAATTTTA
1 AATTTAAATT-ATTTTA
* ***
948371 AATTTGAAGGGTTTTA
1 AATTTAAATTATTTTA
948387 AATTTAAATTATTTTA
1 AATTTAAATTATTTTA
*
948403 TATTTAAATTATTTTA
1 AATTTAAATTATTTTA
*
948419 AATTTAAA-TAATTTA
1 AATTTAAATTATTTTA
948434 AATTT
1 AATTT
948439 GATATTCAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
15 19 0.28
16 39 0.57
17 11 0.16
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTTAAATTATTTTA
Found at i:948914 original size:20 final size:19
Alignment explanation
Indices: 948889--948942 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
948879 ATCATAATTA
948889 ATAAATATAATATTAAAAAT
1 ATAAATATAA-ATTAAAAAT
*
948909 ATAAATTTAAAATTATAAAAT
1 ATAAATAT-AAATTA-AAAAT
948930 -TAAA-ATAAATTAA
1 ATAAATATAAATTAA
948943 TAATTCACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.03
18 6 0.20
19 1 0.03
20 15 0.50
21 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATAAATTAAAAAT
Found at i:948935 original size:14 final size:14
Alignment explanation
Indices: 948884--948934 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
948874 ATTTAATCAT
948884 AATTAATAAATATAA
1 AATTAA-AAATATAA
*
948899 TATTAAAAATATAA
1 AATTAAAAATATAA
* *
948913 ATTTAAAATTATAA
1 AATTAAAAATATAA
948927 AATTAAAA
1 AATTAAAA
948935 TAAATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 26 0.84
15 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAAAATATAA
Found at i:949720 original size:38 final size:39
Alignment explanation
Indices: 949672--949763 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
949662 CAAATATTAT
* *
949672 TATTAATTAAATATTTAATATTTTAAT-TTTA-ATTTTAAAA
1 TATT-ATTAAATATATAAT-TTTCAATATTTATATTTT-AAA
*
949712 TATT-TTAAAAATATAATTTTCAATATTTATATTTTAAA
1 TATTATTAAATATATAATTTTCAATATTTATATTTTAAA
949750 TATTATTAAATATA
1 TATTATTAAATATA
949764 CATATCTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
37 6 0.13
38 22 0.49
39 13 0.29
40 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (39 bp):
TATTATTAAATATATAATTTTCAATATTTATATTTTAAA
Found at i:950082 original size:14 final size:13
Alignment explanation
Indices: 950058--950096 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
950048 AATATTTTAG
*
950058 TATTAAATATTAT
1 TATTAAATATTAC
950071 TATTAGAATATTAC
1 TATTA-AATATTAC
*
950085 TATTTAATATTA
1 TATTAAATATTA
950097 AAATTAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (13 bp):
TATTAAATATTAC
Found at i:953729 original size:2 final size:2
Alignment explanation
Indices: 953724--953750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
953714 ATTATTAATA
953724 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
953751 ATGTTATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:954273 original size:3 final size:3
Alignment explanation
Indices: 954265--954296 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
954255 ATTTTCGACT
954265 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T
954297 CAATTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:959034 original size:6 final size:6
Alignment explanation
Indices: 959023--959065 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
959013 AAATTTAATA
* *
959023 TATTTT TATTTT TATTTT ATATTTT AATATTT TAATTT TATTT
1 TATTTT TATTTT TATTTT -TATTTT TAT-TTT TATTTT TATTT
959066 AAATTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:959039 original size:21 final size:20
Alignment explanation
Indices: 959021--959063 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
959011 TAAAATTTAA
*
959021 TATATTTTTAT-TTTTATTT
1 TATATTTTAATATTTTATTT
959040 TATATTTTAATATTTTAATTT
1 TATATTTTAATATTTT-ATTT
959061 TAT
1 TAT
959064 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATATTTTAATATTTTATTT
Found at i:959064 original size:19 final size:19
Alignment explanation
Indices: 959021--959070 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
959011 TAAAATTTAA
* *
959021 TATATTTTTATTTTTATTT
1 TATATTTTAATTTTTAATT
959040 TATATTTTAATATTTTAATT
1 TATATTTTAAT-TTTTAATT
*
959060 T-TATTTAAATT
1 TATATTTTAATT
959071 AAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATATTTTAATTTTTAATT
Found at i:960107 original size:42 final size:39
Alignment explanation
Indices: 960031--960117 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
960021 TCTACTTATG
* *
960031 TATTATATAAAATAAATTATATATTATATAATTTTAAAT
1 TATTATATAAAATAAATGATATATTATATAATTTTAAAA
* *
960070 TATTATATAAATTATGATGATATATTATATATGATTTTAAAA
1 TATTATATAAAATA-AATGATATATTATATA--ATTTTAAAA
960112 TATTAT
1 TATTAT
960118 TTAAGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 13 0.32
40 14 0.34
42 14 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (39 bp):
TATTATATAAAATAAATGATATATTATATAATTTTAAAA
Found at i:960859 original size:35 final size:36
Alignment explanation
Indices: 960768--960871 Score: 99
Period size: 35 Copynumber: 2.9 Consensus size: 36
960758 ATTTGACTAG
*
960768 AATAAAAATATAATA-TTTTA-TAATTTAAATTAAATA
1 AATAAAAA-ATAATATTTTTATTTATTT-AATTAAATA
* ** *
960804 AATATAATTTAA-ATTATTATTTATTTAATTAAAT-
1 AATAAAAAATAATATTTTTATTTATTTAATTAAATA
960838 AATAAAAAATAATATTTTTATTTAATTTTAATTA
1 AATAAAAAATAATATTTTTATTT-A-TTTAATTA
960872 TAAAATCTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
34 10 0.19
35 24 0.44
36 12 0.22
37 8 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
AATAAAAAATAATATTTTTATTTATTTAATTAAATA
Found at i:968185 original size:2 final size:2
Alignment explanation
Indices: 968160--968206 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
968150 CAAAACAGGA
* * * *
968160 AT AT AT AC AT AT AC AT AC AA AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
968201 AT AT AT
1 AT AT AT
968207 TTCCACTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:968395 original size:2 final size:2
Alignment explanation
Indices: 968388--968415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
968378 TTAACGGCTG
968388 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
968416 ATTATATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:972217 original size:13 final size:15
Alignment explanation
Indices: 972199--972230 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
972189 AAAAAAGAAG
972199 TTTTCTTTT-TTT-C
1 TTTTCTTTTCTTTGC
972212 TTTTCTTTTCTTTGC
1 TTTTCTTTTCTTTGC
972227 TTTT
1 TTTT
972231 TCAAGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTCTTTGC
Found at i:975420 original size:2 final size:2
Alignment explanation
Indices: 975413--975446 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
975403 ATTACACTAT
* *
975413 TA TA TA TA CA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
975447 GGAATTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:981149 original size:19 final size:20
Alignment explanation
Indices: 981106--981160 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
981096 TGTACAGTAA
*
981106 CATATACGTGAATAGT-GCT
1 CATATACGTGAATAGTACCT
*
981125 CGTATACGTGAATAGTACCT
1 CATATACGTGAATAGTACCT
*
981145 -ATATACGTAAATAGTA
1 CATATACGTGAATAGTA
981161 TCTCGATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 29 0.94
20 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (20 bp):
CATATACGTGAATAGTACCT
Found at i:981919 original size:3 final size:3
Alignment explanation
Indices: 981911--981944 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
981901 GTAAGCAAGT
*
981911 TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
981945 CATCATTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:982511 original size:13 final size:13
Alignment explanation
Indices: 982493--982577 Score: 52
Period size: 13 Copynumber: 6.2 Consensus size: 13
982483 TTTGATCACT
982493 AATTAAATTAATA
1 AATTAAATTAATA
982506 AATTAAATTAA-A
1 AATTAAATTAATA
*
982518 AA-T-AATTAAAA
1 AATTAAATTAATA
982529 ATATTAAA-TAAGTA
1 A-ATTAAATTAA-TA
*
982543 ATTTTAATATTAAATA
1 A-ATTAA-ATT-AATA
982559 AGTATTAAATATAATA
1 A--ATTAAAT-TAATA
982575 AAT
1 AAT
982578 ATTTATTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
10 6 0.10
11 3 0.05
12 4 0.07
13 15 0.25
14 11 0.19
15 1 0.02
16 11 0.19
17 8 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
AATTAAATTAATA
Found at i:982576 original size:20 final size:20
Alignment explanation
Indices: 982520--982578 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
982510 AAATTAAAAA
*
982520 TAATTAAAAATATTAAATAAG
1 TAATTAAATATA-TAAATAAG
*
982541 TAATTTTAATAT-TAAATAAG
1 TAA-TTAAATATATAAATAAG
982561 T-ATTAAATATAATAAATA
1 TAATTAAATAT-ATAAATA
982579 TTTATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.22
19 1 0.03
20 15 0.47
21 3 0.09
22 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TAATTAAATATATAAATAAG
Found at i:982596 original size:15 final size:17
Alignment explanation
Indices: 982571--982609 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
982561 TATTAAATAT
982571 AATAA-ATATTTA-TTA
1 AATAATATATTTACTTA
982586 AA-AATATATTTACTTA
1 AATAATATATTTACTTA
982602 AATAATAT
1 AATAATAT
982610 GATGTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 9 0.43
16 5 0.24
17 5 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATATATTTACTTA
Found at i:985910 original size:28 final size:30
Alignment explanation
Indices: 985879--985938 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
985869 ATTTACTAAT
985879 AAAAATAATT-TTAAATTAAATTTTAT-TA
1 AAAAATAATTATTAAATTAAATTTTATATA
* *
985907 AAAAATAATTATTTATTTAAATTTTATATA
1 AAAAATAATTATTAAATTAAATTTTATATA
985937 AA
1 AA
985939 TTTTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 14 0.50
30 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAAATAATTATTAAATTAAATTTTATATA
Found at i:985911 original size:29 final size:30
Alignment explanation
Indices: 985870--985938 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
985860 TTAATAATTA
*
985870 TTTACTAATAAAAATAATT-TTAAATTAAAT
1 TTTATTAA-AAAAATAATTATTAAATTAAAT
* *
985900 TTTATT-AAAAAATAATTATTTATTTAAAT
1 TTTATTAAAAAAATAATTATTAAATTAAAT
985929 TTTATATAAA
1 TTTAT-TAAA
985939 TTTTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 10 0.30
29 15 0.45
30 6 0.18
31 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTATTAAAAAAATAATTATTAAATTAAAT
Found at i:986963 original size:24 final size:24
Alignment explanation
Indices: 986943--986988 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
986933 TTTTTTAATA
986943 CAAAATATTAATTAGTATTTACAT
1 CAAAATATTAATTAGTATTTACAT
*
986967 GAAAATATTAATTAGTATTTAC
1 CAAAATATTAATTAGTATTTAC
986989 TTATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
CAAAATATTAATTAGTATTTACAT
Found at i:986994 original size:20 final size:22
Alignment explanation
Indices: 986941--987000 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 22
986931 ATTTTTTTAA
986941 TACA-AAATATTAATTAGTATT
1 TACATAAATATTAATTAGTATT
986962 TACATGAAAATATTAATTAGTATT
1 TACAT--AAATATTAATTAGTATT
*
986986 TAC-T-TATATTAATTA
1 TACATAAATATTAATTA
987001 AAGTGATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 10 0.29
21 4 0.11
23 1 0.03
24 20 0.57
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
TACATAAATATTAATTAGTATT
Found at i:992872 original size:17 final size:17
Alignment explanation
Indices: 992847--992880 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
992837 TATATTAAGA
992847 TTTAAAAAAAACTATTT
1 TTTAAAAAAAACTATTT
* *
992864 TTTATAAAAAATTATTT
1 TTTAAAAAAAACTATTT
992881 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAAAAAAACTATTT
Found at i:992881 original size:14 final size:14
Alignment explanation
Indices: 992864--992890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
992854 AAAACTATTT
992864 TTTATAAAAAATTA
1 TTTATAAAAAATTA
992878 TTTATAAAAAATT
1 TTTATAAAAAATT
992891 TTACTCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTATAAAAAATTA
Found at i:992893 original size:12 final size:13
Alignment explanation
Indices: 992862--992892 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
992852 AAAAAACTAT
992862 TTTTTATAAAAAA
1 TTTTTATAAAAAA
992875 TTATTTATAAAAAA
1 TT-TTTATAAAAAA
992889 TTTT
1 TTTT
992893 ACTCTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTTTATAAAAAA
Found at i:994804 original size:29 final size:29
Alignment explanation
Indices: 994771--994839 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
994761 ATATGAGTAT
*
994771 AATTATATAAAAACATTT-TCTAAAAATTA
1 AATTATATAAAAACATTTATATAAAAA-TA
* * *
994800 AATTAAATAAATATATTTATATAAAAATA
1 AATTATATAAAAACATTTATATAAAAATA
*
994829 ATTTATATAAA
1 AATTATATAAA
994840 TTATAACTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 26 0.79
30 7 0.21
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
AATTATATAAAAACATTTATATAAAAATA
Found at i:994823 original size:14 final size:15
Alignment explanation
Indices: 994806--994845 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
994796 ATTAAATTAA
994806 ATAAATAT-ATTTAT
1 ATAAATATAATTTAT
*
994820 ATAAAAATAATTTAT
1 ATAAATATAATTTAT
994835 ATAAATTATAA
1 ATAAA-TATAA
994846 CTATATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 11 0.50
16 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATATAATTTAT
Found at i:994834 original size:15 final size:15
Alignment explanation
Indices: 994769--994839 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
994759 AAATATGAGT
994769 ATAA-TTATATAAAA
1 ATAATTTATATAAAA
* *
994783 A-CATTT-TCTAAAA
1 ATAATTTATATAAAA
* * *
994796 ATTAAATTAAATAAAT
1 A-TAATTTATATAAAA
994812 AT-ATTTATATAAAA
1 ATAATTTATATAAAA
994826 ATAATTTATATAAA
1 ATAATTTATATAAA
994840 TTATAACTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
13 8 0.19
14 14 0.33
15 15 0.36
16 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATTTATATAAAA
Found at i:994851 original size:30 final size:30
Alignment explanation
Indices: 994791--994852 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
994781 AAACATTTTC
**
994791 TAAAAATTAAATTAAATAAATATATTTATA
1 TAAAAATTAAATTAAATAAATATAACTATA
* *
994821 TAAAAA-TAATTTATATAAATTATAACTATA
1 TAAAAATTAAATTAAATAAA-TATAACTATA
994851 TA
1 TA
994853 TTAGGTCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAAAATTAAATTAAATAAATATAACTATA
Found at i:995059 original size:12 final size:13
Alignment explanation
Indices: 995022--995053 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
995012 TCTTGTATAT
995022 TATTATT-TAAAA
1 TATTATTGTAAAA
995034 TATTATTGTAAAA
1 TATTATTGTAAAA
995047 TA-TATTG
1 TATTATTG
995054 ACAAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
TATTATTGTAAAA
Found at i:995621 original size:101 final size:101
Alignment explanation
Indices: 995514--995712 Score: 380
Period size: 101 Copynumber: 2.0 Consensus size: 101
995504 TTTAAATATT
*
995514 TAAGCATATCTGTATATATTTATTTTTAAAATTTTAATTTTTAATTTTTAAGTTAAATATAAAAT
1 TAAGCATATCTGTATATATTTATTTTAAAAATTTTAATTTTTAATTTTTAAGTTAAATATAAAAT
995579 ATAATTAAGAGTAAGCTTATTCTATGTGCCATTTAC
66 ATAATTAAGAGTAAGCTTATTCTATGTGCCATTTAC
*
995615 TAAGCATATTTGTATATATTTATTTTAAAAATTTTAATTTTTAATTTTTAAGTTAAATATAAAAT
1 TAAGCATATCTGTATATATTTATTTTAAAAATTTTAATTTTTAATTTTTAAGTTAAATATAAAAT
995680 ATAATTAAGAGTAAGCTTATTCTATGTGCCATT
66 ATAATTAAGAGTAAGCTTATTCTATGTGCCATT
995713 AAAAGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (101 bp):
TAAGCATATCTGTATATATTTATTTTAAAAATTTTAATTTTTAATTTTTAAGTTAAATATAAAAT
ATAATTAAGAGTAAGCTTATTCTATGTGCCATTTAC
Found at i:996248 original size:47 final size:47
Alignment explanation
Indices: 996197--996298 Score: 159
Period size: 47 Copynumber: 2.2 Consensus size: 47
996187 ACTTTTTTTT
* **
996197 TAAATTAAAACTTTAATAGTTAAATTTTAATACTTTTAGTAAATAAA
1 TAAATTAAAACTTCAATAGTTAAAGCTTAATACTTTTAGTAAATAAA
* *
996244 TAAATTAAAACTTCAATAGTTAAAGCTTATTTCTTTTAGTAAATAAA
1 TAAATTAAAACTTCAATAGTTAAAGCTTAATACTTTTAGTAAATAAA
996291 TAAATTAA
1 TAAATTAA
996299 TTAAAACTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (47 bp):
TAAATTAAAACTTCAATAGTTAAAGCTTAATACTTTTAGTAAATAAA
Found at i:996712 original size:3 final size:3
Alignment explanation
Indices: 996704--996747 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
996694 ACAATGAGAC
996704 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
996748 CTTTCTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:997332 original size:19 final size:17
Alignment explanation
Indices: 997303--997349 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
997293 ACGTTTCATT
997303 TTTTAAATTTAAAATATATA
1 TTTT-AATTTAAAATA-A-A
997323 TTTTAATTTAAAATAAA
1 TTTTAATTTAAAATAAA
*
997340 TTTTATTTTA
1 TTTTAATTTA
997350 TTTTATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.38
18 1 0.04
19 11 0.42
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTTAAAATAAA
Found at i:997418 original size:18 final size:17
Alignment explanation
Indices: 997387--997420 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
997377 TTATATAAGA
*
997387 AATTTTTTACAAGTAAT
1 AATTTTTTAAAAGTAAT
997404 AATTATTTTAAAAGTAA
1 AATT-TTTTAAAAGTAA
997421 AATAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTTTTTAAAAGTAAT
Found at i:999326 original size:15 final size:15
Alignment explanation
Indices: 999306--999339 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
999296 AAACGAGTCG
999306 AGTTAGATAATTTTA
1 AGTTAGATAATTTTA
* *
999321 AGTTAGATTATTTTG
1 AGTTAGATAATTTTA
999336 AGTT
1 AGTT
999340 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (15 bp):
AGTTAGATAATTTTA
Found at i:999376 original size:17 final size:17
Alignment explanation
Indices: 999351--999384 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
999341 TAAAATTTTT
* *
999351 GGATTATTTTTCAGTTC
1 GGATCATTTTTAAGTTC
999368 GGATCATTTTTAAGTTC
1 GGATCATTTTTAAGTTC
999385 AAGTCATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (17 bp):
GGATCATTTTTAAGTTC
Found at i:1003498 original size:18 final size:20
Alignment explanation
Indices: 1003473--1003520 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
1003463 TAAAAAGTAG
1003473 TATTACATAAA-ATATTATA
1 TATTACATAAATATATTATA
*
1003492 T-TTACATAAATTATATTATT
1 TATTACATAAA-TATATTATA
1003512 TATTACATA
1 TATTACATA
1003521 TACTTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 1 0.04
20 8 0.32
21 7 0.28
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTACATAAATATATTATA
Found at i:1004004 original size:20 final size:21
Alignment explanation
Indices: 1003979--1004030 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1003969 TAAATAAATT
*
1003979 TATTTTTTATTTTATTAATA-
1 TATTTTTTATTTTAGTAATAG
* *
1003999 TATTTTTAATATTAGTAATAG
1 TATTTTTTATTTTAGTAATAG
*
1004020 TATTTTATATT
1 TATTTTTTATT
1004031 GATAAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTTTTATTTTAGTAATAG
Found at i:1004354 original size:302 final size:298
Alignment explanation
Indices: 1003917--1004465 Score: 755
Period size: 302 Copynumber: 1.8 Consensus size: 298
1003907 TATTTTTTAT
1003917 TTTTATTAAATATTATATATATAGAAAATTAATTTTTTAGTAATTTTGGAAGTAAATAAATTTAT
1 TTTTATTAAATATTATATATATAGAAAATTAATTTTTTAGTAATTTTGGAAGTAAATAAATTTAT
* * * ** *
1003982 TTTTTATTTTATTAATATATTTTTAATATTAGTAATAGTATTTTATATTGATAAAAAATTAATTT
66 TTTTTATTTTATTAATATATTTTTAATATTAGCAATAATATATTATATCAATAAAAAATAAATTT
* * *
1004047 TATAATAAAATTTTTATTTTTTTATTAGTTAAAAAGAATTACTACTAAAGATTA-CTAAAATTAC
131 TATAATAAAAGTTTTA-TTTTTTACTAGTTAAAAAGAATTAATACTAAAGATTATC-AAAATTAC
* *
1004111 AAATAAATATTATAATTTATATAAATTATTAGAGTATAGGAAATATTTGT-TATACATACTTTAT
194 -AATAAATATTAAAATTTATATAAATCATTAGAGTATAGGAAATATTTGTATATACATACTTTAT
1004175 TTATATAAAGAATATTAAAGGTAATCTTCATATATAATAAG
258 TTATATAAAGAATATTAAAGGTAATCTTCATATATAATAAG
* * * * **
1004216 TTTT-TTATATATTATATATGTAGGAAATTAATTTTTTATTAATTTTTTAAGTAAATAAAATTTT
1 TTTTATTAAATATTATATATATAGAAAATTAATTTTTTAGTAATTTTGGAAGTAAAT-AAA--TT
*
1004280 TATATTTTTATTTTATTAATATATTTTTAATATTAGCAATAA-ATAATTATATCAATAAAAAGTA
63 TAT-TTTTTATTTTATTAATATATTTTTAATATTAGCAATAATAT-ATTATATCAATAAAAAATA
* * *
1004344 AATTTTATAATAAAAGTTTTATTTTTTACTATTTAAAAAGAATTAATACTAAATATTATCGAAAT
126 AATTTTATAATAAAAGTTTTATTTTTTACTAGTTAAAAAGAATTAATACTAAAGATTATCAAAAT
* * * * * *
1004409 TACCATATATATTAAAATTTGTATAAATCATTTGAGTGTAGGTAATATTTGTATATA
191 TACAATAAATATTAAAATTTATATAAATCATTAGAGTATAGGAAATATTTGTATATA
1004466 ATATATATTA
Statistics
Matches: 216, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
298 46 0.21
299 7 0.03
300 41 0.19
301 51 0.24
302 71 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (298 bp):
TTTTATTAAATATTATATATATAGAAAATTAATTTTTTAGTAATTTTGGAAGTAAATAAATTTAT
TTTTTATTTTATTAATATATTTTTAATATTAGCAATAATATATTATATCAATAAAAAATAAATTT
TATAATAAAAGTTTTATTTTTTACTAGTTAAAAAGAATTAATACTAAAGATTATCAAAATTACAA
TAAATATTAAAATTTATATAAATCATTAGAGTATAGGAAATATTTGTATATACATACTTTATTTA
TATAAAGAATATTAAAGGTAATCTTCATATATAATAAG
Found at i:1006211 original size:23 final size:23
Alignment explanation
Indices: 1006185--1006228 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1006175 TCATAATTTG
*
1006185 AATAATATGATTTATACATTTAT
1 AATAATATGAGTTATACATTTAT
*
1006208 AATAATATGAGTTATATATTT
1 AATAATATGAGTTATACATTT
1006229 TTTGAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (23 bp):
AATAATATGAGTTATACATTTAT
Found at i:1006238 original size:26 final size:24
Alignment explanation
Indices: 1006181--1006230 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
1006171 AATTTCATAA
*
1006181 TTTGAATAATATGATTTATACATT
1 TTTGAATAATATGAGTTATACATT
* *
1006205 TAT-AATAATATGAGTTATATATT
1 TTTGAATAATATGAGTTATACATT
1006228 TTT
1 TTT
1006231 TGAGATAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTGAATAATATGAGTTATACATT
Found at i:1010573 original size:29 final size:30
Alignment explanation
Indices: 1010541--1010608 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
1010531 AAAGATTATT
*
1010541 AAATTATAATCACATGAATAATTTATTA-A
1 AAATTATAATCACATAAATAATTTATTACA
* * *
1010570 AAATAATAATGATATAAATAATTTATTACA
1 AAATTATAATCACATAAATAATTTATTACA
*
1010600 TAATTATAA
1 AAATTATAA
1010609 AATTATCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTATAATCACATAAATAATTTATTACA
Found at i:1014535 original size:23 final size:23
Alignment explanation
Indices: 1014509--1014579 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
1014499 TTGTGTATTG
1014509 ATACAAGTTCATAAGATGTATCA
1 ATACAAGTTCATAAGATGTATCA
* *
1014532 ATACCCA--TCAT--GATTGTATCG
1 ATA-CAAGTTCATAAGA-TGTATCA
*
1014553 ATACAAGTTTATAAGATGTATCA
1 ATACAAGTTCATAAGATGTATCA
1014576 ATAC
1 ATAC
1014580 CCATCATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 7 0.19
23 13 0.35
24 4 0.11
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (23 bp):
ATACAAGTTCATAAGATGTATCA
Found at i:1014551 original size:21 final size:21
Alignment explanation
Indices: 1014525--1014600 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
1014515 GTTCATAAGA
1014525 TGTATCAATACCCATCATGAT
1 TGTATCAATACCCATCATGAT
* * *
1014546 TGTATCGATA-CAAGTTTATAAGA-
1 TGTATCAATACCCA--TCAT--GAT
1014569 TGTATCAATACCCATCATGAT
1 TGTATCAATACCCATCATGAT
*
1014590 TGTATCGATAC
1 TGTATCAATAC
1014601 ATGCCTTGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
20 4 0.10
21 19 0.45
22 6 0.14
23 9 0.21
24 4 0.10
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (21 bp):
TGTATCAATACCCATCATGAT
Found at i:1014556 original size:44 final size:44
Alignment explanation
Indices: 1014502--1014601 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
1014492 CACAAGCTTG
*
1014502 TGTATTGATACAAGTTCATAAGATGTATCAATACCCATCATGAT
1 TGTATCGATACAAGTTCATAAGATGTATCAATACCCATCATGAT
*
1014546 TGTATCGATACAAGTTTATAAGATGTATCAATACCCATCATGAT
1 TGTATCGATACAAGTTCATAAGATGTATCAATACCCATCATGAT
1014590 TGTATCGATACA
1 TGTATCGATACA
1014602 TGCCTTGGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (44 bp):
TGTATCGATACAAGTTCATAAGATGTATCAATACCCATCATGAT
Found at i:1014704 original size:20 final size:20
Alignment explanation
Indices: 1014661--1014705 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1014651 ACAAGATTAT
*
1014661 GTATCGATACAAGTTCGAAAA
1 GTATCGATACAACTTC-AAAA
1014682 GTATCGATACATACTTC-AAA
1 GTATCGATACA-ACTTCAAAA
1014702 GTAT
1 GTAT
1014706 TGAAACAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACAACTTCAAAA
Found at i:1019013 original size:51 final size:52
Alignment explanation
Indices: 1018902--1019017 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 52
1018892 TCAGAAATAA
* * * * *
1018902 CAGGGTTGGAGTAT-TCCCGATTGTGAAAAATCGATGTTCTAGAGATAAATC
1 CAGGGTTGGAGTATCTCCCAATTGTGAAAAATCAATATTCTAGAAATAAAAC
* * *
1018953 CAGGATTGGAGTATCT-CCAATTGTGAGAAATCAATATTTTAGAAATAAAAC
1 CAGGGTTGGAGTATCTCCCAATTGTGAAAAATCAATATTCTAGAAATAAAAC
*
1019004 CGGGGTTGGA-TATC
1 CAGGGTTGGAGTATC
1019018 CCTCGAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 4 0.07
51 49 0.91
52 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (52 bp):
CAGGGTTGGAGTATCTCCCAATTGTGAAAAATCAATATTCTAGAAATAAAAC
Found at i:1021467 original size:20 final size:20
Alignment explanation
Indices: 1021441--1021494 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1021431 GTAAACCCAG
*
1021441 AATGTATCGATATAATGAAC
1 AATGTATCGATACAATGAAC
* *
1021461 CATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAC
1021481 AATGTATCGATACA
1 AATGTATCGATACA
1021495 TCTGGGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1021504 original size:69 final size:70
Alignment explanation
Indices: 1021393--1021544 Score: 216
Period size: 70 Copynumber: 2.2 Consensus size: 70
1021383 AAATGCCTGA
* * * *
1021393 ATGTATCGATACATTCAAAAATATATCGATACATCTTGGT-AAACCCAGAATGTATCGATATAAT
1 ATGTATCGATACAATCAAAAATATATCGATACATCTGGGTAAAACCCAGAATGTATCAATACAAT
1021457 GAACC
66 GAACC
* * * *
1021462 ATGTATTGATACAATGAACAATGTATCGATACATCTGGGTAAAACCCAGAATGTATCAATACAAT
1 ATGTATCGATACAATCAAAAATATATCGATACATCTGGGTAAAACCCAGAATGTATCAATACAAT
*
1021527 GAACG
66 GAACC
1021532 ATGTATCGATACA
1 ATGTATCGATACA
1021545 TATTGTGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 34 0.47
70 38 0.53
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (70 bp):
ATGTATCGATACAATCAAAAATATATCGATACATCTGGGTAAAACCCAGAATGTATCAATACAAT
GAACC
Found at i:1022266 original size:22 final size:21
Alignment explanation
Indices: 1022241--1022290 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1022231 TTATTTAAAA
1022241 TCATACTTACAATCAGTTATAT
1 TCATA-TTACAATCAGTTATAT
**
1022263 TCATATGTACTTTCAGTTATAT
1 TCATAT-TACAATCAGTTATAT
1022285 T-ATATT
1 TCATATT
1022291 TACTTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 5 0.20
22 19 0.76
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (21 bp):
TCATATTACAATCAGTTATAT
Found at i:1022294 original size:21 final size:22
Alignment explanation
Indices: 1022253--1022311 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
1022243 ATACTTACAA
1022253 TCAGTTATATTCATATGTACTT
1 TCAGTTATATTCATATGTACTT
*
1022275 TCAGTTATATT-ATATTTACTT
1 TCAGTTATATTCATATGTACTT
* *
1022296 TCAATTATAGTCATAT
1 TCAGTTATATTCATAT
1022312 ATATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (22 bp):
TCAGTTATATTCATATGTACTT
Found at i:1022365 original size:13 final size:13
Alignment explanation
Indices: 1022349--1022377 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1022339 TATTTACATC
1022349 ATACTTTTATAGT
1 ATACTTTTATAGT
1022362 ATACTTTTATAGT
1 ATACTTTTATAGT
1022375 ATA
1 ATA
1022378 TATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (13 bp):
ATACTTTTATAGT
Found at i:1022701 original size:21 final size:20
Alignment explanation
Indices: 1022664--1022723 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
1022654 GTTTTGGCTT
*
1022664 TTTTAGTAAAAAGGTTAGCTC
1 TTTTAGTAAAGA-GTTAGCTC
*
1022685 TTTTAGTAAAGGAGTTAGTTC
1 TTTTAGTAAA-GAGTTAGCTC
* *
1022706 TCTTATTAAAAGAGTTAG
1 TTTTAGT-AAAGAGTTAG
1022724 TTTTCTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTTAGTAAAGAGTTAGCTC
Found at i:1022735 original size:22 final size:21
Alignment explanation
Indices: 1022672--1022736 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1022662 TTTTTTAGTA
* * *
1022672 AAAAG-GTTAGCTCTTTTAGT
1 AAAAGAGTTAGTTCTCTTATT
*
1022692 AAAGGAGTTAGTTCTCTTATT
1 AAAAGAGTTAGTTCTCTTATT
*
1022713 AAAAGAGTTAGTTTTCTTAATT
1 AAAAGAGTTAGTTCTCTT-ATT
1022735 AA
1 AA
1022737 TTTTAGGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 4 0.11
21 28 0.76
22 5 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (21 bp):
AAAAGAGTTAGTTCTCTTATT
Found at i:1022939 original size:21 final size:20
Alignment explanation
Indices: 1022902--1022941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1022892 ATTTTTCTAA
**
1022902 AAATATTGGTTTTTTTAGTG
1 AAATATTGGTTCATTTAGTG
1022922 AAATAATTGGTTCATTTAGT
1 AAAT-ATTGGTTCATTTAGT
1022942 TATTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (20 bp):
AAATATTGGTTCATTTAGTG
Found at i:1026864 original size:21 final size:21
Alignment explanation
Indices: 1026838--1026893 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1026828 GTTGGGACCT
1026838 TGTATCGATACATTAAGGGCA
1 TGTATCGATACATTAAGGGCA
1026859 TGTATCGATACATTAAGGGCA
1 TGTATCGATACATTAAGGGCA
*
1026880 TGTATCAATACATT
1 TGTATCGATACATT
1026894 TTAGCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATTAAGGGCA
Found at i:1027487 original size:77 final size:77
Alignment explanation
Indices: 1027356--1027620 Score: 205
Period size: 77 Copynumber: 3.4 Consensus size: 77
1027346 GGGGCTGTCT
* * * * * *
1027356 TACTCTTTGAGGATAAA-GGAAAATGAGTACGTCCTGTTCTTCTAGGACAAAGGAA-GAAGGAGA
1 TACTCTTTGAGGACAAAGGGAAAAAGAGTACGTCATGTTCTTCGAAGACAAAGGAACAAAGGA-A
1027419 ACAAAATGGGTCC
65 ACAAAATGGGTCC
* * *
1027432 TGCTCTTTGAGGACAAAGGGAAAAAGAGTACGTCATGCTT-TTCGAAGAGAGAGGAACAAAGGAA
1 TACTCTTTGAGGACAAAGGGAAAAAGAGTACGTCATG-TTCTTCGAAGACAAAGGAACAAAGGAA
** * *
1027496 ATGAAGTGTGTCC
65 ACAAAATGGGTCC
* * * * * *
1027509 TATTCTTTGAGGACAAAGGAGAAAAAGAAATAAAGTGCGTCATGCTCTTTGAGGACAAAGGAAAA
1 TACTCTTTGAGGACAAAGG-GAAAAAG------AGTACGTCATGTTCTTCGAAGACAAAGG-AAC
**
1027574 AGAAGGAAATGAAATGGGTCC
58 A-AAGGAAACAAAATGGGTCC
*
1027595 TACTCTTTGAGGATAAA-GGAAAAAGA
1 TACTCTTTGAGGACAAAGGGAAAAAGA
1027621 AAATAAGGTG
Statistics
Matches: 150, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
76 15 0.10
77 56 0.37
78 15 0.10
83 1 0.01
84 27 0.18
85 4 0.03
86 32 0.21
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (77 bp):
TACTCTTTGAGGACAAAGGGAAAAAGAGTACGTCATGTTCTTCGAAGACAAAGGAACAAAGGAAA
CAAAATGGGTCC
Found at i:1027603 original size:44 final size:44
Alignment explanation
Indices: 1027490--1027659 Score: 165
Period size: 41 Copynumber: 4.0 Consensus size: 44
1027480 GAGAGGAACA
* * * *
1027490 AAGGAAATGAAGTGTGTCCTATTCTTTGAGGACAAAGGAGAAA-
1 AAGGAAATGAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAG
* *
1027533 AA-GAAAT-AAAGTGCGTCATGCTCTTTGAGGACAAAGGAAAAAG
1 AAGGAAATGAAA-TGCGTCCTACTCTTTGAGGACAAAGGAAAAAG
* *
1027576 AAGGAAATGAAATGGGTCCTACTCTTTGAGGATAAAGGAAAAAG
1 AAGGAAATGAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAG
* * * *
1027620 -A--AAAT-AAGGTGCATCCTGCTCTTTGAGGATAAAGGAAAAA
1 AAGGAAATGAA-ATGCGTCCTACTCTTTGAGGACAAAGGAAAAA
1027660 AGGAGAAGGC
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
40 2 0.02
41 34 0.31
42 31 0.29
43 5 0.05
44 33 0.31
45 3 0.03
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (44 bp):
AAGGAAATGAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAG
Found at i:1027651 original size:41 final size:41
Alignment explanation
Indices: 1027483--1027687 Score: 179
Period size: 42 Copynumber: 5.0 Consensus size: 41
1027473 TCGAAGAGAG
* **
1027483 AGGAACAAAG-GAAATGAAGTGTGTCCTATTCTTTGAGGACAA
1 AGGAA-AAAGAGAAAT-AAGTGCGTCCTGCTCTTTGAGGACAA
*
1027525 AGGAGAAAA-AGAAATAAAGTGCGTCATGCTCTTTGAGGACAA
1 AGGA-AAAAGAGAAAT-AAGTGCGTCCTGCTCTTTGAGGACAA
* * * *
1027567 AGGAAAAAGAAGGAAATGAAATGGGTCCTACTCTTTGAGGATAA
1 AGGAAAAAG-A-GAAAT-AAGTGCGTCCTGCTCTTTGAGGACAA
* *
1027611 AGGAAAAAGA-AAATAAGGTGCATCCTGCTCTTTGAGGATAA
1 AGGAAAAAGAGAAATAA-GTGCGTCCTGCTCTTTGAGGACAA
* * *
1027652 AGGAAAAA-AG-GAGAAG-GCGTCCTGCTCTATGAGGAC
1 AGGAAAAAGAGAAATAAGTGCGTCCTGCTCTTTGAGGAC
1027688 TATAAGGTGC
Statistics
Matches: 136, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
38 17 0.12
39 1 0.01
40 6 0.04
41 36 0.26
42 38 0.28
43 3 0.02
44 35 0.26
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.20
Consensus pattern (41 bp):
AGGAAAAAGAGAAATAAGTGCGTCCTGCTCTTTGAGGACAA
Found at i:1027661 original size:86 final size:86
Alignment explanation
Indices: 1027490--1027659 Score: 245
Period size: 85 Copynumber: 2.0 Consensus size: 86
1027480 GAGAGGAACA
* * * *
1027490 AAGGAAATGAAGTGTGTCCTATTCTTTGAGGACAAAGGAGAAAAAGAAATAAAGTGCGTCATGCT
1 AAGGAAATGAAATGGGTCCTACTCTTTGAGGACAAAGGAGAAAAAGAAATAAAGTGCATCATGCT
1027555 CTTTGAGGACAAAGGAAAAAG
66 CTTTGAGGACAAAGGAAAAAG
* * *
1027576 AAGGAAATGAAATGGGTCCTACTCTTTGAGGATAAA-G-GAAAAAGAAAATAAGGTGCATCCTGC
1 AAGGAAATGAAATGGGTCCTACTCTTTGAGGACAAAGGAGAAAAAG-AAATAAAGTGCATCATGC
*
1027639 TCTTTGAGGATAAAGGAAAAA
65 TCTTTGAGGACAAAGGAAAAA
1027660 AGGAGAAGGC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
84 7 0.09
85 36 0.48
86 32 0.43
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (86 bp):
AAGGAAATGAAATGGGTCCTACTCTTTGAGGACAAAGGAGAAAAAGAAATAAAGTGCATCATGCT
CTTTGAGGACAAAGGAAAAAG
Found at i:1027685 original size:38 final size:41
Alignment explanation
Indices: 1027512--1027686 Score: 146
Period size: 41 Copynumber: 4.2 Consensus size: 41
1027502 TGTGTCCTAT
* *
1027512 TCTTTGAGGACAAAGGAGAAAAAGAAATA-AA-GTGCGTCATGC
1 TCTTTGAGGATAAA-G-GAAAAAGAAA-AGAAGGTGCGTCCTGC
* * * *
1027554 TCTTTGAGGACAAAGGAAAAAGAAGGAAATGAA-ATGGGTCCTAC
1 TCTTTGAGGATAAAGGAAAAAG-A--AAA-GAAGGTGCGTCCTGC
* *
1027598 TCTTTGAGGATAAAGGAAAAAGAAAATAAGGTGCATCCTGC
1 TCTTTGAGGATAAAGGAAAAAGAAAAGAAGGTGCGTCCTGC
**
1027639 TCTTTGAGGATAAAGGAAAAA-AGGAGAA-G-GCGTCCTGC
1 TCTTTGAGGATAAAGGAAAAAGAAAAGAAGGTGCGTCCTGC
*
1027677 TCTATGAGGA
1 TCTTTGAGGA
1027687 CTATAAGGTG
Statistics
Matches: 112, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
38 17 0.15
39 1 0.01
40 13 0.12
41 33 0.29
42 15 0.13
43 3 0.03
44 30 0.27
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (41 bp):
TCTTTGAGGATAAAGGAAAAAGAAAAGAAGGTGCGTCCTGC
Found at i:1027731 original size:62 final size:62
Alignment explanation
Indices: 1027665--1028560 Score: 1043
Period size: 62 Copynumber: 14.5 Consensus size: 62
1027655 AAAAAAGGAG
* *
1027665 AAGGCGTCCTGCTCTATGAGGACTATAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1027727 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACAAACTCGTGTGGG-TTTCAAAAGGAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * * *
1027788 AAGGTGTCATGCTCTTTGAGGATTAAAGGATACCCCCAACTCGTGTGGGTTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1027850 AAGGCAT-C--CTCTTTGAGGAC-AAAAGATGTCACCAACTCATGTGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1027908 AAGACGTCCTGCTCTTTAAGGACTAAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** * ** *
1027971 AATACGTCATATTCTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
**** * * * *
1028033 AAAAAATCCTGCTCTTTAAGGACAAAAGGATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAA
* *
1028095 AAGGTGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* *
1028157 AAGCGTGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAA
1 AAG-GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAA
** * * * * * *
1028221 AAGGTATCCTGCTCTTTGAGGACAAAAAGATACCACCAACTTGTGTGGACTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1028283 AAGGTGTTCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGTTTTGAAAA-AAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * * *
1028344 AAGGCATCCTACTTTTTGAGGACAAAATGGTGTCACCAACTCGTATGGGCTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * *
1028406 AAGGCATCCTACTTTTTTAGGACAAAAGGATGCCACCAACTCGTGTGGGCTTTTGAAAAGAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGC-TTTGAAAAGAAA
* * * *
1028469 AAGACGTCCTCCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1028531 AAGGCATCCTACTTTTTGAGGACTAAAGGG
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1028561 CTAAAAGGGA
Statistics
Matches: 715, Mismatches: 106, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
58 37 0.05
59 12 0.02
61 120 0.17
62 328 0.46
63 212 0.30
64 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (62 bp):
AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
Found at i:1028559 original size:125 final size:124
Alignment explanation
Indices: 1027665--1028559 Score: 1034
Period size: 125 Copynumber: 7.2 Consensus size: 124
1027655 AAAAAAGGAG
*
1027665 AAGGCGTCCTGCTCTATGAGGACTATAAGG-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 AAGGCGTCCTGCTCTTTGAGGACTA-AAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * * *
1027729 GGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACAAACTCGTGTGGG-TTTCAAAAGGAA
65 GACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * * *
1027788 AAGGTGTCATGCTCTTTGAGGATTAAAGGATACCCCCAACTCGTGTGGGTTTTGAAAAGAAAAAG
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* * * * * *
1027853 --G-CATCCTCTTTGAGGAC-AAAAGATGTCACCAACTCATGTGGGCTTTGAAAAGAAA
66 ACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1027908 AAGACGTCCTGCTCTTTAAGGACTAAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 AAGGCGTCCTGCTCTTTGAGGACT-AAAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * *
1027973 TACGTCATATTCTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAA
65 GACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
**** * *
1028033 AAAAAATCCTGCTCTTTAAGGACAAAAGGATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
**
1028097 GGTGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
65 GACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * *
1028157 AAGCGTGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
1 AAG-GCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
* * * * * * * *
1028222 -AGGTATCCTGCTCTTTGAGGACAAAAAGATACCACCAACTTGTGTGGACTTTGAAAAGAAA
65 GACG--TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1028283 AAGGTGTTCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGTTTTGAAAA-AAAAAG
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* * * * * * *
1028347 GCATCCTACTTTTTGAGGACAAAATGGTGTCACCAACTCGTATGGGCTTTGAAAAGAAA
66 ACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * *
1028406 AAGGCATCCTACTTTTTTAGGACAAAAGGATGCCACCAACTCGTGTGGGCTTTTGAAAAGAAAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGC-TTTGAAAAGAAAAA
* * *
1028471 GACGTCCTCCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAA
65 GACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1028531 AAGGCATCCTACTTTTTGAGGACTAAAGG
1 AAGGCGTCCTGCTCTTTGAGGACTAAAGG
1028560 GCTAAAAGGG
Statistics
Matches: 655, Mismatches: 102, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
119 20 0.03
120 43 0.07
121 36 0.05
122 4 0.01
123 145 0.22
124 118 0.18
125 233 0.36
126 56 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (124 bp):
AAGGCGTCCTGCTCTTTGAGGACTAAAGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
ACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
Found at i:1028599 original size:30 final size:30
Alignment explanation
Indices: 1028563--1028624 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
1028553 CTAAAGGGCT
*
1028563 AAAAGGGATCTCA-TGGAGTTGTGGACTTTG
1 AAAAGGGATCTCACT-AAGTTGTGGACTTTG
* *
1028593 AAAAGGGATGTTACTAAGTTGTGGACTTTG
1 AAAAGGGATCTCACTAAGTTGTGGACTTTG
1028623 AA
1 AA
1028625 GAAAGGTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (30 bp):
AAAAGGGATCTCACTAAGTTGTGGACTTTG
Found at i:1030387 original size:51 final size:50
Alignment explanation
Indices: 1030313--1030436 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 50
1030303 GTATCCCCTC
* *
1030313 AGAAAT-AA-CGGGGTTAGAGTATCCCCAATAGTGAAAAATTGATGTTTT
1 AGAAATAAACCGGCGTTGGAGTATCCCCAATAGTGAAAAATTGATGTTTT
* * *
1030361 AGAAATAAAACCGGCGTTGGAGTATCCCCGATTGTGAAAACTTGATGTTTT
1 AGAAAT-AAACCGGCGTTGGAGTATCCCCAATAGTGAAAAATTGATGTTTT
* *
1030412 AGAAATAAAGCGGGGTTGGAGTATC
1 AGAAATAAACCGGCGTTGGAGTATC
1030437 TTCTCAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 6 0.09
50 19 0.29
51 41 0.62
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (50 bp):
AGAAATAAACCGGCGTTGGAGTATCCCCAATAGTGAAAAATTGATGTTTT
Found at i:1030543 original size:80 final size:78
Alignment explanation
Indices: 1030376--1030593 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 78
1030366 TAAAACCGGC
* * ** * *
1030376 GTTGGAGTATCCCCGATTGTGAAAACTTGATGTTTTAGAAAT-AAAGCGGGGTTGGAGTATCTTC
1 GTTGGAGTATCCTCGATTGGGAAAA-TCAATGTTTTAGAAATAAAACCGGGGTTGGAGTACCTTC
1030440 TCAAAAATAACGGG
65 TCAAAAATAACGGG
*
1030454 GTTGGAGTATCCTCGATTGAGGAAAATCAATGTTTTAGAAATAAAAACCGAGGTTGGAGTACC-T
1 GTTGGAGTATCCTCGATTG-GGAAAATCAATGTTTTAGAAAT-AAAACCGGGGTTGGAGTACCTT
*
1030518 CTTCAAAAATAATGGG
64 C-TCAAAAATAACGGG
* * *
1030534 GTTGGAGTATCCTCGATTGTGGAATATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTA
1 GTTGGAGTATCCTCGATTG-GGAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGTA
1030594 TCCCCGATGA
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 32 0.26
79 24 0.20
80 67 0.54
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCTCGATTGGGAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGTACCTTCT
CAAAAATAACGGG
Found at i:1030608 original size:51 final size:51
Alignment explanation
Indices: 1030531--1030630 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
1030521 CAAAAATAAT
* * *
1030531 GGGGTTGGAGTATCCTCGATTGTGGAATATCAG-TGTTTTGGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAT-AGATGTTTTAGAAATAAAACC
*
1030582 GGGGTTGGAGTATCCCCGA-TGATGGAAAATTGATGTTTTAGAAATAAAA
1 GGGGTTGGAGTATCCCCGATTG-TGGAAAATAGATGTTTTAGAAATAAAA
1030631 TCAAGGTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 3 0.07
51 40 0.93
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGGAAAATAGATGTTTTAGAAATAAAACC
Found at i:1030698 original size:130 final size:129
Alignment explanation
Indices: 1030450--1030758 Score: 358
Period size: 129 Copynumber: 2.4 Consensus size: 129
1030440 TCAAAAATAA
** *
1030450 CGGGGTTGGAGTATCCTCGATTGA-GGAAAATCAATGTTTTAGAAATAAAAACCGAGGTTGGAGT
1 CGGGGTTGGAGTATCCTCGA-TGATGGAAAATTGATGTTTTAGAAAT-AAAACCAAGGTTGGAGT
* * * * * *
1030514 ACCTCTTCAAAAATAATGGGGTTGGAGTATCCTCGATTGTGGAATATCAGTGTTTTGGAAATAAA
64 ACCTCTCCAAAAATAACGGGATTGGAGTATCCTCAATTGTGGAAAATCAGTG-TTTAGAAATAAA
1030579 AC
128 AC
* * *
1030581 CGGGGTTGGAGTATCCCCGATGATGGAAAATTGATGTTTTAGAAATAAAATCAAGGTTTGAGTAT
1 CGGGGTTGGAGTATCCTCGATGATGGAAAATTGATGTTTTAGAAATAAAACCAAGGTTGGAGTA-
* *
1030646 CCT-TCCAGAAATAACGGGATTGGAGTATCC-CTAATTGTGGAAAATC-GATGTTTAGAAGTAAA
65 CCTCTCCAAAAATAACGGGATTGGAGTATCCTC-AATTGTGGAAAATCAG-TGTTTAGAAATAAA
1030708 AC
128 AC
* * * *
1030710 CGAGGTTGGAGTATCCTTGATGGTGGAAAATTCG-TATTTTAGAAATAAA
1 CGGGGTTGGAGTATCCTCGATGATGGAAAATT-GATGTTTTAGAAATAAA
1030759 GACATCAATG
Statistics
Matches: 154, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
129 56 0.36
130 56 0.36
131 42 0.27
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (129 bp):
CGGGGTTGGAGTATCCTCGATGATGGAAAATTGATGTTTTAGAAATAAAACCAAGGTTGGAGTAC
CTCTCCAAAAATAACGGGATTGGAGTATCCTCAATTGTGGAAAATCAGTGTTTAGAAATAAAAC
Found at i:1030702 original size:209 final size:209
Alignment explanation
Indices: 1030286--1030725 Score: 547
Period size: 209 Copynumber: 2.1 Consensus size: 209
1030276 TATTTTGGAG
* *
1030286 ATAAAAA-TGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCAATAGTGAAAA
1 ATAAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCAATAGTGAAAA
*
1030350 ATTGATGTTTTAGAAATAAAACCGGCGTTGGAGTATCCCCGATTGTGAAAACTTGATGTTTTAGA
66 ATAGATGTTTTAGAAATAAAACCGGCGTTGGAGTATCCCCGATTGTGAAAACTTGATGTTTTAGA
** * *
1030415 AATAAAGCGGGGTTGGAGTATCTTCTCAAAAATAACGGGGTTGGAGTATCCTCGATTGAGGAAAA
131 AATAAAGCAAGGTTGGAGTATCTTCTCAAAAATAACGGGATTGGAGTATCCTCAATTGAGGAAAA
1030480 TCAATGTTTTAGAA
196 TCAATGTTTTAGAA
* * * * * * *
1030494 ATAAAAACCGAGGTTGGAGTA-CCTCTTCAAAAATAATGGGGTTGGAGTATCCTCGATTGTGGAA
1 ATAAAAACCGAGGTTGGAGTATCC-CCTCAAAAATAACGGGGTTAGAGTATCCCCAATAGTGAAA
* * *
1030558 TATCAG-TGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGA-TGATGGAAAA-TTGATGTTT
65 AAT-AGATGTTTTAGAAATAAAACCGGCGTTGGAGTATCCCCGATTG-T-GAAAACTTGATGTTT
* * *
1030620 TAGAAATAAAATCAAGGTTTGAGTATCCTTC-CAGAAATAACGGGATTGGAGTATCC-CTAATTG
127 TAGAAAT-AAAGCAAGGTTGGAGTAT-CTTCTCAAAAATAACGGGATTGGAGTATCCTC-AATTG
* *
1030683 TGGAAAATCGATG-TTTAGAA
189 AGGAAAATCAATGTTTTAGAA
*
1030703 GT-AAAACCGAGGTTGGAGTATCC
1 ATAAAAACCGAGGTTGGAGTATCC
1030726 TTGATGGTGG
Statistics
Matches: 200, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
208 29 0.14
209 109 0.55
210 58 0.29
211 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (209 bp):
ATAAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCAATAGTGAAAA
ATAGATGTTTTAGAAATAAAACCGGCGTTGGAGTATCCCCGATTGTGAAAACTTGATGTTTTAGA
AATAAAGCAAGGTTGGAGTATCTTCTCAAAAATAACGGGATTGGAGTATCCTCAATTGAGGAAAA
TCAATGTTTTAGAA
Found at i:1030727 original size:78 final size:79
Alignment explanation
Indices: 1030581--1030727 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
1030571 GAAATAAAAC
* * * * *
1030581 CGGGGTTGGAGTATCCCCGATGATGGAAAATTGATGTTTTAGAAATAAAATCAAGGTTTGAGTAT
1 CGGGATTGGAGTATCCCCAATGATGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTAT
1030646 CCTTCCAGAAATAA
66 CCTTCCAGAAATAA
* * *
1030660 CGGGATTGGAGTATCCCTAATTG-TGGAAAATCGATG-TTTAGAAGTAAAACCGAGGTTGGAGTA
1 CGGGATTGGAGTATCCCCAA-TGATGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTA
1030723 TCCTT
65 TCCTT
1030728 GATGGTGGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
78 28 0.47
79 29 0.49
80 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (79 bp):
CGGGATTGGAGTATCCCCAATGATGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTAT
CCTTCCAGAAATAA
Found at i:1034416 original size:52 final size:52
Alignment explanation
Indices: 1034338--1034455 Score: 218
Period size: 52 Copynumber: 2.3 Consensus size: 52
1034328 AAGTTGCTTA
*
1034338 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTG
*
1034390 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTG
1034442 CATGTATCGATACA
1 CATGTATCGATACA
1034456 AAGATCAATG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTG
Found at i:1034466 original size:52 final size:52
Alignment explanation
Indices: 1034338--1034475 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 52
1034328 AAGTTGCTTA
* *
1034338 CATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTGCCTG
***
1034390 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTG
1034442 CATGTATCGATACA-AAGATCAATGTATCGATACA
1 CATGTATCGATACATAAGAT-AATGTATCGATACA
1034476 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
51 4 0.05
52 75 0.95
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTG
Found at i:1034479 original size:13 final size:13
Alignment explanation
Indices: 1034461--1034488 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1034451 ATACAAAGAT
1034461 CAATGTATCGATA
1 CAATGTATCGATA
1034474 CAATGTATCGATA
1 CAATGTATCGATA
1034487 CA
1 CA
1034489 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1034555 original size:19 final size:19
Alignment explanation
Indices: 1034527--1034583 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
1034517 GCAGTAGCTT
1034527 AAAT-TGTATCGATACAAA
1 AAATATGTATCGATACAAA
1034545 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAA-A
***
1034565 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
1034584 TCGTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATATGTATCGATACAAA
Found at i:1043286 original size:51 final size:51
Alignment explanation
Indices: 1043223--1043328 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
1043213 GAAATAACGA
* ** *
1043223 GGTTAGAGTATCCCCGATGGTGAAAAATCTATATTTTAGAAATAAAATCGG
1 GGTTAGAATATCCCCGATAATGAAAAATCAATATTTTAGAAATAAAATCGG
* *
1043274 GGTTAGAATATCCCCGATAATGGAAAATCAATGTTTTAGAAATAAAATCGG
1 GGTTAGAATATCCCCGATAATGAAAAATCAATATTTTAGAAATAAAATCGG
1043325 GGTT
1 GGTT
1043329 TGAGTACCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (51 bp):
GGTTAGAATATCCCCGATAATGAAAAATCAATATTTTAGAAATAAAATCGG
Found at i:1043407 original size:79 final size:78
Alignment explanation
Indices: 1043272--1043556 Score: 319
Period size: 79 Copynumber: 3.6 Consensus size: 78
1043262 AAATAAAATC
* * * * * *
1043272 GGGGTTAGAATATCCCCGATAATGGAAAATCAATGTTTTAGAAATAAAATCGGGGTTTGAGTACC
1 GGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTACC
1043337 CCTTCAAAAATAAT
66 CC-TCAAAAATAAT
* *
1043351 GGGGTTTGAGTATCCCCGATGATGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAATATC
1 GGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTA-C
1043416 CCCTCAAAAATAAT
65 CCCTCAAAAATAAT
* * *
1043430 -GGGTTGGAGTATCCTCGAT--TGTGAGAAATC-AGTGTTTTAAAAATAAAA-CCGGGATTGGAG
1 GGGGTTGGAGTATCCCCGATGATG-GA-AAATCGA-TGTTTTAGAAATAAAATCAGGG-TTGGAG
* *
1043490 TGTCCCCTCAAAAATAAC
62 T-ACCCCTCAAAAATAAT
* * * *
1043508 GGGGTTGGAGTATCCCCGATGATGAAAAATCGGTATTTTGGAAATAAAA
1 GGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTTTAGAAATAAAA
1043557 ACATCAATAA
Statistics
Matches: 176, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
76 2 0.01
77 7 0.04
78 57 0.32
79 103 0.59
80 5 0.03
81 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTACC
CCTCAAAAATAAT
Found at i:1043418 original size:130 final size:130
Alignment explanation
Indices: 1043185--1043418 Score: 335
Period size: 130 Copynumber: 1.8 Consensus size: 130
1043175 TATTTTTGAG
* * *
1043185 ATAAAAACGGGGTTAGAGTATCTCCTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGAAAAA
1 ATAAAAACGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAA
* *
1043250 TCTATATTTTAGAAATAAAATCGGGGTTAGAATATCCCCGATAATGGAAAATCAATGTTTTAGAA
66 TCGATATTTTAGAAATAAAATCAGGGTTAGAATATCCCCGATAATGGAAAATCAATGTTTTAGAA
* * * * * *
1043315 ATAAAATCGGGGTTTGAGTA-CCCCTTCAAAAATAATGGGGTTTGAGTATCCCCGATGATGGAAA
1 ATAAAAACGGGGTTAGAGTATCCCC-TCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAA
* *
1043379 ATCGATGTTTTAGAAATAAAATCAGGGTTGGAATATCCCC
65 ATCGATATTTTAGAAATAAAATCAGGGTTAGAATATCCCC
1043419 TCAAAAATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 3 0.03
130 87 0.97
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (130 bp):
ATAAAAACGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAA
TCGATATTTTAGAAATAAAATCAGGGTTAGAATATCCCCGATAATGGAAAATCAATGTTTTAGAA
Found at i:1044623 original size:52 final size:50
Alignment explanation
Indices: 1044488--1044945 Score: 357
Period size: 43 Copynumber: 9.6 Consensus size: 50
1044478 GAAAAGTGAT
* * * * * * *
1044488 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G
* * * *
1044540 AAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACACTGAACTTAAAGATG
1 --AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
1044593 AAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1044638 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
1044688 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A-G
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1044732 --AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1044773 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATG
* * * * *
1044824 -AGGGTGCCAATAAGCTGATTTAAGGCCAGCGATATTGGAC-T-----T-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
1044866 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1044916 -AAGGTGCCAATATGCTGATTTAAGGCCAGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGC
1044946 GATATTAGGC
Statistics
Matches: 334, Mismatches: 43, Indels: 59
0.77 0.10 0.14
Matches are distributed among these distances:
42 1 0.00
43 146 0.44
44 4 0.01
45 1 0.00
46 1 0.00
49 69 0.21
50 35 0.10
51 1 0.00
52 30 0.09
53 8 0.02
54 4 0.01
55 34 0.10
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (50 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:1044656 original size:43 final size:43
Alignment explanation
Indices: 1044595--1044951 Score: 399
Period size: 43 Copynumber: 7.9 Consensus size: 43
1044585 TAAAGATGAA
1044595 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1044638 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1044681 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1044730 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1044773 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1044816 AAAAGATGAGGGTGCCAATAAGCTGATTTAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1044866 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1044909 AAAGAAGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1044952 AGGCTTAGAA
Statistics
Matches: 268, Mismatches: 27, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
43 153 0.57
44 1 0.00
45 1 0.00
46 2 0.01
47 3 0.01
48 1 0.00
49 72 0.27
50 35 0.13
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1044736 original size:92 final size:87
Alignment explanation
Indices: 1044595--1044947 Score: 395
Period size: 92 Copynumber: 3.9 Consensus size: 87
1044585 TAAAGATGAA
*
1044595 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AGGTGCCAATGTGCTGATT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGAGGTGCCAATGTGCTGATT
*
1044659 CAAGGCCAGCTACATTGGACTT
66 CAAGGCCAGCGACATTGGACTT
* * *
1044681 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT-AGAGGTGCCAATGTG
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGAGGTGCCAATGTG
*
1044745 CTGATTCAAGGCCAGCGATATTGGACTT
60 CTGATTCAAGGCCAGCGACATTGGACTT
* * **
1044773 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT---A-A-GA-GGTGCCAATGTG
* *
1044838 CTGATTTAAGGCCAGCGATATTGGACTT
60 CTGATTCAAGGCCAGCGACATTGGACTT
* * *
1044866 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----AAG-AGGTGCCAATGTGC
*
1044931 TGATTTAAGGCCAGCGA
61 TGATTCAAGGCCAGCGA
1044948 TATTAGGCTT
Statistics
Matches: 237, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
86 39 0.16
88 1 0.00
90 1 0.00
91 2 0.01
92 111 0.47
93 80 0.34
94 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (87 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGAGGTGCCAATGTGCTGATT
CAAGGCCAGCGACATTGGACTT
Found at i:1044798 original size:21 final size:21
Alignment explanation
Indices: 1044732--1044798 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1044722 TTGGGCTTAG
1044732 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
* * *
1044753 AGGCCAGCGATAT-TG--GACTTAA
1 AGG--TGCCA-ATGTGCTGA-TTCA
1044775 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
1044796 AGG
1 AGG
1044799 CCAGCGACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (21 bp):
AGGTGCCAATGTGCTGATTCA
Found at i:1044851 original size:228 final size:229
Alignment explanation
Indices: 1044542--1044960 Score: 689
Period size: 228 Copynumber: 1.8 Consensus size: 229
1044532 AAGATGAGAA
* *
1044542 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACACTGAACTTAAAGATGAAAAAGGTGCCAAT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCGACACTGAACTTAAAGATG--AAAGGTGCCAAT
*
1044607 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
64 AAGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* * *
1044672 ATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAGGTG
129 ATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAGAGGTG
1044737 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
194 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* ** *
1044773 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG-AGGGTGCCAATA
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCGACACTGAACTT-AAAGATGAAAGGTGCCAATA
*
1044836 AGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
65 AGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
1044901 TTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTAGGCTTAGA
130 TTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAGA
1044961 AGGGTTGCCA
Statistics
Matches: 175, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
228 130 0.74
230 33 0.19
231 12 0.07
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (229 bp):
AAAGGATGCCAATGTGCTGATTCAAGGCCAGCGACACTGAACTTAAAGATGAAAGGTGCCAATAA
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
TGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAGAGGTGCC
AATGTGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1045000 original size:33 final size:33
Alignment explanation
Indices: 1044958--1045422 Score: 678
Period size: 33 Copynumber: 14.2 Consensus size: 33
1044948 TATTAGGCTT
*
1044958 AGAAGGGTTGCCACCGACTTTTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1044991 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045024 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1045057 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
1045090 AAGAA-GGCTGCCAACGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045123 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1045156 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045189 AG-AGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045221 AG-AGGGTTGCTACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045252 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1045285 AAGAA-GGTTGCCACCGACTTGTGTAGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1045318 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
1045351 -G--GGGATTGCCACCAACTTGTTTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
* * *
1045382 AAGAA-GGTTGCCATCAACTTGTGTGGACTTTGAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AG
1045416 AGGAAGG
1 A-GAAGG
1045423 TGCCACAGAG
Statistics
Matches: 395, Mismatches: 23, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
30 3 0.01
31 27 0.07
32 93 0.24
33 256 0.65
34 15 0.04
35 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1045539 original size:34 final size:34
Alignment explanation
Indices: 1045422--1046641 Score: 878
Period size: 34 Copynumber: 36.8 Consensus size: 34
1045412 TGAGAGGAAG
* * * * * *
1045422 GTGCCACAGAGTCGTGGAC-TTAAAAAGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * * *
1045455 GTGCCATGGGGTTGTGGACTTTAAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA-A
* *
1045491 GTGCCACGAAGTTGTTGGCTTTGAAAAGAAAAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* *
1045525 GTGCCACAGG-GTTGTGGGCTTTAAAAAGAAAAAG
1 GTGCCAC-GGAGTTGTGGGCTTTGAAAAGAAAAAA
* *
1045559 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
*
1045593 GTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAA-AAAA
* *
1045627 -TGCCACAGG-GTCGTGGAC-TT-AAAAGGAACAAAGA
1 GTGCCAC-GGAGTTGTGGGCTTTGAAAA-GAA-AAA-A
*
1045661 GTGCCACGGAGTTGTGGGCTTTGAAAAG--AAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * *
1045693 -TGCCACGGAGTCGTGGAC-TT-AAAAGGAACAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
*
1045725 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAA-A
** *
1045761 ACGCCACGGAGTTGTGGGCTTTGAAAAG---AAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
** * * *
1045792 GTGCCACGGAGTCATGGAC-TT-AAAAGGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
* ** *
1045825 GTGCCACGGGGTCATGGAC-TT-AAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAA-A
* *
1045860 GTGCCACAGAGTTGTGGGCTTTGAAAAG--AAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * * *
1045892 -TGCCACGGAGTTGTGGACTTTGAAAGGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
*
1045925 GTGCCAC-GAGGTTGTGGACTTT-AAAAGGGAAAAAGA
1 GTGCCACGGA-GTTGTGGGCTTTGAAAA--GAAAAA-A
* *
1045961 ATGCCACGGAGTTGTGGGCTTTGAAAAG---AAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* *
1045992 GTGCCACGGAGTCGTGGAC-TT-AAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA-A
*
1046026 GTGCCACGGAGTTGTGGGCTTTGAAAAG---AAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * * *
1046057 GTGCCACGGAGTCGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
* * *
1046091 GTGCTACGGAGTTGTAGGC-TT-AAAAG-----G
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * *
1046118 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
* *
1046152 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * *
1046186 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
*
1046220 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * *
1046254 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
* *
1046288 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * * *
1046322 GTGCCACGAAGTTGTCGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* *
1046356 GTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
1046391 GTGCCACGGAGTTGTGGGC-TT-AAAATG------
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
* * * *
1046418 GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAGAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
*
1046451 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* * * *
1046485 GTGCCATGAAGTTGTGGGCTTTAAAAAGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
* *
1046519 GTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-A
1046554 GTGCCACGGAGTTGTGGGC-TT-AAAATG------
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
* * *
1046581 GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAA
*
1046614 GTGCCACGTAGTTGTGGGCTTTGAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAG
1046642 GAGGATGCCA
Statistics
Matches: 967, Mismatches: 137, Indels: 165
0.76 0.11 0.13
Matches are distributed among these distances:
27 64 0.07
28 4 0.00
29 12 0.01
30 12 0.01
31 90 0.09
32 14 0.01
33 169 0.17
34 393 0.41
35 124 0.13
36 67 0.07
37 18 0.02
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAA
Found at i:1045590 original size:68 final size:68
Alignment explanation
Indices: 1045422--1046641 Score: 1173
Period size: 68 Copynumber: 18.4 Consensus size: 68
1045412 TGAGAGGAAG
* * * * * *
1045422 GTGCCACAGAGTCGTGGAC-TTAAAAAGAACAAGGTGCCATGGGGTTGTGGACTTTAAAAAGGAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
1045486 AAAGA
64 AAAGA
* * * * * *
1045491 GTGCCACGAAGTTGTTGGCTTTGAAAAGAAAAAAGTGCCACAGG-GTTGTGGGCTTTAAAAAGAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC-GGAGTTGTGGAC-TTAAAAGGAA
1045555 AAAG-
64 AAAGA
1045559 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-A
1045624 AA-A
65 AAGA
* * * * **
1045627 -TGCCACAGG-GTCGTGGAC-TTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--A
1 GTGCCAC-GGAGTTGTGGGCTTTAAAAAGAA-AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
*
1045687 AGAAGA
63 AAAAGA
* * *
1045693 -TGCCACGGAGTCGTGGAC-TTAAAAGGAACAAA-GTGCCACGGAGTTGTGGACTTTAAAAGGGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAA-AAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGA
1045755 AAAAGA
63 AAAAGA
** * ** *
1045761 ACGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCATGGACTTAAAAGGAACA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1045823 AG-
66 AGA
* ** * * * * **
1045825 GTGCCACGGGGTCATGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA--AA
1 GTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1045887 GAAGA
64 AAAGA
* * * *
1045892 -TGCCACGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCAC-GAGGTTGTGGACTTTAAAAGGGA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA-GTTGTGGAC-TTAAAA-GGA
1045955 AAAAGA
63 AAAAGA
* * *
1045961 ATGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046023 AGA
66 AGA
* * *
1046026 GTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046088 AGA
66 AGA
* * *
1046091 GTGCTACGGAGTTGTAGGC-TT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046149 AGA
66 AGA
*
1046152 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046217 AGA
66 AGA
* *
1046220 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046285 AGA
66 AGA
* * * *
1046288 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTCGG-CTTTAAAAAGAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT-GGAC-TTAAAAGGAA
1046352 AAAG-
64 AAAGA
* *
1046356 GTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT------AAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
*
1046415 ATG-
65 AAGA
* * * * *
1046418 GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAGAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGA
1046480 AAAAG-
63 AAAAGA
* * * * *
1046485 GTGCCATGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
1046550 AAGA
65 AAGA
* *
1046554 GTGCCACGGAGTTGTGGGC-TT------AAAATGGTGCCACAGAGTTGTGGACTTAAAAGG-AAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1046611 AGA
66 AGA
* *
1046614 GTGCCACGTAGTTGTGGGCTTTGAAAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAG
1046642 GAGGATGCCA
Statistics
Matches: 990, Mismatches: 101, Indels: 122
0.82 0.08 0.10
Matches are distributed among these distances:
60 53 0.05
61 64 0.06
62 44 0.04
63 15 0.02
64 36 0.04
65 119 0.12
66 86 0.09
67 95 0.10
68 316 0.32
69 101 0.10
70 59 0.06
71 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (68 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
AGA
Found at i:1046455 original size:60 final size:62
Alignment explanation
Indices: 1046350--1046546 Score: 195
Period size: 60 Copynumber: 3.1 Consensus size: 62
1046340 CTTTAAAAAG
* *
1046350 AAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * * *
1046412 AAAATGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAGAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * *
1046473 GAAAAGAAAAAGGTGCCA-TGAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTATGG
1 ------AAAAAGGTGCCACAG-AGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGG
1046536 GCTTT
59 GC-TT
1046541 AAAAAG
1 AAAAAG
1046547 AAAAAGAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
60 29 0.26
61 4 0.04
62 27 0.24
66 1 0.01
67 20 0.18
68 23 0.20
69 9 0.08
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (62 bp):
AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1046487 original size:163 final size:165
Alignment explanation
Indices: 1045419--1046641 Score: 1105
Period size: 163 Copynumber: 7.4 Consensus size: 165
1045409 CTTTGAGAGG
* * * * * *
1045419 AAGGTGCCACAGAGTCGTGGACTTAAAAAGAACAAG-GTGCCATGGGGTTGTGGACTTTAAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGAGTGCCACGGAGTTGTGGACTTTGAAAA-
* * * *
1045483 GAAAAAGAGTGCCACGAAGTTGTTGGCTTTGAAAAGAAAAAAGTGCCACAGG-GTTGTGGGCTTT
64 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC-GGAGTTGTGGGCTTT
1045547 AAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
127 AAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT----A-AAA
* *
1045590 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAA-AATGCCACAGG-GTCGTGGAC-TT-AAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGAGTGCCAC-GGAGTTGTGGACTTTGAAAA
* * * *
1045651 GGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGATGCCACGGAGTCGTGGAC-T
64 -GAA-AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
* * *
1045712 TAAAAGGAACAA-AGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
126 TAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT---A---AAA
** * **
1045757 AAGAACGCCACGGAGTTGTGGGCTTTGAAAA-G--AAG-GTGCCACGGAGTCATGGAC-TT-AAA
1 AAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTTGAAA
* * ** * * *
1045816 AGGAACAAGGTGCCACGGGGTCATGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCT
63 A-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCT
* *
1045880 TTGAAAAG---AAGA-TGCCACGGAGTTGTGGACTTTGAAAGGAA
125 TTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AA--AA
* *
1045921 CAAGGTGCCAC-GAGGTTGTGGACTTTAAAAGGGAAAAAGAATGCCACGGAGTTGTGGGCTTTGA
1 -AAGGTGCCACGGA-GTTGTGGAC-TTAAAA-GG-AAAAGAGTGCCACGGAGTTGTGGACTTTGA
* * *
1045985 AAAG---AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
61 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCT
* * * *
1046046 TTGAAAAG---AAG-GTGCCACGGAGTCGTGGACTTAGAAGGAAA
125 TTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT--TA--AAA
* * *
1046087 AAGAGTGCTACGGAGTTGTAGG-CTTAAAA-G----G-GTGCCACGGAGTTGTGGACTTAG-AAG
1 AAG-GTGCCACGGAGTTGT-GGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAA
*
1046144 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTA
64 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
* *
1046208 GAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
128 AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT----A-AAA
* * *
1046251 AAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAG
* * *
1046316 AAAAAGGTGCCACGAAGTTGTCGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAA
65 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
1046381 AAGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAA
130 AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * * *
1046415 ATGGTGCCACAGAGTTGTGGACTTAAAAGGAAGAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGA
* * *
1046480 AAAAGGTGCCATGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAA
66 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1046545 AGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAA
131 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * * *
1046578 ATGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAG
1046642 GAGGATGCCA
Statistics
Matches: 908, Mismatches: 82, Indels: 132
0.81 0.07 0.12
Matches are distributed among these distances:
156 3 0.00
157 20 0.02
158 1 0.00
159 8 0.01
160 35 0.04
161 13 0.01
162 6 0.01
163 242 0.27
164 72 0.08
165 25 0.03
166 156 0.17
167 56 0.06
168 35 0.04
169 33 0.04
170 111 0.12
171 90 0.10
172 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (165 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGA
AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
Found at i:1046615 original size:60 final size:62
Alignment explanation
Indices: 1046513--1046634 Score: 176
Period size: 60 Copynumber: 2.0 Consensus size: 62
1046503 CTTTAAAAAG
* *
1046513 AAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * * *
1046575 AAAATGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1046635 TGAAAAGGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 31 0.57
61 2 0.04
62 21 0.39
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (62 bp):
AAAAAGGTGCCACAGAGTTATGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1046803 original size:16 final size:17
Alignment explanation
Indices: 1046772--1046809 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1046762 GATGTAAATA
* *
1046772 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
1046789 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
1046805 ATGAT
1 ATGAT
1046810 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:1047634 original size:1 final size:1
Alignment explanation
Indices: 1047624--1047691 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
1047614 GGGTTTTCCC
* * * * * * * *
1047624 TTTTTCTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTGTTTTGTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1047689 TTT
1 TTT
1047692 GGAAAAGAAC
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:1047644 original size:10 final size:10
Alignment explanation
Indices: 1047624--1047690 Score: 82
Period size: 10 Copynumber: 6.5 Consensus size: 10
1047614 GGGTTTTCCC
*
1047624 TTTTTCTTTT
1 TTTTTGTTTT
*
1047634 TTTTT-TGTT
1 TTTTTGTTTT
1047643 TTTTTGTTTT
1 TTTTTGTTTT
1047653 TTTTTGTTTT
1 TTTTTGTTTT
1047663 TTTTTGTTTTT
1 TTTTTG-TTTT
1047674 TGTTTTGTTTCT
1 T-TTTTGTTT-T
1047686 TTTTT
1 TTTTT
1047691 TGGAAAAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.16
10 24 0.47
11 12 0.24
12 7 0.14
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:1047644 original size:17 final size:16
Alignment explanation
Indices: 1047624--1047692 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 16
1047614 GGGTTTTCCC
1047624 TTTTTCTTTTTTTTTTG
1 TTTTT-TTTTTTTTTTG
1047641 TTTTTTTGTTTTTTTTTG
1 -TTTTTT-TTTTTTTTTG
1047659 TTTTTTTTTGTTTTTTG
1 TTTTTTTTT-TTTTTTG
*
1047676 TTTTGTTTCTTTTTTTG
1 TTTT-TTTTTTTTTTTG
1047693 GAAAAGAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
16 3 0.06
17 25 0.53
18 19 0.40
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:1047655 original size:27 final size:26
Alignment explanation
Indices: 1047624--1047691 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
1047614 GGGTTTTCCC
1047624 TTTTTCTTTTTTTTTTGTTTTTTTGTT
1 TTTTTCTTTTTTTTTTG-TTTTTTGTT
*
1047651 TTTTTTTGTTTTTTTTTGTTTTTTGTT
1 TTTTTCT-TTTTTTTTTGTTTTTTGTT
1047678 TTGTTTCTTTTTTT
1 TT-TTTCTTTTTTT
1047692 GGAAAAGAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (26 bp):
TTTTTCTTTTTTTTTTGTTTTTTGTT
Found at i:1053928 original size:52 final size:52
Alignment explanation
Indices: 1053866--1054202 Score: 185
Period size: 52 Copynumber: 6.4 Consensus size: 52
1053856 AAATAACAAG
*
1053866 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
1053918 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
* * * *
1053969 GATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAATCGGG
1 G-TTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* * ** * * * *
1054022 GTTGGAGTATCCCC--TCAG-AAATAACGAGGTTGG-AGTATCCTCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGAT-TGTGAA-AA--A--TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
1054077 GTTGGAGTATCCCCGATTGTGAAGAAATTGGCATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTA-TTTTTGGAAATAAAATCGGA
* ** * * * *
1054131 GTTAGAGTATTTCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
1054182 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
1054203 GAGAATTGAG
Statistics
Matches: 210, Mismatches: 50, Indels: 50
0.68 0.16 0.16
Matches are distributed among these distances:
49 2 0.01
50 3 0.01
51 38 0.18
52 77 0.37
53 33 0.16
54 27 0.13
55 20 0.10
56 3 0.01
57 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:1054081 original size:27 final size:28
Alignment explanation
Indices: 1054018--1054093 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
1054008 GCGATAAAAT
1054018 CGGGGTTGGAGTATCCCCTC-A-GAAATAA
1 CGGGGTTGGAGTAT--CCTCGATGAAATAA
* *
1054046 CGAGGTTGGAGTATCCTCGATG-ATTAA
1 CGGGGTTGGAGTATCCTCGATGAAATAA
*
1054073 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCTCGAT
1054094 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 4 0.10
27 24 0.57
28 14 0.33
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGATGAAATAA
Found at i:1054158 original size:212 final size:212
Alignment explanation
Indices: 1053801--1054204 Score: 584
Period size: 212 Copynumber: 1.9 Consensus size: 212
1053791 AAGAGAAAAA
* *
1053801 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACAGGGTTGGAGTATCTCCGATGAAATAACAAG
1 AAAATCGGGATTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCTCCGATGAAATAACAAG
* * *
1053866 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGCATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
* *
1053931 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACC-GAGATTGGAGTATCCCCGATTGTGGAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTGTGGAAA
1053995 AATTAGTGTTTTAGCGAT
195 AATTAGTGTTTTAGCGAT
* * *
1054013 AAAATCGGGGTTGGAGTATCCCCTCAGAAATAAC-GAGGTTGGAGTATC-CTCGATG-ATTAACG
1 AAAATCGGGATTGGAGTATCCCCTCAGAAATAACAG-GGTTGGAGTATCTC-CGATGAAATAACA
*
1054075 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGCATTTTTTGGAAATAAAATCGGAGTTAGAGTA
64 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGCA-TTTTTGGAAATAAAATCGGAGTTAGAGTA
** * * *
1054140 TTTCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
127 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
1054204 A
192 A
1054205 GAATTGAGAA
Statistics
Matches: 171, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
211 30 0.18
212 101 0.59
213 40 0.23
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (212 bp):
AAAATCGGGATTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCTCCGATGAAATAACAAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGCATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Done.