Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 69 of 362
Found at i:21472084 original size:42 final size:42
Alignment explanation
Indices: 21471996--21472084 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
21471986 TACTACATGG
** * *
21471996 CCGTGGGCGAACCTGCCAAAACAACACTAGCATTCGACATGG
1 CCGTGGGAAAACCTGCCAAAACAACACTAGCATTCGACACGC
* *
21472038 CCGTGGGAAAACCTGCCAAAACAACAC-GGGAGTTCGACACGC
1 CCGTGGGAAAACCTGCCAAAACAACACTAGCA-TTCGACACGC
21472080 CCGTG
1 CCGTG
21472085 CCTCAAAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.12
Consensus pattern (42 bp):
CCGTGGGAAAACCTGCCAAAACAACACTAGCATTCGACACGC
Found at i:21480730 original size:37 final size:37
Alignment explanation
Indices: 21480672--21480890 Score: 375
Period size: 37 Copynumber: 5.9 Consensus size: 37
21480662 GCTCAGACGA
* * * *
21480672 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
21480709 AATCTCCATACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
21480746 AATCTCCACACGTAGTCATCTGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
21480783 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
21480820 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
21480857 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21480891 ATATATTTCC
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:21481159 original size:47 final size:47
Alignment explanation
Indices: 21481097--21481580 Score: 653
Period size: 47 Copynumber: 10.1 Consensus size: 47
21481087 ACACGTTTCG
* * * **
21481097 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
21481144 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
21481191 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
21481238 CATTGGCCATTCGGCCTTATCACATATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
21481289 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
21481336 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
21481387 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
21481434 CAGTGGCCTTTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
21481481 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
*
21481531 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
21481578 CAT
1 CAT
21481581 AAAATCCTAA
Statistics
Matches: 388, Mismatches: 38, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
47 259 0.67
50 44 0.11
51 85 0.22
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:21481290 original size:145 final size:141
Alignment explanation
Indices: 21481097--21481580 Score: 664
Period size: 145 Copynumber: 3.3 Consensus size: 141
21481087 ACACGTTTCG
* *
21481097 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATT-ATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * ***
21481162 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT-GT
65 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATGGT
21481226 TCACATTCATCA
130 TCACATTCATCA
21481238 CATTGGCCATTCGGCCTTATCACATATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACATATAT-TAT----GTTCACATTCATCACATTGGCCATTCGG
* *
21481303 CCTTATCACGCATACGCATGTTCACATTCATCGCATTGGCCATTCGGCCTTATCACACATATATA
61 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATA
21481368 TACGGGTTCACATTCATCA
126 T---GGTTCACATTCATCA
* ** * * *
21481387 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCTTTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATA-TTATGTTCACATTCATCACATTGGCCATTCGGCCTT
21481452 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
65 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT--G
21481517 GTTCACATTCATCA
128 GTTCACATTCATCA
* ** *
21481531 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACATATA-TTATGTTCACATTCATCACAT
21481581 AAAATCCTAA
Statistics
Matches: 312, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
141 29 0.09
142 1 0.00
144 64 0.21
145 175 0.56
149 43 0.14
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACATATATTATGTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATGGTT
CACATTCATCA
Found at i:21481317 original size:98 final size:94
Alignment explanation
Indices: 21481097--21481580 Score: 653
Period size: 98 Copynumber: 5.0 Consensus size: 94
21481087 ACACGTTTCG
* * * **
21481097 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
21481162 ATCTCATATATGCATGTTCACATTCATCA
66 ATCACACATATACATGTTCACATTCATCA
21481191 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
21481256 ATCACATATATATATACGGGTTCACATTCATCA
66 ATCACACATATACAT----GTTCACATTCATCA
* *
21481289 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCGCATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
21481354 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATACAT----GTTCACATTCATCA
* * *
21481387 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCTTTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
21481452 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATATACATGTTCACATTCATCA
***
21481481 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGGC
** *
21481546 CTTATCACACATACGCATGTTCACATCCATCA
63 CTTATCACACATATACATGTTCACATTCATCA
21481578 CAT
1 CAT
21481581 AAAATCCTAA
Statistics
Matches: 357, Mismatches: 26, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
94 116 0.32
97 60 0.17
98 181 0.51
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATACATGTTCACATTCATCA
Found at i:21481480 original size:25 final size:25
Alignment explanation
Indices: 21481405--21481482 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
21481395 ATTCGGCCTT
*
21481405 ATCACACATACGCATGTTCACATCC
1 ATCACACATACGCATGTTCACATTC
* * * * *
21481430 ATCACA-GT-GGCCT-TTCGGCCTT-
1 ATCACACATACGCATGTTC-ACATTC
21481452 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
21481477 ATCACA
1 ATCACA
21481483 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 7 0.19
25 15 0.41
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:21483887 original size:85 final size:85
Alignment explanation
Indices: 21483758--21483936 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
21483748 TATTTTATTG
*
21483758 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21483823 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
21483843 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21483908 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
21483928 CCCATGCTC
1 CCCATGCTC
21483937 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:21485457 original size:57 final size:58
Alignment explanation
Indices: 21485385--21485493 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
21485375 GCCCACTGAT
* *
21485385 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
21485442 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
21485494 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:21485737 original size:40 final size:40
Alignment explanation
Indices: 21485711--21486016 Score: 468
Period size: 40 Copynumber: 7.7 Consensus size: 40
21485701 TGATTGTTCT
* * * * *
21485711 TCGGGACCTAGCCCGGATATAACACCAGCACTAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
** * *
21485751 TCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
21485791 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
21485831 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
21485871 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
21485911 TCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
21485951 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
21485991 TTGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
21486017 CTCAATTCTC
Statistics
Matches: 245, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:21487361 original size:36 final size:37
Alignment explanation
Indices: 21487271--21487414 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
21487261 GCTCAGACGA
* * * *
21487271 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
21487308 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
21487345 AATCT-CACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
21487381 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21487415 ATATATTTCC
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 36 0.35
37 66 0.65
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:21487685 original size:47 final size:47
Alignment explanation
Indices: 21487623--21488106 Score: 680
Period size: 47 Copynumber: 10.1 Consensus size: 47
21487613 ACACGTTTCG
* * * **
21487623 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
21487670 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
21487717 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
21487764 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
*
21487814 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
21487861 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
21487912 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
21487959 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
21488006 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
21488057 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
21488104 CAT
1 CAT
21488107 AAAATCCTAA
Statistics
Matches: 394, Mismatches: 32, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
47 263 0.67
50 43 0.11
51 88 0.22
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:21487911 original size:242 final size:239
Alignment explanation
Indices: 21487623--21488106 Score: 835
Period size: 242 Copynumber: 2.0 Consensus size: 239
21487613 ACACGTTTCG
*
21487623 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
21487688 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTT
21487753 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCACAT
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACAT
* *
21487817 TGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCA
196 TGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
* *
21487861 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CAGGTTCACATTCATCACATTGGCCATTCGG
21487926 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
62 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
21487991 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATC
127 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATC
21488056 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
192 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
21488104 CAT
1 CAT
21488107 AAAATCCTAA
Statistics
Matches: 231, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
238 18 0.08
239 1 0.00
240 9 0.04
241 1 0.00
242 139 0.60
243 63 0.27
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (239 bp):
CATTAGCCATTCGGCCTTACCACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACAT
TGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
Found at i:21487993 original size:145 final size:145
Alignment explanation
Indices: 21487623--21488106 Score: 751
Period size: 145 Copynumber: 3.3 Consensus size: 145
21487613 ACACGTTTCG
* * * ** *
21487623 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
* * * ***
21487688 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT---
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
21487750 -GTTCACATTCATCA
131 GGTTCACATTCATCA
*** *
21487764 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATCCATCACATTGGCCATTCGGC
*
21487829 CTTATCACGCATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
63 CTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
21487894 ACGGGTTCACATTCATCA
128 ACGGGTTCACATTCATCA
*
21487912 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
21487977 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
21488042 GGTTCACATTCATCA
131 GGTTCACATTCATCA
21488057 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
21488107 AAAATCCTAA
Statistics
Matches: 317, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
141 28 0.09
144 87 0.27
145 158 0.50
148 44 0.14
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (145 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACG
GGTTCACATTCATCA
Found at i:21490352 original size:41 final size:41
Alignment explanation
Indices: 21490307--21490437 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
21490297 TTAATCCTTA
21490307 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
*** * ** *
21490348 CATAA--CATCTTGTCCACCCATGCTCTTTATTTCAT-TAATCCTTA-C
1 CATAATGCA-CTACCCCA-ACATG---TTTATGACATGT--T-TTTAGC
21490393 -ATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
21490433 CATAA
1 CATAA
21490438 CATCTTATCC
Statistics
Matches: 63, Mismatches: 14, Indels: 26
0.61 0.14 0.25
Matches are distributed among these distances:
39 5 0.08
40 7 0.11
41 21 0.33
42 1 0.02
43 1 0.02
44 16 0.25
45 7 0.11
46 5 0.08
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (41 bp):
CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
Found at i:21490422 original size:85 final size:85
Alignment explanation
Indices: 21490279--21490457 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
21490269 TATTTTATTG
* *
21490279 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTCATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
21490344 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTATCCA
21490364 CCCATGCTCTTTATTTCATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTCATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
21490429 TAGCCATAACATCTTATCCA
66 TAGCCATAACATCTTATCCA
21490449 CCCATGCTC
1 CCCATGCTC
21490458 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTCATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTATCCA
Found at i:21495386 original size:28 final size:28
Alignment explanation
Indices: 21495345--21495405 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
21495335 ACAAGATTCT
* *
21495345 ATTAGGTTCTTTTAGACTACTTAATTTA
1 ATTAGGTTATTTTAGACTAATTAATTTA
* **
21495373 GTTAGGTTATTTTAGTTTAATTAATTTA
1 ATTAGGTTATTTTAGACTAATTAATTTA
21495401 ATTAG
1 ATTAG
21495406 TTTAATTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (28 bp):
ATTAGGTTATTTTAGACTAATTAATTTA
Found at i:21499409 original size:67 final size:67
Alignment explanation
Indices: 21499333--21499547 Score: 161
Period size: 67 Copynumber: 3.1 Consensus size: 67
21499323 GACCAAAATT
**
21499333 AATTAATATAACCGTTTATATTAATAAATTCAGTAAAATATATACAATTTATATTTTGTATGAAT
1 AATTAATATAATAGTTTATATTAATAAATTCAGTAAAATATATACAATTTATATTTTGTATGAAT
21499398 CA
66 CA
* * * * * * * * **
21499400 AATTCATATATTAATTATATTCTTTGCAA-AAGAAT-A-TTAATTTTCATACCTTTTATATTTTG
1 AATTAATATAATAGTT-TA-T-ATT--AATAA-ATTCAGTAAAATAT-ATACAATTTATATTTTG
*
21499462 -ACTGAAAT-T
59 TA-TG-AATCA
* * *
21499471 AATTAATATAATTGTTTATATTAATAAATTCAGTAAAATATATGCAATTAATATTTTGTATGAAT
1 AATTAATATAATAGTTTATATTAATAAATTCAGTAAAATATATACAATTTATATTTTGTATGAAT
21499536 CA
66 CA
*
21499538 AATTCATATA
1 AATTAATATA
21499548 TTTATTATAT
Statistics
Matches: 106, Mismatches: 28, Indels: 28
0.65 0.17 0.17
Matches are distributed among these distances:
66 7 0.07
67 38 0.36
68 10 0.09
69 2 0.02
70 10 0.09
71 32 0.30
72 7 0.07
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.44
Consensus pattern (67 bp):
AATTAATATAATAGTTTATATTAATAAATTCAGTAAAATATATACAATTTATATTTTGTATGAAT
CA
Found at i:21499526 original size:138 final size:137
Alignment explanation
Indices: 21499279--21499557 Score: 450
Period size: 138 Copynumber: 2.0 Consensus size: 137
21499269 AAAAGGAATC
**
21499279 ATATTCTTTCCAAAAGAATATAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAA
1 ATATTCTTTCCAAAAGAATATAATTTCCATACCTTTTATATTTTGACCAAAATTAATTAATATAA
*
21499344 CCGTTTATATTAATAAATTCAGTAAAATATATACAATTTATATTTTGTATGAATCAAATTCATAT
66 CCGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATAT
21499409 ATTAATT
131 ATTAATT
* * **
21499416 ATATTCTTTGCAAAAGAATATTAATTTTCATACCTTTTATATTTTGACTGAAATTAATTAATATA
1 ATATTCTTTCCAAAAGAATA-TAATTTCCATACCTTTTATATTTTGACCAAAATTAATTAATATA
** *
21499481 ATTGTTTATATTAATAAATTCAGTAAAATATATGCAATTAATATTTTGTATGAATCAAATTCATA
65 ACCGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA
*
21499546 TATTTATT
130 TATTAATT
21499554 ATAT
1 ATAT
21499558 CTATGTTCAC
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
137 19 0.15
138 111 0.85
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (137 bp):
ATATTCTTTCCAAAAGAATATAATTTCCATACCTTTTATATTTTGACCAAAATTAATTAATATAA
CCGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATAT
ATTAATT
Found at i:21501665 original size:62 final size:62
Alignment explanation
Indices: 21501583--21501704 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
21501573 GCCTCAGGAC
**
21501583 GTAAACGTCTAAGGTGTGAATACTGTAATAAAATATAGAATGACAAGGCAATATCCACAAAT
1 GTAAACGTCTAAGGAATGAATACTGTAATAAAATATAGAATGACAAGGCAATATCCACAAAT
* * **
21501645 GTAAACGTCTAGGGAATGAATACTGTAATAAAATATAGAATTACAAGGTGATATCCACAA
1 GTAAACGTCTAAGGAATGAATACTGTAATAAAATATAGAATGACAAGGCAATATCCACAA
21501705 GCATACGGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (62 bp):
GTAAACGTCTAAGGAATGAATACTGTAATAAAATATAGAATGACAAGGCAATATCCACAAAT
Found at i:21506781 original size:37 final size:37
Alignment explanation
Indices: 21506728--21506867 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
21506718 CGAATAGTCC
* *
21506728 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
21506765 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
21506802 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
21506839 CCACACGTAGTCATCGGATCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
21506868 ATATATTTCC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:21507094 original size:48 final size:48
Alignment explanation
Indices: 21507040--21507588 Score: 974
Period size: 48 Copynumber: 11.4 Consensus size: 48
21507030 GCCGAATCAC
*
21507040 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507088 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507136 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
21507184 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
21507232 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
21507280 TAGCCAATT-GGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCC-ATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507328 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507376 TAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507424 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507472 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
21507520 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
21507568 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
21507589 CACATATATA
Statistics
Matches: 489, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 3 0.01
48 483 0.99
49 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:21509978 original size:47 final size:48
Alignment explanation
Indices: 21509908--21510165 Score: 187
Period size: 47 Copynumber: 5.5 Consensus size: 48
21509898 GGGTGTCACA
* * *
21509908 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTGGA-GATGAGT-GC
1 CAGTGTAAGACGATGTCTGGGACAT-GCATCGGCCTCGATGATGA-TAGC
*
21509956 CAGTGTAAGA-GATGTCTGGGACATGCATCAGCCTCGATGATGATAGC
1 CAGTGTAAGACGATGTCTGGGACATGCATCGGCCTCGATGATGATAGC
* * *
21510003 CAGTGTAAGACG-TGTCTGGGACATGCATCGG-CT--AAGTTTCAT-GC
1 CAGTGTAAGACGATGTCTGGGACATGCATCGGCCTCGATG-ATGATAGC
* * * * * * * *
21510047 TAGTGTAAGAC-ATGTCTAGGACATGTATC-GACACGTATACACGAGAGC
1 CAGTGTAAGACGATGTCTGGGACATGCATCGGCCTCG-AT-GATGATAGC
* * *
21510095 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGA-AATAGC
1 CAGTGTAAGACGATGTCTGGGACAT-GCATCGGCCTCGAT-GATGATAGC
** *
21510144 CAACGTAAGACCATGTCTGGGA
1 CAGTGTAAGACGATGTCTGGGA
21510166 TATGGCAGCG
Statistics
Matches: 167, Mismatches: 29, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.18
45 3 0.02
46 13 0.08
47 50 0.30
48 24 0.14
49 35 0.21
50 7 0.04
51 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACGATGTCTGGGACATGCATCGGCCTCGATGATGATAGC
Found at i:21517530 original size:47 final size:45
Alignment explanation
Indices: 21517466--21517772 Score: 201
Period size: 47 Copynumber: 6.5 Consensus size: 45
21517456 AGAGCTAGTA
*
21517466 TAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGGACTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCATTAAGATGAGG-CCAGTG
* * *
21517514 TAAGATATGTCTGGGACATGCATCAGCCACATTAAGAT-A-GCCAGCG
1 TAAGACATGTCTGGGACATGCATC-G--GCATTAAGATGAGGCCAGTG
* *
21517560 TAAGACCATGTCTGGGACATGGCATTGGC-GTAGAGATGAGTGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCATTA-AGATGAG-GCCAGTG
* * * * * *
21517608 TAAGACATGTCTAGGACATGCATCGGCCTCGATGATAATAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCAT-TAAGATGA-GGCCAGTG
* * * * * *
21517655 TAAGTCGTGTCTGGGACATGCATC-G-ACTAAGTTGCGTGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCATTAAGATGAG-GCCAGTG
* * * * * *
21517699 TAAGACATGTCTAGGACATGCATCGACACGTATACACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCA-TTA-AGATGAG-GCCAGTG
21517747 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
21517773 AGCCTCGATG
Statistics
Matches: 201, Mismatches: 39, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
44 32 0.16
45 5 0.02
46 24 0.12
47 76 0.38
48 37 0.18
49 22 0.11
50 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGGCCAGTG
Found at i:21517580 original size:94 final size:94
Alignment explanation
Indices: 21517466--21517772 Score: 333
Period size: 94 Copynumber: 3.3 Consensus size: 94
21517456 AGAGCTAGTA
* * *
21517466 TAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAG-GACTAGTGTAAGATATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTG-CTAGTGTAAGACATGTCTAGGA
*
21517530 CATGCATCAGCCACATTA-AGATAGCCAGCG
65 CATGCATC-GCCACATTACAGATAGCCAGTG
* * *
21517560 TAAGACCATGTCTGGGACATGGCATTGGC-GTAGAGATGAGTGCCAGTGTAAGACATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCACTA-AGATGAGTGCTAGTGTAAGACATGTCTAGGA
* * *
21517624 CATGCATCGGCCTCGATGATA-ATAGCCAGTG
65 CATGCATC-GCCAC-ATTACAGATAGCCAGTG
* * * *
21517655 TAAG-TCGTGTCTGGGACAT-GCATC-G-ACTAAGTTGCGTGCTAGTGTAAGACATGTCTAGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTGCTAGTGTAAGACATGTCTAGGAC
* * * *
21517716 ATGCATCGACACGTATACACGAGAGCTAGTG
66 ATGCATCGCCACAT-TACA-GATAGCCAGTG
21517747 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
21517773 AGCCTCGATG
Statistics
Matches: 178, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
89 1 0.01
90 5 0.03
91 36 0.20
92 15 0.08
93 19 0.11
94 84 0.47
95 17 0.10
96 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTGCTAGTGTAAGACATGTCTAGGAC
ATGCATCGCCACATTACAGATAGCCAGTG
Found at i:21527137 original size:52 final size:52
Alignment explanation
Indices: 21527042--21527143 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
21527032 GAAACCAATT
* * * **
21527042 ACATGTATCGCATCTATAATGAACTCGGACCAACTCAGCGAGCTCAGATGAC
1 ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATGAC
* *
21527094 ACATGTATCACATCCATTATGAACTAGGACCAACTCAAAGAGCTCGGATG
1 ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATG
21527144 CTCACATCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (52 bp):
ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATGAC
Found at i:21527214 original size:45 final size:44
Alignment explanation
Indices: 21527101--21527285 Score: 208
Period size: 44 Copynumber: 4.2 Consensus size: 44
21527091 GACACATGTA
* * * *
21527101 TCACATCCATTATGAACTAGGACCAACTCAAAGAGCTCGGATGC
1 TCACATACATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
* **
21527145 TCACATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
1 TCACATACATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
* * * * *
21527189 TTCACATATATCACGAACTTGGACCAACTCAATGAGCTTGGATGC
1 -TCACATACATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
* * * *
21527234 TCGCATCCATAATGAACTTGGACCAACTCAACAAGTTCGGATGC
1 TCACATACATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
21527278 TTCACATA
1 -TCACATA
21527286 AATCAAAAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 75 0.65
45 41 0.35
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
TCACATACATAATGAACTTGGACCAACTCAACGAGCTCGGATGC
Found at i:21527258 original size:89 final size:89
Alignment explanation
Indices: 21527114--21527290 Score: 273
Period size: 89 Copynumber: 2.0 Consensus size: 89
21527104 CATCCATTAT
*
21527114 GAACTAGGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACGA
1 GAACTAGGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAA
*
21527179 GCTCGGATGCTTCACATATATCAC
66 GCTCGGATGCTTCACATAAATCAC
* * * * **
21527203 GAACTTGGACCAACTCAATGAGCTTGGATGCTCGCATCCATAATGAACTTGGACCAACTCAACAA
1 GAACTAGGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAA
*
21527268 GTTCGGATGCTTCACATAAATCA
66 GCTCGGATGCTTCACATAAATCA
21527291 AAAATATCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (89 bp):
GAACTAGGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAA
GCTCGGATGCTTCACATAAATCAC
Found at i:21527772 original size:20 final size:18
Alignment explanation
Indices: 21527735--21527785 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
21527725 CTATAGCAAC
21527735 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
21527752 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
21527772 TTACAACTTTACAA
1 TCACAA-TTTACAA
21527786 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:21530163 original size:12 final size:12
Alignment explanation
Indices: 21530146--21530180 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
21530136 CCTCACACGC
21530146 CCGTGTGCTAGG
1 CCGTGTGCTAGG
21530158 CCGTGTGCTAGG
1 CCGTGTGCTAGG
21530170 CCGTGTGCTAG
1 CCGTGTGCTAG
21530181 CATGGTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.40, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:21530202 original size:13 final size:13
Alignment explanation
Indices: 21530184--21530223 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
21530174 GTGCTAGCAT
21530184 GGTCAAGCCACAC
1 GGTCAAGCCACAC
*
21530197 GGTCAAGCCACAT
1 GGTCAAGCCACAC
21530210 GGTCAAGCCACAC
1 GGTCAAGCCACAC
21530223 G
1 G
21530224 CCTATGTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.35, G:0.25, T:0.10
Consensus pattern (13 bp):
GGTCAAGCCACAC
Found at i:21534842 original size:18 final size:18
Alignment explanation
Indices: 21534806--21534842 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21534796 TTGGGTTCCT
* *
21534806 ATATAGAAAAATTAAAAA
1 ATATACAAAAATAAAAAA
21534824 ATATACAAAAATAAAAAA
1 ATATACAAAAATAAAAAA
21534842 A
1 A
21534843 ATAACTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (18 bp):
ATATACAAAAATAAAAAA
Found at i:21550702 original size:10 final size:10
Alignment explanation
Indices: 21550663--21550700 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
21550653 TTATGGATTT
21550663 TATAATAATAA
1 TATAA-AATAA
21550674 TACTAAAATAA
1 TA-TAAAATAA
21550685 TATAAAATAA
1 TATAAAATAA
21550695 -ATAAAA
1 TATAAAA
21550701 ATCAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.23
10 8 0.31
11 9 0.35
12 3 0.12
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
TATAAAATAA
Found at i:21552377 original size:19 final size:19
Alignment explanation
Indices: 21552342--21552379 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21552332 TTGCAATTTA
*
21552342 AATTCTTATTTTCTTTTCT
1 AATTCTTATTTTATTTTCT
21552361 AATTCTTCA-TTTATTTTCT
1 AATTCTT-ATTTTATTTTCT
21552380 TCTGGCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTCTTATTTTATTTTCT
Found at i:21563867 original size:43 final size:41
Alignment explanation
Indices: 21563722--21563887 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 41
21563712 AAAGCTCGTA
* * *
21563722 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATC-AA-AT
* * * * * **
21563765 CGATGCCACTGTCCTAGGCAGGGTCTTACCCGAAATCAAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAT
*
21563806 ACAATTG-CAATGTACCAGACATGGTCTTACATGTAAATTTCAAAT
1 -CAA-TGCCAATGTCCCAGACATGGTCTTACATG-AAA--TCAAAT
21563851 C-ATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
21563888 CTTATCGAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
40 3 0.03
41 2 0.02
42 28 0.29
43 58 0.59
44 1 0.01
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAT
Found at i:21567158 original size:18 final size:18
Alignment explanation
Indices: 21567115--21567159 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
21567105 GGTTTTTCTA
*
21567115 AAATTTCTAGTGATTTTCC
1 AAATTTCTAGTGA-TCTCC
21567134 AAATTTCTAGTGA-CTCC
1 AAATTTCTAGTGATCTCC
21567151 ATAATTTCT
1 A-AATTTCT
21567160 TTGCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (18 bp):
AAATTTCTAGTGATCTCC
Found at i:21567665 original size:53 final size:54
Alignment explanation
Indices: 21567598--21567804 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
21567588 TTCCTTTTTA
* *
21567598 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
21567651 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
21567705 TAGTTTATCAATGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
21567760 AACTTACCAATGCCATGCCTTGGCATAGTCATACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
21567805 AAACCTTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.39
54 35 0.29
55 38 0.32
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:21570012 original size:36 final size:36
Alignment explanation
Indices: 21569960--21570032 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
21569950 TTTCCACGAG
21569960 AATGATTTTGTAAAAACCTTGTAATTATTGGTCTAT
1 AATGATTTTGTAAAAACCTTGTAATTATTGGTCTAT
* *
21569996 AATGATTTTGTGAAAACCTTGTGATTATTGGTCTAT
1 AATGATTTTGTAAAAACCTTGTAATTATTGGTCTAT
21570032 A
1 A
21570033 CTTGTGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (36 bp):
AATGATTTTGTAAAAACCTTGTAATTATTGGTCTAT
Found at i:21573446 original size:46 final size:46
Alignment explanation
Indices: 21573357--21573572 Score: 172
Period size: 46 Copynumber: 4.6 Consensus size: 46
21573347 TATTGCAACT
21573357 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGC
* * * *
21573405 CGATGTATGTCCCAGACATGTCTTACATTGGCT-TACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGC
* * * * * *
21573451 CGATGCATATTCCAGACATGTCTTACACTAGGC--TCATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACT-GACTATCATCTCGAGGC
* * * * *
21573496 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAGGC
* *
21573544 CGATGCATGTCCTAGACATTTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
21573573 AGCTCACACA
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 14 0.10
46 69 0.50
47 40 0.29
48 15 0.11
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGC
Found at i:21580302 original size:42 final size:43
Alignment explanation
Indices: 21580207--21580302 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 43
21580197 CGTGTAAGGG
21580207 ACACACGGCC-AAACCACACGCCCATGGGGTAGACCGTGTGTC
1 ACACACGGCCTAAACCACACGCCCATGGGGTAGACCGTGTGTC
** **
21580249 ACACATAGCCTAAA-CTTACGCCCATGGGGTAGACCGTGTGTC
1 ACACACGGCCTAAACCACACGCCCATGGGGTAGACCGTGTGTC
21580291 ACACACGGCCTA
1 ACACACGGCCTA
21580303 GATACACGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 44 0.94
43 3 0.06
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (43 bp):
ACACACGGCCTAAACCACACGCCCATGGGGTAGACCGTGTGTC
Found at i:21581106 original size:47 final size:47
Alignment explanation
Indices: 21581031--21581186 Score: 124
Period size: 46 Copynumber: 3.4 Consensus size: 47
21581021 GCCATGTCCA
* * * *
21581031 AGACACGGTCTTACACTGGCTCATATCTC-AAGTCGATGTCATGCCCC
1 AGACATGGTCTTACACTGACTAATATCTCGAAGCCGATG-CATGCCCC
* *
21581078 AGACATGGTCTTACACTGAC-AATCATCTCGTAGCCGATGCATGTCCC
1 AGACATGGTCTTACACTGACTAAT-ATCTCGAAGCCGATGCATGCCCC
* * ** * * **
21581125 AGACAT-GTCTTATACT-AGCTTACGTCTCGAGGCTGATGCATGTTCC
1 AGACATGGTCTTACACTGA-CTAATATCTCGAAGCCGATGCATGCCCC
21581171 AGACAT-GTCTTACACT
1 AGACATGGTCTTACACT
21581187 AGCCCTCGTC
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 45 0.50
47 37 0.41
48 7 0.08
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
AGACATGGTCTTACACTGACTAATATCTCGAAGCCGATGCATGCCCC
Found at i:21586043 original size:23 final size:22
Alignment explanation
Indices: 21586001--21586044 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
21585991 TAAAAATTAT
*
21586001 TTTATATTAATATTTTATAAAC
1 TTTATATTAATATTTCATAAAC
21586023 TTTATAATTAA-ATTTACATAAA
1 TTTAT-ATTAATATTT-CATAAA
21586045 AATATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATATTAATATTTCATAAAC
Found at i:21587316 original size:19 final size:20
Alignment explanation
Indices: 21587270--21587321 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
21587260 TAATTTTAGA
*
21587270 TATTTTATAAAAAAATTATTT
1 TATTTT-TAATAAAATTATTT
21587291 T-TATTTTAATAAAA-TATTT
1 TAT-TTTTAATAAAATTATTT
*
21587310 TATTTTTTATAA
1 TATTTTTAATAA
21587322 TTAATTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 14 0.52
20 9 0.33
21 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTTAATAAAATTATTT
Found at i:21587317 original size:20 final size:21
Alignment explanation
Indices: 21587270--21587318 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
21587260 TAATTTTAGA
*
21587270 TATTTTATAAAAAAATTATTT
1 TATTTTTTAAAAAAATTATTT
* *
21587291 T-TATTTTAATAAAA-TATTT
1 TATTTTTTAAAAAAATTATTT
21587310 TATTTTTTA
1 TATTTTTTA
21587319 TAATTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTTAAAAAAATTATTT
Found at i:21587322 original size:22 final size:21
Alignment explanation
Indices: 21587272--21587322 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
21587262 ATTTTAGATA
21587272 TTTTATAA-AAAAATTATTTT
1 TTTTATAATAAAAATTATTTT
21587292 TATTT-TAATAAAATATT-TTATT
1 T-TTTATAATAAAA-ATTATT-TT
21587314 TTTTATAAT
1 TTTTATAAT
21587323 TAATTTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.15
21 12 0.46
22 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATAATAAAAATTATTTT
Found at i:21588385 original size:18 final size:19
Alignment explanation
Indices: 21588362--21588399 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21588352 TAAAATAATG
*
21588362 ATATGTACA-AATATATAC
1 ATATGTACATAAAATATAC
21588380 ATATGTACATAAAATATAC
1 ATATGTACATAAAATATAC
21588399 A
1 A
21588400 CTAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATGTACATAAAATATAC
Found at i:21588509 original size:24 final size:23
Alignment explanation
Indices: 21588456--21588514 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
21588446 TAATAATAAT
* * *
21588456 ATATACACATTATGGTATTTAAA
1 ATATATACATAATAGTATTTAAA
*
21588479 ATATATATATAATAGTATTTAAGA
1 ATATATACATAATAGTATTTAA-A
21588503 ATATATACATAA
1 ATATATACATAA
21588515 GAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATATACATAATAGTATTTAAA
Found at i:21588877 original size:16 final size:18
Alignment explanation
Indices: 21588853--21588894 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
21588843 AAATCATTTT
*
21588853 GAAGAGAGAAA-AA-AAA
1 GAAGGGAGAAAGAAGAAA
*
21588869 GAAGGGAGAAAGAAGAGA
1 GAAGGGAGAAAGAAGAAA
21588887 GAAGGGAG
1 GAAGGGAG
21588895 GGGGAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 2 0.09
18 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
GAAGGGAGAAAGAAGAAA
Found at i:21590060 original size:91 final size:91
Alignment explanation
Indices: 21589957--21590123 Score: 246
Period size: 91 Copynumber: 1.8 Consensus size: 91
21589947 AATAGACAAT
* *
21589957 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAGGCTCAACTCACCTCTCGCAATACGA
21590021 GTCGATTTTTTTGAAAGGCAAAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
* * * **
21590048 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATACGAG
*
21590113 TTGATTTTTTT
66 TCGATTTTTTT
21590124 TTTTTTGACA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 2 0.03
91 65 0.97
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATACGAG
TCGATTTTTTTGAAAGGCAAAAATTG
Found at i:21590336 original size:164 final size:163
Alignment explanation
Indices: 21589994--21591393 Score: 783
Period size: 164 Copynumber: 8.8 Consensus size: 163
21589984 GCGTGAGCCA
* *** * *
21589994 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAAAAATTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * ** **
21590059 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTT
66 TTGAAATTAACTCAAC--GTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA------T
* * *
21590124 TTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTG
123 TTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCCTG
* *
21590165 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATGTTTTTGAAAAATATAAATTTAAAAGCAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAATTGAAAAGCAGAA
* * *
21590230 ATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTTT
65 ATTGAAATTAACTCAACGTGACC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTT
*
21590293 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTG
129 GAAA-ACAAAAATTGAAAATACCTCAGCATGTCCTG
** *
21590329 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTT------T-T---TTGACAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * * **
21590381 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTTT
66 TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA---TTTTTT
* * *
21590446 TGACAACAGAAATTGAAATTACCTCAGCATGTCCTG
128 TGAAAACAAAAATTGAAAATACCTCAGCATGTCCTG
* *
21590482 AGGCTCAATTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAATTGAAAAGCAGAA
* * *
21590547 ATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTTT
65 ATTGAAATTAACTCAACGTGACC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTT
* *
21590610 GAAAGACAAAAATGGAAAATACCTCAGCATGTCTTG
129 GAAA-ACAAAAATTGAAAATACCTCAGCATGTCCTG
** *
21590646 AGGCTCAACTCATTTCTCGCAATATGAGTTGA----TTT------T-T---TTGACAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * * *
21590696 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
66 TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTG-ATTTTTTTG
* *
21590761 AAAA-ATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTG
130 AAAACA-A-AAATT--------G--A---AAA-TACCTCAGCATGTCC-TG
* *
21590810 AGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTTTTG----------A---CAAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * * ** * *
21590859 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAA
66 TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTT----
* *
21590924 ATAGATTGAAAACAAAAATTGACAATACCTCAGCGTG-CC-G
126 -T---TTGAAAACAAAAATTGAAAATACCTCAGCATGTCCTG
21590964 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG----------A---AAAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * * * * *
21591013 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAA
66 TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT----
* * * * * * *
21591078 AACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTG
127 ---TTGAA---AACAAAAATTGAAAATACCTCAGCATGTCCTG
** *
21591121 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTT------T-T---TTG-AAAGACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAG-CAGAA
* * * * * * ** *
21591173 ATTGAAAATATCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG
65 ATTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTG
* *
21591238 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTA
130 AAA-ACAAAAATTGAAAATACCTCAGCATGTCCTG
** **
21591273 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTT------T-T---TT-CCAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
* * * *
21591325 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
66 TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTG-ATTTTTTTG
21591390 AAAA
130 AAAA
21591394 ATATAAATTT
Statistics
Matches: 1035, Mismatches: 116, Indels: 176
0.78 0.09 0.13
Matches are distributed among these distances:
148 56 0.05
149 10 0.01
150 66 0.06
151 63 0.06
152 75 0.07
153 72 0.07
154 113 0.11
155 24 0.02
156 19 0.02
157 38 0.04
158 1 0.00
159 6 0.01
160 2 0.00
161 65 0.06
162 3 0.00
163 89 0.09
164 153 0.15
166 10 0.01
167 52 0.05
168 1 0.00
169 2 0.00
170 37 0.04
171 38 0.04
172 40 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (163 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
TTGAAATTAACTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGA
AAACAAAAATTGAAAATACCTCAGCATGTCCTG
Found at i:21590659 original size:317 final size:303
Alignment explanation
Indices: 21590051--21591557 Score: 1527
Period size: 317 Copynumber: 4.8 Consensus size: 303
21590041 AAAATTGAAA
* * ** *
21590051 AACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
21590116 ATTTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTC
64 A---TTTTTTTTTTGACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTC
*
21590181 TCGCAATATGAGTTGAATGTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAA
126 TCGCAATATGAGTTG-ATTTTTTTG-----T-T-AA---AAAA-CAGAAATTGAAATTAACTCAA
* *
21590246 CGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAA
179 CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAA
21590311 ATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAC
244 ATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTTGAC
** *
21590373 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
21590438 TTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAATTCACCTCTCGCA
66 TTTTTTTTTGACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCA
21590503 ATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGC
131 ATATGAGTTG-ATTTTTTTG-----T-T-AA---AAAA-CAGAAATTGAAATTAACTCAACGTGC
* * *
21590568 CTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATGGAAAATACC
184 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACC
21590633 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAC
249 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAC
21590688 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
* *
21590753 TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCA
65 -TTTTTT------T-T---TTGACAA-CAGAAATTGAAATTACCTCAACATGTCC-TGAGGCTCA
* * * *
21590817 ACTCACCTTTCGCAATATGAGTTGA--TTTTTG---ACAAACAGAAATTGAAATTACCTCAGCGT
117 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGTTAAAAAACAGAAATTGAAATTAACTCAACGT
** * *
21590877 GTCC-TGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAATAGATTGAAAACAAAA
182 G-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----T-GA---AAGACAAAA
* * * **
21590941 ATTGACAATACCTCAGCGTG-C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
237 ATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG
*
21591002 AAA
302 -AC
* *
21591005 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * * *
21591070 TTTTGAAAAACATAAATTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCA
66 TTTT--------T-TTTTGACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCA
** * * * * * * * *
21591133 TTTCTCGCAATATGAGTTGATTTTTTT-TTGAAAGACAAAAATTGAAAATATCTCAGCATGTCTT
122 CCTCTCGCAATATGAGTTGATTTTTTTGTTAAAAAACAGAAATTGAAATTAACTCAACGTGCCTT
**
21591197 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTC
187 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATACCTC
* **
21591262 AGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTCC
251 AGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTTGAC
21591317 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
* * *
21591382 TTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCA
65 -TTTTTT------T-T---TTGACAA-CAGAAATTGAAATTACCTCAACATGTCC-TGAGGCTCA
* * * * * * * * * *
21591446 ACTTACCTCTCACAGTATGAGTTGA-TTTTTT-TTGAAAAGCAAAAATTAAAAATACCTCAATGT
117 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGTTAAAAAACAGAAATTGAAATTAACTCAACGT
*
21591509 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
182 GCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
21591558 CAGAAATAAA
Statistics
Matches: 1046, Mismatches: 77, Indels: 129
0.84 0.06 0.10
Matches are distributed among these distances:
306 1 0.00
307 26 0.02
308 1 0.00
309 30 0.03
310 2 0.00
311 114 0.11
312 69 0.07
313 11 0.01
314 9 0.01
315 135 0.13
316 14 0.01
317 389 0.37
318 85 0.08
319 1 0.00
320 61 0.06
322 26 0.02
323 2 0.00
324 1 0.00
325 6 0.01
327 9 0.01
328 54 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (303 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTGACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGTTAAAAAACAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTT
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAC
Found at i:21590724 original size:238 final size:235
Alignment explanation
Indices: 21590302--21591393 Score: 1062
Period size: 238 Copynumber: 4.6 Consensus size: 235
21590292 TGAAAGACAA
* * * **
21590302 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
* * * * * * *
21590367 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGTCTCTCGCAATACGA
62 TTTGAAAACAAAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
* * *
21590432 GTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAATTCACCT
127 GTTGA--TTTTTTTTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCT
21590497 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAG
190 CTCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAA-TTAAAAGCAG
* * * *
21590545 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
21590610 GAAAGACAAAAATGGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
65 GAAA-ACAAAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * *
21590675 TGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
129 TGATTTTTTTTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCG
21590739 CAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAG
194 CAATATGAGTTG-ATTTTTTTGAAAAATATAAATT-AAAAGCAG
* *
21590783 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
21590848 ACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT
66 A-AAACAAAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
21590913 GATTTTTGAAAATAGATTGAAAACAAAAATTGACAA-TACCTCAGCGTG-CC-GAGGCTCAACTC
130 GATTTTT-----T---TTGAAAACAAAAATTGA-AATTACCTCAGCATGTCCTGAGGCTCAACTC
21590975 ACCTCTCGCAATATGAGTTGA--TTTTTG----------A--AAAA-CAG
186 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTAAAAGCAG
* *
21591010 AAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
21591074 GAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
65 G-AAAACA-AAAATG----G--A---AAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
* * *
21591139 GCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCTC
118 GCAATATGAGTTGA-TTTTTTTTGAAA-ACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTC
** * *
21591204 AACTCATTTCTCGCAATATGAGTTGATTTTTTTG----------A--AAGA-CAA
181 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTAAAAGCAG
* * * * **
21591246 AAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
*** * * * **
21591311 TTTTCCAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
62 TTTGAAAACAAAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
*
21591376 GTTGAATTTTTTTGAAAA
127 GTTGATTTTTTTTGAAAA
21591394 ATATAAATTT
Statistics
Matches: 743, Mismatches: 68, Indels: 93
0.82 0.08 0.10
Matches are distributed among these distances:
226 1 0.00
227 77 0.10
228 55 0.07
229 2 0.00
231 9 0.01
232 23 0.03
233 1 0.00
234 34 0.05
235 1 0.00
236 63 0.08
237 68 0.09
238 210 0.28
239 9 0.01
240 14 0.02
241 61 0.08
243 52 0.07
244 32 0.04
245 2 0.00
246 27 0.04
247 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (235 bp):
AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAAAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
ATTTTTTTTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAAATATAAATTAAAAGCAG
Found at i:21590865 original size:73 final size:72
Alignment explanation
Indices: 21590772--21591386 Score: 486
Period size: 73 Copynumber: 8.0 Consensus size: 72
21590762 AAAATATAAA
*
21590772 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTT-TCGCAATATG
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCA-CTTCTCGCAATATG
21590836 AGTTGATTT
64 AGTTGATTT
* *
21590845 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACTTCTCGCAATATG
21590909 AGTTGATTT
64 AGTTGATTT
* *** * * * * *
21590918 TTGAAAATAGATTGAAAACAAAAATTGACAAT-A-CCTCAGCGTGCCGAGGCTCAACTCACCTCT
1 TTG-AAA-ACA--G-AAATTGAAATT-AC-CTCAGCGT--GCCT--TGAGGCTCAACTCACTTCT
21590981 CGCAATATGAGTTGATTT
55 CGCAATATGAGTTGATTT
* * *
21590999 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAGCTCACCTCTCGCAATATG
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACTTCTCGCAATATG
21591063 AGTTGATTT
64 AGTTGATTT
* * * *
21591072 TTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG---------AA---AACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACTTC
21591137 TCGCAATATGAGTTGATTTTTTT
54 TCGCAATATGAGTTGA----TTT
* * * * * *
21591160 TTGAAAGACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGA
21591225 GTTGATTTTT
65 GTTGA--TTT
* * * * * *
21591235 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGA
21591300 GTTGATTTTTTT
65 GTTGA----TTT
*** *
21591312 TTTCCAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACTTCTCGCAATATGA
21591376 GTTGAATTT
65 GTTG-ATTT
21591385 TT
1 TT
21591387 TTGAAAAATA
Statistics
Matches: 456, Mismatches: 47, Indels: 78
0.78 0.08 0.13
Matches are distributed among these distances:
72 2 0.00
73 108 0.24
74 8 0.02
75 75 0.16
76 59 0.13
77 87 0.19
78 5 0.01
79 4 0.01
80 2 0.00
81 43 0.09
83 1 0.00
84 56 0.12
88 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAG
TTGATTT
Found at i:21591314 original size:555 final size:550
Alignment explanation
Indices: 21590045--21591564 Score: 1793
Period size: 555 Copynumber: 2.7 Consensus size: 550
21590035 AAGGCAAAAA
* * * * * * * *
21590045 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATAC
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCGCAATAT
21590110 GAGTTGATTTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
64 GAGTTGA------TTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
* *
21590175 CACCTCTCGCAATATGAGTTGAATGTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTA
123 CACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTA
* *
21590240 ACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAA
188 ACTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAA
* *
21590305 TTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT
253 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTATT
* * **
21590370 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGTCTCTCGCAATACGAGTT
318 GAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
* * *
21590435 GATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAATTCACCTCTC
383 GA----TTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
* *
21590500 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACG
444 GCAATATGAGTTGAA-TTTTTTGAAAAACATAAATTTAAAAGCAGAAATTGAAACTAACTCAACG
* *
21590565 TGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTT
508 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
21590608 TTGAAAGACAAAAATGGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
21590673 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
*
21590738 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACG
131 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAACG
* * *
21590803 TGCCTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGACAA-ACAGAAATTGAAAT
196 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAAAAATTGAAAA
* *
21590866 TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAATAGATT
260 TACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT-----T--ATT
*
21590931 GAAAACAAAAATTGACAA-TACCTCAGCGTG-CC-GAGGCTCAACTCACCTCTCGCAATATGAGT
318 GAAAACAAAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
21590993 TGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAGCTCACCTCTCGC
382 TGATTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGC
* * *
21591057 AATATGAGTTG-A-TTTTTGAAAAACATAAA-TT-GAA-CAGAAATTGAAACTACCTCAACGTGT
446 AATATGAGTTGAATTTTTTGAAAAACATAAATTTAAAAGCAGAAATTGAAACTAACTCAACGTGC
**
21591117 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT
511 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
*
21591160 TTGAAAGACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * * * **
21591225 GTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCT
66 GTTGATTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
** * *
21591290 CGCAATATGAGTTG-A-TTTTTT------T-T---TT-CCAA-CAGAAATTGAAATTACCTCAGC
130 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAAC
21591341 GTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTA
195 GTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTG----------A---A
* * * * * * ** * *
21591405 AAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
244 AGA-CAAAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * ** *
21591469 GATTTTTT-TTGAAAAGCAAAAATTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC
307 GATTTTTTATTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
21591533 GCAATATGAGTTGATTTTTTTG-AAACAGAAAT
371 GCAATACGAGTTGA-TTTTTTGAAAACAGAAAT
21591565 AAAAACATCA
Statistics
Matches: 851, Mismatches: 67, Indels: 90
0.84 0.07 0.09
Matches are distributed among these distances:
539 56 0.07
540 5 0.01
541 2 0.00
542 6 0.01
544 1 0.00
545 1 0.00
548 9 0.01
549 74 0.09
550 3 0.00
551 52 0.06
552 100 0.12
553 61 0.07
554 79 0.09
555 222 0.26
556 57 0.07
559 31 0.04
560 2 0.00
561 59 0.07
562 2 0.00
563 29 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (550 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAACTCAACG
TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAAT
ACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTATTGAAAACAA
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
GAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTTGAAAAACATAAATTTAAAAGCAGAAATTGAAACTAACTCAACGTGCCTTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:21591402 original size:76 final size:76
Alignment explanation
Indices: 21591089--21591394 Score: 416
Period size: 75 Copynumber: 4.0 Consensus size: 76
21591079 ACATAAATTG
* * * *
21591089 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
*
21591154 TTTTTTTTGAAA
65 ATTTTTTTGAAA
* *
21591166 GACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
1 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
21591230 TTTTTTTGAAA
66 TTTTTTTGAAA
* * *
21591241 GACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
****
21591306 TTTTTTTTTCC
66 TTTTTTTGAAA
* * * * **
21591317 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
21591382 TTTTTTTGAAA
66 TTTTTTTGAAA
21591393 AA
1 AA
21591395 TATAAATTTA
Statistics
Matches: 201, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
75 72 0.36
76 72 0.36
77 57 0.28
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (76 bp):
AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTTTTGAAA
Found at i:21591402 original size:152 final size:149
Alignment explanation
Indices: 21590783--21591407 Score: 640
Period size: 154 Copynumber: 4.1 Consensus size: 149
21590773 TGAAAAGCAG
* *
21590783 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTT
* * ** *
21590847 GACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGT
65 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
21590912 TGATTTTTGAAAATAGATTGAAAACA-A-
130 TGA-TTTT-----T---TTGAAAACATAT
* * * *
21590939 AAATTGACAATACCTCAGCGTG-C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
*
21591002 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTT
66 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
21591067 GA--TTTTTGAAAAACATAAATT
131 GATTTTTTTG-AAAACAT--A-T
* *
21591088 GAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 ------AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* * * * * **
21591153 TTTTTTTTTGAAAGACAAAAATTGAAAATATCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGC
60 ----TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
21591218 AATATGAGTTGATTTTTTTGAAAGACA-A-
121 AATATGAGTTGATTTTTTTGAAA-ACATAT
* * * *
21591246 AAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTT
**** *
21591311 TTTTCCAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
63 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
21591376 GTTGAATTTTTTTGAAAA-ATAT
128 GTTG-ATTTTTTTGAAAACATAT
*
21591398 AAATTTAAAA
1 AAATTGAAAA
21591408 GCAGAAATTG
Statistics
Matches: 402, Mismatches: 42, Indels: 54
0.81 0.08 0.11
Matches are distributed among these distances:
143 3 0.01
144 6 0.01
146 1 0.00
147 1 0.00
150 1 0.00
151 67 0.17
152 76 0.19
153 2 0.00
154 96 0.24
155 20 0.05
156 20 0.05
157 31 0.08
160 1 0.00
161 65 0.16
162 3 0.01
163 9 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (149 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACATAT
Found at i:21591476 original size:90 final size:90
Alignment explanation
Indices: 21591319--21591483 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
21591309 TTTTTTCCAA
* *
21591319 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGAATT
21591384 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* * *
21591409 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCACAGTATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCACAATATGAGTTGAAT
21591473 TTTTTTGAAAA
65 TTTTTTGAAAA
21591484 GCAAAAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
89 2 0.03
90 67 0.97
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:21591502 original size:76 final size:75
Alignment explanation
Indices: 21591404--21591557 Score: 227
Period size: 76 Copynumber: 2.0 Consensus size: 75
21591394 ATATAAATTT
* * * * *
21591404 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
1 AAAAGCAAAAATTAAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
21591469 GATTTTTTTTG
66 GA-TTTTTTTG
* * *
21591480 AAAAGCAAAAATTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAAAAATTAAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
21591545 GATTTTTTTG
66 GATTTTTTTG
21591555 AAA
1 AAA
21591558 CAGAAATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 11 0.16
76 59 0.84
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
AAAAGCAAAAATTAAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
GATTTTTTTG
Found at i:21591520 original size:166 final size:165
Alignment explanation
Indices: 21591246--21591557 Score: 428
Period size: 166 Copynumber: 1.9 Consensus size: 165
21591236 TGAAAGACAA
* * ** *
21591246 AAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
*** * * * *
21591311 TTTTCCAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGAAAACAAAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
21591376 GTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAG
131 GTTG-ATTTTTTTGAAAAATATAAATTTAAAAGCAG
* * * * *
21591412 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* *
21591476 TTTGAAAAGCAAAAATTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
66 TTTGAAAA-CAAAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
21591541 AGTTGATTTTTTTGAAA
130 AGTTGATTTTTTTGAAA
21591558 CAGAAATAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
165 22 0.17
166 104 0.83
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (165 bp):
AAATTGAAAATACCTCAACATGCCTTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TTTGAAAACAAAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
Found at i:21599908 original size:12 final size:12
Alignment explanation
Indices: 21599886--21599921 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
21599876 TGGGATATGC
*
21599886 AATGAATGAATG
1 AATGCATGAATG
*
21599898 GATGCATGAATG
1 AATGCATGAATG
21599910 AATGCATGAATG
1 AATGCATGAATG
21599922 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:21599908 original size:16 final size:17
Alignment explanation
Indices: 21599882--21599913 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21599872 AGTATGGGAT
21599882 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
21599899 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
21599914 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:21601921 original size:28 final size:25
Alignment explanation
Indices: 21601852--21601915 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
21601842 TTGTAATAAT
* * *
21601852 AATATATACACAATATGGTATTTAA
1 AATATATACATAAAATAGTATTTAA
* *
21601877 AATATATATATATAATAGTATTTAA
1 AATATATACATAAAATAGTATTTAA
21601902 GAATATATACATAA
1 -AATATATACATAA
21601916 GAAATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (25 bp):
AATATATACATAAAATAGTATTTAA
Found at i:21601962 original size:39 final size:37
Alignment explanation
Indices: 21601877--21601977 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 37
21601867 TGGTATTTAA
* * *
21601877 AATATATATATATAATAGTATTTAAGAATATATACAT
1 AATATATATATATAATAGCATTAAAAAATATATACAT
* * *
21601914 AAGAAATATATAACTAATGGCATTAAAAAATATATACAT
1 AATATATATAT-A-TAATAGCATTAAAAAATATATACAT
*
21601953 AATATATATA-A-AATA-CATAAAAAAA
1 AATATATATATATAATAGCATTAAAAAA
21601978 ATTATTAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
34 9 0.17
35 3 0.06
37 10 0.19
38 1 0.02
39 29 0.56
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (37 bp):
AATATATATATATAATAGCATTAAAAAATATATACAT
Found at i:21602286 original size:18 final size:18
Alignment explanation
Indices: 21602260--21602303 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21602250 AAATCATTTT
*
21602260 GAAGAGAGAAAAAAAAAA
1 GAAGGGAGAAAAAAAAAA
* * *
21602278 GAAGGGAGAAAGAAGAGA
1 GAAGGGAGAAAAAAAAAA
21602296 GAAGGGAG
1 GAAGGGAG
21602304 GAGGGAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (18 bp):
GAAGGGAGAAAAAAAAAA
Found at i:21605656 original size:23 final size:23
Alignment explanation
Indices: 21605613--21605659 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21605603 TAAACACATG
* *
21605613 ATTCTGTTTGGCCCTTTTGGCAT
1 ATTCTGTTTGGCCATTGTGGCAT
*
21605636 ATTCTGTTTGGCGATTGTGGCAT
1 ATTCTGTTTGGCCATTGTGGCAT
21605659 A
1 A
21605660 CTCTATTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.45
Consensus pattern (23 bp):
ATTCTGTTTGGCCATTGTGGCAT
Found at i:21608028 original size:453 final size:451
Alignment explanation
Indices: 21607184--21608091 Score: 1615
Period size: 453 Copynumber: 2.0 Consensus size: 451
21607174 TCCTTAGATG
21607184 GTAATTAGACCATTTTTTAAGTTAGTGGACAAAAATGGACATGAGGTAAGAGAAATTTTATGTTT
1 GTAATTAGACCATTTTTTAAGTTAGTGGACAAAAATGGACATGAGGTAAGAGAAATTTTATGTTT
*
21607249 TAAGTTAGGAGCAGTTTTGTCATTTGGTAAATAAATGAATTAAAAAGCAAAATCAAGTCAAAAAC
66 TAAGTTAGGAGCAGTTTTGTCATTTGGTAAATAAATGAATTAAAAAGCAAAATCAAGCCAAAAAC
* * *
21607314 CTTGTCCATCTTCTCCCCCTTGTGCCAAAAATTAGAAGGAAGACATAGCTAGGGTTTGTCCAACT
131 CTTATCCATATTCTCCCCCTTGTGCCAAAAATTAGAAGGAAGACATAGCTAGGGTTTGGCCAACT
*
21607379 TTCAAGCTCGATTGTAAGTCTATTCTTGTCCCGTTTTTAATGCTCTTTACATTTTTGAAGTCGTT
196 TTCAAGCTCGATTGTAAGTCTATTCTTGTCCCGTTTGTAATGCTCTTTACATTTTTGAAGTCGTT
* *
21607444 GACACTCGATCTATCTATTTCTACCACTATTTTGAGATATGATTAAGGTCTAAGGTTTGACCCAT
261 GACACTCGATCTATCTATTTCTACCACTAATTTGAGAGATGATTAAGGTCTAAGGTTTGACCCAT
*
21607509 GTTAGACATGTGTGTATTTTGATGTTTAATGGTAGATTATGCAAGTTTGATGTTAGATAAACAAG
326 GTTAGACATGTGTGTATTTTGATGTTTAATGCTAGATTATGCAAGTTTGATGTTAGATAAACAAG
*
21607574 TTTTGCTAAGTGATTTTTGATGAAACA-AAAATGGACCTATTTGTAAAAAGTTATAAAATGA
391 TTTTGCTAAGTGATTTTTGATGAAACACAAAAGGGACCTATTTGT-AAAAGTTATAAAATGA
21607635 GTAATTAGACCATTTTTTAAGTTAGTGGACAAAAATGGACATGAGGT-AGTAGAAATTTTATGTT
1 GTAATTAGACCATTTTTTAAGTTAGTGGACAAAAATGGACATGAGGTAAG-AGAAATTTTATGTT
21607699 TTAAGTTAGGAGCA-TTTTGGTCATTTGGTAAATAAATGAATTAAAAAGCAAAAATCAAGCCAAA
65 TTAAGTTAGGAGCAGTTTT-GTCATTTGGTAAATAAATGAATTAAAAAGC-AAAATCAAGCCAAA
*
21607763 AACCTTATCCATATTCTCCCCCTTGTGCCAAAAATTAGAAGGAAGGCATAGCTAGGGTTTGGCCA
128 AACCTTATCCATATTCTCCCCCTTGTGCCAAAAATTAGAAGGAAGACATAGCTAGGGTTTGGCCA
*
21607828 ACTTTCAAGCTCGATTGTAAGTCTGTTCTTGTCCCGTTTGTAATGCTCTTTACATTTTTTGAAGT
193 ACTTTCAAGCTCGATTGTAAGTCTATTCTTGTCCCGTTTGTAATGCTCTTTACA-TTTTTGAAGT
*
21607893 CGTTGACACTCGATCTATCTATTTCTACCACTAATTTGAGAGATGATTAAGGTCTAGGGTTTGAC
257 CGTTGACACTCGATCTATCTATTTCTACCACTAATTTGAGAGATGATTAAGGTCTAAGGTTTGAC
21607958 CCATGTTAGACATGTGTGTATTTTGATGTTTAATGCTAGATTATGCAAGTTTGATGTTAGATAAA
322 CCATGTTAGACATGTGTGTATTTTGATGTTTAATGCTAGATTATGCAAGTTTGATGTTAGATAAA
*
21608023 CAAGTTTTGCTAAGTGATTTTTGATGAAACACCTAAAAGGGATCTATTTGTAAAAGTTATAAAAT
387 CAAGTTTTGCTAAGTGATTTTTGATGAAACA-C-AAAAGGGACCTATTTGTAAAAGTTATAAAAT
21608088 GA
450 GA
21608090 GT
1 GT
21608092 GGTAAAAAAT
Statistics
Matches: 437, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
450 6 0.01
451 105 0.24
452 126 0.29
453 167 0.38
455 18 0.04
456 15 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (451 bp):
GTAATTAGACCATTTTTTAAGTTAGTGGACAAAAATGGACATGAGGTAAGAGAAATTTTATGTTT
TAAGTTAGGAGCAGTTTTGTCATTTGGTAAATAAATGAATTAAAAAGCAAAATCAAGCCAAAAAC
CTTATCCATATTCTCCCCCTTGTGCCAAAAATTAGAAGGAAGACATAGCTAGGGTTTGGCCAACT
TTCAAGCTCGATTGTAAGTCTATTCTTGTCCCGTTTGTAATGCTCTTTACATTTTTGAAGTCGTT
GACACTCGATCTATCTATTTCTACCACTAATTTGAGAGATGATTAAGGTCTAAGGTTTGACCCAT
GTTAGACATGTGTGTATTTTGATGTTTAATGCTAGATTATGCAAGTTTGATGTTAGATAAACAAG
TTTTGCTAAGTGATTTTTGATGAAACACAAAAGGGACCTATTTGTAAAAGTTATAAAATGA
Found at i:21608851 original size:16 final size:15
Alignment explanation
Indices: 21608825--21608858 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21608815 ATGAACGTAA
*
21608825 AACTCATATGTGATG
1 AACTCATATGTAATG
21608840 AACTCGATATGTAATG
1 AACTC-ATATGTAATG
21608856 AAC
1 AAC
21608859 CTTCGGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (15 bp):
AACTCATATGTAATG
Found at i:21621794 original size:38 final size:38
Alignment explanation
Indices: 21621729--21621831 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
21621719 AGCTTAAAGA
* *
21621729 CCCGCAGGCTTCGTGCTGGTGA-AATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGT-ATTATATCCAGGATAAAT
* *
21621767 CCCGTAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGATAAAT
* * * *
21621805 CTCACAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
21621832 TCGGGCCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.02
38 54 0.98
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCAGGATAAAT
Found at i:21621877 original size:43 final size:43
Alignment explanation
Indices: 21621829--21621940 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
21621819 GCTGGTATTA
*
21621829 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
21621872 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
21621915 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
21621941 GTAATACCGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.10, C:0.26, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:21637126 original size:14 final size:14
Alignment explanation
Indices: 21637107--21637133 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21637097 TTTATTGTTT
21637107 ATTATTATTAATTA
1 ATTATTATTAATTA
21637121 ATTATTATTAATT
1 ATTATTATTAATT
21637134 TTATTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTAATTA
Found at i:21642523 original size:11 final size:12
Alignment explanation
Indices: 21642472--21642551 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 12
21642462 TTTATATTTT
21642472 TTATTTATT-TTA
1 TTATTT-TTCTTA
*
21642484 TTATTTTACTTTA
1 TTATTTTTC-TTA
21642497 CTTCATTTTTCTTA
1 -TT-ATTTTTCTTA
21642511 TTATTTTTC-TA
1 TTATTTTTCTTA
21642522 TTATATTTTTCTT-
1 -T-TATTTTTCTTA
* *
21642535 TTATATTTATTA
1 TTATTTTTCTTA
21642547 -TATTT
1 TTATTT
21642552 AGTTTATTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
11 15 0.27
12 15 0.27
13 13 0.24
14 6 0.11
15 6 0.11
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTTTCTTA
Found at i:21642528 original size:13 final size:13
Alignment explanation
Indices: 21642512--21642542 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21642502 TTTTTCTTAT
21642512 TATTTTTCTATTA
1 TATTTTTCTATTA
*
21642525 TATTTTTCTTTTA
1 TATTTTTCTATTA
21642538 TATTT
1 TATTT
21642543 ATTATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTTCTATTA
Found at i:21642538 original size:27 final size:28
Alignment explanation
Indices: 21642479--21642542 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
21642469 TTTTTATTTA
21642479 TTTTATTATTTTACTTTACTTCATTTTTC
1 TTTTATTATTTTACTTTAC-TCATTTTTC
*
21642508 --TTATTATTTTTCTATTA-T-ATTTTTC
1 TTTTATTATTTTACT-TTACTCATTTTTC
21642533 TTTTA-TATTT
1 TTTTATTATTT
21642543 ATTATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
25 7 0.23
26 6 0.19
27 15 0.48
28 3 0.10
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTTATTATTTTACTTTACTCATTTTTC
Found at i:21642819 original size:13 final size:13
Alignment explanation
Indices: 21642801--21642826 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21642791 CGCTCGATTG
21642801 GATTGGGTAACTA
1 GATTGGGTAACTA
21642814 GATTGGGTAACTA
1 GATTGGGTAACTA
21642827 TGTTCATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
GATTGGGTAACTA
Found at i:21647030 original size:34 final size:34
Alignment explanation
Indices: 21646987--21647059 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
21646977 AACTTCTCAA
21646987 TCTCAACTTTTTGTACAACAGGGTACCTATAAGG
1 TCTCAACTTTTTGTACAACAGGGTACCTATAAGG
21647021 TCTCAACTTTTTGTACAACAGGGTACCTATAAGG
1 TCTCAACTTTTTGTACAACAGGGTACCTATAAGG
21647055 TCTCA
1 TCTCA
21647060 TCCTTACTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (34 bp):
TCTCAACTTTTTGTACAACAGGGTACCTATAAGG
Found at i:21662931 original size:66 final size:64
Alignment explanation
Indices: 21662854--21663021 Score: 232
Period size: 64 Copynumber: 2.6 Consensus size: 64
21662844 TCATTTAGCC
*
21662854 AAATAAAAGTAACTAAAAGCT-TCTTTTTGGTGACGTTTTTTATTATTTCGTTATCTTTTAGTCA
1 AAATAAAAGTAACTAAAAG-TATCTTTTT-GTGACGTTTTTTATTATTTCGTTACCTTTTAGT-A
21662918 AA
63 AA
* *
21662920 AAATAAAAGTAACTAAAAGTATCCATTTTGTGACG-TTTTTATTCTTTCGTTACCTTTTAGTAAA
1 AAATAAAAGTAACTAAAAGTAT-CTTTTTGTGACGTTTTTTATTATTTCGTTACCTTTTAGTAAA
* *
21662984 AAATAAAAGTAACTAAAAATGTCTTTTTTGTGACGTTT
1 AAATAAAAGTAACTAAAAGTATC-TTTTTGTGACGTTT
21663022 CTAAATCGAT
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
63 1 0.01
64 33 0.36
65 27 0.29
66 26 0.28
67 5 0.05
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (64 bp):
AAATAAAAGTAACTAAAAGTATCTTTTTGTGACGTTTTTTATTATTTCGTTACCTTTTAGTAAA
Found at i:21668110 original size:42 final size:43
Alignment explanation
Indices: 21668009--21668129 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
21667999 AACAAGTACA
* * *
21668009 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAACTCAATATAG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATAG
** *
21668052 ATGCCTCTGTCCCAGACAGGGTCTTACACG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATAG
* * *
21668094 ATGCCGATGTCCCAGACATGGTTTTATACGTAAATC
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATC
21668130 TCAATCGAGG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 32 0.50
44 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATAG
Found at i:21670477 original size:18 final size:18
Alignment explanation
Indices: 21670456--21670492 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21670446 TGAGTTTTTG
*
21670456 AATTTGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
*
21670474 AATTCGAATAATTCAAAT
1 AATTCGAATAACTCAAAT
21670492 A
1 A
21670493 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:21671174 original size:18 final size:18
Alignment explanation
Indices: 21671153--21671187 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21671143 AAAAATCACA
21671153 TTTTTACATT-TAAAATAT
1 TTTTTA-ATTCTAAAATAT
21671171 TTTTTAATTCTAAAATA
1 TTTTTAATTCTAAAATA
21671188 CATAGTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAATTCTAAAATAT
Found at i:21672218 original size:22 final size:22
Alignment explanation
Indices: 21672193--21672240 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
21672183 GTTTTGGTCC
*
21672193 TTTTGTTTCTTTTATTTT-CTT
1 TTTTCTTTCTTTTATTTTACTT
* *
21672214 GTTTTCTTTGTTTTTTTTTACTT
1 -TTTTCTTTCTTTTATTTTACTT
21672237 TTTT
1 TTTT
21672241 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.81
Consensus pattern (22 bp):
TTTTCTTTCTTTTATTTTACTT
Found at i:21673170 original size:26 final size:25
Alignment explanation
Indices: 21673060--21673178 Score: 91
Period size: 26 Copynumber: 4.7 Consensus size: 25
21673050 TTTTTGTTGG
* * * *
21673060 TTTTAAACTCTTTTACATATTGTCTA
1 TTTTAAATTTTTTTATATAATGT-TA
* * *
21673086 TATTAAATTTTTATATATACTGTTTA
1 TTTTAAATTTTTTTATATAATG-TTA
* *
21673112 TTTTTAAATTTTTATT-TATTAT-CTA
1 -TTTTAAATTTTT-TTATATAATGTTA
21673137 TTTT-AATTTTTTTATATAATGTTCA
1 TTTTAAATTTTTTTATATAATGTT-A
21673162 TTTTAAATTTTTTTATA
1 TTTTAAATTTTTTTATA
21673179 CATCATTTAC
Statistics
Matches: 73, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
22 2 0.03
23 12 0.16
24 5 0.07
25 7 0.10
26 30 0.41
27 16 0.22
28 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTAAATTTTTTTATATAATGTTA
Found at i:21673174 original size:50 final size:51
Alignment explanation
Indices: 21673077--21673173 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
21673067 CTCTTTTACA
* * *
21673077 TATTGTCTATATTAAATTTTTATATATACTGTTTATTTTTAAATTTTTATT
1 TATTATCTATATTAAATTTTTATATATAATGTTCATTTTTAAATTTTTATT
* *
21673128 TATTATCTAT-TTTAATTTTTTTATATAATGTTCA-TTTTAAATTTTT
1 TATTATCTATATTAAATTTTTATATATAATGTTCATTTTTAAATTTTT
21673174 TTATACATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 12 0.29
50 20 0.49
51 9 0.22
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (51 bp):
TATTATCTATATTAAATTTTTATATATAATGTTCATTTTTAAATTTTTATT
Found at i:21673192 original size:26 final size:26
Alignment explanation
Indices: 21673088--21673360 Score: 148
Period size: 26 Copynumber: 10.6 Consensus size: 26
21673078 ATTGTCTATA
* * * *
21673088 TTAAATTTTTATATATACTGTTTATTT
1 TTAAATTTTTTTATATATTATTTA-CT
* *
21673115 TTAAA--TTTTTATTTATTATCTA-T
1 TTAAATTTTTTTATATATTATTTACT
* * * * *
21673138 TTTAATTTTTTTATATAATGTTCATT
1 TTAAATTTTTTTATATATTATTTACT
* *
21673164 TTAAATTTTTTTATACATCATTTACT
1 TTAAATTTTTTTATATATTATTTACT
* *
21673190 TTAAA--ATTTTATGTATTATTTA-T
1 TTAAATTTTTTTATATATTATTTACT
* * *
21673213 TTTAATTTTTTCCCATATATTATTTATT
1 TTAAATTTTTT--TATATATTATTTACT
* * * * *
21673241 TTAAATCTTTGTGTATATTATCTATT
1 TTAAATTTTTTTATATATTATTTACT
* * * * **
21673267 TTAAAGTTTTATATACATTACTTGGT
1 TTAAATTTTTTTATATATTATTTACT
*
21673293 TTAAATTATTTTATATATTATTTACT
1 TTAAATTTTTTTATATATTATTTACT
*
21673319 TTAAATTTCTTTTACATTATTATTT--T
1 TTAAATTT-TTTTATA-TATTATTTACT
* *
21673345 TAAAATTGTTTTATAT
1 TTAAATTTTTTTATAT
21673361 TTTTTATATA
Statistics
Matches: 183, Mismatches: 53, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
23 10 0.05
24 14 0.08
25 33 0.18
26 87 0.48
27 22 0.12
28 17 0.09
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
TTAAATTTTTTTATATATTATTTACT
Found at i:21673277 original size:77 final size:75
Alignment explanation
Indices: 21673113--21673278 Score: 179
Period size: 77 Copynumber: 2.2 Consensus size: 75
21673103 TACTGTTTAT
* * * * * *
21673113 TTTTAAATTTTTATTTATTATCTATTTTAATTTTTTTATATAATGTTCATTTTAAATTTTTTTAT
1 TTTTAAAATTTTATGTATTATCTATTTTAATTTTTTCATATAATATTCATTTTAAATCTTTGTAT
*
21673178 ACATCATTTA
66 ACATCATCTA
* * * *
21673188 CTTTAAAATTTTATGTATTATTTATTTTAATTTTTTCCCATATATTATTTATTTTAAATCTTTGT
1 TTTTAAAATTTTATGTATTATCTATTTTAATTTTTT--CATATAATATTCATTTTAAATCTTTGT
* * *
21673253 GTATATTATCTA
64 ATACATCATCTA
*
21673265 TTTTAAAGTTTTAT
1 TTTTAAAATTTTAT
21673279 ATACATTACT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
75 32 0.44
77 41 0.56
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (75 bp):
TTTTAAAATTTTATGTATTATCTATTTTAATTTTTTCATATAATATTCATTTTAAATCTTTGTAT
ACATCATCTA
Found at i:21673346 original size:103 final size:102
Alignment explanation
Indices: 21673161--21673350 Score: 222
Period size: 103 Copynumber: 1.8 Consensus size: 102
21673151 TATAATGTTC
* * * * * *
21673161 ATTTTAAATTTTTTTATACATCATTTACTTTAAAATTTTATGTATTATTTATTTTAATTTTTTCC
1 ATTTTAAAGTTTTATATACATCACTTACTTTAAAATTTTATATATTATTTATTTAAATTTTTTCA
21673226 CATATATTATTTATTTTAAATCTTTGTGTATATTATCT
66 CATATATTA-TTATTTTAAATCTTTGTGTATATTATCT
* **
21673264 ATTTTAAAGTTTTATATACATTACTTGGTTTAAATTATTTTATATATTATTTACTTTAAATTTCT
1 ATTTTAAAGTTTTATATACATCACTTACTTTAAA--ATTTTATATATTATTTA-TTTAAATTT-T
* *
21673329 TTTACAT-TATTATT-TTTAAAAT
62 TTCACATATATTATTATTTTAAAT
21673351 TGTTTTATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
103 28 0.39
104 7 0.10
105 18 0.25
106 13 0.18
107 6 0.08
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (102 bp):
ATTTTAAAGTTTTATATACATCACTTACTTTAAAATTTTATATATTATTTATTTAAATTTTTTCA
CATATATTATTATTTTAAATCTTTGTGTATATTATCT
Found at i:21673367 original size:26 final size:26
Alignment explanation
Indices: 21673295--21673367 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 26
21673285 TACTTGGTTT
21673295 AAATTATTTTATATATTATTTA-CTTTA
1 AAATTATTTTATAT-TT-TTTATCTTTA
* * * * *
21673322 AATTTCTTTTACA-TTATTATTTTTA
1 AAATTATTTTATATTTTTTATCTTTA
*
21673347 AAATTGTTTTATATTTTTTAT
1 AAATTATTTTATATTTTTTAT
21673368 ATATTACGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
24 3 0.09
25 16 0.46
26 6 0.17
27 10 0.29
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
AAATTATTTTATATTTTTTATCTTTA
Found at i:21673456 original size:26 final size:26
Alignment explanation
Indices: 21673427--21673511 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
21673417 TTTATATGTA
* *
21673427 ATTTTAAATTGTTTTATAAATTAGTT
1 ATTTTAAATTGTTTTATATATTAATT
* * *
21673453 ATTTTAGATCGTTTTATATATTATTTT
1 ATTTTAAATTGTTTTATATATTA-ATT
*
21673480 ATTTTAAATTGTTTTGTATATTAATT
1 ATTTTAAATTGTTTTATATATTAATT
21673506 -TTTTAA
1 ATTTTAA
21673512 TTATTATTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.12
26 22 0.44
27 22 0.44
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATATATTAATT
Found at i:21673493 original size:27 final size:27
Alignment explanation
Indices: 21673427--21673507 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
21673417 TTTATATGTA
* *
21673427 ATTTTAAATTGTTTTATAAATTA-GTT
1 ATTTTAAATTGTTTTATATATTATTTT
* *
21673453 ATTTTAGATCGTTTTATATATTATTTT
1 ATTTTAAATTGTTTTATATATTATTTT
*
21673480 ATTTTAAATTGTTTTGTATATTAATTTT
1 ATTTTAAATTGTTTTATATATT-ATTTT
21673508 TTAATTATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 20 0.43
27 21 0.46
28 5 0.11
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (27 bp):
ATTTTAAATTGTTTTATATATTATTTT
Found at i:21675725 original size:12 final size:12
Alignment explanation
Indices: 21675708--21675732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21675698 ATAATATATA
21675708 GATTTTAGGGGT
1 GATTTTAGGGGT
21675720 GATTTTAGGGGT
1 GATTTTAGGGGT
21675732 G
1 G
21675733 TCACATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (12 bp):
GATTTTAGGGGT
Found at i:21678089 original size:12 final size:12
Alignment explanation
Indices: 21678038--21678093 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
21678028 TTTCTTTTGT
21678038 TTCTTTTTCTAA-
1 TTCTTTTTC-AAC
* *
21678050 TTCATTTTC-TC
1 TTCTTTTTCAAC
21678061 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
21678074 TTCTTTTTCAAT
1 TTCTTTTTCAAC
21678086 TTCTTTTT
1 TTCTTTTT
21678094 TGTTTCACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 24 0.67
13 7 0.19
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.66
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:21682810 original size:4 final size:4
Alignment explanation
Indices: 21682801--21682829 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
21682791 AATGTATTTA
21682801 AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
21682830 CTCTATGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:21686716 original size:21 final size:19
Alignment explanation
Indices: 21686686--21686739 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
21686676 ATAACACTGC
21686686 ATAAACATATACATATATA
1 ATAAACATATACATATATA
*
21686705 TATTAAAGATATGTACATATATA
1 -A-TAAACATA--TACATATATA
21686728 ATAAACATATAC
1 ATAAACATATAC
21686740 TAATAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 1 0.03
21 14 0.48
22 1 0.03
23 10 0.34
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAACATATACATATATA
Found at i:21686952 original size:41 final size:43
Alignment explanation
Indices: 21686906--21686986 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 43
21686896 TACCCATATA
* * * *
21686906 ATAAAATATATGTACTAATAT-TA-ATAATAAATATAATAGGG
1 ATAAAATAGATATAATAATATATACATAATAAATAAAATAGGG
*
21686947 ATAAAATAGATATAATAATATATACATAATATATAAAATA
1 ATAAAATAGATATAATAATATATACATAATAAATAAAATA
21686987 TATATAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 18 0.55
42 2 0.06
43 13 0.39
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (43 bp):
ATAAAATAGATATAATAATATATACATAATAAATAAAATAGGG
Found at i:21686987 original size:18 final size:18
Alignment explanation
Indices: 21686956--21686999 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21686946 GATAAAATAG
*
21686956 ATATAATAATATATACATA
1 ATAT-ATAAAATATACATA
*
21686975 ATATATAAAATATATATA
1 ATATATAAAATATACATA
21686993 ATATATA
1 ATATATA
21687000 CATATGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAAAATATACATA
Found at i:21687074 original size:12 final size:12
Alignment explanation
Indices: 21687057--21687081 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21687047 CATAAATACG
21687057 TTTATATATATA
1 TTTATATATATA
21687069 TTTATATATATA
1 TTTATATATATA
21687081 T
1 T
21687082 ATAAATGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATATATA
Found at i:21687198 original size:22 final size:22
Alignment explanation
Indices: 21687102--21687225 Score: 62
Period size: 21 Copynumber: 5.5 Consensus size: 22
21687092 ATGGTGTTAG
* *
21687102 AAATATACA-ATATAGTAT-TAG
1 AAATATACATA-ATAATATATAT
21687123 AAATATACATAA-AATAGTATA-
1 AAATATACATAATAATA-TATAT
* *
21687144 AAAGATATATAACTAATA-ATATT
1 AAATATACATAA-TAATATATA-T
21687167 AAAATGTATACATAATAATATATAT
1 -AAA--TATACATAATAATATATAT
* *
21687192 AAATATAATATTAAAAATATATAT
1 AAATAT-ACA-TAATAATATATAT
*
21687216 ACATA-ACATA
1 AAATATACATA
21687226 TATGAAAGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.04
21 26 0.32
22 8 0.10
23 6 0.07
24 22 0.27
25 6 0.07
26 10 0.12
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATATACATAATAATATATAT
Found at i:21687210 original size:24 final size:24
Alignment explanation
Indices: 21687183--21687257 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
21687173 TATACATAAT
*
21687183 AATATATATAAATATAATATTAAA
1 AATATATATACATATAATATTAAA
21687207 AATATATATACATA-ACATATATGAAA
1 AATATATATACATATA-ATAT-T-AAA
* *
21687233 GATATATATATCATATAGTATTAAA
1 AATATATATA-CATATAATATTAAA
21687258 TATTTACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 4 0.09
26 13 0.30
27 7 0.16
28 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
AATATATATACATATAATATTAAA
Found at i:21687217 original size:40 final size:38
Alignment explanation
Indices: 21687148--21687228 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
21687138 AGTATAAAAG
* *
21687148 ATATATAACTAATAATATTAAAATGTATACATAATAAT
1 ATATATAAATAATAATATTAAAATATATACATAATAAT
* *
21687186 ATATATAAAT-ATAATATTAAAA-ATATATATACATAAC
1 ATATATAAATAATAATATTAAAATATATACATA-ATAAT
21687223 ATATAT
1 ATATAT
21687229 GAAAGATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 7 0.18
37 22 0.58
38 9 0.24
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (38 bp):
ATATATAAATAATAATATTAAAATATATACATAATAAT
Found at i:21687361 original size:15 final size:16
Alignment explanation
Indices: 21687296--21687387 Score: 52
Period size: 18 Copynumber: 5.8 Consensus size: 16
21687286 AAAAAACGAC
21687296 TAATAATAATATTAC-A
1 TAATAATAATA-TACAA
21687312 T-A-AAT-ATATAC-A
1 TAATAATAATATACAA
*
21687324 TAATAAAACATATACTAA
1 TAATAATA-ATATAC-AA
*
21687342 TAATAATAATAATATAAA
1 TAATAATAAT-ATA-CAA
**
21687360 TAATGGTAA-ATACAA
1 TAATAATAATATACAA
21687375 TAATAAATAATAT
1 TAAT-AATAATAT
21687388 TTAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 19
0.68 0.09 0.22
Matches are distributed among these distances:
12 5 0.09
13 4 0.07
14 5 0.09
15 7 0.12
16 13 0.22
17 4 0.07
18 20 0.34
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (16 bp):
TAATAATAATATACAA
Found at i:21687876 original size:2 final size:2
Alignment explanation
Indices: 21687869--21687901 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21687859 ATTTGAAAGA
21687869 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
21687902 ATTCTCTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21695324 original size:6 final size:6
Alignment explanation
Indices: 21695313--21695342 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
21695303 GTTGAAATTA
21695313 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
1 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
21695343 TCCTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGCAG
Found at i:21696005 original size:18 final size:17
Alignment explanation
Indices: 21695977--21696011 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21695967 ATTATTAAGA
*
21695977 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21695994 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21696012 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21696260 original size:45 final size:44
Alignment explanation
Indices: 21696171--21696265 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
21696161 TTACACCTCT
*
21696171 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
21696215 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
21696260 ATTACA
1 ATTACA
21696266 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:21696265 original size:16 final size:16
Alignment explanation
Indices: 21696244--21696303 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
21696234 TTGATTTGCT
21696244 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
21696260 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
21696276 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
21696292 AATACACCTCTA
1 ATTACACCTCTA
21696304 ATCTTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:21707046 original size:40 final size:40
Alignment explanation
Indices: 21706969--21707186 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
21706959 AAACCAAGTA
* *
21706969 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21707008 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21707048 CCTTTGGGACTTAGCCCGAATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21707088 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
21707128 CTTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21707168 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21707187 TTATCATCCG
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.09
40 143 0.91
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21708686 original size:66 final size:66
Alignment explanation
Indices: 21708580--21708712 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
21708570 ACCTCATGTT
*
21708580 TTATCATTCTTAATTCACTATTTTATTTTCTAAACTCATAATGCTAATAGAAAATTCATATTATC
1 TTATCAATCTTAATTCACTATTTTATTTTCTAAACTCATAATGCTAATAGAAAATTCATATTATC
21708645 A
66 A
21708646 TTATCAATCTTAATTCACTATTTTATTTTCTAAACTCATAATGCTAATAGAAAATTCATATTATC
1 TTATCAATCTTAATTCACTATTTTATTTTCTAAACTCATAATGCTAATAGAAAATTCATATTATC
21708711 A
66 A
21708712 T
1 T
21708713 CAATGACCCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (66 bp):
TTATCAATCTTAATTCACTATTTTATTTTCTAAACTCATAATGCTAATAGAAAATTCATATTATC
A
Found at i:21715228 original size:40 final size:40
Alignment explanation
Indices: 21715151--21715368 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
21715141 AAACCAAGTA
* *
21715151 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
21715190 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21715230 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21715270 CCTTCGGGACTTATCCCGAATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
21715310 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21715350 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21715369 TTATCATCCG
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 145 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21718447 original size:26 final size:26
Alignment explanation
Indices: 21718418--21718470 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21718408 TCAAACATGC
21718418 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
21718444 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
21718470 A
1 A
21718471 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:21719986 original size:26 final size:26
Alignment explanation
Indices: 21719955--21720062 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
21719945 TGAAATGCCC
* *
21719955 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
21719981 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21720007 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21720033 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21720059 ATCA
1 ATCA
21720063 AATTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21720924 original size:94 final size:95
Alignment explanation
Indices: 21720763--21721135 Score: 436
Period size: 94 Copynumber: 3.9 Consensus size: 95
21720753 CTAGGGAGTT
* *
21720763 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACTTGATAT-GTGTCAGTGTAAGAC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGGTGCCAGTGTAAGAC
*
21720827 CATGTCCGGGACATGGCATAGCACCGATAG
66 CATGTCCGGGACATGGCATAGCACTGATAG
* *
21720857 ATGAGAGCTAGCT-TAAGACCATGTCTGGGACATGGCATCGGCTTGATAT-GTGTCAGTGTAAGA
1 ATGAGAGCTAG-TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGGTGCCAGTGTAAGA
21720920 CCATGTCCGGGACATGGCATAGGCACTGATAG
65 CCATGTCCGGGACATGGCATA-GCACTGATAG
* * *
21720952 ATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCAC-CGATAGATGAGAGCCAGTGT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAT--ATG-GTGCCAGTGT
* * * * *
21721016 AAGACCATGTCTGGAACATGGCATTGGC-CTTAATAT
61 AAGACCATGTCCGGGACATGGCA-TAGCAC-TGATAG
* * *
21721052 ACGAGAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTA-ATGGGTGAGCCAGTGTA
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAT-GGT--GCCAGTGTA
21721115 AGACCATGTCCGGGACATGGC
62 AGACCATGTCCGGGACATGGC
21721136 GTTGGCACCT
Statistics
Matches: 242, Mismatches: 21, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
94 81 0.33
95 46 0.19
96 7 0.03
97 2 0.01
98 32 0.13
99 4 0.02
100 69 0.29
101 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGGTGCCAGTGTAAGAC
CATGTCCGGGACATGGCATAGCACTGATAG
Found at i:21720972 original size:50 final size:48
Alignment explanation
Indices: 21720763--21721135 Score: 322
Period size: 50 Copynumber: 7.8 Consensus size: 48
21720753 CTAGGGAGTT
* *
21720763 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCG-ACTTGAT-
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATGGCAC-TGATA
* * * * *
21720810 ATGTG-TC-AGTGTAAGACCATGTCCGGGACATGGCATAGCACCGATA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATGGCACTGATA
*
21720856 GATGAGAGCTAGCT-TAAGACCATGTCTGGGACATGGCATCGGC-TTGAT-
1 -ATGAGAGCTAG-TGTAAGACCATGTCTGGGACATGGCAT-GGCACTGATA
* * *
21720904 ATGTG-TC-AGTGTAAGACCATGTCCGGGACATGGCATAGGCACTGATA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-GGCACTGATA
* *
21720951 GATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCACCGATA
1 -ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-GGCACTGATA
* * *
21721001 GATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATTGGC-CTTAATA
1 -ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TGGCAC-TGATA
* * * *
21721051 TACGAGAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCG-ACT-TTA
1 -ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATGGCACTGATA
* * *
21721098 ATGGGTGAGCCAGTGTAAGACCATGTCCGGGACATGGC
1 AT--GAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
21721136 GTTGGCACCT
Statistics
Matches: 266, Mismatches: 40, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.00
45 60 0.23
46 9 0.03
47 14 0.05
48 35 0.13
49 34 0.13
50 112 0.42
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATGGCACTGATA
Found at i:21724277 original size:21 final size:20
Alignment explanation
Indices: 21724251--21724295 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
21724241 GATTTTTTAA
*
21724251 AACACTTTGAAAATTACTTTG
1 AACACTTAGAAAA-TACTTTG
* *
21724272 AACACTTAGGAAATATTTTG
1 AACACTTAGAAAATACTTTG
21724292 AACA
1 AACA
21724296 AGTTCAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (20 bp):
AACACTTAGAAAATACTTTG
Found at i:21727426 original size:73 final size:74
Alignment explanation
Indices: 21727339--21727484 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 74
21727329 GGTATAAGGA
21727339 CTAAATTTGAAAAGTGGTAAAAGTTAA-TTTTAATTAATTGAAGGACCAATTGACCAATTGGACC
1 CTAAATTTGAAAAGTGGTAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGACCAATTGGACC
*
21727403 TTTTTTATT
66 TTCTTTATT
* *
21727412 CTAAA-TTGTAAAAGTGGTAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGAGCAATTGGCC
1 CTAAATTTG-AAAAGTGGTAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGACCAATTGGAC
21727476 CTTCTTTAT
65 CTTCTTTAT
21727485 CACGTCAAAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
72 3 0.04
73 23 0.34
74 42 0.62
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (74 bp):
CTAAATTTGAAAAGTGGTAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGACCAATTGGACC
TTCTTTATT
Found at i:21727502 original size:74 final size:71
Alignment explanation
Indices: 21727350--21727502 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 71
21727340 TAAATTTGAA
* *
21727350 AAGTGGTAAAAGTTAATTTTAATTAATTGAAGGACCAATTGACCAATTGGACCTTTTTTATTCTA
1 AAGTGGTAAAAGTTAATTTTAATTAATTGAAGGACCAATTGACCAATTGGACCTTCTTTATACTA
**
21727415 AATTGT
66 AACAGT
* *
21727421 AAAAGTGGTAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGAGCAATTGGCCCTTCTTTATC
1 --AAGTGGTAAAAGTTAA-TTTTAATTAATTGAAGGACCAATTGACCAATTGGACCTTCTTTAT-
21727486 ACGTCAAACAGT
62 AC-T-AAACAGT
21727498 -AGTGG
1 AAGTGG
21727503 ATGCAAATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
73 16 0.23
74 47 0.67
75 1 0.01
76 1 0.01
77 5 0.07
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (71 bp):
AAGTGGTAAAAGTTAATTTTAATTAATTGAAGGACCAATTGACCAATTGGACCTTCTTTATACTA
AACAGT
Found at i:21727583 original size:14 final size:14
Alignment explanation
Indices: 21727564--21727590 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21727554 TTAAGATTTA
21727564 TTTAATTAATTATG
1 TTTAATTAATTATG
21727578 TTTAATTAATTAT
1 TTTAATTAATTAT
21727591 TAACTAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TTTAATTAATTATG
Found at i:21728794 original size:6 final size:6
Alignment explanation
Indices: 21728783--21728809 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21728773 TAGGTTTCCA
21728783 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
21728810 CGATTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:21730183 original size:9 final size:9
Alignment explanation
Indices: 21730169--21730193 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21730159 TTTTGTTTTT
21730169 GTTAATTCG
1 GTTAATTCG
21730178 GTTAATTCG
1 GTTAATTCG
21730187 GTTAATT
1 GTTAATT
21730194 TTTATACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (9 bp):
GTTAATTCG
Found at i:21730510 original size:26 final size:26
Alignment explanation
Indices: 21730468--21730528 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
21730458 AATTTTACCA
* *
21730468 GGGTAAAATTGTCAAAATTTTATT-G
1 GGGTAAAATCGTAAAAATTTTATTAG
21730493 GGAGTAAAATCGTAAAAATTTTATTAG
1 GG-GTAAAATCGTAAAAATTTTATTAG
21730520 GGGTAAAAT
1 GGGTAAAAT
21730529 AGGGATGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 27 0.84
27 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (26 bp):
GGGTAAAATCGTAAAAATTTTATTAG
Found at i:21732464 original size:54 final size:54
Alignment explanation
Indices: 21732396--21732500 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
21732386 CCATAATTAT
* *
21732396 CGTCCTAGTCGACTACCCCAT-TTTTATTGTCCCGATGGACTATCCCATGTTCAC
1 CGTCCTAGTCGACTA-CCCATCGTTTATTGTCCCGATGGACTATCACATGTTCAC
* * * *
21732450 CGTCCTGGTGGACTACCCATCGTTTATTGTCTCGGTGGACTATCACATGTT
1 CGTCCTAGTCGACTACCCATCGTTTATTGTCCCGATGGACTATCACATGTT
21732501 TAATGTCCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 5 0.11
54 39 0.89
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (54 bp):
CGTCCTAGTCGACTACCCATCGTTTATTGTCCCGATGGACTATCACATGTTCAC
Found at i:21732501 original size:27 final size:26
Alignment explanation
Indices: 21732406--21732508 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 26
21732396 CGTCCTAGTC
* * *
21732406 GACTACCCCATTTTTATTGTCCCGATG
1 GACTATCCCATGTTTATTGT-CCGGTG
* **
21732433 GACTATCCCATGTTCACCGTCCTGGTG
1 GACTATCCCATGTTTATTGTCC-GGTG
21732460 GACTA-CCCATCGTTTATTGTCTCGGTG
1 GACTATCCCAT-GTTTATTGTC-CGGTG
* *
21732487 GACTATCACATGTTTAATGTCC
1 GACTATCCCATGTTTATTGTCC
21732509 TAGCAGGCTC
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
26 8 0.13
27 48 0.79
28 5 0.08
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (26 bp):
GACTATCCCATGTTTATTGTCCGGTG
Found at i:21745371 original size:21 final size:20
Alignment explanation
Indices: 21745325--21745374 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
21745315 TTTTTTTTAG
*
21745325 AAATCATAAAAGAATCATAA
1 AAATTATAAAAGAATCATAA
* *
21745345 ATAATTATAAAAGAGTTATAGA
1 A-AATTATAAAAGAATCATA-A
21745367 AAATTATA
1 AAATTATA
21745375 TAAAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATTATAAAAGAATCATAA
Done.