Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008743.1 Hibiscus syriacus cultivar Beakdansim tig00111832_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 979257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:291943 original size:40 final size:40
Alignment explanation
Indices: 291820--292004 Score: 155
Period size: 40 Copynumber: 4.5 Consensus size: 40
291810 AATTTATAAA
*
291820 TCGCAACACAGA-AGTCAAATTCGCAACACAA-AGTCAAAT
1 TCGCAACAC-GATAGTCAAATTCGCAACGCAATAGTCAAAT
* * * *
291859 TCGCAACGCGATAGTCTAATTCGTAACGCGAATTTGT-AAA-
1 TCGCAACACGATAGTCAAATTCGCAACGC-AA-TAGTCAAAT
291899 TCGCAACAC-ATAAGTCAAATTCGCAACGCAATAGTCAAAT
1 TCGCAACACGAT-AGTCAAATTCGCAACGCAATAGTCAAAT
** *
291939 TCGCAATGCGATAGTCAAATTCGCATTCGCAATGCGATAGTCAAAT
1 TCGCAACACGATAGTCAAATTCGCA-ACGC-A----ATAGTCAAAT
* *
291985 TCGCAACGCGAAAGTCAAAT
1 TCGCAACACGATAGTCAAAT
292005 GTTTTTACGC
Statistics
Matches: 118, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
38 5 0.04
39 29 0.25
40 45 0.38
41 8 0.07
42 3 0.03
46 28 0.24
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (40 bp):
TCGCAACACGATAGTCAAATTCGCAACGCAATAGTCAAAT
Found at i:291963 original size:60 final size:61
Alignment explanation
Indices: 291832--291963 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 61
291822 GCAACACAGA
* * *
291832 AGTCAAATTCGCAACACAAAGTCAAATTCGCAACGCGATAGTCTAATTCGTAACGCGAATT
1 AGTCAAATTCGCAACACAAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACGCGAATT
* *
291893 TGT-AAA-TCGCAACACATAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAATGCG-A-T
1 AGTCAAATTCGCAACACA-AAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACGCGAATT
291951 AGTCAAATTCGCA
1 AGTCAAATTCGCA
291964 TTCGCAATGC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 3 0.05
59 14 0.23
60 43 0.69
61 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (61 bp):
AGTCAAATTCGCAACACAAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACGCGAATT
Found at i:291973 original size:26 final size:26
Alignment explanation
Indices: 291937--291989 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
291927 CAATAGTCAA
291937 ATTCGCAATGCGATAGTCAAATTCGC
1 ATTCGCAATGCGATAGTCAAATTCGC
291963 ATTCGCAATGCGATAGTCAAATTCGC
1 ATTCGCAATGCGATAGTCAAATTCGC
291989 A
1 A
291990 ACGCGAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (26 bp):
ATTCGCAATGCGATAGTCAAATTCGC
Found at i:291984 original size:46 final size:46
Alignment explanation
Indices: 291917--292004 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
291907 CATAAGTCAA
* *
291917 ATTCGCAACGCAATAGTCAAATTCGCAATGCGATAGTCAAATTCGC
1 ATTCGCAACGCAATAGTCAAATTCGCAACGCGAAAGTCAAATTCGC
* *
291963 ATTCGCAATGCGATAGTCAAATTCGCAACGCGAAAGTCAAAT
1 ATTCGCAACGCAATAGTCAAATTCGCAACGCGAAAGTCAAAT
292005 GTTTTTACGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (46 bp):
ATTCGCAACGCAATAGTCAAATTCGCAACGCGAAAGTCAAATTCGC
Found at i:292522 original size:19 final size:20
Alignment explanation
Indices: 292500--292543 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
292490 AAAATCGCAA
292500 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
* *
292519 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCAGTTTCGCGT
292539 TGCGA
1 TGCGA
292544 ATTGAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGCGT
Found at i:294181 original size:21 final size:21
Alignment explanation
Indices: 294157--294206 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
294147 GTTAGGGGAA
* *
294157 TTACGTGATGAGGTCAGTGCT
1 TTACGTGACGAGGTCAGTACT
* *
294178 TTACGTCACGAGGTCGGTACT
1 TTACGTGACGAGGTCAGTACT
294199 TTACGTGA
1 TTACGTGA
294207 AGATAATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (21 bp):
TTACGTGACGAGGTCAGTACT
Found at i:296141 original size:28 final size:28
Alignment explanation
Indices: 296072--296149 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
296062 AGATTTATTT
*
296072 TTTGATTAATTGATTTGTAAAAGTTTGA
1 TTTGTTTAATTGATTTGTAAAAGTTTGA
**
296100 TTTGTAAAAGTTGATTTGTAAAAG-TTGA
1 TTTGTTTAA-TTGATTTGTAAAAGTTTGA
*
296128 TTTGTTTAATTTGATGTGTAAA
1 TTTGTTTAA-TTGATTTGTAAA
296150 TAAGAATTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 28 0.67
29 14 0.33
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (28 bp):
TTTGTTTAATTGATTTGTAAAAGTTTGA
Found at i:296142 original size:14 final size:14
Alignment explanation
Indices: 296081--296132 Score: 95
Period size: 14 Copynumber: 3.6 Consensus size: 14
296071 TTTTGATTAA
296081 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
296095 TTTGATTTGTAAAAG
1 -TTGATTTGTAAAAG
296110 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
296124 TTGATTTGT
1 TTGATTTGT
296133 TTAATTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 23 0.62
15 14 0.38
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:296283 original size:20 final size:20
Alignment explanation
Indices: 296258--296295 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
296248 GTTGAAGGTA
*
296258 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
296278 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
296296 TAAGCGTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:296667 original size:18 final size:18
Alignment explanation
Indices: 296644--296679 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
296634 AAGCCGGTTG
*
296644 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
296662 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
296680 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:298971 original size:24 final size:24
Alignment explanation
Indices: 298937--298990 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
298927 CCATCACATC
298937 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
298961 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
298985 ATCAAA
1 ATCAAA
298991 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:299725 original size:14 final size:16
Alignment explanation
Indices: 299690--299726 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
299680 GAAACCATTG
299690 AAAATTATATAGAAAT
1 AAAATTATATAGAAAT
*
299706 AAAATTATGTA-AAA-
1 AAAATTATATAGAAAT
299720 AAAATTA
1 AAAATTA
299727 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAATTATATAGAAAT
Found at i:299901 original size:20 final size:20
Alignment explanation
Indices: 299876--299955 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
299866 TTGTGAAACT
299876 AAATTCGTGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
*
299896 AAATTC-AGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
** * *
299915 ACTTTTGTGTTGTGAATTTG
1 AAATTCGTGTTGCGAATTTG
* *
299935 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
299955 A
1 A
299956 CTATCGCGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (20 bp):
AAATTCGTGTTGCGAATTTG
Found at i:299956 original size:20 final size:20
Alignment explanation
Indices: 299903--299977 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
299893 TTGAAATTCA
* * *
299903 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGC
*
299923 GTTGTGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
299943 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
299963 GTTACGAATTTGACT
1 GTTGCGAATTTGACT
299978 TCTGTGTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:300003 original size:60 final size:61
Alignment explanation
Indices: 299876--300009 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 61
299866 TTGTGAAACT
* * *
299876 AAATTCGTGTTGCGAATTTGAAATTCAGTTGCGAATTTGACTTTTGTGTTGTGAATTTGAC
1 AAATTCGCGTTGCGAATTTGAAATTCAGTTACGAATTTGACTTCTGTGTTGTGAATTTGAC
* * *
299937 -TA-TCGCGTTGCGAATTTG-ACTATCGCGTTACGAATTTGACTTCTGTGTTGTG-ATTT-AC
1 AAATTCGCGTTGCGAATTTGAAAT-TC-AGTTACGAATTTGACTTCTGTGTTGTGAATTTGAC
299995 AAATTCGCGTTGCGA
1 AAATTCGCGTTGCGA
300010 TTTACAGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
58 4 0.06
59 22 0.35
60 36 0.58
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.40
Consensus pattern (61 bp):
AAATTCGCGTTGCGAATTTGAAATTCAGTTACGAATTTGACTTCTGTGTTGTGAATTTGAC
Found at i:300011 original size:20 final size:20
Alignment explanation
Indices: 299983--300029 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
299973 TGACTTCTGT
*
299983 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
300003 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
300023 GTTGCGA
1 GTTGCGA
300030 AATTGGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:300023 original size:60 final size:60
Alignment explanation
Indices: 299907--300030 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
299897 AATTCAGTTG
* * *
299907 CGAATTTGACTTTTGTGTTGTGAATTTGACTATCGCGTTGCGAATTTGACTATCGCGTTA
1 CGAATTTGACTTCTGTGTTGTGAATTTGACAATCGCGTTGCGAATTTGACGATCGCGTTA
*
299967 CGAATTTGACTTCTGTGTTGTG-ATTT-ACAAATTCGCGTTGCG-ATTT-ACAGATTCGCGTTG
1 CGAATTTGACTTCTGTGTTGTGAATTTGAC-AA-TCGCGTTGCGAATTTGAC-GA-TCGCGTTA
300027 CGAA
1 CGAA
300031 ATTGGAAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
58 4 0.07
59 10 0.18
60 42 0.75
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (60 bp):
CGAATTTGACTTCTGTGTTGTGAATTTGACAATCGCGTTGCGAATTTGACGATCGCGTTA
Found at i:300070 original size:20 final size:19
Alignment explanation
Indices: 300016--300070 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
300006 GCGATTTACA
300016 GATTCGCGTTGCGAAATTG
1 GATTCGCGTTGCGAAATTG
** * *
300035 GAAACTGGGTTACGAAATTG
1 GATTC-GCGTTGCGAAATTG
300055 GAGTTCGCGTTGCGAA
1 GA-TTCGCGTTGCGAA
300071 TTTGTTGGTC
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
19 3 0.12
20 22 0.85
21 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (19 bp):
GATTCGCGTTGCGAAATTG
Found at i:300519 original size:21 final size:21
Alignment explanation
Indices: 300490--300529 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
300480 AATTATAAAA
**
300490 TAATATATTTTCAAATTATTT
1 TAATATATTGACAAATTATTT
*
300511 TAATTTATTGACAAATTAT
1 TAATATATTGACAAATTAT
300530 ATATATATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TAATATATTGACAAATTATTT
Found at i:302381 original size:35 final size:37
Alignment explanation
Indices: 302323--302402 Score: 137
Period size: 35 Copynumber: 2.2 Consensus size: 37
302313 TATGTTGGAT
302323 TTTTCAGTTTCAATATCATTCTTACATCCTTGTATCAC
1 TTTTCAGTTT-AATATCATTCTTACATCCTTGTATCAC
302361 TTTTCAGTTT-A-ATCATTCTTACATCCTTGTATCAC
1 TTTTCAGTTTAATATCATTCTTACATCCTTGTATCAC
302396 TTTTCAG
1 TTTTCAG
302403 CTTAGATTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
35 31 0.74
36 1 0.02
38 10 0.24
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (37 bp):
TTTTCAGTTTAATATCATTCTTACATCCTTGTATCAC
Found at i:307209 original size:37 final size:37
Alignment explanation
Indices: 307159--307232 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
307149 TAGTACGTAC
307159 AATTTTGTTAAATGCCCCAACAAAAAATGACGAATTT
1 AATTTTGTTAAATGCCCCAACAAAAAATGACGAATTT
*
307196 AATTTTGTTAAATGCCCCAACAAAAAATGATGAATTT
1 AATTTTGTTAAATGCCCCAACAAAAAATGACGAATTT
307233 TATCATTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
AATTTTGTTAAATGCCCCAACAAAAAATGACGAATTT
Found at i:308376 original size:26 final size:26
Alignment explanation
Indices: 308340--308397 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
308330 AGTCATTGAA
*
308340 TGATTAGGGTTGATACTGTTAATGGT
1 TGATTAGGGTTGATACTGTTAATAGT
*
308366 TGATTGGGGTTGATACTGTTAATAGT
1 TGATTAGGGTTGATACTGTTAATAGT
308392 TGATTA
1 TGATTA
308398 ATGTTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.43
Consensus pattern (26 bp):
TGATTAGGGTTGATACTGTTAATAGT
Found at i:310203 original size:21 final size:21
Alignment explanation
Indices: 310177--310221 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
310167 CTTATTTTTA
* * *
310177 TATTAAGCTTTGATTTAATTT
1 TATTAAACTTTAAATTAATTT
*
310198 TATTAAATTTTAAATTAATTT
1 TATTAAACTTTAAATTAATTT
310219 TAT
1 TAT
310222 ATTATTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTAAACTTTAAATTAATTT
Found at i:318737 original size:23 final size:23
Alignment explanation
Indices: 318702--318756 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
318692 TTTTGTCTAT
318702 AAATAATACTATAAAATTTAATTAA
1 AAATAA-A-TATAAAATTTAATTAA
* ** *
318727 AATTAAATATAATTTTTATTTAA
1 AAATAAATATAAAATTTAATTAA
318750 AAATAAA
1 AAATAAA
318757 CAAAAGGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.76
24 1 0.04
25 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATAAATATAAAATTTAATTAA
Found at i:320458 original size:26 final size:24
Alignment explanation
Indices: 320396--320458 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
320386 TGAAAATGTA
* *
320396 CCATAAAGACAT-AATAAAAAGTG
1 CCATAAAGACATAAAAAAAAAATG
320419 CCATAAAAGA-ATAAGAAAAAAACATG
1 CCAT-AAAGACATAA-AAAAAAA-ATG
320445 CCATAAAGACATAA
1 CCATAAAGACATAA
320459 TTATTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 6 0.18
24 6 0.18
25 11 0.33
26 10 0.30
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (24 bp):
CCATAAAGACATAAAAAAAAAATG
Found at i:320810 original size:2 final size:2
Alignment explanation
Indices: 320803--320828 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
320793 CAAATTTCAC
320803 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
320829 TGTAAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:322842 original size:49 final size:50
Alignment explanation
Indices: 322789--322896 Score: 166
Period size: 50 Copynumber: 2.2 Consensus size: 50
322779 TATTAATATA
322789 TAAAATATAT-TAAAATAATACGAATATATA-TTTTTAAAATATATTAACT
1 TAAAATAT-TGTAAAATAATACGAATATATATTTTTTAAAATATATTAACT
** *
322838 TAAAATATTGTATTATTATACGAATATATATTTTTTAAAATATATTAACT
1 TAAAATATTGTAAAATAATACGAATATATATTTTTTAAAATATATTAACT
322888 TAAAATATT
1 TAAAATATT
322897 TTATTATTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
48 1 0.02
49 25 0.46
50 28 0.52
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (50 bp):
TAAAATATTGTAAAATAATACGAATATATATTTTTTAAAATATATTAACT
Found at i:322894 original size:50 final size:49
Alignment explanation
Indices: 322806--322904 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 49
322796 TATTAAAATA
322806 ATACGAATATATATTTTTAAAATATATTAACTTAAAATATTGTATTATT
1 ATACGAATATATATTTTTAAAATATATTAACTTAAAATATTGTATTATT
*
322855 ATACGAATATATATTTTTTAAAATATATTAACTTAAAATATTTTATTATT
1 ATACGAATATATA-TTTTTAAAATATATTAACTTAAAATATTGTATTATT
322905 GTTTTCATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 13 0.27
50 35 0.73
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (49 bp):
ATACGAATATATATTTTTAAAATATATTAACTTAAAATATTGTATTATT
Found at i:327313 original size:37 final size:39
Alignment explanation
Indices: 327271--327351 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 39
327261 TCATTAAACC
* *
327271 ATTTTAT-ATTTTCAATTTTGTAAA-AAAATATATATAA-
1 ATTTTATGAATTTAAATTTTGTAAAGAAAATATATA-AAT
*
327308 ATTTTATGAATTTAAATTTTTTAAAGAAAATATATAAAT
1 ATTTTATGAATTTAAATTTTGTAAAGAAAATATATAAAT
327347 ATTTT
1 ATTTT
327352 CCAACTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 7 0.18
38 16 0.42
39 15 0.39
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (39 bp):
ATTTTATGAATTTAAATTTTGTAAAGAAAATATATAAAT
Found at i:329997 original size:15 final size:14
Alignment explanation
Indices: 329977--330066 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 14
329967 AAATAATTAA
329977 AATAATATATTTTAT
1 AATAATATA-TTTAT
329992 AATAATATATTTAT
1 AATAATATATTTAT
* *
330006 AATTATTTA-TTAT
1 AATAATATATTTAT
* *
330019 ATTTAA-ACT-GTTA-
1 A-ATAATA-TATTTAT
330032 AATTAATATATTT-T
1 AA-TAATATATTTAT
330046 -ATAATATATTT-T
1 AATAATATATTTAT
330058 AATAATATA
1 AATAATATA
330067 AAAATAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
12 11 0.18
13 19 0.32
14 21 0.35
15 9 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:330064 original size:13 final size:12
Alignment explanation
Indices: 329978--330066 Score: 57
Period size: 12 Copynumber: 7.7 Consensus size: 12
329968 AATAATTAAA
329978 ATAATATATTTT
1 ATAATATATTTT
329990 ATAATAATATATTT
1 ATAAT-ATAT-TTT
330004 ATAAT-TA-TTT
1 ATAATATATTTT
330014 AT--TATA-TTT
1 ATAATATATTTT
* * **
330023 A-AA-CTGTTAA
1 ATAATATATTTT
330033 ATTAATATATTTT
1 A-TAATATATTTT
330046 ATAATATATTTT
1 ATAATATATTTT
330058 AATAATATA
1 -ATAATATA
330067 AAAATAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
8 1 0.02
9 7 0.12
10 7 0.12
12 20 0.34
13 16 0.27
14 8 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (12 bp):
ATAATATATTTT
Found at i:332152 original size:32 final size:32
Alignment explanation
Indices: 332108--332177 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
332098 GGGCCACGGT
*
332108 GCCTAC-CTGAGAATACATCTCAGGGTCTCAGA
1 GCCTACTCTGAGAAT-CATCTCAGGGTCGCAGA
* *
332140 GCCTACTC-GAGAATGATCTCATGGTCGCAGA
1 GCCTACTCTGAGAATCATCTCAGGGTCGCAGA
332171 GCCTACT
1 GCCTACT
332178 TAAGAGTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 21 0.62
32 12 0.35
33 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (32 bp):
GCCTACTCTGAGAATCATCTCAGGGTCGCAGA
Found at i:336428 original size:16 final size:15
Alignment explanation
Indices: 336392--336434 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
336382 AAACACTAGT
*
336392 AGAGAAAGATGAAAG
1 AGAGAAAGATAAAAG
336407 ATGAGAAGAGATAAAAG
1 A-GAGAA-AGATAAAAG
336424 AGAGAGAAGAT
1 AGAGA-AAGAT
336435 GAGTCCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (15 bp):
AGAGAAAGATAAAAG
Found at i:341360 original size:20 final size:18
Alignment explanation
Indices: 341337--341374 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
341327 CACTGAATGT
341337 AAGATTACCAGTGAGAATAA
1 AAGATTACCA-TGA-AATAA
341357 AAGATTACCATGAAATAA
1 AAGATTACCATGAAATAA
341375 GATTATTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (18 bp):
AAGATTACCATGAAATAA
Found at i:341616 original size:37 final size:37
Alignment explanation
Indices: 341543--341617 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
341533 ATTATAAGAT
*
341543 ATTTATATATTTTCTTTAAAAAAATTAAATTAATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATAATAAA
* *
341580 ATTTATATAATTTT-TTTTACAAAATTAAAA-ATATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATTAAAATA-ATAAA
341617 A
1 A
341618 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 27 0.82
38 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATAATAAA
Found at i:342035 original size:14 final size:14
Alignment explanation
Indices: 342016--342043 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
342006 GTATATTTTA
342016 TCCTAAATTAAAAT
1 TCCTAAATTAAAAT
342030 TCCTAAATTAAAAT
1 TCCTAAATTAAAAT
342044 AGTATTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TCCTAAATTAAAAT
Found at i:345345 original size:24 final size:23
Alignment explanation
Indices: 345313--345372 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
345303 CAAAACAAAG
345313 AAGGAAAGAAAAAGGA-AAGAGTAAA
1 AAGG-AAGAAAAAGGAGAA-AG-AAA
* *
345338 AATGAAGAGAAATGGAGAAAGAAA
1 AAGGAAGA-AAAAGGAGAAAGAAA
345362 AAGGAAGAAAA
1 AAGGAAGAAAA
345373 TTAGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 3 0.10
24 14 0.47
25 11 0.37
26 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (23 bp):
AAGGAAGAAAAAGGAGAAAGAAA
Found at i:345379 original size:24 final size:24
Alignment explanation
Indices: 345335--345381 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
345325 AGGAAAGAGT
* *
345335 AAAAATGAAGAGAAATGGAGAAAG
1 AAAAAGGAAGAGAAATAGAGAAAG
345359 AAAAAGGAAGA-AAATTAGAGAAA
1 AAAAAGGAAGAGAAA-TAGAGAAA
345382 AAACTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (24 bp):
AAAAAGGAAGAGAAATAGAGAAAG
Found at i:348673 original size:2 final size:2
Alignment explanation
Indices: 348668--348702 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
348658 GAAGCATTTA
348668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
348703 ATTTTATAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:352197 original size:2 final size:2
Alignment explanation
Indices: 352192--352220 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
352182 ATTTTTTGAT
352192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
352221 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:352399 original size:66 final size:65
Alignment explanation
Indices: 352280--352408 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 65
352270 CGTTTAGATT
*
352280 ATTCTTGCTGGTCAAGTCCAAATTATTTTTAAAAATAAACGTTTATAAATAATAAATCAAATGGC
1 ATTCTTGCTGGTCAAGACCAAATTATTTTTAAAAATAAACGTTTATAAATAATAAATCAAATGGC
*
352345 ATTCTTGCTGGTCAA-ACCTAAATTATTTTTTAAAAATAAACGTTTATAATTAATAAATCAAATG
1 ATTCTTGCTGGTCAAGACC-AAATTA-TTTTTAAAAATAAACGTTTATAAATAATAAATCAAATG
352409 TTAGAGGTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 2 0.03
65 21 0.35
66 37 0.62
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (65 bp):
ATTCTTGCTGGTCAAGACCAAATTATTTTTAAAAATAAACGTTTATAAATAATAAATCAAATGGC
Found at i:355044 original size:3 final size:3
Alignment explanation
Indices: 355036--355070 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
355026 TATTTATTTT
* *
355036 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
355071 TAAAGGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:371138 original size:26 final size:26
Alignment explanation
Indices: 371102--371158 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
371092 TGAGAAAACT
371102 AATTCCAAATACAAATTGTATATTTA
1 AATTCCAAATACAAATTGTATATTTA
371128 AATTCCAAATACAAATTGTATATTTA
1 AATTCCAAATACAAATTGTATATTTA
371154 AATTC
1 AATTC
371159 AATATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.39
Consensus pattern (26 bp):
AATTCCAAATACAAATTGTATATTTA
Found at i:371169 original size:26 final size:26
Alignment explanation
Indices: 371102--371170 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
371092 TGAGAAAACT
*
371102 AATTCCAAATACAAATTGTATATTTA
1 AATTCCAAATAAAAATTGTATATTTA
*
371128 AATTCCAAATACAAATTGTATATTTA
1 AATTCCAAATAAAAATTGTATATTTA
371154 AATT-CAATATAAAAATT
1 AATTCCAA-ATAAAAATT
371171 TAAAATACGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 3 0.07
26 38 0.93
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (26 bp):
AATTCCAAATAAAAATTGTATATTTA
Found at i:372326 original size:117 final size:116
Alignment explanation
Indices: 372150--372441 Score: 424
Period size: 117 Copynumber: 2.5 Consensus size: 116
372140 TTTCCCGAAA
**
372150 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGAAACTGAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-AAACAAAGGAGCCTGCAGTAAT
* * * *
372215 AACGTCTCCATCCAGTCGCTTTCA-TCACTACAATGTGTAGGTTCCTCAGAAC
65 AACGTCCCCATCCAGTCAC-TCCACTCACTACAATGTGTAGGTTCCCCAGAAC
* * * *
372267 CATATACCCACCTGCACACCAGTAAAGACTTACCCTAAGCACATATCAAAGGAGTCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACA-AACAAAGGAGCCTGCAGTAAT
*
372332 AACTTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
65 AACGTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
* *
372384 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACA-AACAAAGGAGCCTG
372442 AAATACTTTC
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
116 4 0.03
117 152 0.97
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (116 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACAAACAAAGGAGCCTGCAGTAATA
ACGTCCCCATCCAGTCACTCCACTCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:373443 original size:28 final size:28
Alignment explanation
Indices: 373401--373539 Score: 138
Period size: 29 Copynumber: 4.9 Consensus size: 28
373391 AAATAATTAT
**
373401 CAAAATAATACCTTTTCGAATTAAATCC
1 CAAAATAGCACCTTTTCGAATTAAATCC
*
373429 CTAAAATAGCA-CTTTTTGAATTAAATTCC
1 C-AAAATAGCACCTTTTCGAATTAAA-TCC
*
373458 TAAAATAGCACCTTTTCCGAA-TAAATTCC
1 CAAAATAGCACCTTTT-CGAATTAAA-TCC
* *
373487 CAAAATAGCACCATTTTTGAATTAATTCC
1 CAAAATAGCACC-TTTTCGAATTAAATCC
* * *
373516 CAAAATAACATCATTTCGAATTAA
1 CAAAATAGCACCTTTTCGAATTAA
373540 TTCCTCGAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
28 33 0.35
29 50 0.54
30 10 0.11
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (28 bp):
CAAAATAGCACCTTTTCGAATTAAATCC
Found at i:373479 original size:58 final size:58
Alignment explanation
Indices: 373374--373543 Score: 188
Period size: 57 Copynumber: 3.0 Consensus size: 58
373364 CATTTTATAG
* * * ** *
373374 AAATAGCACCCTTTTTAAAATAATTATCAAAATAATACCTTTTCGAATTAAA-TCCCTA
1 AAATAGCACCATTTTTGAATTAATTCCCAAAATAACACCTTTTCGAATTAAATTCCC-A
* *
373432 AAATAGCA-C-TTTTTGAATTAAATTCCTAAAATAGCACCTTTTCCGAA-TAAATTCCCA
1 AAATAGCACCATTTTTGAATT-AATTCCCAAAATAACACCTTTT-CGAATTAAATTCCCA
* *
373489 AAATAGCACCATTTTTGAATTAATTCCCAAAATAACATCATTTCGAATT-AATTCC
1 AAATAGCACCATTTTTGAATTAATTCCCAAAATAACACCTTTTCGAATTAAATTCC
373544 TCGAATATCA
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
56 8 0.08
57 41 0.43
58 36 0.38
59 10 0.11
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (58 bp):
AAATAGCACCATTTTTGAATTAATTCCCAAAATAACACCTTTTCGAATTAAATTCCCA
Found at i:373577 original size:87 final size:87
Alignment explanation
Indices: 373470--373640 Score: 220
Period size: 87 Copynumber: 2.0 Consensus size: 87
373460 AAATAGCACC
* * * * **
373470 TTTTCCGAATAAATTCCCAAAATAGCA-CCATTTTTGAATTAATTCCCAAAATAACATC-ATTTC
1 TTTTCCGAAAAAATTACCAAAATAACACCCA-TTTCGAATTAATTCCCAAAATAACA-CAAAATC
*
373533 GAATTAATTCCTCGAATATCAATT
64 GAATTAATTCCTAGAATATCAATT
* * *
373557 TTTTTCGAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCTAGAATAACACAAAATCGA
1 TTTTCCGAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACAAAATCGA
373622 ATTAATTCCTAGAATATCA
66 ATTAATTCCTAGAATATCA
373641 CCCGTAAACG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 68 0.94
88 3 0.04
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.33
Consensus pattern (87 bp):
TTTTCCGAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACAAAATCGA
ATTAATTCCTAGAATATCAATT
Found at i:373609 original size:29 final size:28
Alignment explanation
Indices: 373402--373642 Score: 144
Period size: 28 Copynumber: 8.4 Consensus size: 28
373392 AATAATTATC
* * *
373402 AAAATAATACCTTTTCGAATTAAATCCCT
1 AAAATAACACCATTTCGAATT-AATTCCT
* * *
373431 AAAATAGCA-CTTTTTGAATTAAATTCCT
1 AAAATAACACCATTTCGAATT-AATTCCT
* * * *
373459 AAAATAGCACCTTTTCCGAATAAATTCCC
1 AAAATAACACCATTT-CGAATTAATTCCT
* * *
373488 AAAATAGCACCATTTTTGAATTAATTCCC
1 AAAATAACACCA-TTTCGAATTAATTCCT
*
373517 AAAATAACATCATTTCGAATTAATTCCT
1 AAAATAACACCATTTCGAATTAATTCCT
** * *** **
373545 CGAATATCAATTTTTTTCGAAAAAATTACC-
1 AAAATAAC-A-CCATTTCGAATTAATT-CCT
373575 AAAATAACACCCATTTCGAATTAATTCCT
1 AAAATAACA-CCATTTCGAATTAATTCCT
* * **
373604 AGAATAACACAAAATCGAATTAATTCCT
1 AAAATAACACCATTTCGAATTAATTCCT
* *
373632 AGAATATCACC
1 AAAATAACACC
373643 CGTAAACGAT
Statistics
Matches: 169, Mismatches: 36, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
28 72 0.43
29 71 0.42
30 24 0.14
31 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.32
Consensus pattern (28 bp):
AAAATAACACCATTTCGAATTAATTCCT
Found at i:375707 original size:29 final size:29
Alignment explanation
Indices: 375675--375839 Score: 189
Period size: 27 Copynumber: 5.8 Consensus size: 29
375665 TTTTTAAAAT
*
375675 AATTACCAAAATAGCACATTTTCGAATTA
1 AATTCCCAAAATAGCACATTTTCGAATTA
*
375704 AATTCCTAAAATAGCAC--TTTCGAATTA
1 AATTCCCAAAATAGCACATTTTCGAATTA
* *
375731 AATTCCCAAAATAACACCTTTTTCCGAA-TA
1 AATTCCCAAAATAGCA-CATTTT-CGAATTA
375761 AATTCCCAAAATAGCACCATTTTCGAATT-
1 AATTCCCAAAATAGCA-CATTTTCGAATTA
* *
375790 AATTCCCAAAATAGCATA-TTTCCAATT-
1 AATTCCCAAAATAGCACATTTTCGAATTA
* *
375817 AATTCCCAAAATATCACTTTTTC
1 AATTCCCAAAATAGCACATTTTC
375840 AAAAAAAAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
27 47 0.39
28 6 0.05
29 35 0.29
30 27 0.23
31 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTCCCAAAATAGCACATTTTCGAATTA
Found at i:375732 original size:27 final size:29
Alignment explanation
Indices: 375675--375890 Score: 187
Period size: 29 Copynumber: 7.6 Consensus size: 29
375665 TTTTTAAAAT
* *
375675 AATTACCAAAATAGCACATTTTCGAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
*
375704 AATTCCTAAAATAGCA-C-TTTCGAATTA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
*
375731 AATTCCCAAAATAACACCTTTTTCCGAA-TA
1 AATTCCCAAAATAGCACC-TTTT-CGAATTA
375761 AATTCCCAAAATAGCACCATTTTCGAATT-
1 AATTCCCAAAATAGCACC-TTTTCGAATTA
*
375790 AATTCCCAAAATAGCA--TATTTCCAATT-
1 AATTCCCAAAATAGCACCT-TTTCGAATTA
* * * **
375817 AATTCCCAAAATATCACTTTTTCAAAAAA
1 AATTCCCAAAATAGCACCTTTTCGAATTA
* * * *
375846 AAATACCAAAATAACACCCATTTCGAATT-
1 AATTCCCAAAATAGCA-CCTTTTCGAATTA
* *
375875 AATTCTCAGAATAGCA
1 AATTCCCAAAATAGCA
375891 TCAAAATCGA
Statistics
Matches: 152, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.01
27 47 0.31
28 7 0.05
29 59 0.39
30 34 0.22
31 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCTTTTCGAATTA
Found at i:375801 original size:86 final size:86
Alignment explanation
Indices: 375654--375891 Score: 290
Period size: 85 Copynumber: 2.8 Consensus size: 86
375644 CATTTTACAG
*
375654 AAATAACACCCTTTTT-AAAAT-AATTACCAAAATAGCA-CATTTTCGAATTAAATTCCTAAAAT
1 AAATAACA-CCTTTTTCAAAATAAATTACCAAAATAGCACCATTTTCGAATT-AATTCCCAAAAT
* *
375716 AGCA-CTTTCGAATTAAATTCCCA
64 AGCATATTTCCAATT-AATTCCCA
** *
375739 AAATAACACCTTTTTCCGAATAAATTCCCAAAATAGCACCATTTTCGAATTAATTCCCAAAATAG
1 AAATAACACCTTTTTCAAAATAAATTACCAAAATAGCACCATTTTCGAATTAATTCCCAAAATAG
375804 CATATTTCCAATTAATTCCCA
66 CATATTTCCAATTAATTCCCA
* * * * * *
375825 AAATATCA-CTTTTTCAAAAAAAAATACCAAAATAACACCCA-TTTCGAATTAATTCTCAGAATA
1 AAATAACACCTTTTTCAAAATAAATTACCAAAATAGCA-CCATTTTCGAATTAATTCCCAAAATA
375888 GCAT
65 GCAT
375892 CAAAATCGAA
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
84 7 0.05
85 58 0.44
86 48 0.36
87 20 0.15
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (86 bp):
AAATAACACCTTTTTCAAAATAAATTACCAAAATAGCACCATTTTCGAATTAATTCCCAAAATAG
CATATTTCCAATTAATTCCCA
Found at i:375902 original size:114 final size:115
Alignment explanation
Indices: 375674--375916 Score: 267
Period size: 114 Copynumber: 2.1 Consensus size: 115
375664 CTTTTTAAAA
* * * * ** * *
375674 TAATTACCAAAATAGCACATTTTCGAATTAAATTCCTAAAATAGCACTTTCGAATTAAATTCCCA
1 TAATTCCCAAAATAGCACATTTTCCAATTAAATTCCCAAAATAGCACTTTCAAAAAAAAATACCA
** ***
375739 AAATAACACCTTTTTCCGAATAAATTCCCAAAATAGCACCATTTTCGAAT
66 AAATAACACCCATTTCCGAATAAATTCCCAAAATAGCACCAAAATCGAAT
* *
375789 TAATTCCCAAAATAGCATA-TTTCCAATT-AATTCCCAAAATATCACTTTTTCAAAAAAAAATAC
1 TAATTCCCAAAATAGCACATTTTCCAATTAAATTCCCAAAATAGCAC--TTTCAAAAAAAAATAC
* * * *
375852 CAAAATAACACCCATTT-CGAATTAATTCTCAGAATAGCATCAAAATCGAAT
64 CAAAATAACACCCATTTCCGAATAAATTCCCAAAATAGCACCAAAATCGAAT
*
375903 TAATTCCCAGAATA
1 TAATTCCCAAAATA
375917 TCACCGGTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
113 15 0.14
114 48 0.45
115 43 0.41
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.30
Consensus pattern (115 bp):
TAATTCCCAAAATAGCACATTTTCCAATTAAATTCCCAAAATAGCACTTTCAAAAAAAAATACCA
AAATAACACCCATTTCCGAATAAATTCCCAAAATAGCACCAAAATCGAAT
Found at i:375950 original size:22 final size:22
Alignment explanation
Indices: 375922--375964 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
375912 GAATATCACC
*
375922 GGTCAACGGTCGAGTCGGGTCG
1 GGTCAACGGTCAAGTCGGGTCG
375944 GGTCAACGGTCAAGTCGGGTC
1 GGTCAACGGTCAAGTCGGGTC
375965 AACGGTCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.42, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCAAGTCGGGTCG
Found at i:376001 original size:19 final size:19
Alignment explanation
Indices: 375973--376022 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
375963 TCAACGGTCG
*
375973 GGTCAGACCGGTTC-AGACC
1 GGTCAAACCGGTTCGA-ACC
*
375992 GGTCAAACCGGTTCGAATC
1 GGTCAAACCGGTTCGAACC
376011 GGTCAAACCGGT
1 GGTCAAACCGGT
376023 CAAAACTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCGAACC
Found at i:376003 original size:9 final size:9
Alignment explanation
Indices: 375973--376041 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
375963 TCAACGGTCG
*
375973 GGTCAGACC
1 GGTCAAACC
*
375982 GGTTCAGACC
1 GG-TCAAACC
375992 GGTCAAACC
1 GGTCAAACC
* *
376001 GGTTCGAATC
1 GG-TCAAACC
376011 GGTCAAACC
1 GGTCAAACC
*
376020 GGTCAAAACT
1 GGTC-AAACC
*
376030 GGTTAAACC
1 GGTCAAACC
376039 GGT
1 GGT
376042 TTTCCAGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
9 26 0.53
10 23 0.47
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:377288 original size:21 final size:21
Alignment explanation
Indices: 377264--377314 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
377254 ATAAGGGCAA
377264 TATCGATACCTCATCAAGGAG
1 TATCGATACCTCATCAAGGAG
* *
377285 TATCAATACCTCATTAAGGAG
1 TATCGATACCTCATCAAGGAG
377306 TATCGATAC
1 TATCGATAC
377315 TCAGATGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACCTCATCAAGGAG
Found at i:390714 original size:77 final size:77
Alignment explanation
Indices: 390622--390775 Score: 224
Period size: 77 Copynumber: 2.0 Consensus size: 77
390612 AATTTTAATA
* * *
390622 TTTTTATATATGATAA-CAGTATGATCTCAAATAACTAATGTCTTATGTTAATAATTATATGAAA
1 TTTTTATATATGATAACCA-TATGATCTCAAACAACTAATATCTTAGGTTAATAATTATATGAAA
390686 ATA-TCATAATTAT
65 ATATTC-TAATTAT
*
390699 TTTTTATGA-ATGATAACCATATGATCTCAAACAATTAATATCTTAGGTTAATAATTATATGAAA
1 TTTTTAT-ATATGATAACCATATGATCTCAAACAACTAATATCTTAGGTTAATAATTATATGAAA
390763 ATATTCTAATTAT
65 ATATTCTAATTAT
390776 GCGTTTACTT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
77 65 0.93
78 5 0.07
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (77 bp):
TTTTTATATATGATAACCATATGATCTCAAACAACTAATATCTTAGGTTAATAATTATATGAAAA
TATTCTAATTAT
Found at i:402268 original size:5 final size:5
Alignment explanation
Indices: 402258--402301 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
402248 TACGTTTAAA
*
402258 TATTT TATTT TATTTT TAGTT TATTCT TATTCT TATTT TATTT T
1 TATTT TATTT TA-TTT TATTT TATT-T TATT-T TATTT TATTT T
402302 TTCACTAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 19 0.54
6 16 0.46
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:402280 original size:11 final size:11
Alignment explanation
Indices: 402260--402301 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
402250 CGTTTAAATA
402260 TTTTATTTTAT
1 TTTTATTTTAT
*
402271 TTTTAGTTTAT
1 TTTTATTTTAT
*
402282 TCTTATTCTTA-
1 TTTTATT-TTAT
402293 TTTTATTTT
1 TTTTATTTT
402302 TTCACTAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 2 0.08
11 21 0.81
12 3 0.12
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:403437 original size:38 final size:35
Alignment explanation
Indices: 403384--403459 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 35
403374 GGATTTGTGT
403384 GGAATTAACATGCGGGATAGAGATCATGTCCGGGTA
1 GGAATTAACATGCGGGATAGAGATCATGT-CGGGTA
* * *
403420 GGAATTAAAGCATGCGGGGTAGATATCATGTGGGGTA
1 GGAATT-AA-CATGCGGGATAGAGATCATGTCGGGTA
403457 GGA
1 GGA
403460 TTTTTCGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 6 0.17
37 10 0.29
38 19 0.54
ACGTcount: A:0.30, C:0.11, G:0.37, T:0.22
Consensus pattern (35 bp):
GGAATTAACATGCGGGATAGAGATCATGTCGGGTA
Found at i:407845 original size:106 final size:106
Alignment explanation
Indices: 407314--407844 Score: 854
Period size: 106 Copynumber: 5.0 Consensus size: 106
407304 ATATCGTGCC
* *
407314 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
407379 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
407420 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC---TTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
**
407482 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
407523 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
407588 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
407629 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
407694 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
407735 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * *
407800 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
407841 ACTC
1 ACTC
407845 GGAACAATGC
Statistics
Matches: 397, Mismatches: 24, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
103 100 0.25
105 1 0.00
106 296 0.75
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:409373 original size:5 final size:5
Alignment explanation
Indices: 409363--409406 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
409353 TACGTTTAAA
*
409363 TATTT TATTT TATTTT TAGTT TATTCT TATTCT TATTT TATTT T
1 TATTT TATTT TA-TTT TATTT TATT-T TATT-T TATTT TATTT T
409407 TTCACTAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 19 0.54
6 16 0.46
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:409385 original size:11 final size:11
Alignment explanation
Indices: 409365--409406 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
409355 CGTTTAAATA
409365 TTTTATTTTAT
1 TTTTATTTTAT
*
409376 TTTTAGTTTAT
1 TTTTATTTTAT
*
409387 TCTTATTCTTA-
1 TTTTATT-TTAT
409398 TTTTATTTT
1 TTTTATTTT
409407 TTCACTAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 2 0.08
11 21 0.81
12 3 0.12
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:411544 original size:2 final size:2
Alignment explanation
Indices: 411537--411573 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
411527 AATTCATACA
411537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
411574 ATTTTGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:413683 original size:29 final size:30
Alignment explanation
Indices: 413625--413699 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
413615 CTTTGGGGAT
*
413625 TGCATGGCGACCTACCTAGGTCGTTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
**
413655 TGCATGGCGACCT-GGTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
*
413684 TGCATGGAGACCTACC
1 TGCATGGCGACCTACC
413700 CCAGGACGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.21
Consensus pattern (30 bp):
TGCATGGCGACCTACCTAGGTCGCTGGGCG
Found at i:419641 original size:2 final size:2
Alignment explanation
Indices: 419634--419658 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
419624 GAAATTAAAC
419634 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
419659 ATAAGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:420670 original size:8 final size:9
Alignment explanation
Indices: 420633--420681 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
420623 ATGATAAAAT
420633 TAATA-ATA
1 TAATATATA
*
420641 TTATATATA
1 TAATATATA
420650 TATATATATA
1 TA-ATATATA
420660 TAAT-TATA
1 TAATATATA
*
420668 TAATACA-A
1 TAATATATA
420676 TAATAT
1 TAATAT
420682 TACTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 18 0.53
9 7 0.21
10 9 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATATATA
Found at i:421236 original size:31 final size:31
Alignment explanation
Indices: 421201--421326 Score: 105
Period size: 31 Copynumber: 3.9 Consensus size: 31
421191 AATTCAAATA
421201 TTTTGTGTTTCAAGAGAAACTATCTCAAGGG
1 TTTTGTGTTTCAAGAGAAACTATCTCAAGGG
* *
421232 TTTTGTGTTTCAAGAGAAAC-ATTTTCAAAGGTTTTT
1 TTTTGTGTTTCAAGAGAAACTA-TCTC-AAGG----G
* * *
421268 TTTGTGTGTTTCAAGAGAAACAATTTCAAAGG
1 TTT-TGTGTTTCAAGAGAAACTATCTCAAGGG
* *
421300 --TTGTGTTTCAAGGGAAACTGTCTCAAG
1 TTTTGTGTTTCAAGAGAAACTATCTCAAG
421327 AGAGACAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
29 21 0.27
30 2 0.03
31 23 0.29
32 4 0.05
36 6 0.08
37 21 0.27
38 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (31 bp):
TTTTGTGTTTCAAGAGAAACTATCTCAAGGG
Found at i:421350 original size:36 final size:36
Alignment explanation
Indices: 421303--421442 Score: 253
Period size: 36 Copynumber: 3.9 Consensus size: 36
421293 TCAAAGGTTG
*
421303 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
*
421339 TGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
421375 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
*
421411 TGTTTGAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
421443 TGGTGAGCAC
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
Found at i:421383 original size:21 final size:19
Alignment explanation
Indices: 421314--421442 Score: 75
Period size: 15 Copynumber: 7.1 Consensus size: 19
421304 GTTTCAAGGG
421314 AAACTGTCTCAAGAGAGAC
1 AAACTGTCTCAAGAGAGAC
* *
421333 AAAATTTGTTTCAAG-G-G--
1 -AAA-CTGTCTCAAGAGAGAC
421350 AAACTGTCTCAAGAGAGAC
1 AAACTGTCTCAAGAGAGAC
*
421369 TAAACTTGTTTCAAG-G-G--
1 -AAAC-TGTCTCAAGAGAGAC
421386 AAACTGTCTCAAGAGAGAC
1 AAACTGTCTCAAGAGAGAC
* *
421405 AAAACTTGTTTGAAG-G-G--
1 -AAAC-TGTCTCAAGAGAGAC
421422 AAACTGTCTCAAGAGAGAC
1 AAACTGTCTCAAGAGAGAC
421441 AA
1 AA
421443 TGGTGAGCAC
Statistics
Matches: 82, Mismatches: 10, Indels: 35
0.65 0.08 0.28
Matches are distributed among these distances:
15 23 0.28
16 14 0.17
17 3 0.04
19 5 0.06
20 14 0.17
21 23 0.28
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (19 bp):
AAACTGTCTCAAGAGAGAC
Found at i:421817 original size:43 final size:43
Alignment explanation
Indices: 421756--421871 Score: 214
Period size: 43 Copynumber: 2.7 Consensus size: 43
421746 TCAAAATGGC
*
421756 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGTGTGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTGGGT
421799 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTGGGT
*
421842 ACGATATCCTCCGTCGTGGAGTTAAAATCG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCG
421872 CGAATGGCCC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTGGGT
Found at i:422190 original size:36 final size:36
Alignment explanation
Indices: 422143--422211 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
422133 AAAGATTTTT
*
422143 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
* *
422179 TTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
422212 CTTCTAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTG
Found at i:422279 original size:70 final size:70
Alignment explanation
Indices: 422152--422341 Score: 183
Period size: 70 Copynumber: 2.7 Consensus size: 70
422142 TTTTCAAGGG
* * ** * *
422152 AAACTGTCTCAAGAGAGACAAAAT-TTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 AAACAGTCTCAAGAGAGAC-AAATCTTGTTTTAAGAAAAACAATCTCAAGCGAAAT-AAATCTTC
422216 -T-AGTGA
64 TTCAGT-A
* * ** *
422222 AAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTT
1 AAACAGTCTCAAGAGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAAATAAATCTTC-T
422287 TCGAGTA
65 TC-AGTA
*
422294 AAACAGTCTCAAGTGAGACAAAGTC-TGTTTTAA-AAAAACAATCTCAAG
1 AAACAGTCTCAAGAGAGACAAA-TCTTGTTTTAAGAAAAACAATCTCAAG
422342 TGAGATAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
69 12 0.12
70 40 0.40
71 14 0.14
72 29 0.29
73 5 0.05
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (70 bp):
AAACAGTCTCAAGAGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAAATAAATCTTCTT
CAGTA
Found at i:422281 original size:36 final size:36
Alignment explanation
Indices: 422228--422344 Score: 112
Period size: 36 Copynumber: 3.3 Consensus size: 36
422218 GTGAAAACGG
* *
422228 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
** * * ** * *
422264 TCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAG
1 TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
*
422300 TCTCAAGTGAGACAAAGTC-TGTTTTAA-AAAAACAA
1 TCTCAAGTGAAACAAA-TCTTGTTTTAAGAAAAACAA
422335 TCTCAAGTGA
1 TCTCAAGTGA
422345 GATAATCATC
Statistics
Matches: 61, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
35 16 0.26
36 43 0.70
37 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
Found at i:423135 original size:23 final size:23
Alignment explanation
Indices: 423080--423135 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
423070 TTGTGTTTGG
423080 TCAAAGGTTTGGCATTTGATGCT
1 TCAAAGGTTTGGCATTTGATGCT
*
423103 T-GAAGGTTTGGCATTTGATGCT
1 TCAAAGGTTTGGCATTTGATGCT
423125 TCAAAGGTTTG
1 TCAAAGGTTTG
423136 ATGGGGTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (23 bp):
TCAAAGGTTTGGCATTTGATGCT
Found at i:423772 original size:12 final size:11
Alignment explanation
Indices: 423757--423812 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
423747 TCTTTTTGAT
423757 TTTTGTTCTTTC
1 TTTT-TTCTTTC
423769 TTTTTTTCTTTGC
1 -TTTTTTCTTT-C
*
423782 -TTTTTCTTTG
1 TTTTTTCTTTC
423792 TTTTTT-TTCTC
1 TTTTTTCTT-TC
423803 TTTTTTCTTT
1 TTTTTTCTTT
423813 TGTTCTGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.05
11 22 0.59
12 8 0.22
13 5 0.14
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:423772 original size:13 final size:13
Alignment explanation
Indices: 423742--423801 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
423732 CTTTTTGTCC
423742 CTTTTTCTT-TTTG
1 CTTTTT-TTCTTTG
*
423755 ATTTTTGTTCTTT-
1 CTTTTT-TTCTTTG
423768 CTTTTTTTCTTTG
1 CTTTTTTTCTTTG
423781 C--TTTTTCTTTG
1 CTTTTTTTCTTTG
*
423792 TTTTTTTTCT
1 CTTTTTTTCT
423802 CTTTTTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 10 0.26
12 6 0.15
13 20 0.51
14 3 0.08
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (13 bp):
CTTTTTTTCTTTG
Found at i:423786 original size:33 final size:33
Alignment explanation
Indices: 423748--423812 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
423738 GTCCCTTTTT
423748 CTTTTTGATTT-TTGTTCTTTCT-TTTTTTCTTTG
1 CTTTTT-ATTTGTT-TTCTTTCTCTTTTTTCTTTG
* *
423781 CTTTTTCTTTGTTTTTTTTCTCTTTTTTCTTT
1 CTTTTTATTTGTTTTCTTTCTCTTTTTTCTTT
423813 TGTTCTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.02, C:0.14, G:0.06, T:0.78
Consensus pattern (33 bp):
CTTTTTATTTGTTTTCTTTCTCTTTTTTCTTTG
Found at i:430443 original size:16 final size:17
Alignment explanation
Indices: 430422--430467 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
430412 TAGGACAAAC
430422 TATAAATTTTAAAT-AA
1 TATAAATTTTAAATAAA
*
430438 TATAAA-ATTAAATAAA
1 TATAAATTTTAAATAAA
430454 TATAAATTTTAAAT
1 TATAAATTTTAAAT
430468 TATTTATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 14 0.54
17 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAATTTTAAATAAA
Found at i:430763 original size:22 final size:22
Alignment explanation
Indices: 430733--430789 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
430723 CAAAAATTGT
*
430733 TCAAGTTTTTATCTT-ATTTTG
1 TCAAATTTTTATCTTGATTTTG
*
430754 TACAAATTTTTATCTTGTTTTTG
1 T-CAAATTTTTATCTTGATTTTG
430777 T-AAATTTTT-TCTT
1 TCAAATTTTTATCTT
430790 TTCAGTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 4 0.12
21 9 0.28
22 13 0.41
23 6 0.19
ACGTcount: A:0.21, C:0.09, G:0.07, T:0.63
Consensus pattern (22 bp):
TCAAATTTTTATCTTGATTTTG
Found at i:431040 original size:21 final size:21
Alignment explanation
Indices: 431014--431053 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
431004 ATCGCAAATT
*
431014 GTGAACAGTGTTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
431035 GTGAACAGTGCTATCGCAA
1 GTGAACAGTGCTATCGCAA
431054 TAATTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAACG
Found at i:431088 original size:21 final size:21
Alignment explanation
Indices: 431062--431112 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
431052 AATAATTTTA
431062 GACTATCGCAACGCGAATTCG
1 GACTATCGCAACGCGAATTCG
*
431083 GACTATCGCAACGCGAATTTG
1 GACTATCGCAACGCGAATTCG
*
431104 GATTATCGC
1 GACTATCGC
431113 GTTGCTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (21 bp):
GACTATCGCAACGCGAATTCG
Found at i:431644 original size:20 final size:20
Alignment explanation
Indices: 431602--431674 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
431592 ATTCGATATG
431602 AAATAATATATTTATTAAAA
1 AAATAATATATTTATTAAAA
* * * *
431622 AAATATTATTTTTATTCATA
1 AAATAATATATTTATTAAAA
* * * *
431642 AAATTAGAGATTTAATTTAAA
1 AAATAATATATTT-ATTAAAA
431663 AAATATATATAT
1 AAATA-ATATAT
431675 ATGTATTATT
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 24 0.65
21 9 0.24
22 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATAATATATTTATTAAAA
Found at i:446393 original size:37 final size:37
Alignment explanation
Indices: 446340--446444 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
446330 CCTTTTCGTC
*
446340 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
446377 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
446414 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
446445 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:446992 original size:2 final size:2
Alignment explanation
Indices: 446987--447024 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
446977 GTTATTACCA
446987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
447025 TTATTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:447105 original size:2 final size:2
Alignment explanation
Indices: 447093--447124 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
447083 TCTACTTATT
447093 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
447125 TTCATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:447193 original size:12 final size:11
Alignment explanation
Indices: 447171--447211 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
447161 TCTTTCTTTT
447171 TATTATTCTTG
1 TATTATTCTTG
447182 TATTATTACTTG
1 TATTATT-CTTG
* *
447194 TATTATTTTTA
1 TATTATTCTTG
447205 TATTATT
1 TATTATT
447212 TATTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:447439 original size:2 final size:2
Alignment explanation
Indices: 447434--447464 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
447424 ATTTTACTAT
447434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
447465 TCTACACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:452154 original size:7 final size:7
Alignment explanation
Indices: 452137--452218 Score: 69
Period size: 7 Copynumber: 11.6 Consensus size: 7
452127 CAATCAGAAC
452137 AAAAAGAA
1 AAAAAG-A
452145 AAAAAGA
1 AAAAAGA
452152 AAAAAGA
1 AAAAAGA
452159 AAAGAAGCA
1 AAA-AAG-A
452168 AAAAAGA
1 AAAAAGA
*
452175 AGAAA-A
1 AAAAAGA
*
452181 CAAAAGA
1 AAAAAGA
452188 AAAAAGA
1 AAAAAGA
* *
452195 AAGAA-C
1 AAAAAGA
**
452201 AAAAATC
1 AAAAAGA
452208 AAAAAGA
1 AAAAAGA
452215 AAAA
1 AAAA
452219 GGGACAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
6 8 0.13
7 37 0.61
8 12 0.20
9 4 0.07
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:452163 original size:20 final size:21
Alignment explanation
Indices: 452138--452218 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 21
452128 AATCAGAACA
*
452138 AAAAGA-AAAAAAGAAAAAAG
1 AAAAGACAAAAAAGAAAAAAC
452158 AAAAGAAGCAAAAAAGAAGAAAAC
1 AAAAG-A-CAAAAAAGAA-AAAAC
*
452182 AAAAG--AAAAAAGAAAGAAC
1 AAAAGACAAAAAAGAAAAAAC
452201 AAAA-ATC-AAAAAGAAAAA
1 AAAAGA-CAAAAAAGAAAAA
452219 GGGACAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
19 8 0.16
20 24 0.47
21 1 0.02
23 9 0.18
24 9 0.18
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.01
Consensus pattern (21 bp):
AAAAGACAAAAAAGAAAAAAC
Found at i:452174 original size:23 final size:24
Alignment explanation
Indices: 452144--452188 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
452134 AACAAAAAGA
*
452144 AAAAAAGAA-AAAAGAAAAGAAGC
1 AAAAAAGAAGAAAACAAAAGAAGC
452167 AAAAAAGAAGAAAACAAAAGAA
1 AAAAAAGAAGAAAACAAAAGAA
452189 AAAAGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAGAAAACAAAAGAAGC
Found at i:452175 original size:31 final size:31
Alignment explanation
Indices: 452137--452195 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
452127 CAATCAGAAC
*
452137 AAAAAGAAAAAAAGAAAA-AAGAAAAGAAGCA
1 AAAAAGAAAAAAACAAAAGAA-AAAAGAAGCA
*
452168 AAAAAGAAGAAAACAAAAGAAAAAAGAA
1 AAAAAGAAAAAAACAAAAGAAAAAAGAA
452196 AGAACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.00
Consensus pattern (31 bp):
AAAAAGAAAAAAACAAAAGAAAAAAGAAGCA
Found at i:452898 original size:22 final size:22
Alignment explanation
Indices: 452826--452901 Score: 134
Period size: 22 Copynumber: 3.5 Consensus size: 22
452816 CTACCCCATT
*
452826 AAACCATTGAGCATCAAATGCC
1 AAACCTTTGAGCATCAAATGCC
*
452848 AAACCTATGAGCATCAAATGCC
1 AAACCTTTGAGCATCAAATGCC
452870 AAACCTTTGAGCATCAAATGCC
1 AAACCTTTGAGCATCAAATGCC
452892 AAACCTTTGA
1 AAACCTTTGA
452902 CCAAACATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (22 bp):
AAACCTTTGAGCATCAAATGCC
Found at i:453120 original size:24 final size:24
Alignment explanation
Indices: 453092--453154 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
453082 GGGTCAATAT
453092 TTTCAAAACTTTTAATTAAACATC
1 TTTCAAAACTTTTAATTAAACATC
* *
453116 TTTCAAAACTCTTGATTAAACATC
1 TTTCAAAACTTTTAATTAAACATC
*
453140 TTTCGAAACTCTTTA
1 TTTCAAAACT-TTTA
453155 TTGATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (24 bp):
TTTCAAAACTTTTAATTAAACATC
Found at i:453884 original size:106 final size:106
Alignment explanation
Indices: 453727--455102 Score: 2097
Period size: 106 Copynumber: 13.0 Consensus size: 106
453717 ATATCGTGCC
* * * * *
453727 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
453792 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
453833 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
453898 AATTTCAGAGCTAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
453939 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
454004 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
454045 ACTCAAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAAATTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
**
454110 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
454151 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
454216 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGTTATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
454257 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
454322 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
454363 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
454428 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
454469 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
454534 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
454575 ACTCCACACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATTAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
454640 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
454681 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTGAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
454746 AATTTTAGAGTCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
454787 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
454852 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
454893 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGG-GCGACTGATTGTCAAT-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAACTTC
* * * *
454952 TC-ATTT-AGAGTCAATTTCAACTTCACAACGAATGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
454993 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAACTTCC
** * *
455057 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
455099 ACTC
1 ACTC
455103 ATAACAATGC
Statistics
Matches: 1172, Mismatches: 87, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
100 75 0.06
101 7 0.01
102 3 0.00
103 4 0.00
104 4 0.00
105 7 0.01
106 1072 0.91
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:455886 original size:37 final size:37
Alignment explanation
Indices: 455833--455929 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
455823 CCTTTTCGTC
455833 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* * * *
455870 TTGCTAGGATTCAAACTTCTAAAAATAAGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* *
455907 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
455930 GATAGGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
Found at i:456616 original size:16 final size:16
Alignment explanation
Indices: 456584--456629 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
456574 TACTTATTTA
*
456584 TATTATATATGTA-TAT
1 TATTATAT-TTTATTAT
*
456600 TTTTATATTTTATTAT
1 TATTATATTTTATTAT
456616 TATTATATTTTATT
1 TATTATATTTTATT
456630 TTACTTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATATTTTATTAT
Found at i:456631 original size:21 final size:21
Alignment explanation
Indices: 456514--456632 Score: 70
Period size: 21 Copynumber: 5.6 Consensus size: 21
456504 TTTGCATTTT
*
456514 TATTTT-TATTATTACTATTA
1 TATTTTATTTTATTACTATTA
*
456534 TATTTATTATTGTTTTTACTATTA
1 TA-TT-TTATT-TTATTACTATTA
*
456558 TATTTTCCTTTTATT-CTACTTA
1 TATTTT-ATTTTATTACTA-TTA
*
456580 T-TTATATTATATATGTA-TATT-
1 TATTTTATT-T-TAT-TACTATTA
* *
456601 T-TTATATTTTATTATTATTA
1 TATTTTATTTTATTACTATTA
456621 TATTTTATTTTA
1 TATTTTATTTTA
456633 CTTTCTCTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
18 2 0.03
19 7 0.09
20 6 0.08
21 26 0.33
22 17 0.22
23 8 0.10
24 13 0.16
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTTATTTTATTACTATTA
Found at i:456667 original size:12 final size:11
Alignment explanation
Indices: 456645--456683 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
456635 TTCTCTTTTT
456645 TTATTCTTGTA
1 TTATTCTTGTA
456656 TTATTACTTGTA
1 TTATT-CTTGTA
* *
456668 TTATTTTTATA
1 TTATTCTTGTA
456679 TTATT
1 TTATT
456684 TATTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (11 bp):
TTATTCTTGTA
Found at i:456699 original size:2 final size:2
Alignment explanation
Indices: 456692--456740 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
456682 TTTATTTTGT
456692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
456734 TA TA TA T
1 TA TA TA T
456741 GTATGTTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:462063 original size:3 final size:3
Alignment explanation
Indices: 462057--462082 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
462047 TCAAAAAACC
462057 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
462083 CTGCATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:462996 original size:29 final size:29
Alignment explanation
Indices: 462953--463035 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
462943 CTCACCTAAC
462953 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
462983 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
463012 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
463036 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:467752 original size:29 final size:29
Alignment explanation
Indices: 467709--467791 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
467699 CTCACCTAAC
467709 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
467739 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
467768 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
467792 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:469220 original size:22 final size:20
Alignment explanation
Indices: 469187--469230 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
469177 AAAAAATATT
*
469187 TTATTTTATTTTAAATTTAA
1 TTATTTTATTTTAAAATTAA
469207 TTATTTTAATTTTTAAAATTAA
1 TTATTTT-A-TTTTAAAATTAA
469229 TT
1 TT
469231 GAAATTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 1 0.05
22 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTTTATTTTAAAATTAA
Found at i:478351 original size:18 final size:17
Alignment explanation
Indices: 478328--478375 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
478318 AATATATTTA
478328 AAAACAATAAAATAAAT
1 AAAACAATAAAATAAAT
*
478345 GAAAACATATAAAATAACT
1 -AAAACA-ATAAAATAAAT
478364 AAAA-AATAAAAT
1 AAAACAATAAAAT
478376 TAAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.25
17 1 0.04
18 10 0.36
19 10 0.36
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAACAATAAAATAAAT
Found at i:478368 original size:19 final size:18
Alignment explanation
Indices: 478326--478368 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
478316 ACAATATATT
478326 TAAAAACAATAAAATAAA
1 TAAAAACAATAAAATAAA
* *
478344 TGAAAACATATAAAATAAC
1 TAAAAACA-ATAAAATAAA
478363 TAAAAA
1 TAAAAA
478369 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAAACAATAAAATAAA
Found at i:479212 original size:24 final size:25
Alignment explanation
Indices: 479165--479225 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
479155 TAGTTTGGAT
479165 TTTCTCTGTTTTTTTTTCTATGTCTC
1 TTTCTC-GTTTTTTTTTCTATGTCTC
479191 TTTCTCGTCTTTTTTTT-T-TGTCTC
1 TTTCTCGT-TTTTTTTTCTATGTCTC
479215 TCTGTCTCGTT
1 T-T-TCTCGTT
479226 GTATATCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 7 0.22
25 5 0.16
26 20 0.62
ACGTcount: A:0.02, C:0.21, G:0.10, T:0.67
Consensus pattern (25 bp):
TTTCTCGTTTTTTTTTCTATGTCTC
Found at i:479742 original size:3 final size:3
Alignment explanation
Indices: 479734--479792 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
479724 TAATATAAAT
479734 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
479782 TAA TAA TAA TA
1 TAA TAA TAA TA
479793 TGGATAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:480079 original size:117 final size:112
Alignment explanation
Indices: 479929--480580 Score: 837
Period size: 117 Copynumber: 5.7 Consensus size: 112
479919 TTTGAATAAA
** *
479929 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCT-CTGGCAAAGATGATCCATC
*
479993 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 AAATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* *
480042 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCA
1 TTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAA-CTTCTCTGGCAAAGATGATCCA
* * *
480107 TCAAGTGATGAA-TTCAGAAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 TCAAATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
480157 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGGCAAAGATGATCCATCA
* * * *
480222 AGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
*
480270 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAAAGTTGATCC
1 TTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCT--CTGGCAAAGATGATCC
* *
480334 ATCAAATGATGAATTTAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 ATCAAATGATGAATTTAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
*
480387 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAAAGTTGATCC
1 TTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCT--CTGGCAAAGATGATCC
* *
480451 ATCAAATGATGAATTTAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 ATCAAATGATGAATTTAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
480504 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCTAACTGGAAAAGATGATCCACC
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT--CTGGCAAAGATGATCCATC
* *
480568 AGATGATGGATTT
64 AAATGATGAATTT
480581 GATTCTTTGT
Statistics
Matches: 493, Mismatches: 34, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
112 49 0.10
113 60 0.12
114 67 0.14
115 55 0.11
116 73 0.15
117 188 0.38
118 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAGATGATCCATCAA
ATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
Found at i:480336 original size:228 final size:230
Alignment explanation
Indices: 479929--480580 Score: 915
Period size: 228 Copynumber: 2.8 Consensus size: 230
479919 TTTGAATAAA
* ** *
479929 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATGATCCATC
*
479993 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTC
65 AAATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTC
* * * *
480058 AGATGACGAGTTCTTCTCATTATGAAC-CTTCTCTGGCAAAAATAATCCATCAAGTGATGAA-TT
130 AGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAGATGATCCATCAAATGATGAATTT
* *
480121 CAG-AAAAAGATTGAACAAGTTCTTCTCATTATGAAC
194 AAGCAAAAAGATTGAACAAATTCTTCTCATTATGAAC
* *
480157 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* * * *
480222 AGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCA
66 AATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCA
*
480287 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGTTGATCCATCAAATGATGAATTTAA
131 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATGATCCATCAAATGATGAATTTAA
*
480352 GCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
196 GCAAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
480387 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAGTTGATCC
1 TTCTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATGATCC
* * *
480451 ATCAAATGATGAATTTAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
62 ATCAAATGATGAATTTAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTT
* * * * *
480516 CTTCAGAT---GAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCACCAGATGATGGA
126 CTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATGATCCATCAAATGATGAA
480578 TTT
191 TTT
480581 GATTCTTTGT
Statistics
Matches: 379, Mismatches: 36, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
228 133 0.35
229 43 0.11
230 50 0.13
231 51 0.13
233 51 0.13
234 51 0.13
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (230 bp):
TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
AATGATGAATTTAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCA
GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGATGATCCATCAAATGATGAATTTAA
GCAAAAAGATTGAACAAATTCTTCTCATTATGAAC
Found at i:481269 original size:47 final size:50
Alignment explanation
Indices: 481199--481304 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 50
481189 TCTAAATTCA
*
481199 ATGCT-TGATTCTGTCCAA--TCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGATTCTGTCCAACCACAGATAACTCAAAGAACACTTCCAGAAG
*
481246 ATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAATACTTCCAGAAG
1 ATGCTATGATTCTGTCCAACC--A-CAGATAACTCAAAGAACACTTCCAGAAG
481298 ATGCTAT
1 ATGCTAT
481305 TGGCAAATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
47 15 0.29
48 2 0.04
52 34 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (50 bp):
ATGCTATGATTCTGTCCAACCACAGATAACTCAAAGAACACTTCCAGAAG
Found at i:481297 original size:130 final size:130
Alignment explanation
Indices: 481137--481434 Score: 578
Period size: 130 Copynumber: 2.3 Consensus size: 130
481127 CACTTCTTCG
*
481137 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
481202 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
481267 GATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
481332 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
481397 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
481435 GTTCTGTCCA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 165 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (130 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:481417 original size:52 final size:52
Alignment explanation
Indices: 481346--481486 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
481336 ATTCTGTCCA
481346 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
481398 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
481450 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
481487 TGGCAAATTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:494124 original size:19 final size:18
Alignment explanation
Indices: 494082--494132 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
494072 ACAATATATT
494082 TAAAAACAATAAAATAAA
1 TAAAAACAATAAAATAAA
* *
494100 TGAAAACATATAAAATAAC
1 TAAAAACA-ATAAAATAAA
494119 TAAAAA-AATAAAAT
1 TAAAAACAATAAAAT
494133 TAAAAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.24
18 8 0.28
19 14 0.48
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAAACAATAAAATAAA
Found at i:494947 original size:26 final size:25
Alignment explanation
Indices: 494909--494971 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
494899 TAGTTTGGAT
494909 TTTCTCTGTTTTTTTTTCTATGTCTC
1 TTTCTC-GTTTTTTTTTCTATGTCTC
* *
494935 TTTCTCGTCTTTTTTTTTTTTGTCTC
1 TTTCTCGT-TTTTTTTTCTATGTCTC
494961 TCTGTCTCGTT
1 T-T-TCTCGTT
494972 GTATATCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 2 0.06
28 6 0.19
ACGTcount: A:0.02, C:0.21, G:0.10, T:0.68
Consensus pattern (25 bp):
TTTCTCGTTTTTTTTTCTATGTCTC
Found at i:494962 original size:28 final size:28
Alignment explanation
Indices: 494917--494970 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
494907 ATTTTCTCTG
* *
494917 TTTTTTTTTCTATGTCTCTTTCTCGTCT
1 TTTTTTTTTCTATCTCTCTGTCTCGTCT
* *
494945 TTTTTTTTTTTGTCTCTCTGTCTCGT
1 TTTTTTTTTCTATCTCTCTGTCTCGT
494971 TGTATATCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.69
Consensus pattern (28 bp):
TTTTTTTTTCTATCTCTCTGTCTCGTCT
Found at i:495003 original size:9 final size:10
Alignment explanation
Indices: 494985--495016 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
494975 TATCTCTGTC
494985 TTCTTTTTTT
1 TTCTTTTTTT
494995 TTCTTTTTTT
1 TTCTTTTTTT
495005 TTCTTTTTTT
1 TTCTTTTTTT
495015 TT
1 TT
495017 TCTTCGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:495004 original size:11 final size:11
Alignment explanation
Indices: 494988--495020 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
494978 CTCTGTCTTC
494988 TTTTTTTTTC-
1 TTTTTTTTTCT
494998 TTTTTTTTTCT
1 TTTTTTTTTCT
495009 TTTTTTTTTCT
1 TTTTTTTTTCT
495020 T
1 T
495021 CGCAGATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:495494 original size:3 final size:3
Alignment explanation
Indices: 495486--495550 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
495476 TAATATAAAT
495486 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
495534 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
495551 TGGATAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.