Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
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: 4287485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 24
Found at i:12186 original size:18 final size:19
Alignment explanation
Indices: 12141--12190 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 19
12131 CAGCTATGAA
12141 AAGGGGAAGGAGGAAGGGG
1 AAGGGGAAGGAGGAAGGGG
* *
12160 ATGGAGAAGG-GGAAGGGG
1 AAGGGGAAGGAGGAAGGGG
12178 AAGGGGAAGGAGG
1 AAGGGGAAGGAGG
12191 GGGGAGGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (19 bp):
AAGGGGAAGGAGGAAGGGG
Found at i:12199 original size:6 final size:6
Alignment explanation
Indices: 12141--12187 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
12131 CAGCTATGAA
* *
12141 AAGGGG AAGGAGG AAGGGG ATGGAG AAGGGG AAGGGG AAGGGG AAGG
1 AAGGGG AAGG-GG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGG
12188 AGGGGGGAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:16505 original size:15 final size:17
Alignment explanation
Indices: 16485--16516 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16475 GGTCCCCGCA
16485 GCATTCC-C-ATGATAT
1 GCATTCCTCAATGATAT
16500 GCATTCCTCAATGATAT
1 GCATTCCTCAATGATAT
16517 TATGTCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (17 bp):
GCATTCCTCAATGATAT
Found at i:16819 original size:21 final size:21
Alignment explanation
Indices: 16793--16844 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
16783 TGATCTTAAG
*
16793 TTATCTCATATATACTCAGTA
1 TTATCTCATATATACCCAGTA
16814 TTATCTCATATATACCCAGTA
1 TTATCTCATATATACCCAGTA
16835 TTATCTCATA
1 TTATCTCATA
16845 ATTGGACGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (21 bp):
TTATCTCATATATACCCAGTA
Found at i:18971 original size:19 final size:19
Alignment explanation
Indices: 18938--18989 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
18928 TATAATATCT
*
18938 TTATT-TAATTAAATTTTTA
1 TTATTATAATT-AATTTATA
18957 TTATTATAATTAATTTATA
1 TTATTATAATTAATTTATA
*
18976 TTATTATGATTAAT
1 TTATTATAATTAAT
18990 AAAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATTATAATTAATTTATA
Found at i:26174 original size:22 final size:23
Alignment explanation
Indices: 26144--26189 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
26134 GAACTTCAAT
* *
26144 TTAACCTAAA-ACTTTTATATAA
1 TTAACCTAAATACTTATACATAA
*
26166 TTAATCTAAATACTTATACATAA
1 TTAACCTAAATACTTATACATAA
26189 T
1 T
26190 ATTTTCTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAACCTAAATACTTATACATAA
Found at i:26461 original size:3 final size:3
Alignment explanation
Indices: 26453--26508 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
26443 GGTGATGTAA
26453 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26500 AAT AAT AAT
1 AAT AAT AAT
26509 TCTAGCACTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:33640 original size:18 final size:18
Alignment explanation
Indices: 33600--33643 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33590 GTGTAAGAGG
* *
33600 GATAAAGACCGAGATAGG
1 GATAGAGACCGAGATAGA
33618 GATAGAGACCGAGATAGA
1 GATAGAGACCGAGATAGA
33636 GATAGAGA
1 GATAGAGA
33644 TCGATTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.34, T:0.11
Consensus pattern (18 bp):
GATAGAGACCGAGATAGA
Found at i:35626 original size:18 final size:18
Alignment explanation
Indices: 35600--35642 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
35590 TGGTAAATTA
35600 TATGATTT-AGTGTTATT
1 TATGATTTAAGTGTTATT
*
35617 GTATGTTTTAAAGTGTTATT
1 -TATGATTT-AAGTGTTATT
35637 TATGAT
1 TATGAT
35643 CCCTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (18 bp):
TATGATTTAAGTGTTATT
Found at i:35868 original size:20 final size:20
Alignment explanation
Indices: 35843--35892 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
35833 CAAAGCAATG
35843 GGTATCAATACT-ATAGGTGA
1 GGTATCAATACTCATAGG-GA
* *
35863 GGTATCGATACTCATAGGGT
1 GGTATCAATACTCATAGGGA
35883 GGTATCAATA
1 GGTATCAATA
35893 ATGAGATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (20 bp):
GGTATCAATACTCATAGGGA
Found at i:37082 original size:8 final size:8
Alignment explanation
Indices: 37069--37130 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
37059 GAGGCCTATA
37069 AAAATAAT
1 AAAATAAT
37077 AAAATAAT
1 AAAATAAT
37085 AATAA-AAT
1 AA-AATAAT
37093 AATAATAAT
1 AA-AATAAT
37102 -AAATAA-
1 AAAATAAT
37108 ATAAATATAT
1 A-AAATA-AT
*
37118 AATATAAT
1 AAAATAAT
37126 AAAAT
1 AAAAT
37131 GTCTTTGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
7 5 0.11
8 30 0.65
9 10 0.22
10 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATAAT
Found at i:37085 original size:3 final size:3
Alignment explanation
Indices: 37066--37127 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
37056 TACGAGGCCT
*
37066 ATA AAA ATA ATA A-A ATA ATA ATA A-A ATA ATA ATA ATAA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A
37112 ATA TATA AT- ATA ATA A
1 ATA -ATA ATA ATA ATA A
37128 AATGTCTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 6 0.12
3 32 0.62
4 14 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:37087 original size:11 final size:11
Alignment explanation
Indices: 37071--37127 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
37061 GGCCTATAAA
37071 AATAATAAAAT
1 AATAATAAAAT
37082 AATAATAAAAT
1 AATAATAAAAT
*
37093 AATAATAATA-
1 AATAATAAAAT
37103 AATAA-ATAAAT
1 AATAATA-AAAT
*
37114 ATATAATATAAT
1 A-ATAATAAAAT
37126 AA
1 AA
37128 AATGTCTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 1 0.03
10 7 0.18
11 22 0.56
12 8 0.21
13 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:37100 original size:25 final size:26
Alignment explanation
Indices: 37066--37130 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
37056 TACGAGGCCT
*
37066 ATAAAAATAATAAAAT-AAT-AATAAA
1 ATAATAATAATAAAATAAATAAAT-AA
*
37091 ATAATAATAAT-AAATAAATAAATAT
1 ATAATAATAATAAAATAAATAAATAA
37116 ATAAT-ATAATAAAAT
1 ATAATAATAATAAAAT
37131 GTCTTTGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 9 0.26
25 23 0.66
26 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
ATAATAATAATAAAATAAATAAATAA
Found at i:37630 original size:84 final size:84
Alignment explanation
Indices: 37460--38486 Score: 765
Period size: 84 Copynumber: 12.4 Consensus size: 84
37450 ATACGCCCTC
* * * * * * * * * *
37460 GAGCTGAATGAAATCAAACTCGAAGGTCTTTG--G-CATATAAACCTCCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
* *
37522 TGCAAATGATTGTG-CTTTT
66 TGCAAATGA-TGTGCCCTTG
* * * * * *
37541 TAGCTGAGTG-AAGTCGAACTCAAAGGTCTTTGTTGACAGATAACCTTTTTAGCCTTGAGTTATG
1 GAGCTGAGTGTAA-TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATG
* * *
37605 CCGTAAATGATGTGCCCTCG
65 CTGCAAATGATGTGCCCTTG
* * * * *
37625 AAGCTGAGTGTAATCGAACTCGAGGGTC-TT-TAG-CAGATAACCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
*
37687 TACAAATGATGTG-CCTTG
66 TGCAAATGATGTGCCCTTG
* * ** * *
37705 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAAACCTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATG
* * **
37770 TTGCAAATGATAT-ATCTTG
65 CTGCAAATGATGTGCCCTTG
* * * * * * *
37789 GAGCTGA-TCATAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGT-GTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTAT
* *
37853 GTTGTAAATGATGTGCCCTTG
64 GCTGCAAATGATGTGCCCTTG
* * * * *
37874 AAGTTGAGTGTAATCGAACTCGAGGGTCTTTG--G-CAGATAACCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
*
37936 TGCAAATGATGTG-TCTTG
66 TGCAAATGATGTGCCCTTG
* * **
37954 GAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCA-ACTTAAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCT-AGACTTAAGTTAT
* * *
38018 ACTACAAATGATATG-CCTTG
64 GCTGCAAATGATGTGCCCTTG
* * * * * * * * *
38038 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGGTCATAGATAACCCTTATAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATG
* * *
38103 CTGTAAATGATGTACCCTCG
65 CTGCAAATGATGTGCCCTTG
* * * * * * * *
38123 AACCTGAGTGTAATCGAACTCGAGGGTCTTTG--G-CAAATATCCCTTCTCGACTTAAGCTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
* *
38185 TGTAAATGATGTG-CCTTA
66 TGCAAATGATGTGCCCTTG
* ** * *
38203 GAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGTAGATAACCTTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATG
* *
38268 CTGCAAATGATATG-ACTTG
65 CTGCAAATGATGTGCCCTTG
* ** * * * * * *
38287 GAGCTAAGCATAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATG
* *
38352 CTGTAAATGATGTGCCCTCG
65 CTGCAAATGATGTGCCCTTG
* * **
38372 AAGCTGAGTGTAATTGAACTCG-AGGTTCTTTGGTTGGTAGATAACCCTAT-T-GACTTAAGTTA
1 GAGCTGAGTGTAATCGAACTCGAAGG-TCTTT-GTTGACAGATAACCCT-TCTAGACTTAAGTTA
* *
38434 TACTGCAAATGATGTG-CCTTA
63 TGCTGCAAATGATGTGCCCTTG
* * * * *
38455 GAGCTAAGCGTAGTCAAACTCGAAGGCCTTTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
38487 GTGGACACGA
Statistics
Matches: 740, Mismatches: 173, Indels: 65
0.76 0.18 0.07
Matches are distributed among these distances:
80 90 0.12
81 130 0.18
82 3 0.00
83 35 0.05
84 386 0.52
85 94 0.13
86 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (84 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATGTGCCCTTG
Found at i:37695 original size:165 final size:164
Alignment explanation
Indices: 37454--38487 Score: 784
Period size: 165 Copynumber: 6.2 Consensus size: 164
37444 CGGTTGATAC
* * * * * * * * *
37454 GCCCTCG-AGCTGAATGAAATCAAACTCGAAGGTCTTTGGCATATAAACCTCCTTGCCTTGAGCT
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
* ** * *
37518 ATGCTGCAAATGATTGTGCTTTTTAGCTGAGTGAAGTCGAACTCAAAGGTCTTTGTTGACAGATA
66 ATGCTGCAAATGA-TGTGCCTTGGAGCTGAGTGAAGTCGAACTCGAAGGTCTTTGTTGATAGATA
* * * * * * *
37583 ACCTTTTTAGCCTTGAGTTATGCCGTAAATGATGT
130 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
37618 GCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAACCCTTCTCGACTTAAGCT
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
* * * *
37683 ATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATA
66 ATGCTGCAAATGATGTGCCTTGGAGCTGAGTGAAGTCGAACTCGAAGGTCTTT-GTTGATAGATA
* * *
37748 AACCTTCTCGACTTAAGTTATGTTGCAAATGATAT
130 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
** * * * * * * *
37783 -ATCTTGGAGCTGA-TCATAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTT
1 GCCCTCGAAGCTGAGT-GTAATCGAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTCGACTT
* * * * * * *
37846 GAGTTATGTTGTAAATGATGTGCCCTTGAAGTTGAGTGTAA-TCGAACTCGAGGGTCTTTG--G-
61 AAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTG-AAGTCGAACTCGAAGGTCTTTGTTGA
* *
37907 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
124 TAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * * *
37948 G-TCTTGGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCAACTTA
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTA
* * * * * * * * *
38012 AGTTATACTACAAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGGTCATA
62 AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGAAGTCGAACTCGAAGGTC-TTTGTTGATA
* * * * *
38077 GATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGT
126 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * *
38116 ACCCTCGAACCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAAATATCCCTTCTCGACTTAAGCT
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
* * * * *
38181 ATACTGTAAATGATGTGCCTTAGAGCTGAGTGTAA-TCGAACTCGAAGGTATTTGGTTGGTAGAT
66 ATGCTGCAAATGATGTGCCTTGGAGCTGAGTG-AAGTCGAACTCGAAGGTCTTT-GTTGATAGAT
* *
38245 AACCTTTCTCGACTTAAGTTATGCTGCAAATGATAT
129 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * ** * * * * *
38281 G-ACTTGGAGCTAAGCATAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTG
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTCGACTTA
* * * * *
38345 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA-TTGAACTCG-AGGTTCTTTGGTTG
62 AGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTG-AAGTCGAACTCGAAGG-TCTTT-GTTG
* *
38408 GTAGATAACCCTAT-T-GACTTAAGTTATACTGCAAATGATGT
123 ATAGATAACCCT-TCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * * *
38449 GCCTTAG-AGCTAAGCGTAGTCAAACTCGAAGGCCTTTGG
1 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
38488 TGGACACGAT
Statistics
Matches: 694, Mismatches: 146, Indels: 57
0.77 0.16 0.06
Matches are distributed among these distances:
163 2 0.00
164 117 0.17
165 300 0.43
166 4 0.01
167 6 0.01
168 162 0.23
169 101 0.15
170 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (164 bp):
GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
ATGCTGCAAATGATGTGCCTTGGAGCTGAGTGAAGTCGAACTCGAAGGTCTTTGTTGATAGATAA
CCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
Found at i:37934 original size:249 final size:248
Alignment explanation
Indices: 37552--38488 Score: 1342
Period size: 249 Copynumber: 3.8 Consensus size: 248
37542 AGCTGAGTGA
* * * * * *
37552 AGTCGAACTCAAAGGTC-TTTGTTGACAGATAACCTTTTTAGCCTTGAGTTATGCCGTAAATGAT
1 AGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
*
37616 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAACCCTTCTCGACTTAAG
66 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* * * * *
37681 CTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGA
131 CTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGA
* *
37746 TAAACCTTCTCGACTTAAGTTATGTTGCAAATGATATATCTTGGAGCTGATCAT
196 TAAACCTTCTCGACTTAAGTTATGCTGCAAATGATATA-CTTGGAGCTGAGCAT
* *
37800 AGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGAT
1 AGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* *
37865 GTGCCCTTGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
66 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* * *
37930 CTATGCTGCAAATGATGTGTCTTGGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGA
131 CTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGA
* * * * * *
37995 TAACCCTTCTCAACTTAAGTTATACTACAAATGATATGCCTTGGAGCTGAGCGT
196 TAAACCTTCTCGACTTAAGTTATGCTGCAAATGATAT-ACTTGGAGCTGAGCAT
* * *
38049 AGTTGAACTCGAAGGTCTTTTGGTCATAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGAT
1 AGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* * * *
38114 GTACCCTCGAACCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAAATATCCCTTCTCGACTTAAG
66 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* * * *
38179 CTATACTGTAAATGATGTGCCTTAGAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGTAGA
131 CTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGA
*
38244 T-AACCTTTCTCGACTTAAGTTATGCTGCAAATGATATGACTTGGAGCTAAGCAT
196 TAAACC-TTCTCGACTTAAGTTATGCTGCAAATGATAT-ACTTGGAGCTGAGCAT
*
38298 AGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 AGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
* * *
38363 GTGCCCTCGAAGCTGAGTGTAATTGAACTCGAGGTTCTTTGGTTGGTAGATAACCCTAT-T-GAC
66 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCT-TCTCGAC
* * * *
38426 TTAAGTTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAGTCAAACTCGAAGGCCTTTGGT
126 TTAAGCTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGT
38489 GGACACGATT
Statistics
Matches: 614, Mismatches: 67, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
248 18 0.03
249 523 0.85
251 1 0.00
252 58 0.09
253 13 0.02
254 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (248 bp):
AGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
CTATACTGCAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGTTGGTAGA
TAAACCTTCTCGACTTAAGTTATGCTGCAAATGATATACTTGGAGCTGAGCAT
Found at i:38062 original size:333 final size:330
Alignment explanation
Indices: 37473--38485 Score: 933
Period size: 333 Copynumber: 3.1 Consensus size: 330
37463 CTGAATGAAA
* * * * * * * *
37473 TCAAACTCGAAGGTC-TTTGGCATATAAACCTCCTTGCCTTGAGCTATGCTGCAAATGATTGTGC
1 TCAAACTCGAAGGTCTTTTGGCAAATAACCCTTCTAGACTTAAGCTATACTGTAAATGA-TGTGC
* ** * * * * * * * * * *
37537 TTTTTAGCTGAGTG-AAGTCGAACTCAAAGGTCTTTGTTGACAGATAACCTTTTTAGCCTTGAGT
65 CTTAGAGCTGAGTGTAA-TCGAACTCGAAGGTATCTGTTGGCAGATAACCCTTCTCGACTTAAGC
* * * * * * * ** * *
37601 TATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTTAG---CAGA
129 TATGCTGCAAATGATATG-ACTTGGAGCTAAGCATAATCGAACTCGAAGGTCTTTTGGTCACAGA
* * *
37662 TAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG
193 TAACCCTTCTCAACTTAAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCG
* * * *
37727 AAGGTCTTTGGTTGGTAGATAAACCTTCTCGACTTAAGTTATGTTGCAAATGATATATCTTGGAG
258 AAGGTCTTTGGTTGGTAGATAACCCTT-T-GACTTAAGTTATGCTGCAAATGATGTACCTTGGAG
*
37792 CTGATCATAG
321 CTGATCGTAG
* * * **
37802 TCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCAAACTCGAAGGTCTTTTGG-CA-A-ATAACCCTTCTAGACTTAAGCTATACTGTAAATGATGT
* *
37867 GCCCTT-GAAGTTGAGTGTAATCGAACTCG-AGG-GTCT-TTGGCAGATAACCCTTCTCGACTTA
63 G-CCTTAG-AGCTGAGTGTAATCGAACTCGAAGGTATCTGTTGGCAGATAACCCTTCTCGACTTA
* * * ***
37928 AGCTATGCTGCAAATGATGTGTCTTGGAGCTAAGCGTAATCGAACTCGAAGGTC-TTTGGTTGGT
126 AGCTATGCTGCAAATGATATGACTTGGAGCTAAGCATAATCGAACTCGAAGGTCTTTTGG-TCAC
* *
37992 AGATAACCCTTCTCAACTTAAGTTATACTACAAATGATATGCCTTGGAGCTGAGCGTAGTTGAAC
190 AGATAACCCTTCTCAACTTAAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAAC
** * * *
38057 TCGAAGGTCTTTTGG-TCATAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTACCCT
255 TCGAAGGTC-TTTGGTTGGTAGATAACCCTT-T-GACTTAAGTTATGCTGCAAATGATGTA-CCT
* * * *
38121 CGAACCTGAGT-GTAA
316 TGGAGCTGA-TCGTAG
* * * *
38136 TCGAACTCGAGGGTC-TTTGGCAAATATCCCTTCTCGACTTAAGCTATACTGTAAATGATGTGCC
1 TCAAACTCGAAGGTCTTTTGGCAAATAACCCTTCTAGACTTAAGCTATACTGTAAATGATGTGCC
* * * *
38200 TTAGAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGTAGATAACCTTTCTCGACTTAAGTT
66 TTAGAGCTGAGTGTAATCGAACTCGAAGGTATCT-GTTGGCAGATAACCCTTCTCGACTTAAGCT
* *
38265 ATGCTGCAAATGATATGACTTGGAGCTAAGCATAGTCGAACTCGAAGGTCTTTTGGTCACAAATA
130 ATGCTGCAAATGATATGACTTGGAGCTAAGCATAATCGAACTCGAAGGTCTTTTGGTCACAGATA
* * ** * * * *
38330 ACCCTTCT-AGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCG
195 ACCCTTCTCA-ACTTAAGTTATGCTACAAATGATGTG-CCTTGGAGCTGAGCGTAGTTGAACTCG
* * *
38394 -AGGTTCTTTGGTTGGTAGATAACCCTATTGACTTAAGTTATACTGCAAATGATGTGCCTTAGAG
258 AAGG-TCTTTGGTTGGTAGATAACCCT-TTGACTTAAGTTATGCTGCAAATGATGTACCTTGGAG
* *
38458 CTAAGCGTAG
321 CTGATCGTAG
*
38468 TCAAACTCGAAGGCCTTT
1 TCAAACTCGAAGGTCTTT
38486 GGTGGACACG
Statistics
Matches: 556, Mismatches: 101, Indels: 50
0.79 0.14 0.07
Matches are distributed among these distances:
329 70 0.13
330 78 0.14
331 7 0.01
332 32 0.06
333 294 0.53
334 73 0.13
335 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (330 bp):
TCAAACTCGAAGGTCTTTTGGCAAATAACCCTTCTAGACTTAAGCTATACTGTAAATGATGTGCC
TTAGAGCTGAGTGTAATCGAACTCGAAGGTATCTGTTGGCAGATAACCCTTCTCGACTTAAGCTA
TGCTGCAAATGATATGACTTGGAGCTAAGCATAATCGAACTCGAAGGTCTTTTGGTCACAGATAA
CCCTTCTCAACTTAAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAACTCGAAG
GTCTTTGGTTGGTAGATAACCCTTTGACTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAT
CGTAG
Found at i:38846 original size:67 final size:67
Alignment explanation
Indices: 38733--38875 Score: 214
Period size: 67 Copynumber: 2.1 Consensus size: 67
38723 TACTTCGCTA
* * * * *
38733 TGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCAT
1 TGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCCCTTCAT
38798 TG
66 TG
* **
38800 TGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCTCTTTGT
1 TGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCCCTTCAT
38865 TG
66 TG
38867 TGAAGTTGA
1 TGAAGTTGA
38876 GTTTATGTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (67 bp):
TGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCCCTTCAT
TG
Found at i:39000 original size:110 final size:110
Alignment explanation
Indices: 38798--39311 Score: 727
Period size: 110 Copynumber: 4.7 Consensus size: 110
38788 GCCCCTTCAT
* * ** *
38798 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCTC-TT
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCC-CATT
* * * * * *
38862 TGTTGTGAAGTTGAGTTTATGTTATCTCGAGTCCAATATCATTCAC
65 CGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGC
*
38908 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTAACAGTCAGTCGCCCATTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTC
*
38973 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCGC
66 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGC
* * *
39018 TGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGATAGTCAGTCGCCCCTTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTC
*
39083 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGC
66 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGC
* *
39128 --T---G-TGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTC
* * *
39187 GCTGTGAAGTTGAGCTTGTGTTGTGTCGAGTCCAATATCCTTCGT
66 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGC
* * * *
39232 TGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAATCAGTCACCCATTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTC
*
39297 GTTGTGAAGTTGAGC
66 GCTGTGAAGTTGAGC
39312 AACCACCATC
Statistics
Matches: 366, Mismatches: 31, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
104 97 0.27
105 1 0.00
106 1 0.00
108 1 0.00
109 2 0.01
110 264 0.72
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (110 bp):
TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTC
GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCATTCGC
Found at i:39205 original size:214 final size:217
Alignment explanation
Indices: 38798--39311 Score: 755
Period size: 214 Copynumber: 2.4 Consensus size: 217
38788 GCCCCTTCAT
* ** * *
38798 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTATTGACAGTCAACCACCTCTTT
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCACCCCTTC
*
38863 GTTGTGAAGTTGAGTTTATGTTATCTCGAGTCCAATATCATTCACTGTGAAGTTGAAATTGACTC
66 GTTGTGAAGTTGAGCTTATGTTATCTCGAGTCCAATATCATTCAC-GT--AGTTGAAATTGACTC
*
38928 TGAATGAAACTGAAAAGTTGTTTGTTAACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTG
128 TGAATAAAACTGAAAAGTTGTTTGTTAACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTG
*
38993 TTGTCTCGAGTCTAATATCATTCGC
193 TTGTCTCGAGTCCAATATCATTCGC
* * * *
39018 TGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTGATAGTCAGTCGCCCCTTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCACCCCTTC
* * * * *
39083 GCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGC-T-G-TGAAATTGACTCTGA
66 GTTGTGAAGTTGAGCTTATGTTATCTCGAGTCCAATATCATTCACGTAGTTGAAATTGACTCTGA
* *
39145 ATAAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTG
131 ATAAAACTGAAAAGTTGTTTGTTAACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTGTTG
* * *
39210 TGTCGAGTCCAATATCCTTCGT
196 TCTCGAGTCCAATATCATTCGC
* * *
39232 TGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAATCAGTCACCCATTC
1 TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCACCCCTTC
39297 GTTGTGAAGTTGAGC
66 GTTGTGAAGTTGAGC
39312 AACCACCATC
Statistics
Matches: 264, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
214 167 0.63
215 1 0.00
218 1 0.00
220 95 0.36
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (217 bp):
TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCACCCCTTC
GTTGTGAAGTTGAGCTTATGTTATCTCGAGTCCAATATCATTCACGTAGTTGAAATTGACTCTGA
ATAAAACTGAAAAGTTGTTTGTTAACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCTTGTGTTG
TCTCGAGTCCAATATCATTCGC
Found at i:43507 original size:23 final size:23
Alignment explanation
Indices: 43439--43499 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
43429 CATTATTATA
*
43439 TGGCACTACAGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
43462 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
43485 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
43500 TTTATACGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:43614 original size:2 final size:2
Alignment explanation
Indices: 43607--43644 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43597 AACAAATAAA
43607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43645 GATGGATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43817 original size:15 final size:13
Alignment explanation
Indices: 43782--43819 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
43772 TAATTTGATG
43782 ATAATGAT-ATAA
1 ATAATGATAATAA
43794 ATAATGATAATAA
1 ATAATGATAATAA
43807 TATATATGATAAT
1 -ATA-ATGATAAT
43820 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 3 0.13
15 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:48733 original size:23 final size:23
Alignment explanation
Indices: 48665--48725 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
48655 CATTATTATA
48665 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
48688 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
48711 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
48726 TTTATACGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:48838 original size:2 final size:2
Alignment explanation
Indices: 48831--48860 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48821 ATAACAAATA
48831 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
48861 GATGGATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49033 original size:15 final size:13
Alignment explanation
Indices: 48998--49035 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
48988 TAATTTGATG
48998 ATAATGAT-ATAA
1 ATAATGATAATAA
49010 ATAATGATAATAA
1 ATAATGATAATAA
49023 TATATATGATAAT
1 -ATA-ATGATAAT
49036 GCTAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 3 0.13
15 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (13 bp):
ATAATGATAATAA
Found at i:50281 original size:39 final size:35
Alignment explanation
Indices: 50236--50326 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 35
50226 TTTTTGGGCC
50236 ACCCGACCCGACCCGA-GAAGA-AAGGGGTTTTCACCCGTG
1 ACCCGACCCGACCCGACGAA-ATAA--GG-TTTCACCC--G
50275 ACCCGACCCGACCCGACGAAATTAAGGTTTCACCCG
1 ACCCGACCCGACCCGACGAAA-TAAGGTTTCACCCG
50311 ACCCGACCCGACCCGA
1 ACCCGACCCGACCCGA
50327 ATATATGACT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
36 17 0.35
38 8 0.16
39 19 0.39
40 3 0.06
41 2 0.04
ACGTcount: A:0.26, C:0.40, G:0.23, T:0.11
Consensus pattern (35 bp):
ACCCGACCCGACCCGACGAAATAAGGTTTCACCCG
Found at i:50352 original size:5 final size:5
Alignment explanation
Indices: 50342--50372 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
50332 TGACTTAGAA
50342 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
50373 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:51986 original size:8 final size:8
Alignment explanation
Indices: 51973--52043 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 8
51963 GGGGCCTGCA
51973 AAAATAAT
1 AAAATAAT
51981 AAAATAA-
1 AAAATAAT
51988 AAATATAAT
1 AAA-ATAAT
*
51997 GATAATAAT
1 -AAAATAAT
52006 AATAATAAT
1 AA-AATAAT
52015 -AAATAA-
1 AAAATAAT
52021 ATAAATAAAT
1 A-AAAT-AAT
*
52031 AATATAAT
1 AAAATAAT
52039 AAAAT
1 AAAAT
52044 GTTTTTGTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
7 8 0.16
8 24 0.47
9 16 0.31
10 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (8 bp):
AAAATAAT
Found at i:52006 original size:3 final size:3
Alignment explanation
Indices: 51975--52040 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
51965 GGCCTGCAAA
* *
51975 AAT AAT AA- AAT AAA AAT -AT AAT GAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
52019 AAAT AAAT AAAT AAT -AT AAT AA
1 -AAT -AAT -AAT AAT AAT AAT AA
52041 AATGTTTTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.11
3 34 0.62
4 15 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:52013 original size:12 final size:12
Alignment explanation
Indices: 51975--52040 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 12
51965 GGCCTGCAAA
51975 AATAATAA-AAT
1 AATAATAATAAT
*
51986 AAAAAT-ATAAT
1 AATAATAATAAT
*
51997 GATAATAATAAT
1 AATAATAATAAT
52009 AATAATAAATAAAT
1 AATAAT-AAT-AAT
52023 AAATAAATAAT-AT
1 -AAT-AATAATAAT
52036 AATAA
1 AATAA
52041 AATGTTTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
10 1 0.02
11 14 0.31
12 13 0.29
13 5 0.11
14 3 0.07
15 6 0.13
16 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:55259 original size:37 final size:37
Alignment explanation
Indices: 55183--55259 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
55173 TTTTTATATT
* *
55183 TTTAATTTTGTAAAAGAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAGAAAATATATAAATATTATCAA
* *
55220 TTTAATTTT-TTAAAGAAAATATATAAATATTTTACAA
1 TTTAATTTTGTAAAAGAAAATATATAAATATTAT-CAA
55257 TTT
1 TTT
55260 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 21 0.60
37 14 0.40
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAGAAAATATATAAATATTATCAA
Found at i:59688 original size:2 final size:2
Alignment explanation
Indices: 59681--59719 Score: 51
Period size: 2 Copynumber: 18.5 Consensus size: 2
59671 TTTACCTACC
*
59681 TA TA TA TA CA CTA CTA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA T
59720 TTCTTCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 30 0.88
3 4 0.12
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:62785 original size:27 final size:27
Alignment explanation
Indices: 62755--62808 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
62745 TTTATTTTGT
* *
62755 TTGTAATTAAAGTTGGTAATGTATTAA
1 TTGTAATTAAAATTAGTAATGTATTAA
62782 TTGTAATTAAAATTAGTAATGTATTAA
1 TTGTAATTAAAATTAGTAATGTATTAA
62809 CATATTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (27 bp):
TTGTAATTAAAATTAGTAATGTATTAA
Found at i:71265 original size:21 final size:21
Alignment explanation
Indices: 71239--71280 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
71229 GTAGCAATAA
*
71239 TGTAGCAGTGCATCGATACAC
1 TGTAGCAATGCATCGATACAC
71260 TGTAGCAATGCATCGATACAC
1 TGTAGCAATGCATCGATACAC
71281 AATTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (21 bp):
TGTAGCAATGCATCGATACAC
Found at i:71357 original size:19 final size:19
Alignment explanation
Indices: 71333--71381 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
71323 TGTTCACAAC
* *
71333 ACTATTCATACTATATAGT
1 ACTATTCATAATATATAAT
*
71352 ACTATTCATAATGTATAAT
1 ACTATTCATAATATATAAT
71371 ACTATTCATAA
1 ACTATTCATAA
71382 AAACGTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (19 bp):
ACTATTCATAATATATAAT
Found at i:72225 original size:24 final size:24
Alignment explanation
Indices: 72174--72237 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
72164 ACAATCTTAT
** *
72174 ATGGCACTAGGGTGC-ATTTCTAC
1 ATGGCACTTCGGTGCAAATTCTAC
*
72197 GTGGCACTTCGGTGCAAATTCTAC
1 ATGGCACTTCGGTGCAAATTCTAC
72221 ATGGCACTTCGGTGCAA
1 ATGGCACTTCGGTGCAA
72238 TTTATACGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (24 bp):
ATGGCACTTCGGTGCAAATTCTAC
Found at i:74354 original size:20 final size:20
Alignment explanation
Indices: 74329--74385 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
74319 ACAGATCCAC
74329 TTGGTATTGATACCCACATT
1 TTGGTATTGATACCCACATT
74349 TTGGTATTGATACCCACATT
1 TTGGTATTGATACCCACATT
74369 TTGGTATTGATACCCAC
1 TTGGTATTGATACCCAC
74386 TTACTAACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (20 bp):
TTGGTATTGATACCCACATT
Found at i:77072 original size:2 final size:2
Alignment explanation
Indices: 77067--77118 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
77057 TAAAAAAATC
77067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77109 AT AT AT AT AT
1 AT AT AT AT AT
77119 TGATTACCTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80718 original size:30 final size:30
Alignment explanation
Indices: 80693--80750 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
80683 ATACTTCATG
*
80693 TACCTATTTTGATAAAAAAAATACTTTCAA
1 TACCTATTTTGACAAAAAAAATACTTTCAA
* *
80723 TATCTATTTTGACAAAAAAGATAACTTT
1 TACCTATTTTGACAAAAAAAAT-ACTTT
80751 AGGTACTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (30 bp):
TACCTATTTTGACAAAAAAAATACTTTCAA
Found at i:81019 original size:28 final size:29
Alignment explanation
Indices: 80963--81024 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
80953 CTAAAATTAT
*
80963 TATTTTTTGTCAAAATAGGTACATAAAAG
1 TATTTTTAGTCAAAATAGGTACATAAAAG
80992 TATTTTTAGTCAAAATAGGTACAT-AAAG
1 TATTTTTAGTCAAAATAGGTACATAAAAG
81020 TATTT
1 TATTT
81025 AGTTTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (29 bp):
TATTTTTAGTCAAAATAGGTACATAAAAG
Found at i:87140 original size:24 final size:21
Alignment explanation
Indices: 87105--87147 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
87095 GACACATTCT
*
87105 TTTGAACTTCAAGAGGTACATCA
1 TTTGAAATTCAA-AGG-ACATCA
87128 TTTGAAATGTCAAAGGACAT
1 TTTGAAAT-TCAAAGGACAT
87148 GTCTTGTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
TTTGAAATTCAAAGGACATCA
Found at i:88288 original size:16 final size:16
Alignment explanation
Indices: 88267--88301 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
88257 TCAACTTTTC
88267 TTTCTTTTATTTTCCT
1 TTTCTTTTATTTTCCT
* *
88283 TTTCTTTTTTTTTTCT
1 TTTCTTTTATTTTCCT
88299 TTT
1 TTT
88302 TGAGTGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTTTTATTTTCCT
Found at i:88322 original size:24 final size:24
Alignment explanation
Indices: 88290--88368 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
88280 CCTTTTCTTT
* * *
88290 TTTTTTTCTTTTTGAGTGCTTAAA
1 TTTTCTTCTTTTGGAGTGCTTAAC
88314 TTTTCTTCTTTTGGAGTGCTTAAC
1 TTTTCTTCTTTTGGAGTGCTTAAC
* *
88338 TTTTTTTCTTTTGGAGTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTAAC
88362 TTTTCTT
1 TTTTCTT
88369 TGCTGATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.11, C:0.13, G:0.15, T:0.61
Consensus pattern (24 bp):
TTTTCTTCTTTTGGAGTGCTTAAC
Found at i:92234 original size:24 final size:24
Alignment explanation
Indices: 92193--92247 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
92183 CTTTTCTTTT
*
92193 CTTTT-TTCTTTTTAAGTGCTTAA
1 CTTTTCTTCTTTTGAAGTGCTTAA
* *
92216 CTTTTCTTCTTTTGGAGTGCTTGA
1 CTTTTCTTCTTTTGAAGTGCTTAA
92240 CTTTTCTT
1 CTTTTCTT
92248 TGCTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (24 bp):
CTTTTCTTCTTTTGAAGTGCTTAA
Found at i:99582 original size:15 final size:15
Alignment explanation
Indices: 99564--99597 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99554 TTTAAGTATA
*
99564 ACATTCTTAAACATT
1 ACATTCTCAAACATT
*
99579 ACATTCTCATACATT
1 ACATTCTCAAACATT
99594 ACAT
1 ACAT
99598 CACATATGAA
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:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (15 bp):
ACATTCTCAAACATT
Found at i:100212 original size:15 final size:15
Alignment explanation
Indices: 100192--100224 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100182 TGAGACATTA
*
100192 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
100207 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
100222 CCC
1 CCC
100225 ACCCAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.70, G:0.15, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:108020 original size:19 final size:19
Alignment explanation
Indices: 107984--108020 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
107974 TGAAAATGAT
*
107984 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
108003 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
108021 ATGAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:115979 original size:2 final size:2
Alignment explanation
Indices: 115972--115999 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
115962 ATGATACAAT
115972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116000 AACCCATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116319 original size:18 final size:18
Alignment explanation
Indices: 116296--116330 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
116286 TGTTTATGAG
116296 GGAATTGGAATCCGTAAA
1 GGAATTGGAATCCGTAAA
*
116314 GGAATTGGAATCTGTAA
1 GGAATTGGAATCCGTAA
116331 GAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.26
Consensus pattern (18 bp):
GGAATTGGAATCCGTAAA
Found at i:117201 original size:37 final size:38
Alignment explanation
Indices: 117117--117208 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 38
117107 CCTAAACCCG
117117 AACCCGACCCAATCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCAATCCGACCCGAATATCACACTTAAAAA
* *
117155 AACCTGACCCGA-CTCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCAATC-CGACCCGAATATCACACTTAAAAA
*
117192 AACCCGACCCAACCCGA
1 AACCCGACCCAATCCGA
117209 ACAAAATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 18 0.38
38 30 0.62
ACGTcount: A:0.39, C:0.39, G:0.10, T:0.12
Consensus pattern (38 bp):
AACCCGACCCAATCCGACCCGAATATCACACTTAAAAA
Found at i:117442 original size:256 final size:251
Alignment explanation
Indices: 116992--117645 Score: 983
Period size: 256 Copynumber: 2.6 Consensus size: 251
116982 GTAAAGTTTC
* * *
116992 ATCCGACCCGACCAGACCCGAAATAATAAAAAATTATTTTTATTTAAT-AAAACAGTGATTTAAT
1 ATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAAT
* *
117056 CAGACCCGACCTGAATTATATATATTTTCAGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACC
66 CCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACC
*
117121 CGACCCAATCCGACCCGAATATCACACTTAAAAAAACCTGACCCGACTCGACCCGAATATCACAC
131 CGA--C---CCGACCCGAATATCACACTTAAAAAAACCTGACCCGACTCAACCCGAATATCACAC
117186 TTAAAAAACCCGACCCAACCCGAACAAAATAAAGTTTCATCC-A-ACCCGAATATATGAATTAGA
191 TTAAAAAACCCG-----ACCCGAACAAAATAAAGTTTCATCCGACACCCGAATATATGAATTAGA
117249 A
251 A
*
117250 ATCTGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAAT
1 ATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAAT
* *
117315 CCGACCCGACCTGAATTATATATATATGTTCGGGTTGGTCCAGTTTTTTTTCA-CCTAAACCCGA
66 CCGACCCGACCTGAATTATATATAT-T-TTCGGGTCGGTCC-GATTTTTTTCACCCTAAACCCGA
*
117379 ACCCGACCCGACCCGAATATCACACTTAAAAAATCCTGACCCGACTCAACCCGAATATCACACTT
128 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCTGACCCGACTCAACCCGAATATCACACTT
117444 AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAA
193 AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGA--C-ACCCGAATATATGAATTAGAA
* * *
117506 ATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTATTATTTAATAAAAACTGTGACTTAAT
1 ATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAAT
* * * *
117571 CCGACCTGACCTGAATTATATATATTTTCGGGTCAGTCTGGTTTTTTTCACCCTAAACCCGAACC
66 CCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACC
117636 CGACCCGACC
131 CGACCCGACC
117646 TGACCCGACC
Statistics
Matches: 367, Mismatches: 19, Indels: 24
0.90 0.05 0.06
Matches are distributed among these distances:
251 25 0.07
252 1 0.00
253 10 0.03
254 34 0.09
255 1 0.00
256 172 0.47
258 45 0.12
259 40 0.11
260 1 0.00
261 28 0.08
262 10 0.03
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (251 bp):
ATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAAT
CCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACC
CGACCCGACCCGAATATCACACTTAAAAAAACCTGACCCGACTCAACCCGAATATCACACTTAAA
AAACCCGACCCGAACAAAATAAAGTTTCATCCGACACCCGAATATATGAATTAGAA
Found at i:117457 original size:37 final size:37
Alignment explanation
Indices: 117371--117459 Score: 133
Period size: 38 Copynumber: 2.4 Consensus size: 37
117361 TTTTTCACCT
*
117371 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAA
1 AAACCCG-ACCCGACCCAACCCGAATATCACACTTAAA
* *
117409 AAATCCTGACCCGACTCAACCCGAATATCACACTTAAA
1 AAA-CCCGACCCGACCCAACCCGAATATCACACTTAAA
117447 AAACCCGACCCGA
1 AAACCCGACCCGA
117460 ACAAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 9 0.20
38 34 0.74
39 3 0.07
ACGTcount: A:0.39, C:0.38, G:0.10, T:0.12
Consensus pattern (37 bp):
AAACCCGACCCGACCCAACCCGAATATCACACTTAAA
Found at i:118596 original size:21 final size:20
Alignment explanation
Indices: 118510--118666 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
118500 AAATGACCAA
**
118510 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
118529 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
118549 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
118569 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
118590 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
118610 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
118630 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
118651 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
118667 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:118619 original size:41 final size:41
Alignment explanation
Indices: 118510--118666 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
118500 AAATGACCAA
* **
118510 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
118549 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
118590 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
118631 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
118667 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:118676 original size:20 final size:20
Alignment explanation
Indices: 118653--118826 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
118643 GCGAATATGA
118653 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
118673 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
118693 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
118713 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
118733 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
118753 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
118773 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
118793 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
118814 AAATCGCAACGCG
1 AAATCGCAACGCG
118827 ATATTTAAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:118697 original size:40 final size:39
Alignment explanation
Indices: 118633--118827 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
118623 CGATTTTCCA
* ** *
118633 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
118673 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
118713 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
118753 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
118793 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
118828 TATTTAAAAC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:118718 original size:60 final size:60
Alignment explanation
Indices: 118633--118826 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
118623 CGATTTTCCA
* ** * *
118633 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
118693 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
118753 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
118814 AAATCGCAACGCG
1 AAATCGCAACGCG
118827 ATATTTAAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:119248 original size:33 final size:33
Alignment explanation
Indices: 119209--119279 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
119199 TTCACTTAGA
119209 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
119242 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
119275 TTTCA
1 TTTCA
119280 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:119416 original size:19 final size:20
Alignment explanation
Indices: 119359--119433 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
119349 TGCAGAAGAG
* *
119359 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
119380 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
119400 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
119419 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
119434 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:119421 original size:39 final size:35
Alignment explanation
Indices: 119371--119490 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 35
119361 GCAACGAGAT
119371 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAAT-A---TCGCAACGCG
*
119410 AAATGACAATCGCAACGAGAG-A-ATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATATCGCAACGCG
119443 AAATGAAAATCGCAAACGAGAG-A-ATCGCAACGCG
1 AAATGAAAATCGC-AACGAGAGAATATCGCAACGCG
**
119477 AAACCAAAATCGCA
1 AAATGAAAATCGCA
119491 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
33 23 0.30
34 31 0.41
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (35 bp):
AAATGAAAATCGCAACGAGAGAATATCGCAACGCG
Found at i:119436 original size:14 final size:14
Alignment explanation
Indices: 119417--119474 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 14
119407 GCGAAATGAC
119417 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
119431 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
119450 AATCGCAAACGAGAG
1 AATCGC-AACGAGAG
119465 AATCGCAACG
1 AATCGCAACG
119475 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 12 0.33
15 8 0.22
16 3 0.08
18 3 0.08
19 8 0.22
20 2 0.06
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:119466 original size:34 final size:34
Alignment explanation
Indices: 119400--119490 Score: 148
Period size: 34 Copynumber: 2.7 Consensus size: 34
119390 AGAATGACTG
*
119400 TCGCAACGCGAAATGACAATCGC-AACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAAACGAGAGAA
119433 TCGCAACGCGAAATGAAAATCGCAAACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAAACGAGAGAA
**
119467 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAATGAAAATCGCA
119491 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.41
34 32 0.59
ACGTcount: A:0.44, C:0.25, G:0.22, T:0.09
Consensus pattern (34 bp):
TCGCAACGCGAAATGAAAATCGCAAACGAGAGAA
Found at i:119512 original size:18 final size:19
Alignment explanation
Indices: 119486--119535 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 19
119476 GAAACCAAAA
* *
119486 TCGCATTGCGATTTTTA-T
1 TCGCGTTGCGATTTTCATT
119504 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
119523 TCGCGTTGCGATT
1 TCGCGTTGCGATT
119536 CTCTCGTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:119675 original size:19 final size:19
Alignment explanation
Indices: 119648--119749 Score: 88
Period size: 19 Copynumber: 5.5 Consensus size: 19
119638 ATGTTTATTG
*
119648 TTTTTATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
119667 TTTTCATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
*
119686 --TTC---TCTCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
*
119700 TTGTCATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
*** *
119719 CAGTCATTCTCTTCGTTGCGA
1 TTTTCATT-TC-GCGTTGCGA
119740 TTTTCATTTC
1 TTTTCATTTC
119750 ACCAAAAGAC
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 3 0.05
19 34 0.52
20 4 0.06
21 13 0.20
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (19 bp):
TTTTCATTTCGCGTTGCGA
Found at i:121724 original size:92 final size:93
Alignment explanation
Indices: 121377--121751 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
121367 TAGATTGCTT
*
121377 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
121442 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
121470 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
121535 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
121563 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
121628 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
121656 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
121720 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
121747 AGTAA
1 AGTAA
121752 TGCAATCCAT
Statistics
Matches: 279, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 4 0.01
92 87 0.31
93 188 0.67
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:121839 original size:19 final size:19
Alignment explanation
Indices: 121799--121927 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
121789 TAGTTTACTT
* *
121799 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
121819 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
121838 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
121857 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
* **
121871 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
121890 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
121904 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
121923 TCGCA
1 TCGCA
121928 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 18 0.20
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 44 0.49
20 13 0.15
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:121874 original size:14 final size:14
Alignment explanation
Indices: 121855--121911 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
121845 GCGAAATGAA
*
121855 AATCGCAACGACAG
1 AATCGCAACGAAAG
121869 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
121886 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
121902 AATCGCAACG
1 AATCGCAACG
121912 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:121882 original size:33 final size:33
Alignment explanation
Indices: 121836--121927 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
121826 GCGAAACCAA
*
121836 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
121869 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
121902 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
121928 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:121945 original size:19 final size:19
Alignment explanation
Indices: 121923--122057 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
121913 GAAACCAAAA
*
121923 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
121942 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
121958 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
121975 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
121991 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
122008 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
122027 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
122047 TCGTGTTGCGA
1 TCGCGTTGCGA
122058 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:121964 original size:14 final size:14
Alignment explanation
Indices: 121945--122001 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
121935 TTTCATTTCG
121945 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
121959 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
121976 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
121992 CGTTGCGATT
1 CGTTGCGATT
122002 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:121970 original size:33 final size:33
Alignment explanation
Indices: 121928--122020 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
121918 CAAAATCGCA
*
121928 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
121961 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
121994 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
122021 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:126451 original size:16 final size:17
Alignment explanation
Indices: 126413--126459 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
126403 TGTTTATGAG
126413 GGAATTGGAATCCGTAAA
1 GGAATTGGAATCCGT-AA
*
126431 GGAATTGGAATCTGT-A
1 GGAATTGGAATCCGTAA
*
126447 GGAATTAGAATCC
1 GGAATTGGAATCC
126460 AATTCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (17 bp):
GGAATTGGAATCCGTAA
Found at i:127092 original size:37 final size:38
Alignment explanation
Indices: 127009--127094 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
126999 CCCGAACCCG
*
127009 ACCCGACCTGACCTGACCCGAAGATCACACTTAAAAAA
1 ACCCGACCCGACCTGACCCGAAGATCACACTTAAAAAA
* *
127047 ACCCGACCCGA-CTCGACTCGAATATCACACTT-AAAAA
1 ACCCGACCCGACCT-GACCCGAAGATCACACTTAAAAAA
127084 ACCCGACCCGA
1 ACCCGACCCGA
127095 ACAAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 18 0.41
38 26 0.59
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.13
Consensus pattern (38 bp):
ACCCGACCCGACCTGACCCGAAGATCACACTTAAAAAA
Found at i:127313 original size:37 final size:38
Alignment explanation
Indices: 127228--127320 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 38
127218 TTTTCACCCT
127228 AAACCCGACCCAATCCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCAATCCGACCCGAATATCACACTTAAAA
* *
127266 AAACCTGACCCGA-CTCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCAATC-CGACCCGAATATCACACTTAAAA
*
127303 AAACCCGACCCAACCCGA
1 AAACCCGACCCAATCCGA
127321 ACAAAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 18 0.37
38 31 0.63
ACGTcount: A:0.40, C:0.39, G:0.10, T:0.12
Consensus pattern (38 bp):
AAACCCGACCCAATCCGACCCGAATATCACACTTAAAA
Found at i:127460 original size:248 final size:248
Alignment explanation
Indices: 127110--127748 Score: 920
Period size: 248 Copynumber: 2.6 Consensus size: 248
127100 ATAAAGTTTC
* *
127110 ATCCGACCCGACCAGACCCGAAATAATAAAAAATTATTTTTATTTAAT-AAAATAGTGATTTAAT
1 ATCCGACCCGACC-GACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAAT
** *
127174 CAAACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGACCC
65 CCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGACCC
* *
127239 AATCCGACCCGAATATCACACTTAAAAAAACCTGACCCGACTCGACCCGAATATCACACTTAAAA
130 AACCCGACCCGAATATCACACTTAAAAAAACCTGA-CCGACTCAACCCGAATATCACACTTAAAA
*
127304 AACCCGACCCAACCCGAACAAAATTAAGTTTCATCC-A-ACCCGAATATATG-ATT-GAA
194 AACCCG-----ACCCGAACAAAATAAAGTTTCATCCGACACCCGAATATATGAATTAGAA
127360 ATCCGACCCGACCGACCCG-AA-AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATC
1 ATCCGACCCGACCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATC
127423 CGACCCGACCTGAATTATATATATTTTCGGGTCGGTCC-AGTTTTTTTCA-CCTAAACCCGAACC
66 CGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGA-TTTTTTTCACCCTAAACCCG-ACC
* *
127486 CGACCCGACCCGAATATCACACTTAAAAAATCCTGACCGACTCAACCCGAATATCACACTTAAAA
129 CAACCCGACCCGAATATCACACTTAAAAAAACCTGACCGACTCAACCCGAATATCACACTTAAAA
127551 AACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAA
194 AACCCGACCCGAACAAAATAAAGTTTCATCCGA--C-ACCCGAATATATGAATTAGAA
* * *
127609 ATCCAACCCGACCCGACCCGAAATAATAAACAAA-TATTATTATTTAATAAAAACTGTGACTTAA
1 ATCCGACCCGA-CCGACCCGAAATAATAAA-AAATTATTTTTATTTAATAAAAACAGTGACTTAA
* * *
127673 TCCGACCTGACCTGAATTATATATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAAC
64 TCCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCG-AC
*
127738 CCGACCCGACC
128 CCAACCCGACC
127749 TGACCCGACC
Statistics
Matches: 357, Mismatches: 16, Indels: 29
0.89 0.04 0.07
Matches are distributed among these distances:
242 24 0.07
243 1 0.00
247 82 0.23
248 100 0.28
249 19 0.05
250 21 0.06
251 2 0.01
252 81 0.23
253 27 0.08
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (248 bp):
ATCCGACCCGACCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATC
CGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGACCCA
ACCCGACCCGAATATCACACTTAAAAAAACCTGACCGACTCAACCCGAATATCACACTTAAAAAA
CCCGACCCGAACAAAATAAAGTTTCATCCGACACCCGAATATATGAATTAGAA
Found at i:129326 original size:59 final size:60
Alignment explanation
Indices: 129248--129360 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 60
129238 ATAGTCCCTT
* * * *
129248 ACTATATGATGTTGTTTTGTTGAGTCT-TCAACTATCCAAAGTTACAAAATGGTTATTTG
1 ACTATATGATGGTGCTTTGTTGAGTCTCCCAACTATCAAAAGTTACAAAATGGTTATTTG
* * *
129307 ACTATATGATGGTGCTTTGTTGAGTCTCCCGACTATTAAAAGTTATAAAATGGT
1 ACTATATGATGGTGCTTTGTTGAGTCTCCCAACTATCAAAAGTTACAAAATGGT
129361 CACCCTGCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 25 0.54
60 21 0.46
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (60 bp):
ACTATATGATGGTGCTTTGTTGAGTCTCCCAACTATCAAAAGTTACAAAATGGTTATTTG
Found at i:134004 original size:10 final size:9
Alignment explanation
Indices: 133983--134098 Score: 53
Period size: 9 Copynumber: 12.6 Consensus size: 9
133973 CAAATGGAAC
133983 GAAAATAAA
1 GAAAATAAA
133992 GAAAATGAAA
1 GAAAAT-AAA
134002 G-AAATAAA
1 GAAAATAAA
* *
134010 AAAAATTAA
1 GAAAATAAA
134019 -AAAATAAA
1 GAAAATAAA
*
134027 GGCAAATATAA
1 -GAAAATA-AA
*
134038 -TAAATAAA
1 GAAAATAAA
*
134046 -TAAATAAA
1 GAAAATAAA
*
134054 -ATAACTAAA
1 GA-AAATAAA
*
134063 TAAAGATAAA
1 GAAA-ATAAA
134073 GAAAAATAAA
1 G-AAAATAAA
*
134083 AATAAGATAAA
1 GA-AA-ATAAA
134094 GAAAA
1 GAAAA
134099 GAGAATACAT
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
8 20 0.24
9 31 0.36
10 23 0.27
11 11 0.13
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (9 bp):
GAAAATAAA
Found at i:134008 original size:18 final size:17
Alignment explanation
Indices: 133984--134027 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
133974 AAATGGAACG
133984 AAAATAAAGAAAATGAA
1 AAAATAAAGAAAATGAA
* *
134001 AGAAATAAAAAAAATTAA
1 A-AAATAAAGAAAATGAA
134019 AAAATAAAG
1 AAAATAAAG
134028 GCAAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAATAAAGAAAATGAA
Found at i:134056 original size:17 final size:17
Alignment explanation
Indices: 134030--134066 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
134020 AAATAAAGGC
*
134030 AAATATAATAAATAAAT
1 AAATAAAATAAATAAAT
*
134047 AAATAAAATAACTAAAT
1 AAATAAAATAAATAAAT
134064 AAA
1 AAA
134067 GATAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:134091 original size:21 final size:22
Alignment explanation
Indices: 134034--134098 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
134024 AAAGGCAAAT
*
134034 ATAATAAATAA-ATAAA-TAAA
1 ATAATAAATAAGATAAAGAAAA
134054 ATAACTAAATAAAGATAAAGAAAA
1 ATAA-TAAAT-AAGATAAAGAAAA
134078 ATAA-AAATAAGATAAAGAAAA
1 ATAATAAATAAGATAAAGAAAA
134099 GAGAATACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 4 0.10
21 18 0.45
22 6 0.15
23 5 0.12
24 7 0.17
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (22 bp):
ATAATAAATAAGATAAAGAAAA
Found at i:134111 original size:102 final size:110
Alignment explanation
Indices: 133984--134203 Score: 264
Period size: 102 Copynumber: 2.1 Consensus size: 110
133974 AAATGGAACG
** *
133984 AAAATAAAGAAAATGAAAGAAATAAAAAA-AATTAAAA-AATAA-AG-GCAAATATAATA-A-AT
1 AAAATAAAGAAAATGAAAGAAATAAAAAATAA-TAAAAGAATAATAGTAAAAATAAAATATACA-
*
134043 AAATAAAT-AAAATAACT-AAATAAAGATAAA-G-AAAAATAAAAAT
64 AAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATAAAAAT
* * * *
134086 AAGATAAAGAAAA-GAGAATACATAAAAAATAATAAAAGAGTAATAGTAAAAATAAAATATACAA
1 AAAATAAAGAAAATGA-AAGAAATAAAAAATAATAAAAGAATAATAGTAAAAATAAAATATACAA
134150 AATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATAAAAAT
65 AATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATAAAAAT
134196 AAAATAAA
1 AAAATAAA
134204 ACTAAATAGG
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
101 2 0.02
102 28 0.29
103 6 0.06
104 2 0.02
105 9 0.09
106 9 0.09
107 9 0.09
108 13 0.13
109 1 0.01
110 19 0.19
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (110 bp):
AAAATAAAGAAAATGAAAGAAATAAAAAATAATAAAAGAATAATAGTAAAAATAAAATATACAAA
ATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATAAAAAT
Found at i:134114 original size:30 final size:28
Alignment explanation
Indices: 134037--134203 Score: 88
Period size: 27 Copynumber: 6.0 Consensus size: 28
134027 GGCAAATATA
*
134037 ATAAATAAATAAATAAAATAACTAAATAAAG
1 ATAAAGAAAT-AATAAAA-AA-TAAATAAAG
134068 ATAAAGAAA-AAT-AAAAATAAGATAAAG
1 ATAAAGAAATAATAAAAAATAA-ATAAAG
134095 A-AAAGAGAATACATAAAAAAT-AATAAAAG
1 ATAAAGA-AATA-ATAAAAAATAAAT-AAAG
* *
134124 AGTAATAGTAAA-AAT--AAAATATACAAA-
1 A-TAA-AG-AAATAATAAAAAATAAATAAAG
* *
134151 ATAAATAAA-AAT-AAATA-AAATAAAG
1 ATAAAGAAATAATAAAAAATAAATAAAG
*
134176 ATAAAGGAAAAAAT-AAAAATAAAATAAA
1 ATAAA-GAAATAATAAAAAAT-AAATAAA
134204 ACTAAATAGG
Statistics
Matches: 110, Mismatches: 9, Indels: 36
0.71 0.06 0.23
Matches are distributed among these distances:
24 11 0.10
25 9 0.08
26 14 0.13
27 19 0.17
28 14 0.13
29 19 0.17
30 8 0.07
31 11 0.10
32 4 0.04
33 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (28 bp):
ATAAAGAAATAATAAAAAATAAATAAAG
Found at i:134141 original size:6 final size:6
Alignment explanation
Indices: 134132--134359 Score: 63
Period size: 6 Copynumber: 36.5 Consensus size: 6
134122 AGAGTAATAG
* * *
134132 TAAAAA TAAAATA TACAAAA TAAATAA AAATAAA T-AAAA TAAAGA TAAAGGA
1 TAAAAA TAAAA-A TA-AAAA TAAA-AA TAA-AAA TAAAAA TAAAAA TAAA-AA
* * * * * *
134184 -AAAAA TAAAAA T-AAAA TAAAAC TAAATAG GATAAA -AACAA TAAAGA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA-AA TAAAAA TAAAAA TAAAAA
* * * * * * *
134230 TAAAAAA TAAAAA TAAAAG GAAACA TGAAACA -AAAAA TATATA TAATAA
1 T-AAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA TAAAAA
* * ** * * * *
134279 TAATAAA GACAAAA GAATGA TGAAAAA CAATATAG TAAAAA -AAATA TAAAAG
1 TAA-AAA TA-AAAA TAAAAA T-AAAAA TAA-A-AA TAAAAA TAAAAA TAAAAA
134331 TAACAAA TAAAAA TAAAAA TAGAAAA TAA
1 TAA-AAA TAAAAA TAAAAA TA-AAAA TAA
134360 TAAAAAATAA
Statistics
Matches: 161, Mismatches: 40, Indels: 42
0.66 0.16 0.17
Matches are distributed among these distances:
5 21 0.13
6 81 0.50
7 51 0.32
8 8 0.05
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:134144 original size:25 final size:24
Alignment explanation
Indices: 134095--134170 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
134085 TAAGATAAAG
*
134095 AAAAGAGAATACATAAAAAATAAT
1 AAAAGAGAATACATAAAAAAAAAT
*
134119 AAAAGAGTAATA-GTAAAAATAAAAT
1 AAAAGAG-AATACATAAAAA-AAAAT
* * *
134144 ATACA-A-AATAAATAAAAATAAAT
1 A-AAAGAGAATACATAAAAAAAAAT
134167 AAAA
1 AAAA
134171 TAAAGATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
22 2 0.05
23 9 0.21
24 19 0.45
25 10 0.24
26 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (24 bp):
AAAAGAGAATACATAAAAAAAAAT
Found at i:134163 original size:19 final size:18
Alignment explanation
Indices: 134135--134174 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
134125 GTAATAGTAA
*
134135 AAATAAAATATACAAAAT
1 AAATAAAATAAACAAAAT
*
134153 AAATAAAAATAAATAAAAT
1 AAAT-AAAATAAACAAAAT
134172 AAA
1 AAA
134175 GATAAAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAACAAAAT
Found at i:134200 original size:48 final size:48
Alignment explanation
Indices: 133993--134247 Score: 127
Period size: 48 Copynumber: 5.2 Consensus size: 48
133983 GAAAATAAAG
* * * * *
133993 AAAATGAAAGAAATAAAAA-AAAT-TAA-AAA-ATAAAGGCAAATATA
1 AAAATAAAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATA
* * *
134037 ATAAAT-AAATAAAT-AAAATAACT-AAATAAAGATAAAGAAAAATAAAA
1 A-AAATAAAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAA-AATA
* * ** *
134084 ATAAGATAAAGA-AAAGAGAATACATAAAAAATAATAAAAGAGTAATAGTAAAAATA
1 A-AA-ATAAA-ATAAATA-AA-A-ATAAATAA-AAT-AAAGA-TAAAGGAAAAAATA
134140 AAATATACAAAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATA
1 AAA-AT--AAAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATA
* * * *
134191 AAAATAAAATAAA-ACTAAATAGGATAAAA-ACA-ATAAAGATAAAAAATA
1 AAAATAAAATAAATA-AAAATA-AATAAAATAAAGATAAAG-GAAAAAATA
134239 AAAATAAAA
1 AAAATAAAA
134248 GGAAACATGA
Statistics
Matches: 164, Mismatches: 25, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
43 4 0.02
44 13 0.08
45 7 0.04
46 9 0.05
47 13 0.08
48 34 0.21
49 11 0.07
50 3 0.02
51 16 0.10
52 6 0.04
53 7 0.04
54 8 0.05
55 8 0.05
56 12 0.07
57 13 0.08
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (48 bp):
AAAATAAAATAAATAAAAATAAATAAAATAAAGATAAAGGAAAAAATA
Found at i:134379 original size:2 final size:2
Alignment explanation
Indices: 134374--134444 Score: 67
Period size: 2 Copynumber: 36.5 Consensus size: 2
134364 AAATAATTAA
* * * * *
134374 AT AT AT AC AT AT AT A- AA AT AT AT A- AA AT AT A- AT GAC AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
134414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134445 AGTAATTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
1 3 0.05
2 54 0.93
3 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (2 bp):
AT
Found at i:136568 original size:84 final size:84
Alignment explanation
Indices: 136275--137234 Score: 1072
Period size: 84 Copynumber: 11.5 Consensus size: 84
136265 ACTCGATAAT
* * * * * * * *
136275 TTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGATG-TACTGGATATGCCTTTGAGCTGA-
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT-GATGTGCCTTGGAGCTGAG
* *
136338 -ATA-TCGAACTTGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * * * * *
136356 TTTTGTTGTCAGATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
136421 GTAATCGAACTCAAAGGTC
66 GTAGTCGAACTCGAAGGTC
* ** * *
136440 -TTTGTTGACAGATAACCCTTCTAGAATTGAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
136504 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
136523 TTTTGTTGGCAGATAATCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTT-GAGCTGAA
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG-TGCCTTGGAGCTGAG
* *
136587 TGTAATCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * * * * * * * *
136607 TTTGGTTGGCAGATAAACCTTCTCGACTTAAGCTATACCGCAAATGATATGCCTTTGATCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
136672 GTAATCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * ** * *
136691 -TTTGTTGACAGATAAACCTTCTCA-CCTTGAGCTATATTGCAAATGTTGTGCCTTTGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCT-AGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
** *
136754 TATAATCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* *
136774 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATATGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
136839 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* ** * * *
136858 TTTTGTTGGCAAATAACCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
136923 GTAGTTGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
136942 TTTTGTTGGCATATAACCCTTTTAGCCTTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAAC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
137007 GTAGTCGAACTCAAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
137026 TTTTGTTGGCAGATAACCCTTCTATCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGTTGAAC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
137091 GTAGTCAAACTCGATGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * *
137110 TTTTGTTGGAAAATAACCCTTCTTGCCTTCAGCTATGTTGCAAATGATGTGCCTTGGAGCTGATC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
137175 GTAGTCGAACTCGAAGGTG
66 GTAGTCGAACTCGAAGGTC
* *
137194 TTTTATTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
137235 CAATAGTTTC
Statistics
Matches: 752, Mismatches: 117, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
81 50 0.07
82 2 0.00
83 149 0.20
84 547 0.73
85 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:136674 original size:251 final size:252
Alignment explanation
Indices: 136275--137234 Score: 1130
Period size: 251 Copynumber: 3.8 Consensus size: 252
136265 ACTCGATAAT
* * * * * * * * *
136275 TTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGATG-TACTGGAT-ATGCCTTTGAGCTGA
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAAT-GATGTTCCCTTGGAGCTGA
* * * * *
136338 A--T-ATCGAACTTGAAGGTCTTTTGTTGTCAGATAGCCCTTCTCGCCTTGAGCTATACTGTAAA
65 ACGTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGCCTTGAGCTATACTGCAAA
* * * *
136400 TTATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGA
130 TGATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGC
* * * *
136465 ATTGAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
195 CTTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
*
136523 TTTTGTTGGCAGATAATCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTT-GAGCTGAA
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTTGGAGCTGAA
* * * * * * *
136587 TGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAAACCTTCTCGACTTAAGCTATACCGCAAAT
66 CGTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGCCTTGAGCTATACTGCAAAT
* * * *
136652 GATATGCCTTTGATCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAAACCTTCTCA-C
131 GATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCT-AGC
* * * * ** *
136716 CTTGAGCTATATTGCAAATGTTGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC
195 CTTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * *
136774 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGAT-ATGCCTTGGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTTGGAGCTGAA
* ** **
136838 CGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTTCCTTGAGCTATGTTGCAAAT
66 CGTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGCCTTGAGCTATACTGCAAAT
* * * * *
136903 GATGTGCCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGTTGGCATATAACCCTTTTAGC
131 GATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGC
* *
136968 CTTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTC
195 CTTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * *
137026 TTTTGTTGGCAGATAACCCTTCTATCCTTGAGTTATGCTACAAATGATG-TGCCTTGGAGTTGAA
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTTGGAGCTGAA
* * * * * * **
137090 CGTAGTCAAACTCGATGGTCTTTTGTTGGAAAATAACCCTTCTTGCCTTCAGCTATGTTGCAAAT
66 CGTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGCCTTGAGCTATACTGCAAAT
* * * * *
137155 GATGTGCCTTGGAGCTGA-TCGTAGTCGAACTCGAAGGTGTTTTATTGGCAAATAACCCTTCTAG
131 GATGTGCCTTGGAGCTGAGT-GTAATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTCTAG
*
137219 CCTTGAGTTATGCTGC
194 CCTTGAGTTATACTGC
137235 CAATAGTTTC
Statistics
Matches: 615, Mismatches: 85, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
248 46 0.07
249 7 0.01
250 6 0.01
251 298 0.48
252 258 0.42
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (252 bp):
TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTTCCCTTGGAGCTGAA
CGTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTCGCCTTGAGCTATACTGCAAAT
GATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCC
TTGAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
Found at i:138616 original size:100 final size:98
Alignment explanation
Indices: 138367--138617 Score: 324
Period size: 98 Copynumber: 2.5 Consensus size: 98
138357 TAGCTGGATC
* * * * * *
138367 CATAAAGCCGGGACATTTAACCAATTTCTCTAGAGGGACAGCTCAA-TATCATTGTATAAATATT
1 CATAAAGCCGGG-CGTTTAACCAATTACTCTAGAGGGACAACTCAAGTTTTATTATATAAATATT
* * * *
138431 ATAATCACCTTTATCGGGCTAGCTTAATGTTATT
65 ATAATCACCTTTATCAGACTAGCTGAATCTTATT
* * * *
138465 CATAAAGTCGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATAGATATTA
1 CATAAAGCCGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGTTTTATTATATAAATATTA
*
138530 TAATCACCTTTATTAGACTTAGCTGAATCTTATT
66 TAATCACCTTTATCAGAC-TAGCTGAATCTTATT
*
138564 CATAAAGCCGGAGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGTTTTATT
1 CATAAAGCCGG-GCGTTTAACCAATTACTCTAGAGGGACAACTCAAGTTTTATT
138618 GTTTATATAT
Statistics
Matches: 132, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
97 30 0.23
98 40 0.30
99 23 0.17
100 39 0.30
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (98 bp):
CATAAAGCCGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGTTTTATTATATAAATATTA
TAATCACCTTTATCAGACTAGCTGAATCTTATT
Found at i:140034 original size:104 final size:104
Alignment explanation
Indices: 139854--140063 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
139844 ATTGTTTTGT
139854 CATCTTGTTCTTGTTGTTTTTGAAGGGACTCCCCAAGTCAGTAACCTTTTCTCGTCTTGCCCCTG
1 CATCTTGTTCTTGTTGTTTTTGAAGGGACTCCCCAAGTCAGTAACCTTTTCTCGTCTTGCCCCTG
139919 CAACCTTTACCAGCTCAAAAAGTCGAGTTTTAGTGTGCA
66 CAACCTTTACCAGCTCAAAAAGTCGAGTTTTAGTGTGCA
139958 CATCTTGTTCTTGTTGTTTTTGAAGGGACTCCCCAAGTCAGTAACCTTTTCTCGTCTTGCCCCTG
1 CATCTTGTTCTTGTTGTTTTTGAAGGGACTCCCCAAGTCAGTAACCTTTTCTCGTCTTGCCCCTG
140023 CAACCTTTACCAGCTCAAAAAGTCGAGTTTTAGTGTGCA
66 CAACCTTTACCAGCTCAAAAAGTCGAGTTTTAGTGTGCA
140062 CA
1 CA
140064 GTGTAAATCC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (104 bp):
CATCTTGTTCTTGTTGTTTTTGAAGGGACTCCCCAAGTCAGTAACCTTTTCTCGTCTTGCCCCTG
CAACCTTTACCAGCTCAAAAAGTCGAGTTTTAGTGTGCA
Found at i:141279 original size:60 final size:60
Alignment explanation
Indices: 141206--141331 Score: 252
Period size: 60 Copynumber: 2.1 Consensus size: 60
141196 TCCAGTTGTG
141206 TTTAATTAGGAAAATTGTAAGTTTAATTAAAAAGGTAAAAATTGATCCGAATTACTTACC
1 TTTAATTAGGAAAATTGTAAGTTTAATTAAAAAGGTAAAAATTGATCCGAATTACTTACC
141266 TTTAATTAGGAAAATTGTAAGTTTAATTAAAAAGGTAAAAATTGATCCGAATTACTTACC
1 TTTAATTAGGAAAATTGTAAGTTTAATTAAAAAGGTAAAAATTGATCCGAATTACTTACC
141326 TTTAAT
1 TTTAAT
141332 GGTTTAAAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.37
Consensus pattern (60 bp):
TTTAATTAGGAAAATTGTAAGTTTAATTAAAAAGGTAAAAATTGATCCGAATTACTTACC
Found at i:141466 original size:18 final size:17
Alignment explanation
Indices: 141439--141474 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
141429 AACAAATGGA
*
141439 ACAAAAATAAAGAAAAT
1 ACAAAAATAAAAAAAAT
141456 ACAAGAAATAAAAAAAAT
1 ACAA-AAATAAAAAAAAT
141474 A
1 A
141475 AAGGCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (17 bp):
ACAAAAATAAAAAAAAT
Found at i:141543 original size:28 final size:28
Alignment explanation
Indices: 141512--141593 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
141502 AAATAACTAA
141512 ATAAAGATAAAGAAAAATAAAAAAAAAG
1 ATAAAGATAAAGAAAAATAAAAAAAAAG
* *
141540 ATAAAGA-AAAGAGAATACATAAAAAATAAT
1 ATAAAGATAAAGA-AA-A-ATAAAAAAAAAG
141570 A-AAAGAGTAATAGTAAAAATAAAA
1 ATAAAGA-TAA-AG-AAAAATAAAA
141594 TATACAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
27 5 0.11
28 9 0.20
29 6 0.13
30 17 0.38
31 3 0.07
32 4 0.09
33 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.11, T:0.15
Consensus pattern (28 bp):
ATAAAGATAAAGAAAAATAAAAAAAAAG
Found at i:141549 original size:11 final size:11
Alignment explanation
Indices: 141514--141551 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
141504 ATAACTAAAT
141514 AAAGATAAAGA
1 AAAGATAAAGA
*
141525 AAA-ATAAAAAA
1 AAAGAT-AAAGA
141536 AAAGATAAAGA
1 AAAGATAAAGA
141547 AAAGA
1 AAAGA
141552 GAATACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 19 0.83
12 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (11 bp):
AAAGATAAAGA
Found at i:141557 original size:100 final size:100
Alignment explanation
Indices: 141447--141634 Score: 219
Period size: 98 Copynumber: 1.9 Consensus size: 100
141437 GAACAAAAAT
141447 AAAGAAAATACAAGAAATAAAAAAAATAAAG-GCAAATA-TAAAAA-ATAAATA-ACTAAAATA-
1 AAAGAAAATAC-AGAAA-AAAAAAAA-AAAGAG-AAATAGTAAAAATA-AAATATAC-AAAATAC
141507 ACT-AAATAAAGATAAA-GAAAAATAAAAAAAAAGATAAAGA
60 A-TAAAATAAAGATAAAGGAAAAATAAAAAAAAAGATAAAGA
* * * * *
141547 AAAGAGAATACATAAAAAATAATAAAAGAGTAATAGTAAAAATAAAATATACAAAATACATAAAA
1 AAAGAAAATACAGAAAAAAAAAAAAAAGAGAAATAGTAAAAATAAAATATACAAAATACATAAAA
141612 TAAAGATAAAGGAAAAATAAAAA
66 TAAAGATAAAGGAAAAATAAAAA
141635 TTAAATAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
97 8 0.11
98 25 0.33
99 21 0.28
100 22 0.29
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (100 bp):
AAAGAAAATACAGAAAAAAAAAAAAAAGAGAAATAGTAAAAATAAAATATACAAAATACATAAAA
TAAAGATAAAGGAAAAATAAAAAAAAAGATAAAGA
Found at i:141595 original size:25 final size:24
Alignment explanation
Indices: 141546--141621 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 24
141536 AAAGATAAAG
*
141546 AAAAGAGAATACATAAAAAATAAT
1 AAAAGAGAATACATAAAAAAAAAT
*
141570 AAAAGAGTAATA-GTAAAAATAAAAT
1 AAAAGAG-AATACATAAAAA-AAAAT
* *
141595 ATACA-A-AATACATAAAATAAAGAT
1 A-AAAGAGAATACATAAAA-AAAAAT
141619 AAA
1 AAA
141622 GGAAAAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
23 5 0.12
24 23 0.56
25 11 0.27
26 2 0.05
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (24 bp):
AAAAGAGAATACATAAAAAAAAAT
Found at i:141771 original size:14 final size:14
Alignment explanation
Indices: 141754--141841 Score: 74
Period size: 14 Copynumber: 6.1 Consensus size: 14
141744 AACAATATAG
*
141754 TAAAAAAATAAAAA
1 TAAAAAATTAAAAA
141768 T-AAAAATTATATAATA
1 TAAAAAATTA-A-AA-A
*
141784 GTAATAAA-TAAAAA
1 -TAAAAAATTAAAAA
*
141798 -GAAAAATTAAAAA
1 TAAAAAATTAAAAA
141811 TTAAAAAATTAAAAA
1 -TAAAAAATTAAAAA
*
141826 TTAAAAATTAAAAA
1 TAAAAAATTAAAAA
141840 TA
1 TA
141842 TACATATATA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
12 4 0.07
13 13 0.22
14 17 0.29
15 16 0.27
16 2 0.03
17 3 0.05
18 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAAAAATTAAAAA
Found at i:141772 original size:5 final size:6
Alignment explanation
Indices: 141757--141841 Score: 55
Period size: 7 Copynumber: 13.2 Consensus size: 6
141747 AATATAGTAA
* * * * *
141757 AAAAAT AAAAAT AAAAAT -TATAT AATAGT AATAAAT AAAAAG AAAAATT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAA-T
141806 AAAAATT AAAAAATT AAAAATT AAAAATT AAAAAT A
1 AAAAA-T -AAAAA-T AAAAA-T AAAAA-T AAAAAT A
141842 TACATATATA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 3 0.05
6 25 0.38
7 30 0.46
8 7 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
AAAAAT
Found at i:141819 original size:15 final size:14
Alignment explanation
Indices: 141756--141840 Score: 77
Period size: 15 Copynumber: 5.9 Consensus size: 14
141746 CAATATAGTA
*
141756 AAAAAATAAAAA-T
1 AAAAATTAAAAATT
*
141769 AAAAATTATATAATAGT
1 AAAAATTA-A-AA-ATT
*
141786 AATAAA-TAAAAA-G
1 AA-AAATTAAAAATT
141799 AAAAATTAAAAATT
1 AAAAATTAAAAATT
141813 AAAAAATTAAAAATT
1 -AAAAATTAAAAATT
141828 AAAAATTAAAAAT
1 AAAAATTAAAAAT
141841 ATACATATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
12 3 0.05
13 15 0.25
14 15 0.25
15 18 0.30
16 2 0.03
17 5 0.08
18 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:141824 original size:66 final size:66
Alignment explanation
Indices: 141709--141840 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
141699 ACAAAATATA
** * *
141709 TATATAATAATAATAAATACAAAAGAATGATAAAAAACAATATAGTAAAAAAATAAAAA-TAAAA
1 TATATAATAATAATAAATACAAAAGAAAAATAAAAAACAAAAAAGT-AAAAAATAAAAATTAAAA
141773 AT
65 AT
* ** * *
141775 TATATAATAGTAATAAATA-AAAAGAAAAATTAAAAATTAAAAAATTAAAAATTAAAAATTAAAA
1 TATATAATAATAATAAATACAAAAGAAAAA-TAAAAAACAAAAAAGTAAAAAATAAAAATTAAAA
141839 AT
65 AT
141841 ATACATATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 19 0.35
66 36 0.65
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (66 bp):
TATATAATAATAATAAATACAAAAGAAAAATAAAAAACAAAAAAGTAAAAAATAAAAATTAAAAA
T
Found at i:141881 original size:2 final size:2
Alignment explanation
Indices: 141876--141914 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
141866 TAATAATGAC
141876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
141915 AGTAATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:141987 original size:31 final size:31
Alignment explanation
Indices: 141942--142018 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
141932 CAGAAAAAGA
* *
141942 AAAAAAATAAATAAATAATAAAAGA-TATAAT
1 AAAATAATAAATAAA-AATAAAAGACTAAAAT
* * *
141973 TAAATAATATATAAAAATAAGAGACTAAAAT
1 AAAATAATAAATAAAAATAAAAGACTAAAAT
142004 AAAATAA-AAACTAAA
1 AAAATAATAAA-TAAA
142019 TTGGGGGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 10 0.27
31 27 0.73
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (31 bp):
AAAATAATAAATAAAAATAAAAGACTAAAAT
Found at i:142667 original size:23 final size:23
Alignment explanation
Indices: 142632--142691 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
142622 TGCTCTGAGT
* * *
142632 TTTTGGATG-ATTTCTCTTTGTA
1 TTTTGTATGTATTTCTATATGTA
142654 TTTTGTATGTATTTCTATATGTA
1 TTTTGTATGTATTTCTATATGTA
142677 TTTTGTATGTATTTC
1 TTTTGTATGTATTTC
142692 CACCGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 8 0.24
23 26 0.76
ACGTcount: A:0.17, C:0.07, G:0.15, T:0.62
Consensus pattern (23 bp):
TTTTGTATGTATTTCTATATGTA
Found at i:142674 original size:12 final size:11
Alignment explanation
Indices: 142650--142690 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
142640 GATTTCTCTT
142650 TGTATTTTGTA
1 TGTATTTTGTA
*
142661 TGTATTTCTATA
1 TGTATTT-TGTA
142673 TGTATTTTGTA
1 TGTATTTTGTA
142684 TGTATTT
1 TGTATTT
142691 CCACCGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.20, C:0.02, G:0.15, T:0.63
Consensus pattern (11 bp):
TGTATTTTGTA
Found at i:142705 original size:23 final size:23
Alignment explanation
Indices: 142651--142702 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
142641 ATTTCTCTTT
* *
142651 GTATTTTGTATGTATTTCTATAT
1 GTATTTTGTATGTATTTCCATAC
*
142674 GTATTTTGTATGTATTTCCA-CC
1 GTATTTTGTATGTATTTCCATAC
142696 GTATTTT
1 GTATTTT
142703 TGTGTACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (23 bp):
GTATTTTGTATGTATTTCCATAC
Found at i:148164 original size:18 final size:18
Alignment explanation
Indices: 148141--148183 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
148131 CTTTAGATTA
*
148141 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
148159 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
148177 TTTATTT
1 TTTATTT
148184 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:148266 original size:20 final size:20
Alignment explanation
Indices: 148226--148282 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
148216 TTACTACTAC
148226 TATTTATTATT-TTTCTCTTT
1 TATTTATTATTATTT-TCTTT
*
148246 TATTTATTATTATTTTGTTT
1 TATTTATTATTATTTTCTTT
*
148266 TGTTTTATT-TTATTTTC
1 T-ATTTATTATTATTTTC
148283 CCACTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 23 0.72
21 9 0.28
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (20 bp):
TATTTATTATTATTTTCTTT
Found at i:149092 original size:18 final size:19
Alignment explanation
Indices: 149069--149116 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
149059 AAAAGAAGAA
*
149069 CATCGAATGCCTT-TAATG
1 CATCGAATGCATTCTAATG
149087 CATCG-ATGCATTGCTAATG
1 CATCGAATGCATT-CTAATG
149106 CATCG-ATGCAT
1 CATCGAATGCAT
149117 CCTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.22
18 5 0.19
19 16 0.59
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (19 bp):
CATCGAATGCATTCTAATG
Found at i:149124 original size:64 final size:64
Alignment explanation
Indices: 149040--149259 Score: 200
Period size: 64 Copynumber: 3.4 Consensus size: 64
149030 CATTCATAAG
* * *
149040 TGCATCGATGCATTCC-T-TTAAAAGAAGAACATCGAATGCCTTTAATGCATCGATGCATTGCTA
1 TGCATCGATGCATACCTTATTAAAAGAA-AACATCGAATGCATTTAATGCATCGATGCATAG-TA
149103 A
64 A
* * * **
149104 TGCATCGATGCAT-CCTT-TTAAAATAAAAACATCGAATGTAATTCGTGCATCGATGCATAAGTA
1 TGCATCGATGCATACCTTATTAAAA-GAAAACATCGAATGCATTTAATGCATCGATGCAT-AGTA
*
149167 G
64 A
* * * * *
149168 TGCATCGATGCATCCCGTTATT-AATG-AAACATCGAATGCATTTTATGCATCAATGCACAAGTA
1 TGCATCGATGCATACC-TTATTAAAAGAAAACATCGAATGCATTTAATGCATCGATGCA-TAGTA
*
149231 G
64 A
149232 TGCATCGATGCATACCTTCATTAAAAGA
1 TGCATCGATGCATACCTT-ATTAAAAGA
149260 GGAAATTGGC
Statistics
Matches: 128, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
63 4 0.03
64 110 0.86
65 8 0.06
66 4 0.03
67 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATACCTTATTAAAAGAAAACATCGAATGCATTTAATGCATCGATGCATAGTAA
Found at i:149953 original size:30 final size:30
Alignment explanation
Indices: 149917--149980 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
149907 AAGGAACATA
* *
149917 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
149947 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
149977 TGGA
1 TGGA
149981 CAGGTCATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:153216 original size:64 final size:64
Alignment explanation
Indices: 153130--153351 Score: 217
Period size: 64 Copynumber: 3.5 Consensus size: 64
153120 CACATTCATA
* *
153130 AGTGCATCGATGCATTCC-T-TTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATCGC
1 AGTGCATCGATGCATACCTTATTAAAAGAA-AACATCGAATGCATTTGATGCATCGATGCATCG-
153193 T
64 T
* * * * *
153194 AATGCATCGATGCAT-CCTT-TTAAAATAAAAACATCGAATGTAATTCG-TGCATCGATGCATAA
1 AGTGCATCGATGCATACCTTATTAAAA-GAAAACATCGAATG-CATTTGATGCATCGATGCAT-C
153256 GT
63 GT
* * *
153258 AGTGCATCGATGCATCCCGTTATT-AATG-AAACATCGAATGCATTTTATGCATCGATGCA-CAA
1 AGTGCATCGATGCATACC-TTATTAAAAGAAAACATCGAATGCATTTGATGCATCGATGCATC--
153320 GT
63 GT
153322 AGTGCATCGATGCATACCTTCATTAAAAGA
1 AGTGCATCGATGCATACCTT-ATTAAAAGA
153352 GGAAATTGGC
Statistics
Matches: 130, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
63 7 0.05
64 106 0.82
65 11 0.08
66 4 0.03
67 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATACCTTATTAAAAGAAAACATCGAATGCATTTGATGCATCGATGCATCGT
Found at i:154043 original size:30 final size:30
Alignment explanation
Indices: 154007--154070 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
153997 AAGGAACATA
* *
154007 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
154037 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
154067 TGGA
1 TGGA
154071 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:154830 original size:15 final size:15
Alignment explanation
Indices: 154810--154838 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
154800 GTGTTACATT
154810 TTTTATTTTATTTTG
1 TTTTATTTTATTTTG
154825 TTTTATTTTATTTT
1 TTTTATTTTATTTT
154839 TTTAACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATTTTG
Found at i:154937 original size:65 final size:65
Alignment explanation
Indices: 154821--154965 Score: 174
Period size: 65 Copynumber: 2.2 Consensus size: 65
154811 TTTATTTTAT
* *** *
154821 TTTG-TTTTATTTTATTTTTTTAACATTTTTATTATTTTTCTTTTCTGAAATTTAATATTTTCTT
1 TTTGATTTTATTTT-TTCTTTTAACATTTTTATTAACATTCTTTTCTAAAATTTAATATTTTCTT
154885 C
65 C
154886 ATTT-ATTTTATTTTTTCTTTTAACATTTTTTATATAACATT-TTTT-TAAAATTTAATATTTTC
1 -TTTGATTTTATTTTTTCTTTTAACA-TTTTTAT-TAACATTCTTTTCTAAAATTTAATATTTTC
154948 TTC
63 TTC
154951 TTTGA-TTTATTTTTT
1 TTTGATTTTATTTTTT
154966 AATTTAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
64 13 0.19
65 30 0.43
66 23 0.33
67 4 0.06
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (65 bp):
TTTGATTTTATTTTTTCTTTTAACATTTTTATTAACATTCTTTTCTAAAATTTAATATTTTCTTC
Found at i:154970 original size:32 final size:31
Alignment explanation
Indices: 154869--154977 Score: 80
Period size: 32 Copynumber: 3.4 Consensus size: 31
154859 TCTTTTCTGA
154869 AATTTAATATTTTCTTCATTTATTTTATTTTTT
1 AATTTAATATTTTCTTC-TTTA-TTTATTTTTT
** * * * **
154902 CTTTTAACATTTT-TTATATAACATTT-TTTTAA
1 AATTTAATATTTTCTTCT-T--TATTTATTTTTT
154934 AATTTAATATTTTCTTCTTTGATTTATTTTTT
1 AATTTAATATTTTCTTCTTT-ATTTATTTTTT
154966 AATTTAAT-TTTT
1 AATTTAATATTTT
154978 ATTTGATATT
Statistics
Matches: 56, Mismatches: 14, Indels: 14
0.67 0.17 0.17
Matches are distributed among these distances:
31 9 0.16
32 30 0.54
33 16 0.29
34 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (31 bp):
AATTTAATATTTTCTTCTTTATTTATTTTTT
Found at i:156603 original size:21 final size:21
Alignment explanation
Indices: 156579--156622 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
156569 TGAAATCAAT
* * *
156579 TAATATTTTTAAAATTATATA
1 TAATAATTATAAAATAATATA
*
156600 TAATAATTATAAGATAATATA
1 TAATAATTATAAAATAATATA
156621 TA
1 TA
156623 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATAATTATAAAATAATATA
Found at i:160998 original size:17 final size:17
Alignment explanation
Indices: 160976--161032 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
160966 TGGTGGATTT
160976 TTCCATCTGTTCATGA-A
1 TTCCATCTGTTCAT-ATA
*
160993 TTCCATCTGTTCATATT
1 TTCCATCTGTTCATATA
*
161010 TTCCATCTGTTCATATT
1 TTCCATCTGTTCATATA
161027 TTCCAT
1 TTCCAT
161033 TTTAGATTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
16 1 0.03
17 37 0.97
ACGTcount: A:0.19, C:0.25, G:0.07, T:0.49
Consensus pattern (17 bp):
TTCCATCTGTTCATATA
Done.