Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold251
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: 763550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 3 of 5
Found at i:338931 original size:13 final size:13
Alignment explanation
Indices: 338913--338940 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
338903 ATACAAAGAT
338913 CAATGTATCGATA
1 CAATGTATCGATA
338926 CAATGTATCGATA
1 CAATGTATCGATA
338939 CA
1 CA
338941 TTGAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:338955 original size:33 final size:33
Alignment explanation
Indices: 338894--338960 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
338884 AAAATTCCCA
*
338894 AATGTATCGATACAAAGATCAATGTATCGATAC
1 AATGTATCGATACAAAGATCAATATATCGATAC
**
338927 AATGTATCGATACATTGAAT-AATATATCGATAC
1 AATGTATCGATACAAAG-ATCAATATATCGATAC
338960 A
1 A
338961 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAAAGATCAATATATCGATAC
Found at i:339872 original size:49 final size:49
Alignment explanation
Indices: 339711--340199 Score: 464
Period size: 49 Copynumber: 9.8 Consensus size: 49
339701 TAAAGAATGT
* ** * * *
339711 CAATGTGCTGATTCACGATCAGCGACATTAGACTTGAAGAAG-A-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * * * *
339758 CACTGTGCTGAGGCAAGGCCAGTGACATTGGGCTTGGGAATG-TTAATGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT---AAAGATGAA-GGTGC
* * * *
339810 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
339859 CAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * * *
339908 CAATATGCTGATTTAAAGCCAGCAATATCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
339957 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
340009 CAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGAT-AGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGGTGC
* * *
340058 CAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
340107 TAATGTGCTGTTTCAAGGCCAGCGACTTTGGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
340159 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
340200 AGATGACACC
Statistics
Matches: 352, Mismatches: 74, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
47 26 0.07
48 1 0.00
49 204 0.58
50 8 0.02
52 109 0.31
53 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:339929 original size:150 final size:147
Alignment explanation
Indices: 339805--340199 Score: 497
Period size: 150 Copynumber: 2.6 Consensus size: 147
339795 GAATGTTAAT
* * *
339805 GATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG-AAGGTGCCAATGTGTTG
1 GATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGGTGCCAATGTGTTG
* * *
339869 ATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGTCAATATGCTGATTTAAAGCCAGCAAT
66 ATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCAAC
*
339934 ATCGGACTTAAAGATGAA
131 ATTGGACTTAAAG-TGAA
* * *
339952 GATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGT
1 GATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G-AAAGGTGCCAATGTGT
* * * * * *
340017 TGATTCAAGGCCAACGACATCGGTCTTAAAGATAGAGGTGCCAATGTGTTGATTCAAGGCCAGCA
64 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCA
340082 ACATTGGACTTAAAGGTGAA
129 ACATTGGACTTAAA-GTGAA
* * * *
340102 GGTGCTAATGTGCTGTTTCAAGGCCAGCGACT-TTGGACTTAAAGATGACAAAGGTGCCAATATG
1 GATGCCAATGTGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATG--AAAGGTGCCAATGTG
* * *
340166 CTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
63 TTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
340200 AGATGACACC
Statistics
Matches: 213, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
147 41 0.19
148 1 0.00
149 1 0.00
150 165 0.77
151 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (147 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGGTGCCAATGTGTTG
ATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCAAC
ATTGGACTTAAAGTGAA
Found at i:340272 original size:28 final size:28
Alignment explanation
Indices: 340211--340601 Score: 362
Period size: 29 Copynumber: 13.7 Consensus size: 28
340201 GATGACACCA
**
340211 ACTTGTGGGCTTTTGAAAGGGTTG-CACCA
1 ACTTGTGGGCTTTT-AAA-GGTTGCCACTG
*
340240 ACTTGTGTGCTTTTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* * *
340268 CCTTGTAGGC-TTTGAAGGTTGCCACT-
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
340294 ACCTTGTGGGCTTTGAAAAGG-TGCCACTG
1 A-CTTGTGGGCTTT-TAAAGGTTGCCACTG
* *
340323 ACTTGTGGACTTTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
* *
340353 ACTTGTGGGCTTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTT-AAAGGTTGCCACTG
* * *
340382 ATTTGTGGGCTTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTT-AAAGGTTGCCACTG
*
340411 ACTTGTGGGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* * * *
340439 ACTTATGGGCTTTGAAAAGGGTGCCACCG
1 ACTTGTGGGCTTT-TAAAGGTTGCCACTG
* * *
340468 ACTTATGGGCTTTGAAAGGGGTGCCA-TCG
1 ACTTGTGGGCTTTTAAA-GGTTGCCACT-G
*
340497 ACTTGTGGGCTTCTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* * *
340525 ACTTGTGAGCTTTGAAAAGG-TGCCACTA
1 ACTTGTGGGCTTT-TAAAGGTTGCCACTG
* *
340553 ACTTGTGGGCTTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTT-AAAGGTTGCCACTG
*
340582 ACTTGTGGGCTTTGAAAGGT
1 ACTTGTGGGCTTTTAAAGGT
340602 GAGGAATGTC
Statistics
Matches: 303, Mismatches: 44, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
27 28 0.09
28 105 0.35
29 149 0.49
30 21 0.07
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (28 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTG
Found at i:340479 original size:86 final size:84
Alignment explanation
Indices: 340240--340601 Score: 426
Period size: 86 Copynumber: 4.2 Consensus size: 84
340230 GGTTGCACCA
* * * *
340240 ACTTGTGTGCTTTTAAAGGTTGCCACTGCCTTGTAGGCTTTG--AAGGTTGCCA-CTACCTTGTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACCGA-CTTGTG
*
340302 GGCTTTGAAAAGGTGCCACTG
64 GGCTTTGAAAAGATGCCACTG
* * * * *
340323 ACTTGTGGACTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGATTTGT
1 ACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGGTGCCACCGACTTGT
340388 GGGCTTTTGAAAAGATGCCACTG
63 GGGC-TTTGAAAAGATGCCACTG
* * *
340411 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAAAGGGTGCCACCGACTTATGG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACCGACTTGTGG
* *
340476 GCTTTGAAAGGGGTGCCA-TCG
65 GCTTTGAAA-AGATGCCACT-G
* * **
340497 ACTTGTGGGCTTCTAAAGGTTGCCACTGACTTGTGAGCTTTGAAAAGGTGCCACTAACTTGTGGG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGG
340562 CTTTTGAAAAGATGCCACTG
66 C-TTTGAAAAGATGCCACTG
*
340582 ACTTGTGGGCTTTGAAAGGT
1 ACTTGTGGGCTTTTAAAGGT
340602 GAGGAATGTC
Statistics
Matches: 236, Mismatches: 31, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
83 12 0.05
85 79 0.33
86 98 0.42
87 13 0.06
88 34 0.14
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (84 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTGTGGG
CTTTGAAAAGATGCCACTG
Found at i:340541 original size:171 final size:170
Alignment explanation
Indices: 340199--340601 Score: 501
Period size: 171 Copynumber: 2.4 Consensus size: 170
340189 GACTTAGAAG
* * * * ** *
340199 AAGATGACACCAACTTGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTAAAGGTTGC
1 AAGATGCCACTAACTTGTGGGCTTTTGAAA-AGATGCCACTGACTTGTGGGCTTTTAAAGGTTGC
* * * * *
340263 CACTGCCTTGTAGGCTTTGAAGGTTGCCACTACCTTGTGGGCTTTGAAAAGGTGCCACTGACTTG
65 CACTGACTTATAGGCTTTGAAGGGTGCCACGACCTTATGGGCTTTGAAAAGGTGCCACTGACTTG
* *
340328 TGGACTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAA
130 TGGACTTCT-AAAAGGGTGCCACTGACTTGTGAGCTTTTGAA
* * *
340370 AAGATGCCACTGATTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCC
1 AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCC
* *
340435 ACTGACTTATGGGCTTTGAAAAGGGTGCCACCGA-CTTATGGGCTTTGAAAGGGGTGCCA-TCGA
66 ACTGACTTATAGGCTTTG--AAGGGTGCCA-CGACCTTATGGGCTTTGAAA-AGGTGCCACT-GA
* *
340498 CTTGTGGGCTTCT-AAAGGTTGCCACTGACTTGTGAGC-TTTGAA
126 CTTGTGGACTTCTAAAAGGGTGCCACTGACTTGTGAGCTTTTGAA
* *
340541 AAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGT
1 AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGT
340602 GAGGAATGTC
Statistics
Matches: 200, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
170 3 0.01
171 128 0.64
172 22 0.11
173 25 0.12
174 22 0.11
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (170 bp):
AAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCC
ACTGACTTATAGGCTTTGAAGGGTGCCACGACCTTATGGGCTTTGAAAAGGTGCCACTGACTTGT
GGACTTCTAAAAGGGTGCCACTGACTTGTGAGCTTTTGAA
Found at i:342047 original size:10 final size:10
Alignment explanation
Indices: 342028--342088 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
342018 ATCCGGACCC
342028 TTTTTGTTTTG
1 TTTTT-TTTTG
*
342039 TTTTTTTTTA
1 TTTTTTTTTG
342049 TTTTTTTTTG
1 TTTTTTTTTG
* *
342059 TTTCTCTTTG
1 TTTTTTTTTG
342069 TTTTTTTGTTG
1 TTTTTTT-TTG
342080 TTTTTTTTT
1 TTTTTTTTT
342089 TTCGAAGGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
10 28 0.65
11 15 0.35
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:343190 original size:13 final size:13
Alignment explanation
Indices: 343172--343197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
343162 TACACCAAGT
343172 ATGTATCGATACA
1 ATGTATCGATACA
343185 ATGTATCGATACA
1 ATGTATCGATACA
343198 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:343195 original size:32 final size:33
Alignment explanation
Indices: 343154--343217 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
343144 TAGCCAAACT
* **
343154 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
343186 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
343218 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:357383 original size:20 final size:21
Alignment explanation
Indices: 357358--357412 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
357348 GTATTGATAC
**
357358 AATGTATCGATACATG-ACCA
1 AATGTATCGATACATGTAAAA
*
357378 AATGTATCGATACTTGTAAAA
1 AATGTATCGATACATGTAAAA
357399 AATGTATCGATACA
1 AATGTATCGATACA
357413 GGTGATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGTAAAA
Found at i:357498 original size:33 final size:33
Alignment explanation
Indices: 357453--357521 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
357443 CCTTAACTGT
*
357453 TTGTATCGATACA-CACAAATATGTATCGATACA
1 TTGTATCAATACATCACAAA-ATGTATCGATACA
*
357486 TTGTATCAATACATCCCAAAATGTATCGATACA
1 TTGTATCAATACATCACAAAATGTATCGATACA
357519 TTG
1 TTG
357522 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
TTGTATCAATACATCACAAAATGTATCGATACA
Found at i:363448 original size:8 final size:8
Alignment explanation
Indices: 363435--363465 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
363425 ATTTGATTAA
363435 ATTTTGTG
1 ATTTTGTG
363443 ATTTTGTG
1 ATTTTGTG
363451 ATTTTGTG
1 ATTTTGTG
363459 ATGTTTG
1 AT-TTTG
363466 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:363661 original size:13 final size:13
Alignment explanation
Indices: 363643--363680 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
363633 AAAAGTCAGA
*
363643 TGTATCGATACAT
1 TGTATCGATACAG
*
363656 TGTATCGATATAG
1 TGTATCGATACAG
363669 TGTATCGATACA
1 TGTATCGATACA
363681 AAGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:364147 original size:20 final size:22
Alignment explanation
Indices: 364114--364158 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
364104 GCAACACTCA
*
364114 CCAGGGCGCGACC-GGCA-CCC
1 CCAGGGCGCAACCGGGCAGCCC
*
364134 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGGCGCAACCGGGCAGCCC
364156 CCA
1 CCA
364159 CAATCACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.18, C:0.49, G:0.31, T:0.02
Consensus pattern (22 bp):
CCAGGGCGCAACCGGGCAGCCC
Found at i:366293 original size:33 final size:33
Alignment explanation
Indices: 366251--366319 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
366241 CCTTAACTGT
366251 TTGTATCGATACA-CACAAATATGTATCAATACA
1 TTGTATCGATACATCACAAA-ATGTATCAATACA
* * *
366284 TTGTATCGATACATCCCGAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCAATACA
366317 TTG
1 TTG
366320 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCAATACA
Found at i:367215 original size:13 final size:13
Alignment explanation
Indices: 367197--367224 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
367187 ATACAAAGAT
367197 CAATGTATCGATA
1 CAATGTATCGATA
367210 CAATGTATCGATA
1 CAATGTATCGATA
367223 CA
1 CA
367225 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:367221 original size:33 final size:33
Alignment explanation
Indices: 367179--367244 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
367169 AAATTCCAAG
367179 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
367212 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
367245 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:367290 original size:13 final size:13
Alignment explanation
Indices: 367272--367297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
367262 AGGGTAGTTT
367272 TTGTATCGATACA
1 TTGTATCGATACA
367285 TTGTATCGATACA
1 TTGTATCGATACA
367298 ACACTTATGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:373739 original size:37 final size:36
Alignment explanation
Indices: 373698--373788 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 36
373688 TGCCACAATC
373698 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGAC-TTCATAACATTTCATTTTGCATG
373735 ATGCATTTGTGACTTTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGAC-TTCATAACATTTCATTTTGCATG
*
373772 AGGCATTTGT-ACTTCAT
1 ATGCATTTGTGACTTCAT
373789 CTTTTCTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
35 5 0.10
36 2 0.04
37 45 0.87
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.44
Consensus pattern (36 bp):
ATGCATTTGTGACTTCATAACATTTCATTTTGCATG
Found at i:374114 original size:39 final size:39
Alignment explanation
Indices: 374071--374211 Score: 138
Period size: 39 Copynumber: 3.4 Consensus size: 39
374061 CAATGTCACA
*
374071 GGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCT
1 GGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCT
* * ** *
374110 GGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGAACAATGTCGCT
1 GGCCTTGAATCAGCACATT---A----G-C-ATAAGCCCAATATCGCT
*
374158 GGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCT
1 GGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCT
374197 GGCCTTGAATCAGCA
1 GGCCTTGAATCAGCA
374212 TATTGGCACC
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
39 45 0.56
40 1 0.01
41 1 0.01
42 1 0.01
46 1 0.01
47 1 0.01
48 31 0.38
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
GGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCT
Found at i:374268 original size:49 final size:49
Alignment explanation
Indices: 374181--374567 Score: 336
Period size: 49 Copynumber: 7.9 Consensus size: 49
374171 CACATTGGCA
* * * *
374181 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
374230 TAAGACCGATGTCATTGGCCTTGAATTAGCACATTGGCACC-TC--CTT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
374276 TAAGTCCAATGTCGTCGGCCATGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
374325 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
374374 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * ** ** * *
374423 TAAGTTCGATATCGTTGGCCTTGAATCAACTTATTGGCATATTTAACATT
1 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT
* * * ** *
374473 CCTAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA--TTCTTCTT
1 --TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
374522 CAAGTCTAATGTCGCTGGCCATGAATCCA-CACATTGTCATCCTTCA
1 TAAGTCCAATGTCGTTGGCCTTGAAT-CAGCACATTGGCA-CCTTCA
374568 CATCTTCGAG
Statistics
Matches: 270, Mismatches: 58, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
46 37 0.14
47 30 0.11
48 4 0.01
49 163 0.60
50 8 0.03
52 28 0.10
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:374322 original size:95 final size:94
Alignment explanation
Indices: 374003--374450 Score: 422
Period size: 87 Copynumber: 4.9 Consensus size: 94
373993 CCTTTCTTTA
* * * * * * *
374003 TCTTTAATATCAATGTCGTTGGCCTTGAATTAGCATATTGGCACCTT-GTCTTTAAGACCAATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATAT
* * * *
374067 CACAGGCCTTGAATCAACACATTAGCA--
66 CGCTGGCCTTGAATCAGCACATTGGCACC
* * * * * *
374094 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGAACAATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATAT
374154 CGCTGGCCTTGAATCAGCACATTGGCA--
66 CGCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
374181 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATAT
** *
374242 CATTGGCCTTGAATTAGCACATTGGCACC
66 CGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
374271 TCCTTTAAGTCCAATGTCG-TCGGCCATGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAAT
1 T-CTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAAT
*
374335 ATCGCTGGCCTTGAATCAGCATATTGGCACC
64 ATCGCTGGCCTTGAATCAGCACATTGGCACC
* ** *
374366 TTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTTCG
1 ----TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCA
*
374431 ATATCGTTGGCCTTGAATCA
62 ATATCGCTGGCCTTGAATCA
374451 ACTTATTGGC
Statistics
Matches: 307, Mismatches: 36, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
87 119 0.39
88 38 0.12
94 1 0.00
95 76 0.25
98 71 0.23
99 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (94 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATAT
CGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:374412 original size:98 final size:98
Alignment explanation
Indices: 374181--374548 Score: 379
Period size: 98 Copynumber: 3.8 Consensus size: 98
374171 CACATTGGCA
* * * * * **
374181 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCATT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * *
374246 GGCCTTGAATTAGCACATTGGCACC--T-CCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * *
374276 TAAGTCCAATGTCG-TCGGCCATGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGC
1 TAAGCCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGC
*
374340 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * * *
374374 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTTCGATATCGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * **
374439 GGCCTTGAATCAACTTATTGGCATATTTAACATT
66 GGCCTTGAATCAGCATATTGGCACCTTTAAC-TT
* ** * * * *
374473 CCTAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTCG
1 --TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
374536 CTGGCCATGAATC
64 CTGGCCTTGAATC
374549 CACACATTGT
Statistics
Matches: 227, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.00
95 76 0.33
97 1 0.00
98 85 0.37
99 29 0.13
101 35 0.15
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCACCTTTAACTT
Found at i:375331 original size:13 final size:13
Alignment explanation
Indices: 375313--375340 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
375303 GCCAAGGAAA
375313 TGTATCGATACAT
1 TGTATCGATACAT
375326 TGTATCGATACAT
1 TGTATCGATACAT
375339 TG
1 TG
375341 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:381673 original size:70 final size:70
Alignment explanation
Indices: 381555--381685 Score: 244
Period size: 70 Copynumber: 1.9 Consensus size: 70
381545 TTTTCTTCAC
**
381555 TTAATTTTCTCTAAAAGCCAAAAGTATTTAAATGAGGGAGTCTTTGCCTATTTATAAGGGAAGCG
1 TTAATTTTCTCTAAAAGCCAAAAGTATTTAAATGAGGGAGTCCATGCCTATTTATAAGGGAAGCG
381620 ATTGG
66 ATTGG
381625 TTAATTTTCTCTAAAAGCCAAAAGTATTTAAATGAGGGAGTCCATGCCTATTTATAAGGGA
1 TTAATTTTCTCTAAAAGCCAAAAGTATTTAAATGAGGGAGTCCATGCCTATTTATAAGGGA
381686 GGAGATTAGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (70 bp):
TTAATTTTCTCTAAAAGCCAAAAGTATTTAAATGAGGGAGTCCATGCCTATTTATAAGGGAAGCG
ATTGG
Found at i:386632 original size:20 final size:20
Alignment explanation
Indices: 386589--386664 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
386579 ATATTATGCT
* **
386589 TTGTATCGATACATGTTC-A
1 TTGTATCGACACATGAACAA
*
386608 TTGTATCGATACATGAACAA
1 TTGTATCGACACATGAACAA
386628 TTGTATCGACACATGAACAA
1 TTGTATCGACACATGAACAA
386648 TTGTATCGACACATGAA
1 TTGTATCGACACATGAA
386665 ACTGGCAGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 16 0.30
20 37 0.70
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (20 bp):
TTGTATCGACACATGAACAA
Found at i:393135 original size:13 final size:13
Alignment explanation
Indices: 393116--393154 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
393106 ACTATTTATG
393116 ATGTATCGATACA
1 ATGTATCGATACA
*
393129 CTGTATCGATACA
1 ATGTATCGATACA
393142 ATGTATCGATACA
1 ATGTATCGATACA
393155 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:393241 original size:21 final size:22
Alignment explanation
Indices: 393212--393262 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
393202 GTGAACAGTG
393212 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
393234 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
393255 TGAACAGT
1 TGAACAGT
393263 AATGAATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:393372 original size:53 final size:53
Alignment explanation
Indices: 393308--393444 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
393298 CTACTTCCAA
393308 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
393361 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
393414 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
393445 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:393530 original size:21 final size:21
Alignment explanation
Indices: 393504--393544 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
393494 GTCAACCTTG
393504 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
393525 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
393545 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:395098 original size:20 final size:20
Alignment explanation
Indices: 395073--395113 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
395063 ACCCTCTTAA
395073 GCCTAAATGTGTCGGTTCGC
1 GCCTAAATGTGTCGGTTCGC
395093 GCCTAAATGTGTCGGTTCGC
1 GCCTAAATGTGTCGGTTCGC
395113 G
1 G
395114 AGAACCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (20 bp):
GCCTAAATGTGTCGGTTCGC
Found at i:396228 original size:36 final size:36
Alignment explanation
Indices: 396176--396248 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
396166 GAAAATAAAT
*
396176 TTTTATCAAGGGGGAGAAAATCTTTTTAACCGTTTA
1 TTTTATCAAGGAGGAGAAAATCTTTTTAACCGTTTA
*
396212 TTTTATCAAGGAGGAGAAAATCTTTTTAATCGTTTA
1 TTTTATCAAGGAGGAGAAAATCTTTTTAACCGTTTA
396248 T
1 T
396249 CAAGAGGGAA
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:0.10, G:0.18, T:0.41
Consensus pattern (36 bp):
TTTTATCAAGGAGGAGAAAATCTTTTTAACCGTTTA
Found at i:396248 original size:31 final size:32
Alignment explanation
Indices: 396176--396269 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 32
396166 GAAAATAAAT
*
396176 TTTTATCAAGGGGGAGAAAATCTTTTTAACCG
1 TTTTATCAAGGAGGAGAAAATCTTTTTAACCG
*
396208 TTTATTTTATCAAGGAGGAGAAAATCTTTTTAATCG
1 ----TTTTATCAAGGAGGAGAAAATCTTTTTAACCG
*
396244 -TTTATCAA-GAGG-GAAAAATTTTTTTA
1 TTTTATCAAGGAGGAG-AAAATCTTTTTA
396270 TCAAAGGGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.02
30 15 0.28
31 8 0.15
36 30 0.56
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (32 bp):
TTTTATCAAGGAGGAGAAAATCTTTTTAACCG
Found at i:396878 original size:13 final size:13
Alignment explanation
Indices: 396860--396886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
396850 ACATTATGCT
396860 TTGTATCGATACA
1 TTGTATCGATACA
396873 TTGTATCGATACA
1 TTGTATCGATACA
396886 T
1 T
396887 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:396901 original size:32 final size:33
Alignment explanation
Indices: 396843--396905 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
396833 CACCCAGATT
*
396843 TATCGATACATTATGCTTTGTATCGATACATTG
1 TATCGATACATTATGCATTGTATCGATACATTG
396876 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
396906 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTG
Found at i:397781 original size:12 final size:12
Alignment explanation
Indices: 397764--397788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
397754 TCTTGTGATA
397764 TTTTCTTTTCTT
1 TTTTCTTTTCTT
397776 TTTTCTTTTCTT
1 TTTTCTTTTCTT
397788 T
1 T
397789 CCATATGCAA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:399897 original size:59 final size:59
Alignment explanation
Indices: 399823--399940 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
399813 ATATTTCAAA
399823 CTTAGCTTTAAGAAGGGAGTTTGTCAAAATATGAGAAAGCTGATTTTTAGAATCACAAT
1 CTTAGCTTTAAGAAGGGAGTTTGTCAAAATATGAGAAAGCTGATTTTTAGAATCACAAT
*
399882 CTTAGCTTTAGGAAGGGAGTTTGTCAAAATATGAGAAAGCTGATTTTTAGAATCACAAT
1 CTTAGCTTTAAGAAGGGAGTTTGTCAAAATATGAGAAAGCTGATTTTTAGAATCACAAT
399941 GAATTAGCTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (59 bp):
CTTAGCTTTAAGAAGGGAGTTTGTCAAAATATGAGAAAGCTGATTTTTAGAATCACAAT
Found at i:403320 original size:168 final size:164
Alignment explanation
Indices: 403046--403503 Score: 515
Period size: 168 Copynumber: 2.7 Consensus size: 164
403036 TTTTCTTTTT
* ** * * *
403046 CGTAAATTTTTTCAAGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATACTTTTACT
1 CGTAAAATTTTTCAAG-GGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACA-TTTTATT
* * * * * *
403111 GATTTCATATTAATTTATTTTTCAAAAATTCATTAATTTTCATAAGCTTTTGATTTTTTTCCATG
64 TATTTCATATTAATTTA-ATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTCCATA
** * *
403176 AAA-TTCCCTTTTTTTTTTAAATACAGTGTTTTCTACTC
128 AAACTTCCC--TTTTTTCGAAACACAGTGCTTTCTACTC
* *
403214 TGTAAAATTTTTCGAAGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTGTCATT
1 CGTAAAATTTTTC-AAGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATT-TTATT
* * * * *
403279 TATTCCATATTAATTCAATTGTCAAAAATTAATTCATTTTCATTAGTTTTTGATTTTTTTGCTTA
64 TATTTCATATTAATTTAATT-TCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTCCATA
**
403344 AAACTTCCCTTTTTTCGAAACATGGTGCTTTCTACTC
128 AAACTTCCCTTTTTTCGAAACACAGTGCTTTCTACTC
** *
403381 CGT-AAATTTTTTTAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATT
1 CGTAAAATTTTTCAAGG-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAT-TTTATT
* * * *
403445 TATTTTATATTAATTTAGGTTTCAAAAATTCATTCATCTTCATTAGTTTTTGAATTTTT
64 TATTTCATATTAATTTA-ATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTT
403504 GCTTTGAAAT
Statistics
Matches: 246, Mismatches: 37, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
165 3 0.01
166 101 0.41
167 30 0.12
168 104 0.42
169 8 0.03
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (164 bp):
CGTAAAATTTTTCAAGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTTTATTTA
TTTCATATTAATTTAATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTCCATAAAA
CTTCCCTTTTTTCGAAACACAGTGCTTTCTACTC
Found at i:403436 original size:166 final size:164
Alignment explanation
Indices: 403046--403507 Score: 509
Period size: 166 Copynumber: 2.8 Consensus size: 164
403036 TTTTCTTTTT
** * * *
403046 CGTAAATTTTTTCAA-GAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATACTTTTAC
1 CGTAAATTTTTT-AAGGA-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACA-TTTTAT
* * * * * * *
403110 TGATTTCATATTAATTTATTTTTCAAAAATTCATTAATTTTCATAAGCTTTTGATTTTTTTCCAT
63 TTATTTCATATTAATTTA-ATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTGCTT
* ** * *
403175 GAAATTCCCTTTTTTTTTTAAATACAGTGTTTTCTACTC
127 AAAATTCCC-TTTTTTTCGAAACACAGTGCTTTCTACTC
* * *
403214 TGTAAAATTTTTCGAAGG-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTGTCAT
1 CGT-AAATTTTT-TAAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATT-TTAT
* * *
403278 TTATTCCATATTAATTCAATTGTCAAAAATTAATTCATTTTCATTAGTTTTTGATTTTTTTGCTT
63 TTATTTCATATTAATTTAATT-TCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTGCTT
**
403343 AAAACTTCCC-TTTTTTCGAAACATGGTGCTTTCTACTC
127 AAAA-TTCCCTTTTTTTCGAAACACAGTGCTTTCTACTC
* *
403381 CGTAAATTTTTTTAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTT
1 CGTAAATTTTTTAAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACAT-TTTATTT
* * * *
403446 ATTTTATATTAATTTAGGTTTCAAAAATTCATTCATCTTCATTAGTTTTTGA-ATTTTTGCTT
65 ATTTCATATTAATTTA-ATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTGCTT
403508 TGAAATCCTT
Statistics
Matches: 248, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
165 12 0.05
166 96 0.39
167 30 0.12
168 94 0.38
169 15 0.06
170 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (164 bp):
CGTAAATTTTTTAAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTTTATTTA
TTTCATATTAATTTAATTTCAAAAATTCATTCATTTTCATTAGTTTTTGATTTTTTTGCTTAAAA
TTCCCTTTTTTTCGAAACACAGTGCTTTCTACTC
Found at i:403573 original size:166 final size:165
Alignment explanation
Indices: 403218--403593 Score: 413
Period size: 166 Copynumber: 2.3 Consensus size: 165
403208 CTACTCTGTA
* **
403218 AAATTTTTCGAAGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATTGTCATTTATT
1 AAATTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTATT
* *
403283 CCATATTAATTCAATTGTCAAAAATTAATTCATTTTCATTAGTTTTTGATTTTTTTGCTTAAAAC
66 CCATATTAATTCAATTGTCAAAAATTAATTCATCTTCATTAGTTTTTGATATTTTTGCTTAAAAC
* * ** *
403348 TTCCCTTTTTTCGAAACATGGTGCTTTCTACTCCGT
131 -TCCCTTTTTTCAAAAAATGGAACTTTCTACTCCAT
** * *
403384 AAATTTTTTTAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATT
1 AAATTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTATT
** * * * *
403449 TTATATTAATTTAGGTT-TCAAAAATTCATTCATCTTCATTAGTTTTTGA-ATTTTTGCTTTGAA
66 CCATATTAATTCA-ATTGTCAAAAATTAATTCATCTTCATTAGTTTTTGATATTTTTGC-TTAAA
*
403512 A-TCCTTATTTTCTCAAAAAACT-GAACTTTCTA-TCCCAT
129 ACTCCCT-TTTT-TCAAAAAA-TGGAACTTTCTACT-CCAT
* **
403550 AAATATTTTCGAGGGGA-TTTTCTTTGGTCTAAAATTTTTAAAAT
1 AAAT-TTTTCGAGGGGATTTTTC-TTGGTTTTCAATTTTTAAAAT
403594 GCATATACTA
Statistics
Matches: 175, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
164 4 0.02
165 12 0.07
166 129 0.74
167 30 0.17
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.48
Consensus pattern (165 bp):
AAATTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATCATTTATT
CCATATTAATTCAATTGTCAAAAATTAATTCATCTTCATTAGTTTTTGATATTTTTGCTTAAAAC
TCCCTTTTTTCAAAAAATGGAACTTTCTACTCCAT
Found at i:405275 original size:130 final size:127
Alignment explanation
Indices: 405136--405448 Score: 387
Period size: 130 Copynumber: 2.4 Consensus size: 127
405126 ATATAAATTG
* *
405136 TTTTCAATTTTTTATATTCCTATGAGTATCCGTAAGGGTATAAAAGATTTCAAAAACTCTTCGTA
1 TTTTTAATTTTTTATATTCCTATGAGTATCCGT-AGGGTATAAAAGATTTCAAAAAATCTTCGTA
* * * * * *
405201 TTTTTTCGGGTATCTATTAAGGTACGAAATGTTTTTTTTTTCCAAACATAAATAAATATTAATCA
65 TCTTTTCGGGTATCCATTAAGGTACAAAATG--ATTTTTTTCCAAAAATAAATAAAAATTAATCA
** * * *
405266 TTTTTAATTTTTTATATTTTTAT-AGGTATTCATAGGTGTATAAAAGATTGT-AAAAAATTTTCG
1 TTTTTAATTTTTTATATTCCTATGA-GTATCCGTAGG-GTATAAAAGATT-TCAAAAAATCTTCG
*
405329 TATCTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATAAAAATTAATCG
63 TATCTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATAAAAATTAATCA
* * *
405394 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAGAGGTATTAAAAGATTTCAAA
1 TTTTTAATTTTTTATATTCCTATGAGTATCCGTAG-GGTA-TAAAAGATTTCAAA
405449 TTTTTCATAT
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
128 59 0.38
129 17 0.11
130 78 0.50
131 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (127 bp):
TTTTTAATTTTTTATATTCCTATGAGTATCCGTAGGGTATAAAAGATTTCAAAAAATCTTCGTAT
CTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAATAAATAAAAATTAATCA
Found at i:405497 original size:128 final size:128
Alignment explanation
Indices: 405237--405497 Score: 280
Period size: 128 Copynumber: 2.0 Consensus size: 128
405227 AAATGTTTTT
* * * **
405237 TTTTTCCAAACATAAATAAATATTAATCATTTTTAATTTTTTATATTTTTATAGGTATTCATAGG
1 TTTTTCCAAAAATAAATAAAAATTAATCATTTTTAATCTTTTATATTCCTATAGGTATTCATAGG
* * * * **
405302 TGTATAAAAGATTGTAAAAAATTTTCGTATCTTTTCGGGTATCCATTAAGGTACAAAATGATT
66 TGTATAAAAGATTGTAAAAAATTTTCATATCTTGTCGGGTATCCATCAAGGAACAAAATGAAC
* * *
405365 TTTTTCCAAAAATAAATAAAAATTAATCGTTTTTAATCTTTTATATTCCTATGGGTA-TCTGTAG
1 TTTTTCCAAAAATAAATAAAAATTAATCATTTTTAATCTTTTATATTCCTATAGGTATTC-ATAG
* * * *
405429 AG-GTATTAAAAGATT-T-CAAATTTTTCATATCTTGGT-GGGTTTCCATCAAGGAACGAAATGA
65 -GTGTA-TAAAAGATTGTAAAAAATTTTCATATCTT-GTCGGGTATCCATCAAGGAACAAAATGA
405490 CAC
127 -AC
405493 TTTTT
1 TTTTT
405498 GAGTAAAATT
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
127 37 0.34
128 63 0.57
129 10 0.09
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (128 bp):
TTTTTCCAAAAATAAATAAAAATTAATCATTTTTAATCTTTTATATTCCTATAGGTATTCATAGG
TGTATAAAAGATTGTAAAAAATTTTCATATCTTGTCGGGTATCCATCAAGGAACAAAATGAAC
Found at i:405836 original size:20 final size:20
Alignment explanation
Indices: 405813--405885 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
405803 ACAACTCAAA
405813 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
405833 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
405854 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
405874 GTATCGATACAT
1 GTATCGATACAT
405886 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:405864 original size:41 final size:42
Alignment explanation
Indices: 405813--405907 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
405803 ACAACTCAAA
*
405813 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
405854 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
405896 GTATCGATACAT
1 GTATCGATACAT
405908 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:405964 original size:13 final size:13
Alignment explanation
Indices: 405946--405971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
405936 TACAGCAAGT
405946 ATGTATCGATACA
1 ATGTATCGATACA
405959 ATGTATCGATACA
1 ATGTATCGATACA
405972 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:410053 original size:15 final size:15
Alignment explanation
Indices: 410033--410071 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
410023 TAAAAATGTC
*
410033 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
410048 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
410063 CCAAATGAA
1 CAAAATGAA
410072 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:412162 original size:20 final size:21
Alignment explanation
Indices: 412084--412161 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
412074 ATGTCCAAAA
*
412084 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
412104 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
412128 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
412149 TGTATCGATACAT
1 TGTATCGATACAT
412162 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:412166 original size:13 final size:13
Alignment explanation
Indices: 412148--412186 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
412138 ACATTTTTTG
412148 TTGTATCGATACA
1 TTGTATCGATACA
412161 TTGTATCGATACA
1 TTGTATCGATACA
*
412174 CTGTATCGATACA
1 TTGTATCGATACA
412187 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:414033 original size:18 final size:16
Alignment explanation
Indices: 413992--414037 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
413982 AATTACTTGA
413992 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
414008 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
414024 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
414038 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:414667 original size:20 final size:20
Alignment explanation
Indices: 414644--414716 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
414634 ACAACTCAAA
414644 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
414664 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
414685 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
414705 GTATCGATACAT
1 GTATCGATACAT
414717 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:414695 original size:41 final size:42
Alignment explanation
Indices: 414644--414738 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
414634 ACAACTCAAA
*
414644 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
414685 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
414727 GTATCGATACAT
1 GTATCGATACAT
414739 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:414795 original size:13 final size:13
Alignment explanation
Indices: 414777--414802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
414767 TACAGCAAGT
414777 ATGTATCGATACA
1 ATGTATCGATACA
414790 ATGTATCGATACA
1 ATGTATCGATACA
414803 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:416237 original size:155 final size:154
Alignment explanation
Indices: 416068--417415 Score: 1281
Period size: 155 Copynumber: 8.6 Consensus size: 154
416058 ACCGGGTCCA
* * * *
416068 CTTTTATG-CTGAAGGT-GGCTATTTAGGATAGGTTCAACCCTTTTATAGTTCTTTTTAAGACCT
1 CTTTTATGTC-GAAGGTGGGC-ATTTAGGATAGGTTCATCCCATTTCTAG-TCTTTTTAAGTCCT
* * * * * *
416131 TTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTAGTA
63 TTAGGGTTGCCGAGATACTTTTACGTCGAAGGTATACCTTAGGGGCATTTTGGTAATTTTTAGAA
416196 CCAACTCTTAGGTCGTCACTGGGTCTG
128 CCAACTCTTAGGTCGTCACTGGGTCTG
* * *
416223 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATGAGTCTTTTTAAGTCCTTT
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCT-AGTCTTTTTAAGTCCTTT
* * * * * *
416288 AAGGTTGCCGGGATACTTTTACGTCAAAGGTATATCTTAAGGGCATTTTGGTAATTTTTTAAAAC
65 AGGGTTGCCGAGATACTTTTACGTCGAAGGTATACCTTAGGGGCATTTTGGTAA-TTTTTAGAAC
* * * *
416353 CAACTCATAGGTCATCACTAGGTCTC
129 CAACTCTTAGGTCGTCACTGGGTCTG
* *
416379 CTTTTATG-CAGAAGGTGGGCATTTAGGATAAGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTT
1 CTTTTATGTC-GAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTT
* * *
416443 AGGTTTGCCGGGATACTTTTACGTCGAAAGTATACCCTTAGTTAAGGGCATTTTGGTAATTTTCT
65 AGGGTTGCCGAGATACTTTTACGTCGAAGGTATA-CCTTAG----GGGCATTTTGGTAATTTT-T
* * * * *
416508 AAAACCAACTCTTAGGTAGTTACCGGGTTTG
124 AGAACCAACTCTTAGGTCGTCACTGGGTCTG
* * *
416539 CTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTCAGTCCTTTA
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTTA
* * * * * * * *
416604 AGGTTGTCGGGATACTTTTATGTCCAAGGTATACTTGTAGGGGCATTTTTGTAATTTTTTAGAAT
66 GGGTTGCCGAGATACTTTTACGTCGAAGGTATACCT-TAGGGGCATTTTGGTAA-TTTTTAGAAC
* * * * *
416669 CGAGTCCTAGGTTGTCACCGGGTCTG
129 CAACTCTTAGGTCGTCACTGGGTCTG
* * ** * *
416695 CTTTTATGTTGAAGGTGGGTATTTAGGATAGGTTCATCCTTTTTATAGTCCTTTTTAAGACCTTT
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAAGTCCTTT
* * * * * * *
416760 AGGGGTACCGAGATACTTTCACGTTGAA-GTATCCCTTAGGGGTATTTTCGTAATTTTTAGAACC
65 AGGGTTGCCGAGATACTTTTACGTCGAAGGTATACCTTAGGGGCATTTTGGTAATTTTTAGAACC
* * * *
416824 AATTCTTAGATCGTCACTGGATTTG
130 AACTCTTAGGTCGTCACTGGGTCTG
* *
416849 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCC-TTTATGAGTCTTTTAAAGTCCTTT
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCT-AGTCTTTTTAAGTCCTTT
** * * * * ** * *
416913 AAAGCTGTCGGGATACTTTTACATCGAATATATACCGTAAGGGCATTTTGGTAATTTTTAAGAAC
65 AGGGTTGCCGAGATACTTTTACGTCGAAGGTATACCTTAGGGGCATTTTGGTAATTTTT-AGAAC
** * **
416978 CAACTCCAAGGTCGTCGCTGGGTCCC
129 CAACTCTTAGGTCGTCACTGGGTCTG
* * *
417004 CTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCAATCTCTAGTCTTTTTAAGTCCTTTA
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTTA
** * * *
417069 GGGTTATCAAGATACTTTTACGTCGAAGATATACCCTAAGTTAGGGGTATTTTGGTAATTTTTTA
66 GGGTTGCCGAGATACTTTTACGTCGAAGGTATA-CC----TTAGGGGCATTTTGGTAA-TTTTTA
* *
417134 GAACCAACTCTTAGGTGGTCACTAGGT-TCG
125 GAACCAACTCTTAGGTCGTCACTGGGTCT-G
* *
417164 CTTTTATGTCAAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTTA
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTTA
** * * * * * *
417229 GGGTTTTC-AGGATATTTTTATGTCAAAGGTATACTTGTAGGAGCATTTTTGTAATTTTCTAGAA
66 GGGTTGCCGA-GATACTTTTACGTCGAAGGTATACCT-TAGGGGCATTTTGGTAATTTT-TAGAA
* * * * * * *
417293 TCGAGTCCTAGGTTGTCACCGAGTCTG
128 CCAACTCTTAGGTCGTCACTGGGTCTG
* * * ** * * * *
417320 CTTGTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCTTTTCTAATCCTCTTTAAGTTCTTT
1 CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAAGTCCTTT
* * * *
417385 AGGGGTGCTG-GGTACTTTTATGTCGAAGGTA
65 AGGGTTGCCGAGATACTTTTACGTCGAAGGTA
417416 CTTGTAGACA
Statistics
Matches: 984, Mismatches: 177, Indels: 63
0.80 0.14 0.05
Matches are distributed among these distances:
153 37 0.04
154 91 0.09
155 269 0.27
156 263 0.27
157 55 0.06
159 8 0.01
160 255 0.26
161 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (154 bp):
CTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTTA
GGGTTGCCGAGATACTTTTACGTCGAAGGTATACCTTAGGGGCATTTTGGTAATTTTTAGAACCA
ACTCTTAGGTCGTCACTGGGTCTG
Found at i:417250 original size:625 final size:627
Alignment explanation
Indices: 416030--417390 Score: 2021
Period size: 625 Copynumber: 2.2 Consensus size: 627
416020 TATTACTAAT
* * ** *
416030 TTTTTTCAGAACCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCTGAAGGTGGCTATTTAGG
1 TTTTTT-AGAATCGAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGGTGGATATTTAGG
* * *
416095 ATAGGTTCAACCCTTTTATAGTTCTTTTTAAGACCTTTAGGGGTACCGAGATACTTTTACGTCGA
65 ATAGGTTCATCCCTTTTATAGTCCTTTTTAAGACCTTTAGGGGTACCGAGATACTTTCACGTCGA
* * * *
416160 AGGTATCCCTTAGGGGTATTTTTGTAATTTTTAGTACCAACTCTTAGGTCGTCACTGGGTCTGCT
130 AGGTATCCCTTAGGGGTATTTTCGTAATTTTTAGAACCAACTCTTAGATCGTCACTGGATCTGCT
* *
416225 TTTATGTCGAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATGAGTCTTTTTAAGTCCTTTAA
195 TTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTAAAGTCCTTTAA
* * * * * *
416290 GGTTGCCGGGATACTTTTACGTCAAAGGTATATCTTAAGGGCATTTTGGTAATTTTTTAAAACCA
260 AGCTGCCGGGATACTTTTACATCAAAGATATACCGTAAGGGCATTTTGGTAATTTTTTAAAACCA
* *
416355 ACTCATAGGTCATCACTAGGTCTCCTTTTATGCAGAAGGTGGGCATTTAGGATAAGTTCATCCCA
325 ACTCATAGGTCATCACTAGGTCCCCTTTTATGCAGAAGGTGGGCATTTAGGATAAGTTCATCCAA
* * ** *
416420 TCTCTAGTCTTTTTAAGTCCTTTAGGTTTGCCGGGATACTTTTACGTCGAAAGTATACCCTTAGT
390 TCTCTAGTCTTTTTAAGTCCTTTAGGGTTACCAAGATACTTTTACGTCGAAAGTATACCCTAAGT
* * * *
416485 TAAGGGCATTTTGGTAATTTTCTAAAACCAACTCTTAGGTAGTTACCGGGTTTGCTTTTATGCCG
455 TAAGGGCATTTTGGTAATTTTCTAAAACCAACTCTTAGGTAGTCACCAGGTTCGCTTTTATGCCA
* *
416550 AAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTCAGTCCTTTAAGGTTGTCGGG
520 AAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTTAAGGTTGTCAGG
* *
416615 ATACTTTTATGTCCAAGGTATACTTGTAGGGGCATTTTTGTAA
585 ATACTTTTATGTCAAAGGTATACTTGTAGGAGCATTTTTGTAA
* *
416658 TTTTTTAGAATCGAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGTTGAAGGTGGGTATTTAGGA
1 TTTTTTAGAATCGAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGGTGGATATTTAGGA
* *
416723 TAGGTTCATCCTTTTTATAGTCCTTTTTAAGACCTTTAGGGGTACCGAGATACTTTCACGTTGAA
66 TAGGTTCATCCCTTTTATAGTCCTTTTTAAGACCTTTAGGGGTACCGAGATACTTTCACGTCGAA
* *
416788 -GTATCCCTTAGGGGTATTTTCGTAATTTTTAGAACCAATTCTTAGATCGTCACTGGATTTGCTT
131 GGTATCCCTTAGGGGTATTTTCGTAATTTTTAGAACCAACTCTTAGATCGTCACTGGATCTGCTT
416852 TTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCC-TTTATGAGTCTTTTAAAGTCCTTTAAA
196 TTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTAAAGTCCTTTAAA
* * *
416916 GCTGTCGGGATACTTTTACATCGAATATATACCGTAAGGGCATTTTGGTAA-TTTTTAAGAACCA
261 GCTGCCGGGATACTTTTACATCAAAGATATACCGTAAGGGCATTTTGGTAATTTTTTAA-AACCA
* * * * *
416980 ACTCCA-AGGTCGTCGCTGGGTCCCCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCA
325 ACT-CATAGGTCATCACTAGGTCCCCTTTTATGCAGAAGGTGGGCATTTAGGATAAGTTCATCCA
*
417044 ATCTCTAGTCTTTTTAAGTCCTTTAGGGTTATCAAGATACTTTTACGTCG-AAGATATACCCTAA
389 ATCTCTAGTCTTTTTAAGTCCTTTAGGGTTACCAAGATACTTTTACGTCGAAAG-TATACCCTAA
* * * * * * *
417108 GTTAGGGGTATTTTGGTAATTTTTTAGAACCAACTCTTAGGTGGTCACTAGGTTCGCTTTTATGT
453 GTTAAGGGCATTTTGGTAATTTTCTAAAACCAACTCTTAGGTAGTCACCAGGTTCGCTTTTATGC
* *
417173 CAAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTTAGGGTTTTCA
518 CAAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTTAAGGTTGTCA
*
417238 GGATATTTTTATGTCAAAGGTATACTTGTAGGAGCATTTTTGTAA
583 GGATACTTTTATGTCAAAGGTATACTTGTAGGAGCATTTTTGTAA
* * * * *
417283 TTTTCTAGAATCGAGTCCTAGGTTGTCACCGAGTCTGCTTGTATGCCGAAGGTAGATATTTAGGA
1 TTTTTTAGAATCGAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGGTGGATATTTAGGA
* * * **
417348 TAGGTTCATCCCTTTTCTAATCCTCTTTAAGTTCTTTAGGGGT
66 TAGGTTCATCCCTTTTATAGTCCTTTTTAAGACCTTTAGGGGT
417391 GCTGGGTACT
Statistics
Matches: 658, Mismatches: 72, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
624 10 0.02
625 433 0.66
626 96 0.15
627 113 0.17
628 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (627 bp):
TTTTTTAGAATCGAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGGTGGATATTTAGGA
TAGGTTCATCCCTTTTATAGTCCTTTTTAAGACCTTTAGGGGTACCGAGATACTTTCACGTCGAA
GGTATCCCTTAGGGGTATTTTCGTAATTTTTAGAACCAACTCTTAGATCGTCACTGGATCTGCTT
TTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTAAAGTCCTTTAAA
GCTGCCGGGATACTTTTACATCAAAGATATACCGTAAGGGCATTTTGGTAATTTTTTAAAACCAA
CTCATAGGTCATCACTAGGTCCCCTTTTATGCAGAAGGTGGGCATTTAGGATAAGTTCATCCAAT
CTCTAGTCTTTTTAAGTCCTTTAGGGTTACCAAGATACTTTTACGTCGAAAGTATACCCTAAGTT
AAGGGCATTTTGGTAATTTTCTAAAACCAACTCTTAGGTAGTCACCAGGTTCGCTTTTATGCCAA
AGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTCCTTTAAGGTTGTCAGGA
TACTTTTATGTCAAAGGTATACTTGTAGGAGCATTTTTGTAA
Found at i:426318 original size:31 final size:31
Alignment explanation
Indices: 426283--427711 Score: 771
Period size: 31 Copynumber: 45.7 Consensus size: 31
426273 CTCTCTTCCC
*
426283 AAAGTCCACGACTCAGTGGCATCTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
426314 AAAGTCCACGACTCAGTGGCATCTCTTC-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * **
426344 AAAATCCACAACTCAGTGGCATCTCTTC-CC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
** * * *
426374 AAAGTTTACGACTCATTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* *
426405 AAAGTCCACAACTCAGCGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* *
426436 AAAGTCCACGACTCAGTGGCAATC---TCTTC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
* * **
426465 AAAGTCCACGA-TGCAGTGGCATCTTGTC-CG
1 AAAGTCCACAACT-CAGTGGCATCTTTTCTTT
** *
426495 AAAGTCCATGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
** * *
426526 AAAGTCCATGACTCAGCGGCGATC---TCTTC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
** * **
426555 AAAGTCCACGGCGT-AGTGGCATCTTGTC-CC
1 AAAGTCCACAAC-TCAGTGGCATCTTTTCTTT
* * *
426585 AAAGTCCACGACCCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
426616 AAAGTCCACAACTCAGTGGCAT-TTCTT-TTCT
1 AAAGTCCACAACTCAGTGGCATCTT-TTCTT-T
* * * *
426647 -AGGTCCACGACTCAGTGGCATTCGTTTCTTC
1 AAAGTCCACAACTCAGTGGCA-TCTTTTCTTT
* * * * *
426678 CAAGTCCACGACTAAGTGGCAATCTCTTC-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
* * * *
426709 AAAGTCCACGACTAAGTGGCAATCTCTTC-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
* **
426740 AAAGTCCACAACTCAGTGGCATCTTGTC-CC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
426770 AAAGCCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* *
426801 AAAGTCCACGACTCAGTGGCAATCTCTTT-TCT
1 AAAGTCCACAACTCAGTGGC-ATCT-TTTCTTT
* * *
426833 -AAGTCCACGACTCAGT-GTATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* *
426862 AAAGTCCACGACTCAGTGGCAAT-TTTTC-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
* * * **
426892 AAAGTCCACGACTCAGAGGCATCTCTTC-CC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
** *
426922 AAAGTCCATGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
426953 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCTTT
* * * *
426984 AAAGTCCACGACTCCGTGGCACCTTTTTTTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTCTTT
* *
427016 AAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTC--TTT
* *
427050 AAAGCCCACAACTCCGTGGC-TCCCTTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCAT--C--TTTTCTTT
*
427084 -AAGTCCACAACTCCGTGGCA-C---TCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
427110 TAAGTCCACAACTTC-GTCGCACCTTTTTCTTCT
1 AAAGTCCACAAC-TCAGTGGCATC-TTTTCTT-T
* *
427143 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTC--TTT
* *
427176 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGTCCACAACTCAGTGGCATCTT-TT-CTTT
* * *
427209 TAAGCCCACAACTCCGTGGC-TCCCTTTTTCCTTT
1 AAAGTCCACAACTCAGTGGCAT--C-TTTT-CTTT
*
427243 -AAGTCCACAACTCCGTGGCA-C---TCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
427269 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTCTTT
* *
427301 TAAGTCCACAACTCCA-TGGCACCTTTTTCTTTTT
1 AAAGTCCACAACT-CAGTGGCATC-TTTTC--TTT
* * * *
427335 AAAGTCTACAAGTTCA-TAGCACCTTGTTCCTTT
1 AAAGTCCACAA-CTCAGTGGCATCTT-TT-CTTT
* * *
427368 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTCTTT
* *
427400 TAAGTCCACAACTCTGTGGCATCTTTTTCTTTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTC--TTT
* *
427434 AAAGTCCACAACTCCGTGGCACCTTGTTCCCTTT
1 AAAGTCCACAACTCAGTGGCATCTT-TT--CTTT
* *
427468 -AAGCCCATAACTTCA-TGGC-TCCCTTTTTCCTTT
1 AAAGTCCACAAC-TCAGTGGCAT--C-TTTT-CTTT
*
427501 -AAGTCCACAACTCTGTGGCA-C---TCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTCTTT
* * *
427527 TAAGTCCACAACTCTGTGGCACCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTCTTT
* *
427559 TAAGTCCACAACTTC-GTGGCACCTTTTTCTTTTT
1 AAAGTCCACAAC-TCAGTGGCATC-TTTTC--TTT
* * *
427593 AAAGTCCACAACTCCGTGGCACCTTATCCCTTT
1 AAAGTCCACAACTCAGTGGCATCTT-T-TCTTT
* * *
427626 TAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGTCCACAACTCAGTGGCATCTT-TT-CTTT
* * * *
427659 TAAGTTCACAACTCCGTGGCACCTTTTCTTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTC-TTT
* * *
427691 TAAGTCCACGACTCCGTGGCA
1 AAAGTCCACAACTCAGTGGCA
427712 CCCTTTTCCC
Statistics
Matches: 1182, Mismatches: 119, Indels: 193
0.79 0.08 0.13
Matches are distributed among these distances:
26 13 0.01
27 58 0.05
28 15 0.01
29 50 0.04
30 224 0.19
31 264 0.22
32 221 0.19
33 183 0.15
34 138 0.12
35 9 0.01
36 7 0.01
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (31 bp):
AAAGTCCACAACTCAGTGGCATCTTTTCTTT
Found at i:426407 original size:61 final size:62
Alignment explanation
Indices: 426282--427036 Score: 788
Period size: 61 Copynumber: 12.4 Consensus size: 62
426272 TCTCTCTTCC
* * *
426282 CAAAGTCCACGACTCAGTGGCATCTTTTCTTTAAAGTCCACGACTCAGTGGCATCTCTTC-T
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT
* * * ** *
426343 CAAAATCCACAACTCAGTGGCATCTCTTC-CCAAAGTTTACGACTCATTGGCATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT
* * *
426404 CAAAGTCCACAACTCAGCGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATC---TCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTT
*
426464 CAAAGTCCACGA-TGCAGTGGCATCT-TGTC--CGAAAGTCCATGACTCAGTGGCATCTTTTCTT
1 CAAAGTCCACGACT-CAGTGGCATCTCT-TCTTC-AAAGTCCACGACTCAGTGGCATCTTTTCTT
* * * * *
426525 CAAAGTCCATGACTCAGCGGCGA--TC-TCTTCAAAGTCCACGGCGT-AGTGGCATCTTGTC-C
1 CAAAGTCCACGACTCAGTGGC-ATCTCTTCTTCAAAGTCCACGAC-TCAGTGGCATCTTTTCTT
* * *
426584 CAAAGTCCACGACCCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCAT-TTCTT-TT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTT-TTCTT
* * * * *
426645 CTAGGTCCACGACTCAGTGGCAT-TCGTTTCTTCCAAGTCCACGACTAAGTGGCAATCTCTTC-T
1 CAAAGTCCACGACTCAGTGGCATCTC--TTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTT
* * * *
426708 CAAAGTCCACGACTAAGTGGCAATCTCTTC-TCAAAGTCCACAACTCAGTGGCATCTTGTC-C
1 CAAAGTCCACGACTCAGTGGC-ATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT
* * *
426769 CAAAGCCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTT-TT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTT
* * *
426831 CTAAGTCCACGACTCAGT-GTATCTTTTCTTCAAAGTCCACGACTCAGTGGCAAT-TTTTC-T
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTT
* * *
426891 CAAAGTCCACGACTCAGAGGCATCTCTTC-CCAAAGTCCATGACTCAGTGGCATCTTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT
* * *
426952 CAAAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTCCGTGGCACCTTTTTTTT
1 CAAAGTCCACGACTCAGTGGC-ATCTCTTCTTCAAAGTCCACGACTCAGTGGCATC-TTTTCTT
* * *
427015 TAAAGTCCACAACTCTGTGGCA
1 CAAAGTCCACGACTCAGTGGCA
427037 CCTTTTTCTT
Statistics
Matches: 581, Mismatches: 76, Indels: 73
0.80 0.10 0.10
Matches are distributed among these distances:
58 5 0.01
59 43 0.07
60 132 0.23
61 230 0.40
62 113 0.19
63 53 0.09
64 3 0.01
65 2 0.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (62 bp):
CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTT
Found at i:427103 original size:99 final size:95
Alignment explanation
Indices: 426985--427784 Score: 793
Period size: 99 Copynumber: 8.3 Consensus size: 95
426975 TCTCTTCTCA
* *
426985 AAGTCCACGACTCCGTGGCACCTTTTTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTTTTT-AAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
* *
427050 AAAGCCCACAACTCCGTGGCTCCCTTTTTTCTTT
64 -AAGTCCACAACTCCGTGGC-ACCTTTTTTCTTT
* * * *
427084 AAGTCCACAACTCCGTGGCA-C---TCTTTTAAGTCCACAACTTCGTCGCACCTTTTTCTTCTAA
1 AAGTCCACAACTCCGTGGCACCTTTTTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAA
*
427145 GTCCACAACTCCGTGGCACCTTTTTCTTTTT
66 GTCCACAACTCCGTGGCACCTTTTT-TCTTT
* * * *
427176 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCTCCCTTTTTCCT
1 -AAGTCCACAACTCCGTGGCACCTT-TT-TTTTTAAGTCCACAACTCCGTGGC-ACCTTTTTCTT
*
427241 TTAAGTCCACAACTCCGTGGCA-C---TCT-TTT
62 TTAAGTCCACAACTCCGTGGCACCTTTTTTCTTT
*
427270 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT-TTTTAAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
* * * * * * *
427335 AAAGTCTACAAGTTCATAGCACCTTGTTCCTTTT
64 -AAGTCCACAACTCCGTGGCACCTTTTTTC-TTT
* *
427369 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT-TTTTAAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
**
427434 AAAGTCCACAACTCCGTGGCACCTTGTTCCCTTT
64 -AAGTCCACAACTCCGTGGCACCTT-TTTTCTTT
* * * * * * *
427468 AAGCCCATAACTTCATGGCTCCCTTTTTCCTTTAAGTCCACAACTCTGTGGCA-C----TCTTTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTT-TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
427528 AAGTCCACAACTCTGTGGCACC-TTTTTCTTTT
64 AAGTCCACAACTCCGTGGCACCTTTTTTC-TTT
* **
427560 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTATCCCTT
1 AAGTCCACAACTCCGTGGCACC-TTTT-TTTTT-AAGTCCACAACTCCGTGGCACCTT-TTTCTT
* *
427625 TTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
62 TTAAGTCCACAACTCCGTGGCACCTTTTTTC-TTT
* * *
427660 AAGTTCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCACCTTTT-TTTTTAAGTCCACAACTCCGTGGCA-CCTTTT-TCTTT
* * * *
427725 TAAGCCCACACCTCCATGGCATCCCTTTTTCTTGT
63 TAAGTCCACAACTCCGTGGCA-CCTTTTTTCTT-T
* *
427760 AAGTCCACAACCCCGTGGCCCCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
427785 AAGTCCAATA
Statistics
Matches: 596, Mismatches: 70, Indels: 69
0.81 0.10 0.09
Matches are distributed among these distances:
91 20 0.03
92 75 0.13
93 103 0.17
94 35 0.06
95 8 0.01
96 1 0.00
97 1 0.00
98 22 0.04
99 210 0.35
100 121 0.20
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (95 bp):
AAGTCCACAACTCCGTGGCACCTTTTTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAA
GTCCACAACTCCGTGGCACCTTTTTTCTTT
Found at i:427243 original size:159 final size:162
Alignment explanation
Indices: 426985--427783 Score: 857
Period size: 159 Copynumber: 4.9 Consensus size: 162
426975 TCTCTTCTCA
* * *
426985 AAGTCCACGACTCCGTGGCACC-TTTT-TTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACC-TTTTCCTT
* *
427048 TTAAAGCCCACAACTCCGTGGCTCCCTTTTTTCTTTAAGTCCACAACTCCGTGGCA-C-TC-TTT
65 TT-AAGTCCACAACTCCGTGGC-CCCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTCTTTT
* * * *
427110 T-AAGTCCACAACTTCGTCGCACCTT-TTTCTTCT
128 TAAAGTCCACAACTCCGTGGCACCTTATTCCTTTT
427143 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTT
*
427208 TTAAGCCCACAACTCCGTGGCTCCCTTTTTCCTTTAAGTCCACAACTCCGTGGCA-C-TC-TTTT
65 TTAAGTCCACAACTCCGTGGC-CCCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTCTTTTT
*
427270 -AAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
129 AAAGTCCACAACTCCGTGGCACCTTATTCCTTTT
* * * * * *
427302 AAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGTCTACAAGTTCATAGCACCTTGTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTT
* * * *
427367 TTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTT
65 TTAAGTCCACAACTCCGTGGCCCCTTTTTCCTTTAAGTCCACAACTCCGTGGCA-C--CTTCTTT
* *
427432 TTAAAGTCCACAACTCCGTGGCACCTTGTTCCCTTT
127 TTAAAGTCCACAACTCCGTGGCACCTTATTCCTTTT
* * * * * * *
427468 AAGCCCATAACTTCATGGCTCCCTTTTTC-CTTT-AAGTCCACAACTCTGTGGCA-C---T-CTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTT
* * * *
427526 TTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTT
65 TTAAGTCCACAACTCCGTGGCCCCTTTTTCCTTTAAGTCCACAACTCCGTGGCACC---TTCTTT
*
427591 TTAAAGTCCACAACTCCGTGGCACCTTATCCCTTTT
127 TTAAAGTCCACAACTCCGTGGCACCTTATTCCTTTT
* * * *
427627 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTTCACAACTCCGTGGCACCTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
* * * * *
427691 TAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAGCCCACACCTCCATGGCATCCCTT-TTT
66 TAAGTCCACAACTCCGTGGC-CCCTTTTTCC-TTTAAGTCCACAACTCCGTGGCA--CCTTCTTT
* * *
427755 CTTGTAAGTCCACAACCCCGTGGCCCCTT
127 -TT-AAAGTCCACAACTCCGTGGCACCTT
427784 TAAGTCCAAT
Statistics
Matches: 554, Mismatches: 60, Indels: 46
0.84 0.09 0.07
Matches are distributed among these distances:
158 59 0.11
159 302 0.55
160 36 0.06
163 3 0.01
164 29 0.05
165 49 0.09
166 66 0.12
167 8 0.01
168 2 0.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (162 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
TAAGTCCACAACTCCGTGGCCCCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTCTTTTTAA
AGTCCACAACTCCGTGGCACCTTATTCCTTTT
Found at i:427374 original size:258 final size:257
Alignment explanation
Indices: 426985--427791 Score: 1118
Period size: 258 Copynumber: 3.1 Consensus size: 257
426975 TCTCTTCTCA
* *
426985 AAGTCCACGACTCCGTGGCACCTTTTTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-C---TCTTTT-AAGTCCACAACTCTGTGGCACCTTTTTC-TTTT
* * *
427050 AAAGCCCACAACTCCGTGGCTCCCTTTTT-TCTTT-AAGTCCACAACTCCGTGGCA-C---T-CT
60 -AAGTCCACAACTCCGTGGC-ACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCT
* * *
427108 TTTAAGTCCACAACTTCGTCGCACCTTTTTCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTT
123 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
*
427173 TTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCTCCCTTTTT
188 TTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCATGGCTCCCTTTTT
427238 CCTTT
253 CCTTT
*
427243 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCC
* * * * * *
427308 ACAACTCCATGGCACCTTTTTCTTTTTAAAGTCTACAAGTTCATAGCACCTTGTTCCTTTTAAGT
66 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
* *
427373 CCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCTTTTTAAAG
130 CCACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAG
* * *
427438 TCCACAACTCCGTGGCACCTTGTTCCCTTTAAGCCCATAACTTCATGGCTCCCTTTTTCCTTT
195 TCCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCATGGCTCCCTTTTTCCTTT
*
427501 AAGTCCACAACTCTGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCC
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCC
* *
427566 ACAACTTCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTATCCCTTTTAAGT
66 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
* *
427631 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGTTCACAACTCCGTGGCACC-TTTTCTTTTT-AA
130 CCACAACTCCGTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAA
* *
427694 GTCCACGACTCCGTGGCACCCTT-TTCCCTTTTAAGCCCACACCTCCATGGCATCCCTTTTT-CT
194 GTCCACAACTCCGTGGCA-CCTTGTT-CCTTTTAAGCCCACAACTCCATGGC-TCCCTTTTTCCT
427757 TGT
256 T-T
* *
427760 AAGTCCACAACCCCGTGGC-C-CCTTTAAGTCCA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCA
427792 ATATCGTTGG
Statistics
Matches: 492, Mismatches: 44, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
250 7 0.01
251 21 0.04
252 19 0.04
253 28 0.06
254 5 0.01
257 34 0.07
258 325 0.66
259 53 0.11
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (257 bp):
AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCC
ACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTC
CACAACTCCGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGT
CCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCATGGCTCCCTTTTTCCTTT
Found at i:427940 original size:39 final size:39
Alignment explanation
Indices: 427836--428043 Score: 146
Period size: 39 Copynumber: 5.0 Consensus size: 39
427826 TAACCAGCTT
* *
427836 TAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
* * * *
427875 CCTTTAAGTCTAATATCACTAGCCTTGAATTAGCACATTGGCA
1 ----TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
* * *
427918 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
* * *
427957 CCTTGTCTCTAAGACCAATGTCGCTGGACTTGAATCAGCACATTGGCA
1 ---------TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
* * * * *
428005 CAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
428044 CCTTTATCTT
Statistics
Matches: 132, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
39 66 0.50
43 33 0.25
48 33 0.25
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
Found at i:428017 original size:87 final size:85
Alignment explanation
Indices: 427841--428093 Score: 314
Period size: 87 Copynumber: 3.0 Consensus size: 85
427831 AGCTTTAAGA
* * * * * *
427841 CCAATGTCGCTAGCCTTGAATCAGCATATTGGCACC--TT-TAAGTCTAATATCACTAGCCTTGA
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTTCTAAGACCAATGTCGCTGGCCTTGA
* *
427903 ATTAGCACATTGGCATAAGC
66 ATCAGCACATTGGCACAAGC
* *
427923 CCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGACTT
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-T-TCTAAGACCAATGTCGCTGGCCTT
427988 GAATCAGCACATTGGCACAAGC
64 GAATCAGCACATTGGCACAAGC
* * *
428010 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTGAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT-TC-T-AAGACCAATGTCGCTGGCCT
*
428075 TGAATCAACACATTGGCAC
63 TGAATCAGCACATTGGCAC
428094 CTTCATCTTT
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
82 34 0.23
85 1 0.01
86 4 0.03
87 72 0.49
88 36 0.24
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (85 bp):
CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTTCTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCACAAGC
Found at i:428090 original size:49 final size:49
Alignment explanation
Indices: 428010--428147 Score: 177
Period size: 49 Copynumber: 2.8 Consensus size: 49
428000 TGGCACAAGC
**
428010 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTGAAGA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTGAAGA
* * * * * *
428059 CCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTGAAGA
* * *
428108 CCGATATCGTTGGCTTTGAATCAGCATATTGGCATCTTTA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
428148 ACATTCCTAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 74 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTGAAGA
Found at i:434616 original size:7 final size:6
Alignment explanation
Indices: 434604--434648 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
434594 TCCTTTAAAT
*
434604 AACAAA CAACAAA AA-AAA ATCAAA AACAAA AACAAAA AACAAA AA
1 AACAAA -AACAAA AACAAA AACAAA AACAAA AAC-AAA AACAAA AA
434649 AAGAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 18 0.53
7 12 0.35
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (6 bp):
AACAAA
Found at i:434630 original size:20 final size:18
Alignment explanation
Indices: 434607--434675 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
434597 TTTAAATAAC
434607 AAACAACAAAAAAAAATCAA
1 AAACAA-AAAAAAAAA-CAA
434627 AAACAAAAACAAAAAACAA
1 AAACAAAAA-AAAAAACAA
**
434646 AAA-AAGAAAAGAAAAAGTA
1 AAACAA-AAAA-AAAAACAA
*
434665 AAAGAAAAAAA
1 AAACAAAAAAA
434676 GCAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.09
19 25 0.58
20 14 0.33
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (18 bp):
AAACAAAAAAAAAAACAA
Found at i:434633 original size:17 final size:19
Alignment explanation
Indices: 434606--434640 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
434596 CTTTAAATAA
434606 CAAACAACAAAAA-AAAAT
1 CAAACAACAAAAACAAAAT
434624 CAAA-AACAAAAACAAAA
1 CAAACAACAAAAACAAAA
434641 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.03
Consensus pattern (19 bp):
CAAACAACAAAAACAAAAT
Found at i:434660 original size:12 final size:12
Alignment explanation
Indices: 434645--434729 Score: 57
Period size: 12 Copynumber: 6.7 Consensus size: 12
434635 ACAAAAAACA
434645 AAAAAAGAAAAG
1 AAAAAAGAAAAG
434657 -AAAAAGTAAAAG
1 AAAAAAG-AAAAG
* *
434669 AAAAAAAGCAAAT
1 -AAAAAAGAAAAG
434682 AAAAAAGAAAAAG
1 AAAAAAG-AAAAG
*
434695 AAAGTGCAAAAAAAAG
1 AAA----AAAGAAAAG
*
434711 -AAAAATAAAAG
1 AAAAAAGAAAAG
434722 AAAAAAGA
1 AAAAAAGA
434730 TGAGGAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
11 14 0.25
12 18 0.32
13 9 0.16
14 6 0.11
15 2 0.04
16 5 0.09
17 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:434692 original size:25 final size:26
Alignment explanation
Indices: 434638--434697 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
434628 AACAAAAACA
*
434638 AAAAACAAAAAAAGAAAAG-AAAAAG
1 AAAAAGAAAAAAAGAAAAGAAAAAAG
* * *
434663 TAAAAGAAAAAAAGCAAATAAAAAAG
1 AAAAAGAAAAAAAGAAAAGAAAAAAG
434689 AAAAAGAAA
1 AAAAAGAAA
434698 GTGCAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (26 bp):
AAAAAGAAAAAAAGAAAAGAAAAAAG
Found at i:437121 original size:36 final size:35
Alignment explanation
Indices: 437030--437123 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
437020 TCAATCAAAT
* * *
437030 TTTCCATCATCGTTTGATTATATCTAGTCAAACTC
1 TTTCCACCATCGTTTGACTGTATCTAGTCAAACTC
* *
437065 TTTCCACCATCGTTTAACTGTATCTTGTCAAACTC
1 TTTCCACCATCGTTTGACTGTATCTAGTCAAACTC
* *
437100 TTTGCATCCCTCGTTTGACTGTAT
1 TTTCCA-CCATCGTTTGACTGTAT
437124 TGGTGTTAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
35 35 0.70
36 15 0.30
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.43
Consensus pattern (35 bp):
TTTCCACCATCGTTTGACTGTATCTAGTCAAACTC
Found at i:437165 original size:48 final size:48
Alignment explanation
Indices: 437091--437421 Score: 441
Period size: 48 Copynumber: 6.9 Consensus size: 48
437081 ACTGTATCTT
* *
437091 GTCAAACTCTTTGCATCCCTCGTTTGACTGTATTGGTGTTAAGGCTTG
1 GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
* *
437139 GTCAAACTCTTTTCATCTCTCATTTGACTGTATTGGTGTTAGGGCTTG
1 GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
*
437187 GTTAAACTCTTTTCATCCCTCGTTTGACCT-TATTGGTGTTAGGGCTTG
1 GTCAAACTCTTTTCATCCCTCGTTTGA-CTGTATTGGTGTTAGGGCTTG
* * *
437235 GTCAAACTCTTTTCATCCTTCGTTTGACCGTATTGGTGTTAAGGCTTG
1 GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
* * * * * **
437283 ATCTAACTTTTTTCATCCCTCATTTGACCGTATTGGTGTTAGGGCCCG
1 GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
* * **
437331 GTTAAACTTTTTTCATCCCTCGTTTGACCATATTGGTGTTAGGGCTTG
1 GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
**
437379 GTCAAACTCTTTTCATCCCTTATTTGA-TCGTATTGGTGTTAGG
1 GTCAAACTCTTTTCATCCCTCGTTTGACT-GTATTGGTGTTAGG
437422 ATCTGGTTAA
Statistics
Matches: 248, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.00
48 245 0.99
49 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (48 bp):
GTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGCTTG
Found at i:437351 original size:144 final size:144
Alignment explanation
Indices: 437091--437419 Score: 516
Period size: 144 Copynumber: 2.3 Consensus size: 144
437081 ACTGTATCTT
* * * *
437091 GTCAAACTCTTTGCATCCCTCGTTTGACTGTATTGGTGTTAAGGCTTGGTCAAACTCTTTTCATC
1 GTCAAACTCTTTTCATCCTTCGTTTGACCGTATTGGTGTTAAGGCTTGATCAAACTCTTTTCATC
* * ** *
437156 TCTCATTTGACTGTATTGGTGTTAGGGCTTGGTTAAACTCTTTTCATCCCTCGTTTGACCTTATT
66 CCTCATTTGACCGTATTGGTGTTAGGGCCCGGTTAAACTCTTTTCATCCCTCGTTTGACCATATT
437221 GGTGTTAGGGCTTG
131 GGTGTTAGGGCTTG
* *
437235 GTCAAACTCTTTTCATCCTTCGTTTGACCGTATTGGTGTTAAGGCTTGATCTAACTTTTTTCATC
1 GTCAAACTCTTTTCATCCTTCGTTTGACCGTATTGGTGTTAAGGCTTGATCAAACTCTTTTCATC
*
437300 CCTCATTTGACCGTATTGGTGTTAGGGCCCGGTTAAACTTTTTTCATCCCTCGTTTGACCATATT
66 CCTCATTTGACCGTATTGGTGTTAGGGCCCGGTTAAACTCTTTTCATCCCTCGTTTGACCATATT
437365 GGTGTTAGGGCTTG
131 GGTGTTAGGGCTTG
* *
437379 GTCAAACTCTTTTCATCCCTT-ATTTGATCGTATTGGTGTTA
1 GTCAAACTCTTTTCAT-CCTTCGTTTGACCGTATTGGTGTTA
437420 GGATCTGGTT
Statistics
Matches: 170, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 166 0.98
145 4 0.02
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (144 bp):
GTCAAACTCTTTTCATCCTTCGTTTGACCGTATTGGTGTTAAGGCTTGATCAAACTCTTTTCATC
CCTCATTTGACCGTATTGGTGTTAGGGCCCGGTTAAACTCTTTTCATCCCTCGTTTGACCATATT
GGTGTTAGGGCTTG
Found at i:437641 original size:44 final size:44
Alignment explanation
Indices: 437501--437914 Score: 214
Period size: 44 Copynumber: 9.4 Consensus size: 44
437491 ATTTGATGTG
** * * * *
437501 TGGTTACCACCCTCCTCAAATCTGCCTCTTTCCTATCTGACGTA
1 TGGTTACCACCCTAGTCAAGTCTGTCTCCTTCCTATCTGACATA
* * * * * ** * **
437545 TGGCTACCACCCT-GTTAGATTCT-TTTCATTCAGATTTGATGTA
1 TGGTTACCACCCTAGTCA-AGTCTGTCTCCTTCCTATCTGACATA
*
437588 TGGTTACCACCCTAATCAAGTCTGTCTCCTTCCTATCTGACATA
1 TGGTTACCACCCTAGTCAAGTCTGTCTCCTTCCTATCTGACATA
* * * * * *
437632 CGGTTACCACCCTGGTCAGATTCT-TTTCATT-CTAATTTGACATA
1 TGGTTACCACCCTAGTCA-AGTCTGTCTCCTTCCT-ATCTGACATA
* * * * ** *
437676 TGGTTACCACCCTGGCCAAGTCTGCCTCTTTATTGTCT-AGCATA
1 TGGTTACCACCCTAGTCAAGTCTGTCTCCTTCCTATCTGA-CATA
* * * * *
437720 TGGTTACCACCCTAGTCAGATTCT-TTTCTTTCCAATTTGACATA
1 TGGTTACCACCCTAGTCA-AGTCTGTCTCCTTCCTATCTGACATA
* *
437764 TGGTTACCACCCTAGTCAAGTCTG-CATCCTTTCTATCTGACGTA
1 TGGTTACCACCCTAGTCAAGTCTGTC-TCCTTCCTATCTGACATA
* * * * ** * * * **
437808 TGGTTACCACCTTGGTCAGATTCT-TTTTATTTCGATTTGATGTA
1 TGGTTACCACCCTAGTCA-AGTCTGTCTCCTTCCTATCTGACATA
* * * * * *
437852 AGGTTACCACCCTAGTCAAATCTGCCTCCTTCTTGTTTGACATA
1 TGGTTACCACCCTAGTCAAGTCTGTCTCCTTCCTATCTGACATA
*
437896 TGGTTACCACCCTGGTCAA
1 TGGTTACCACCCTAGTCAA
437915 ACAATTTGCA
Statistics
Matches: 275, Mismatches: 80, Indels: 30
0.71 0.21 0.08
Matches are distributed among these distances:
43 46 0.17
44 215 0.78
45 14 0.05
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (44 bp):
TGGTTACCACCCTAGTCAAGTCTGTCTCCTTCCTATCTGACATA
Found at i:437687 original size:88 final size:88
Alignment explanation
Indices: 437448--437913 Score: 526
Period size: 88 Copynumber: 5.3 Consensus size: 88
437438 CTCATTTCGG
* * * * *
437448 TCTGACATATAGTTACTACCCTGGTCAGATTCTTTTCATTTTTATTTGATGTGTGGTTACCACCC
1 TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTACCACCC
** * *
437513 TCCTCAAATCTGCCTCTTTCCTA
66 TAGTCAAGTCTGCCTCCTTCCTA
* * *
437536 TCTGACGTATGGCTACCACCCT-GTTAGATTCTTTTCATTC-AGATTTGATGTATGGTTACCACC
1 TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTA-ATTTGATGTATGGTTACCACC
* *
437599 CTAATCAAGTCTGTCTCCTTCCTA
65 CTAGTCAAGTCTGCCTCCTTCCTA
* **
437623 TCTGACATACGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCC
1 TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTACCACCC
* * * ** *
437688 TGGCCAAGTCTGCCTCTTTATTG
66 TAGTCAAGTCTGCCTCCTTCCTA
* * * **
437711 TCT-AGCATATGGTTACCACCCTAGTCAGATTCTTTTCTTTCCAATTTGACATATGGTTACCACC
1 TCTGA-CATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTACCACC
* *
437775 CTAGTCAAGTCTGCATCCTTTCTA
65 CTAGTCAAGTCTGCCTCCTTCCTA
* * * * *
437799 TCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTTATT-TCGATTTGATGTAAGGTTACCACC
1 TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCT-AATTTGATGTATGGTTACCACC
* * *
437863 CTAGTCAAATCTGCCTCCTTCTTG
65 CTAGTCAAGTCTGCCTCCTTCCTA
*
437887 TTTGACATATGGTTACCACCCTGGTCA
1 TCTGACATATGGTTACCACCCTGGTCA
437914 AACAATTTGC
Statistics
Matches: 316, Mismatches: 56, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
87 75 0.24
88 239 0.76
89 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (88 bp):
TCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAATTTGATGTATGGTTACCACCC
TAGTCAAGTCTGCCTCCTTCCTA
Found at i:438138 original size:42 final size:42
Alignment explanation
Indices: 438092--438210 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
438082 TGTCTGCCCG
*
438092 TCGGCTCAGA-CTCGAGAGACTTCTTCATCAATCGTTTGCTCA
1 TCGGCTCAAACCT-GAGAGACTTCTTCATCAATCGTTTGCTCA
* *
438134 TCGGCTTAAACCTGAGAGACTTCTTCATCCATCGTTTGCTCA
1 TCGGCTCAAACCTGAGAGACTTCTTCATCAATCGTTTGCTCA
* * * *
438176 TCGGCTTAAACCTAAGAGACTTTTTCATCCATCGT
1 TCGGCTCAAACCTGAGAGACTTCTTCATCAATCGT
438211 CTACCCATCA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 69 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (42 bp):
TCGGCTCAAACCTGAGAGACTTCTTCATCAATCGTTTGCTCA
Found at i:438604 original size:42 final size:42
Alignment explanation
Indices: 438558--438680 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 42
438548 CGTCTACCCA
*
438558 TCGGCTCAAACTCAAGAGACTCTTTTATCTTTTATCTACTTG
1 TCGGCTCAAACTCAAGAGACTCTTTTATCTTTTATCTACTCG
* *
438600 TCGGCTCAAAC-CTAGGAGA-T-TTCTTCATCTTTTATCTGCTCG
1 TCGGCTCAAACTC-AAGAGACTCTT-TT-ATCTTTTATCTACTCG
* ** * ** *
438642 TTGGCTCAAACTTGAGAGACGCCCTTATCTTTCATCTAC
1 TCGGCTCAAACTCAAGAGACTCTTTTATCTTTTATCTAC
438681 CATCAACTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.03
41 4 0.06
42 55 0.87
43 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (42 bp):
TCGGCTCAAACTCAAGAGACTCTTTTATCTTTTATCTACTCG
Found at i:438774 original size:42 final size:42
Alignment explanation
Indices: 438705--438805 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
438695 CGAAAAACTC
* * * * *
438705 CTTTATCTTTCGTCTGCTCATTGGCTTAAACCCGGGAGATTT
1 CTTTTTCTTTCGTCTGCCCATTAGCTTAAACCCGGGACACTT
* * *
438747 CTTTTTCTTTCGTCTGCCCGTTAGCTTAGACTCGGGACACTT
1 CTTTTTCTTTCGTCTGCCCATTAGCTTAAACCCGGGACACTT
*
438789 CTTCATTCTTT-GTCTGC
1 CTT-TTTCTTTCGTCTGC
438806 TTGTTGGCTC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 43 0.88
43 6 0.12
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.43
Consensus pattern (42 bp):
CTTTTTCTTTCGTCTGCCCATTAGCTTAAACCCGGGACACTT
Found at i:438957 original size:42 final size:41
Alignment explanation
Indices: 438902--439009 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 41
438892 CCTATCAACT
* *
438902 TAGACCTGAGAGACTCCTTTATCTTTCATCTGCCCGTCGTC-
1 TAGACCTG-GAGACTTCTTTATCTTTCATCTGCCCGTCGGCA
*
438943 TCAGACCTAGGAGACTTCTTTATCTTTCATCTGCCTGTCGGCA
1 T-AGACCT-GGAGACTTCTTTATCTTTCATCTGCCCGTCGGCA
*
438986 TAGACTTGGGAGACTTCTTTATCT
1 TAGACCT-GGAGACTTCTTTATCT
439010 CTTTGTTTGC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 56 0.95
43 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (41 bp):
TAGACCTGGAGACTTCTTTATCTTTCATCTGCCCGTCGGCA
Found at i:439191 original size:85 final size:85
Alignment explanation
Indices: 439042--439258 Score: 228
Period size: 85 Copynumber: 2.6 Consensus size: 85
439032 TCTCGGGAAA
* * * *
439042 CAACCTTCATCTCATTGTTTACCTGTCGACTCAGTCCCTGATAAACTTTTTATCCTCTTAGTGAC
1 CAACCTTCATCGCATTGTTTACCTGTCGGCTCAGTCCCTGATAAACTTATTATCCCCTTAGTGAC
*
439107 CCGTCAGTTTAATC-CTTGGT
66 CCGTCAGCTTAATCTC-TGGT
* * *
439127 CAACCCTTCATC-CATTGTTTAGCTGTCGGCTCAGTCCCTGGTAAAAC-TATTA-CCCCTATGGT
1 CAA-CCTTCATCGCATTGTTTACCTGTCGGCTCAGTCCCTGAT-AAACTTATTATCCCCT-TAGT
* *
439189 GACCTGTCAGCTTAGTCTCTGGT
63 GACCCGTCAGCTTAATCTCTGGT
* * * *
439212 CAACTTTCATCGCATTATTTACCTATCGGCTGAGT-CCTCGATAAACT
1 CAACCTTCATCGCATTGTTTACCTGTCGGCTCAGTCCCT-GATAAACT
439259 CCTTATCTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
84 18 0.16
85 79 0.72
86 13 0.12
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (85 bp):
CAACCTTCATCGCATTGTTTACCTGTCGGCTCAGTCCCTGATAAACTTATTATCCCCTTAGTGAC
CCGTCAGCTTAATCTCTGGT
Found at i:448662 original size:20 final size:19
Alignment explanation
Indices: 448637--448690 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
448627 TTTACATTTA
448637 AAGCATGATTTCAACTTAT
1 AAGCATGATTTCAACTTAT
*
448656 GAAGCATAGA-TGCAACTTAT
1 -AAGCAT-GATTTCAACTTAT
448676 AAGATCATGATTTCA
1 AAG--CATGATTTCA
448691 TCAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 8 0.29
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
AAGCATGATTTCAACTTAT
Found at i:452395 original size:23 final size:23
Alignment explanation
Indices: 452365--452424 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
452355 AGCTTACATG
*
452365 AGCCATATAGTGTAACTTCTTTA
1 AGCCATATGGTGTAACTTCTTTA
* *
452388 AGCCATATGGCGTAACTTCTTTC
1 AGCCATATGGTGTAACTTCTTTA
452411 AGCCATATGGTGTA
1 AGCCATATGGTGTA
452425 GCTTTTTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (23 bp):
AGCCATATGGTGTAACTTCTTTA
Found at i:457262 original size:35 final size:34
Alignment explanation
Indices: 457209--457274 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
457199 GAAGTAATTG
457209 AGAGGTTCAATCTAAGCCTTTGTAAAAGATAGGGA
1 AGAGGTTCAATCTAAGCCTTTG-AAAAGATAGGGA
* *
457244 AGAGGTTCTATCTTAGCCTTTGAAAAGATAG
1 AGAGGTTCAATCTAAGCCTTTGAAAAGATAG
457275 TATTGTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (34 bp):
AGAGGTTCAATCTAAGCCTTTGAAAAGATAGGGA
Found at i:457566 original size:16 final size:16
Alignment explanation
Indices: 457545--457578 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
457535 AGGATCTATA
457545 TTTAGAAA-GAAGCGAG
1 TTTAGAAATG-AGCGAG
457561 TTTAGAAATGAGCGAG
1 TTTAGAAATGAGCGAG
457577 TT
1 TT
457579 AAAGATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.38, C:0.06, G:0.29, T:0.26
Consensus pattern (16 bp):
TTTAGAAATGAGCGAG
Found at i:463547 original size:52 final size:52
Alignment explanation
Indices: 463491--463590 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
463481 CTCCAACCTC
* *
463491 ATTTTTACTTCCAAAATATAAAATTTTTCATCTTCAAGGATACTTCAATTGG
1 ATTTTTACTTCCAAAACACAAAATTTTTCATCTTCAAGGATACTTCAATTGG
* * *
463543 ATTTTTCCTTCCAAAACACCAAATTTTTCATCTTCGAGGATACTTCAA
1 ATTTTTACTTCCAAAACACAAAATTTTTCATCTTCAAGGATACTTCAA
463591 CCTCACCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (52 bp):
ATTTTTACTTCCAAAACACAAAATTTTTCATCTTCAAGGATACTTCAATTGG
Found at i:463673 original size:52 final size:52
Alignment explanation
Indices: 463608--463727 Score: 188
Period size: 52 Copynumber: 2.3 Consensus size: 52
463598 ATTTTTTGAG
*
463608 GGGATACTCCAACCTTGTTTTTACTTCCAAAACACCAAAATTTTT-ATTTCTA
1 GGGATACTCCAACCTTGTTTTTACTTCCAAAACA-CAAAATTTTTCATCTCTA
* *
463660 GGGATACTCCAACCTCGTTTTTACTTCCAAAACACTAAATTTTTCATCTCTA
1 GGGATACTCCAACCTTGTTTTTACTTCCAAAACACAAAATTTTTCATCTCTA
*
463712 GGGATACTCTAACCTT
1 GGGATACTCCAACCTT
463728 ACCATCTCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 9 0.15
52 53 0.85
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (52 bp):
GGGATACTCCAACCTTGTTTTTACTTCCAAAACACAAAATTTTTCATCTCTA
Found at i:463717 original size:133 final size:133
Alignment explanation
Indices: 463411--463732 Score: 359
Period size: 133 Copynumber: 2.4 Consensus size: 133
463401 CTCTAACCCC
* * * * * *
463411 ATTTTTACTTCCAAAACACCGAATTTTCCATCTCCAGGAATACTTCATCCCCACCA-TCTCCAAG
1 ATTTTTACTTCCAAAACACCAAATTTTTCATCTCTAGGGATACTTCAACCTCACCATTCTCCAAG
* * * *
463475 GGGATACTCCAACCTCATTTTTACTTCCAAAATATAAAATTTTTCATCTTCAAGGATACTTCAAT
66 GGGATACTCCAACCTCATTTTTACTTCCAAAACACAAAATTTTTCATCTTCAAGGATACTCCAAC
*
463540 TGG
131 TCG
* * * ***
463543 ATTTTTCCTTCCAAAACACCAAATTTTTCATCT-TCGAGGATACTTCAACCTCACCATTTTTTGA
1 ATTTTTACTTCCAAAACACCAAATTTTTCATCTCTAG-GGATACTTCAACCTCACCATTCTCCAA
** *
463607 GGGGATACTCCAACCTTGTTTTTACTTCCAAAACACCAAAATTTTT-AT-TTCTAGGGATACTCC
65 GGGGATACTCCAACCTCATTTTTACTTCCAAAACA-CAAAATTTTTCATCTTC-AAGGATACTCC
463670 AACCTCG
128 AA-CTCG
* *
463677 -TTTTTACTTCCAAAACACTAAATTTTTCATCTCTAGGGATAC-TCTAACCTTACCAT
1 ATTTTTACTTCCAAAACACCAAATTTTTCATCTCTAGGGATACTTC-AACCTCACCAT
463733 CTCAGCGGGG
Statistics
Matches: 159, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
131 1 0.01
132 51 0.32
133 94 0.59
134 13 0.08
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.35
Consensus pattern (133 bp):
ATTTTTACTTCCAAAACACCAAATTTTTCATCTCTAGGGATACTTCAACCTCACCATTCTCCAAG
GGGATACTCCAACCTCATTTTTACTTCCAAAACACAAAATTTTTCATCTTCAAGGATACTCCAAC
TCG
Found at i:465002 original size:21 final size:21
Alignment explanation
Indices: 464976--465029 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
464966 CAAGTATGGA
* *
464976 TGTATCGATACATTCT-GAAAT
1 TGTATCGATACATT-TACAAAG
*
464997 TGTATCGATGCATTTACAAAG
1 TGTATCGATACATTTACAAAG
465018 TGTATCGATACA
1 TGTATCGATACA
465030 ATTGAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTTACAAAG
Found at i:465121 original size:20 final size:20
Alignment explanation
Indices: 465056--465127 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
465046 TAATAGTGAA
465056 ATGTATCGATAC-TT-TCACAT
1 ATGTATCGATACATTAT-A-AT
465076 AATGTATCGATACATTATAAT
1 -ATGTATCGATACATTATAAT
* * *
465097 ATGTAACGATACATTTTCAT
1 ATGTATCGATACATTATAAT
*
465117 GTGTATCGATA
1 ATGTATCGATA
465128 GAAATGAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 26 0.59
21 14 0.32
22 3 0.07
23 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTATAAT
Found at i:467093 original size:13 final size:13
Alignment explanation
Indices: 467075--467100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
467065 TACACCAAGT
467075 ATGTATCGATACA
1 ATGTATCGATACA
467088 ATGTATCGATACA
1 ATGTATCGATACA
467101 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:467098 original size:32 final size:33
Alignment explanation
Indices: 467057--467120 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
467047 TAGCCAAACT
**
467057 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
467089 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
467121 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:473304 original size:13 final size:13
Alignment explanation
Indices: 473286--473323 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
473276 CATTTTTCTT
473286 TGTATCGATACAA
1 TGTATCGATACAA
*
473299 TGTATCGATACAT
1 TGTATCGATACAA
473312 TGTATCGATACA
1 TGTATCGATACA
473324 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:473478 original size:20 final size:20
Alignment explanation
Indices: 473435--473480 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
473425 AAATCTTTTG
473435 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
473456 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
473476 CAAAA
1 CAAAA
473481 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:475852 original size:13 final size:13
Alignment explanation
Indices: 475834--475859 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
475824 TACACCAAGT
475834 ATGTATCGATACA
1 ATGTATCGATACA
475847 ATGTATCGATACA
1 ATGTATCGATACA
475860 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:475857 original size:32 final size:33
Alignment explanation
Indices: 475816--475879 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
475806 TAGCCAAACT
**
475816 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
475848 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
475880 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:479532 original size:20 final size:20
Alignment explanation
Indices: 479507--479631 Score: 117
Period size: 20 Copynumber: 5.8 Consensus size: 20
479497 TTTTCACAAT
479507 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
479527 TTGTATCGATACATTCTAGGTTTTACCCA
1 TTGTATCGATACA-T-T--G--TT---CA
* *
479556 GATGTATCGATACATT-TCCCA
1 -TTGTATCGATACATTGT-TCA
479577 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
479597 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTGTTCA
479617 TTGTATCGATACATT
1 TTGTATCGATACATT
479632 CTGGGTTTAC
Statistics
Matches: 88, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
20 63 0.72
21 4 0.05
22 1 0.01
23 1 0.01
24 1 0.01
26 2 0.02
28 1 0.01
29 3 0.03
30 12 0.14
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:479618 original size:90 final size:89
Alignment explanation
Indices: 479507--479680 Score: 285
Period size: 89 Copynumber: 1.9 Consensus size: 89
479497 TTTTCACAAT
* * *
479507 TTGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGTATCGATACATT
1 TTGTATCGATACATTATTCATTGTATCGATACATTCT-GGGTTTACCCAAATGTATCGATACATT
* *
479572 TCCCATTGTATCGATACATTGTTCA
65 TCACAATGTATCGATACATTGTTCA
479597 TTGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTACCCAAATGTATCGATACATTT
1 TTGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTACCCAAATGTATCGATACATTT
*
479662 TACAATGTATCGATACATT
66 CACAATGTATCGATACATT
479681 CAGGCATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 42 0.54
90 36 0.46
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (89 bp):
TTGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTACCCAAATGTATCGATACATTT
CACAATGTATCGATACATTGTTCA
Found at i:488233 original size:22 final size:21
Alignment explanation
Indices: 488182--488241 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
488172 ACTACTAAGG
488182 AAATGTATCGATACA-TTACT
1 AAATGTATCGATACATTTACT
488202 AAATGTATCGATACATGCTTAC-
1 AAATGTATCGATACAT--TTACT
*
488224 AATTGTATCGATACATTT
1 AAATGTATCGATACATTT
488242 TTCATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 17 0.47
22 15 0.42
23 4 0.11
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (21 bp):
AAATGTATCGATACATTTACT
Found at i:492643 original size:20 final size:22
Alignment explanation
Indices: 492594--492634 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
492584 ATACAATAAA
*
492594 TAATTTATTGATACACTTTAAG
1 TAATGTATTGATACACTTTAAG
492616 TAATGTATTGATACA-TTTA
1 TAATGTATTGATACACTTTA
492635 TTTATGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (22 bp):
TAATGTATTGATACACTTTAAG
Found at i:493390 original size:3 final size:3
Alignment explanation
Indices: 493376--493406 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
493366 ACCATCAACA
*
493376 ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
493407 AGTTGACTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:497543 original size:156 final size:155
Alignment explanation
Indices: 497225--498439 Score: 1020
Period size: 156 Copynumber: 7.8 Consensus size: 155
497215 GGATAGGAAT
* * * * * * *
497225 GGGATGAACCTGTCTTAAACACCTACCTTCGGCATAAAAGCAGACCCGATGATAACCTACGACTC
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACTC
* * * *
497290 GATTCTAAAAAATTATGAAAATACCC-ATGGGGATACCTTTGACGAGAAAGTAT-TTCGATACCT
66 GATTCTAAAAAATTACGAAAATACCCTATGGGGATACCTTCGACGTGAAAGTATCTT-GGTACC-
*
497353 CTAAAGGACTTAAAAATGACTATAAAA
129 CTAAAGGACTTAAAAAAGACTATAAAA
* * *
497380 GGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGTAGGCCCGGTGATAATCTAAGACTC
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACTC
* * *
497445 GGTTCTGAAAAATTACGAAAATACCTCTA-GGGGATACCTTCGACATGAAAGTATCTTGGTACCA
66 GATTCTAAAAAATTACGAAAATACC-CTATGGGGATACCTTCGACGTGAAAGTATCTTGGTACC-
* *
497509 CCAAAAGACTTAAAAAAGACTATAAAA
129 CTAAAGGACTTAAAAAAGACTATAAAA
* * * * *
497536 AGGATGAACCAATCCTAAATACCCACCTTTGACATAAAAGTAGACCCGGTGATAATCTAAGACTC
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACTC
* * **
497601 GATTTTAAAAAATTACGAAAATGCCCT-TAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCC
66 GATTCTAAAAAATTACGAAAATACCCTAT-GGGGATACCTTCGACGTGAAAGTATCTTGGTA-CC
* * *
497665 CTAAAGAACTTAAAAAGGACTACAAAA
129 CTAAAGGACTTAAAAAAGACTATAAAA
* * *
497692 GGGATGAACCTATCCTAAATACCTACCCTT-GGCATAAAA-TCAGACCCGGTGATAACTTAGGAC
1 GGGATGAACCTATCCTAAATACCCA-CCTTCGGCATAAAAGT-AGACCCGGTGATAACCTAAGAC
* * * * ** * * *
497755 TTGGTTTTAAAAAATTACTAAAATATCTTTAGGGGGATACCTTCGACGTAAAAGTA-CTTGATAC
64 TCGATTCTAAAAAATTACGAAAATA-CCCTATGGGGATACCTTCGACGTGAAAGTATCTTGGTA-
*
497819 CCCTAAAGGACCTAAAAAAGACTATAAAA
127 CCCTAAAGGACTTAAAAAAGACTATAAAA
* ** ** *** * * * *
497848 GGGATGGACCTATCCTAAATACCCATATTCGATATAAAAACGGACCTGGTGACAACCTAAGAGTT
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACTC
* * * * * * * **
497913 GATTCTCAAAAATTATGAAAATGCCCTTATGTGTATACCTTCGACGTAAAAGTATCCTAGCAACC
66 GATTCTAAAAAATTACGAAAATACCC-TATGGGGATACCTTCGACGTGAAAGTAT-CTTGGTACC
* * * *
497978 CTAAAAGACTT-AAAAAGATTATAGAT
129 CTAAAGGACTTAAAAAAGACTATAAAA
** * * * * *
498004 GAAATGAACCTATCCTAAATATCTACCTTCGGCACAAAAAT-GAACCCGGTTATAACCTAAGACT
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAG-ACCCGGTGATAACCTAAGACT
* * * * * *** * * *
498068 CGATTTTGAAAAATAATGAAAATGCCTCTATGAATATACCTTCGACGTAAAAGTATCCTGGCAAC
65 CGATTCTAAAAAATTACGAAAATACC-CTATGGGGATACCTTCGACGTGAAAGTATCTTGG-TAC
* * *
498133 CCTAAAGGACTT-AAAAAGATTATAGAT
128 CCTAAAGGACTTAAAAAAGACTATAAAA
** * *** * ** * *
498160 GAAATGAAGCTATCCTAAATATTTACCTTCGGCATAAAAG-CGAACTTGGTTATAACCTAGGACT
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAG-ACCCGGTGATAACCTAAGACT
* * ** * * **
498224 CGGTTCTAAAAAATTA-GAAAAATACCCT-TAGGAGATATTTTTGATGTGAAAGTATCTCAGTAC
65 CGATTCTAAAAAATTACG-AAAATACCCTAT-GGGGATACCTTCGACGTGAAAGTATCTTGGTAC
* *
498287 CCTTAAAGGACTTAAAAAGGTCTATAAAA
128 CC-TAAAGGACTTAAAAAAGACTATAAAA
* * * * *
498316 GGGGGTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCAAACCTGGTGATAACCTAAGACT
1 -GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACT
* * * * * * *
498381 TGATTCT-AAAAATTACAAAAATGCCCCTA-AGGGATACTTTCGATGTGAATGTATCTTGG
65 CGATTCTAAAAAATTACGAAAAT-ACCCTATGGGGATACCTTCGACGTGAAAGTATCTTGG
498440 GAAATTAAAA
Statistics
Matches: 862, Mismatches: 170, Indels: 55
0.79 0.16 0.05
Matches are distributed among these distances:
154 5 0.01
155 119 0.14
156 629 0.73
157 105 0.12
158 4 0.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (155 bp):
GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAGACCCGGTGATAACCTAAGACTC
GATTCTAAAAAATTACGAAAATACCCTATGGGGATACCTTCGACGTGAAAGTATCTTGGTACCCT
AAAGGACTTAAAAAAGACTATAAAA
Found at i:497770 original size:312 final size:312
Alignment explanation
Indices: 497226--498439 Score: 1128
Period size: 312 Copynumber: 3.9 Consensus size: 312
497216 GATAGGAATG
* * * * * * *
497226 GGATGAACCTGTCTTAAACACCTACCTTCGGCATAAAAGCAGACCCGATGATAACCTACGACTCG
1 GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATAACCTAAGACTCG
* * * ** *
497291 ATTCTAAAAAATTATGAAAATACCCAT-GGGGATACCTTTGACGAGAAAGTATTTC-GATACCTC
66 ATTCTAAAAAATTATGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCAG-TACCCC
* * *
497354 TAAAGGACTTAAAAATGACTATAAAAGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAA
130 TAAAGAACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAA
* * *
497419 GT-AGGCCCGGTGATAATCTAAGACTCGGTTCTGAAAAATTACGAAAATACCTCTA-GGGGATAC
195 -TCAGACCCGGTGATAACCTAAGACTCGATTCTGAAAAATTACGAAAATACCTCTAGGGGGATAC
* * *
497482 CTTCGACATGAAAGTATCTTGGTACCACCAAAAGACTTAAAAAAGACTATAAAAA
259 CTTCGACGTAAAAGTATCTTGGTACC-CCAAAGGACTTAAAAAAGACTATAAAAA
* * * *
497537 GGATGAACCAATCCTAAATACCCACCTTTGACATAAAAGTAGACCCGGTGATAATCTAAGACTCG
1 GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATAACCTAAGACTCG
* * * *
497602 ATTTTAAAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCT
66 ATTCTAAAAAATTATGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCAGTACCCCT
* *
497667 AAAGAACTTAAAAAGGACTACAAAAGGGATGAACCTATCCTAAATACCTACCCTT-GGCATAAAA
131 AAAGAACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCA-CCTTCGGCATAAAA
* * * * * * * * *
497731 TCAGACCCGGTGATAACTTAGGACTTGGTTTTAAAAAATTACTAAAATATCTTTAGGGGGATACC
195 TCAGACCCGGTGATAACCTAAGACTCGATTCTGAAAAATTACGAAAATACCTCTAGGGGGATACC
* * *
497796 TTCGACGTAAAAGTA-CTTGATACCCCTAAAGGACCTAAAAAAGACTATAAAAG
260 TTCGACGTAAAAGTATCTTGGTACCCC-AAAGGACTTAAAAAAGACTATAAAAA
* ** * * * * * * *
497849 GGATGGACCTATCCTAAATACCCATATTCGATATAAAAACGGACCTGGTGACAACCTAAGAGTTG
1 GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATAACCTAAGACTCG
* * * * * * * *
497914 ATTCTCAAAAATTATGAAAATGCCCTTATGTGTATACCTTCGACGTAAAAGTATCCTAGCAACCC
66 ATTCTAAAAAATTATGAAAATACCCTTA-GGGGATACCTTCGACGTGAAAGTATCCCAGTACCCC
* * * ** * * *
497979 TAAA-AGACTTAAAAA-GATTATAGATGAAATGAACCTATCCTAAATATCTACCTTCGGCACAAA
130 TAAAGA-ACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCA-TAA
* * * * * * * ***
498042 AATGA-ACCCGGTTATAACCTAAGACTCGATTTTGAAAAATAATGAAAATGCCTCTATGAATATA
193 AATCAGACCCGGTGATAACCTAAGACTCGATTCTGAAAAATTACGAAAATACCTCTAGGGGGATA
* * * * *
498106 CCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGACTT-AAAAAGATTATAGATGAA
258 CCTTCGACGTAAAAGTATCTTGG-TACCCCAAAGGACTTAAAAAAGACTATA-A-AAA
* *** * ** * *
498163 --ATGAAGCTATCCTAAATATTTACCTTCGGCATAAAAGC-GAACTTGGTTATAACCTAGGACTC
1 GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG-ACCCGGTGATAACCTAAGACTC
* * ** * * *
498225 GGTTCTAAAAAATTA-GAAAAATACCCTTAGGAGATATTTTTGATGTGAAAGTATCTCAGTACCC
65 GATTCTAAAAAATTATG-AAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCAGTACCC
* * * * *
498289 TTAAAGGACTTAAAAAGGTCTATAAAAGGGGGTGAACCTATCCTAAATACCCATCTTCGGCATAA
129 CTAAAGAACTTAAAAAGGACTATAAAA-GGGATGAACCTATCCTAAATACCCACCTTCGGCATAA
* * * * * * * *
498354 AAGCAAACCTGGTGATAACCTAAGACTTGATTCT-AAAAATTACAAAAATGCCCCTA-AGGGATA
193 AATCAGACCCGGTGATAACCTAAGACTCGATTCTGAAAAATTACGAAAATACCTCTAGGGGGATA
* * * *
498417 CTTTCGATGTGAATGTATCTTGG
258 CCTTCGACGTAAAAGTATCTTGG
498440 GAAATTAAAA
Statistics
Matches: 722, Mismatches: 161, Indels: 40
0.78 0.17 0.04
Matches are distributed among these distances:
311 143 0.20
312 435 0.60
313 139 0.19
314 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (312 bp):
GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATAACCTAAGACTCG
ATTCTAAAAAATTATGAAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCAGTACCCCT
AAAGAACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAT
CAGACCCGGTGATAACCTAAGACTCGATTCTGAAAAATTACGAAAATACCTCTAGGGGGATACCT
TCGACGTAAAAGTATCTTGGTACCCCAAAGGACTTAAAAAAGACTATAAAAA
Found at i:498021 original size:468 final size:462
Alignment explanation
Indices: 497225--498423 Score: 1229
Period size: 468 Copynumber: 2.6 Consensus size: 462
497215 GGATAGGAAT
* * * * *
497225 GGGATGAACCTGTCTTAAACACCTACCTTCGGCATAAAAGCAGACCCGATGATAACCTACGACTC
1 GGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTC
* ** *
497290 GATTCTAAAAAATTATGAAAATACCCATGGGGATACCTTTGACG-AGAAAGTATTTCGATACCTC
66 GGTTCTAAAAAATTAT-AAAATACTTA-GGGGATACCTTTGACGTA-AAAGTA-TT-GATACCCC
* * *
497354 TAAAGGACTTAAAAATGACTATAAAAGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAA
126 TAAAGGACTTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAA
* * * * *
497419 GTA-GG-CCCGGTGATAATCTAAGACTCGGTTCTGAAAAATTACGAAAAT-ACCTCTAGGGGATA
191 --ACGGACCTGGTGATAACCTAAGACTTGATTCT-AAAAATTACGAAAATGCCCTCTAGGGGATA
* * **
497481 CCTTCGACATGAAAGTATCTTGGTACCACCAAAAGACTTAAAAAAGACTATAAAAAGGATGAACC
253 CCTTCGACATAAAAGTATCTAGCAACCACCAAAAGACTTAAAAAAGACTATAAAAA-GATGAACC
* * * *
497546 AATCCTAAATACCCACCTTTGACATAAAAGT-AGACCCGGTGATAATCTAAGACTCGATTTTAAA
317 AATCCTAAATACCCACCTTCGACACAAAAATGA-ACCCGGTGATAACCTAAGACTCGATTTTAAA
* ** * * *
497610 AAATTACGAAAATGCC-CT-TAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCTAAAGAA
381 AAATAACGAAAATGCCTCTAT-GAAGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGAA
497673 CTTAAAAAGGACTACAAAA
445 CTTAAAAA-GACTACAAAA
* *
497692 GGGATGAACCTATCCTAAATACCTACCCTT-GGCATAAAATCAGACCCGGTGATAACTTAGGACT
1 GGGATGAACCTATCCTAAATACCTA-CCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACT
* * *
497756 TGGTTTTAAAAAATTACTAAAATATCTTTAGGGGGATACCTTCGACGTAAAAGTACTTGATACCC
65 CGGTTCTAAAAAATTA-TAAAATA-C-TTA-GGGGATACCTTTGACGTAAAAGTA-TTGATACCC
* * * **
497821 CTAAAGGACCTAAAAAAGACTATAAAAGGGATGGACCTATCCTAAATACCCATATTCGATATAAA
125 CTAAAGGACTTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAA
* * * * *
497886 AACGGACCTGGTGACAACCTAAGAGTTGATTCTCAAAAATTATGAAAATGCCCT-TATGTGTATA
190 AACGGACCTGGTGATAACCTAAGACTTGATTCT-AAAAATTACGAAAATGCCCTCTA-GGGGATA
* * * *
497950 CCTTCGACGTAAAAGTATCCTAGCAACC-CTAAAAGACTT-AAAAAGATTATAGATGAA-ATGAA
253 CCTTCGACATAAAAGTAT-CTAGCAACCACCAAAAGACTTAAAAAAGACTATA-A-AAAGATGAA
* * * * * *
498012 CCTATCCTAAATATCTACCTTCGGCACAAAAATGAACCCGGTTATAACCTAAGACTCGATTTTGA
315 CCAATCCTAAATACCCACCTTCGACACAAAAATGAACCCGGTGATAACCTAAGACTCGATTTTAA
* * * *
498077 AAAATAATGAAAATGCCTCTATGAATATACCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGA
380 AAAATAACGAAAATGCCTCTATGAAGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGAA
* * * *
498142 CTTAAAAAGATTATAGAT
445 CTTAAAAAGACTACAAAA
** * ** ** *
498160 GAAATGAAGCTATCCTAAATATTTACCTTCGGCATAAAAGC-GAACTTGGTTATAACCTAGGACT
1 GGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAG-ACCCGGTGATAACCTAGGACT
* * ** * * *
498224 CGGTTCTAAAAAATTAGAAAAATACCCTTAGGAGATATTTTTGATGTGAAAGTATCTCAGTACCC
65 CGGTTCTAAAAAATTA-TAAAATA--CTTAGGGGATACCTTTGACGTAAAAGTAT-TGA-TACCC
* * * *
498289 TTAAAGGACTTAAAAAGGTCTATAAAAGGGGGTGAACCTATCCTAAATACCCATCTTCGGCATAA
125 CTAAAGGACTTAAAAAAGACTATAAAA-GGGATGAACCTATCCTAAATACCCATCTTCGGCATAA
* ** * *
498354 AAGCAAACCTGGTGATAACCTAAGACTTGATTCTAAAAATTACAAAAATGCCC-CTAAGGGATAC
189 AAACGGACCTGGTGATAACCTAAGACTTGATTCTAAAAATTACGAAAATGCCCTCTAGGGGATAC
*
498418 TTTCGA
254 CTTCGA
498424 TGTGAATGTA
Statistics
Matches: 601, Mismatches: 109, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
466 2 0.00
467 108 0.18
468 314 0.52
469 167 0.28
470 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (462 bp):
GGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTC
GGTTCTAAAAAATTATAAAATACTTAGGGGATACCTTTGACGTAAAAGTATTGATACCCCTAAAG
GACTTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAAACGGA
CCTGGTGATAACCTAAGACTTGATTCTAAAAATTACGAAAATGCCCTCTAGGGGATACCTTCGAC
ATAAAAGTATCTAGCAACCACCAAAAGACTTAAAAAAGACTATAAAAAGATGAACCAATCCTAAA
TACCCACCTTCGACACAAAAATGAACCCGGTGATAACCTAAGACTCGATTTTAAAAAATAACGAA
AATGCCTCTATGAAGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGAACTTAAAAAGAC
TACAAAA
Found at i:499567 original size:13 final size:13
Alignment explanation
Indices: 499549--499594 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
499539 ATATCCTTCG
*
499549 TTCTCTTTTTCCT
1 TTCTCTTTTACCT
499562 TTCTCTTTTACCT
1 TTCTCTTTTACCT
499575 TTCTCTTTTACCT
1 TTCTCTTTTACCT
*
499588 TTTTCTT
1 TTCTCTT
499595 CTTCTTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTCTTTTACCT
Found at i:499840 original size:34 final size:35
Alignment explanation
Indices: 499802--499872 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 35
499792 TGTTGTGTCG
*
499802 TGTTGCTATC-TCCACCATCAGCTGCTGTTGGTTT
1 TGTTGCTATCTTCCACCATCAGCGGCTGTTGGTTT
*
499836 TGTTGCTGTCTTTTTCCACCATCAGCGGCTGTTGGTT
1 TGTTGCTATC---TTCCACCATCAGCGGCTGTTGGTT
499873 ACGTTTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 9 0.29
38 22 0.71
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (35 bp):
TGTTGCTATCTTCCACCATCAGCGGCTGTTGGTTT
Found at i:500138 original size:38 final size:38
Alignment explanation
Indices: 500090--500188 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 38
500080 TGTTGCTGTC
* *
500090 TCCACCATCAACTGCTGTTGGTTTTGTTGCTATCTTGT
1 TCCACCATCAACTGCTGTTGGTTTTGTAGCTATCTTCT
* * * *
500128 TCCACAATCAACTACTATTAGTTTTGTAGCTATCTTCT
1 TCCACCATCAACTGCTGTTGGTTTTGTAGCTATCTTCT
*
500166 TCCACCATCAGCTGCTGTTGGTT
1 TCCACCATCAACTGCTGTTGGTT
500189 ACTTTTGCTT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (38 bp):
TCCACCATCAACTGCTGTTGGTTTTGTAGCTATCTTCT
Found at i:500254 original size:20 final size:21
Alignment explanation
Indices: 500197--500257 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
500187 TTACTTTTGC
*
500197 TTGTTGCTTGGTA-TTGCTTCTG
1 TTGTTGC-TGGTATTTGC-TATG
500219 TTGTTGCTGGTATTTGCTATG
1 TTGTTGCTGGTATTTGCTATG
* *
500240 TTG-TGCTGTTGTTTGCTA
1 TTGTTGCTGGTATTTGCTA
500258 CTTGGTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.37
21 11 0.31
22 11 0.31
ACGTcount: A:0.07, C:0.11, G:0.28, T:0.54
Consensus pattern (21 bp):
TTGTTGCTGGTATTTGCTATG
Found at i:500448 original size:13 final size:13
Alignment explanation
Indices: 500431--500467 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
500421 TCTTTTTTTA
500431 CTTTTTT-TTCT-
1 CTTTTTTCTTCTC
500442 CTTTTTTCCTTCTC
1 CTTTTTT-CTTCTC
500456 CTTTTTTCTTCT
1 CTTTTTTCTTCT
500468 TTCTTTCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
13 9 0.39
14 7 0.30
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTTTCTTCTC
Found at i:500460 original size:21 final size:21
Alignment explanation
Indices: 500436--500477 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
500426 TTTTACTTTT
*
500436 TTTTCTCTTTTTTCCTTCTCC
1 TTTTCTCTTCTTTCCTTCTCC
* *
500457 TTTTTTCTTCTTTCTTTCTCC
1 TTTTCTCTTCTTTCCTTCTCC
500478 CTTCCCCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCTCTTCTTTCCTTCTCC
Found at i:500965 original size:21 final size:22
Alignment explanation
Indices: 500941--500987 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
500931 ATTGTCACAC
**
500941 ATAAAAAAATAATGAA-AGAAA
1 ATAAAAAAATAAAAAATAGAAA
500962 AT-AAAAAATAAAAAATAGAAA
1 ATAAAAAAATAAAAAATAGAAA
500983 ATAAA
1 ATAAA
500988 TTAAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 11 0.50
21 9 0.41
22 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (22 bp):
ATAAAAAAATAAAAAATAGAAA
Found at i:507033 original size:44 final size:44
Alignment explanation
Indices: 506985--507123 Score: 103
Period size: 44 Copynumber: 3.1 Consensus size: 44
506975 CTTCGTCAAC
506985 CTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGAT
1 CTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGAT
* ** *
507029 CTTTTTCCTAATTAGATG-AA--G-CAAATAGAGGAA-A-AACTCCAT
1 CTTTTACCTAATCGGATGAAATGGACAAA-A-A-GAACATAAC-CGAT
*
507071 CAACCTTTTACCTAATCGGAT-AAAGTGGACAAAAAGAACTTAACCGAT
1 ----CTTTTACCTAATCGGATGAAA-TGGACAAAAAGAACATAACCGAT
507119 CTTTT
1 CTTTT
507124 GGCTAATTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 30
0.65 0.08 0.27
Matches are distributed among these distances:
40 4 0.06
41 5 0.07
42 5 0.07
43 5 0.07
44 20 0.28
46 16 0.23
47 3 0.04
48 4 0.06
49 5 0.07
50 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (44 bp):
CTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGAT
Found at i:507100 original size:90 final size:90
Alignment explanation
Indices: 506980--507161 Score: 294
Period size: 90 Copynumber: 2.0 Consensus size: 90
506970 AAGACCTTCG
*
506980 TCAACCTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGATCTTTTTCCTAATTAGA
1 TCAACCTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGATCTTTTGCCTAATTAGA
* *
507045 TGAAGCAAATAGAGGAAAAACTCCA
66 TGAAGCAAATAAAAGAAAAACTCCA
* * *
507070 TCAACCTTTTACCTAATCGGAT-AAAGTGGACAAAAAGAACTTAACCGATCTTTTGGCTAATTTG
1 TCAACCTTTTACCTAATCGGATGAAA-TGGACAAAAAGAACATAACCGATCTTTTGCCTAATTAG
507134 ATGAAGCAAATAAAAGAAAAACTCCA
65 ATGAAGCAAATAAAAGAAAAACTCCA
507160 TC
1 TC
507162 GACTTTTTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 3 0.04
90 82 0.96
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (90 bp):
TCAACCTTTTACCTAATCGGATGAAATGGACAAAAAGAACATAACCGATCTTTTGCCTAATTAGA
TGAAGCAAATAAAAGAAAAACTCCA
Found at i:509027 original size:34 final size:34
Alignment explanation
Indices: 508913--509503 Score: 247
Period size: 34 Copynumber: 17.5 Consensus size: 34
508903 TTAAAACATG
* * *
508913 TCCTCAAGTGAGGCTTTTAAAATTGCTAGAAACA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * * * *
508947 TCTTTAAGAGAGGCTTATAAAATTTTTGAAAAATA
1 TCCTCAAGAGAGGCTTTTAAAATTTCT-AAAAACA
* *
508982 TTCTCAAGAGAGGCTTTTAACATTTCTAAAAACA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * * * *
509016 TCCTCAGGAGAGG-TTATGAAATCTCTTAAAACA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * **
509049 TCATCAAAAGAGG-TTTTAAAATCACTAAAAA-A
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * * * *
509081 TCCTC-AGAAAAGCTTATAAAATTTGTGAAAAATA
1 TCCTCAAGAGAGGCTTTTAAAATTTCT-AAAAACA
* * * * * *
509115 TTCTGATGAGAGGCTTTTAACATATT-TGAAATCA
1 TCCTCAAGAGAGGCTTTTAAAAT-TTCTAAAAACA
* * * * *
509149 ACCTCAAGAGAAGCTTGTGAAATTTCTTAAAA-A
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * * ** ** * *
509182 TCATTAAGACAATCTTTTAAAATCACTGAAGACA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* * * * *
509216 TCCTTAATAAAGGCTTATAAAATCTT-TAAAAAAGTA
1 TCCTCAAGAGAGGCTTTTAAAAT-TTCT-AAAAA-CA
** *
509252 TCCTCAAGAGAGGCTTTGGGAAATTTTTAAAAACA
1 TCCTCAAGAGAGGCTTT-TAAAATTTCTAAAAACA
* * * *
509287 TGCTCAAGTGAGGC-TTTAACATTTCTAAAAATA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
** * * *
509320 TCCTCAAGAGAGATTTTTGAACTCTCCT-AAAACA
1 TCCTCAAGAGAGGCTTTTAAAAT-TTCTAAAAACA
* * ** * *
509354 TCTTCAAGAGATGCTTTGGGAATTTTCTAAAAAAA
1 TCCTCAAGAGAGGCTTT-TAAAATTTCTAAAAACA
* * *
509389 T-CTCAAGTGAGGC-TTTAACCATCTCTAAAAACA
1 TCCTCAAGAGAGGCTTTTAA-AATTTCTAAAAACA
* * * * * *
509422 ACCTTAAGA-TGG-TTTTAACATCTCTAAAAATA
1 TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
* ** * *
509454 TCTTCAAGAGAGG-TTTTTGAATTCTTTGAAAACA
1 TCCTCAAGAGAGGCTTTTAAAATT-TCTAAAAACA
*
509488 TCCTCTAGAGAGGCTT
1 TCCTCAAGAGAGGCTT
509504 AAAGATTATT
Statistics
Matches: 397, Mismatches: 137, Indels: 45
0.69 0.24 0.08
Matches are distributed among these distances:
31 4 0.01
32 34 0.09
33 117 0.29
34 144 0.36
35 70 0.18
36 23 0.06
37 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (34 bp):
TCCTCAAGAGAGGCTTTTAAAATTTCTAAAAACA
Found at i:509071 original size:33 final size:33
Alignment explanation
Indices: 508916--509079 Score: 107
Period size: 33 Copynumber: 4.8 Consensus size: 33
508906 AAACATGTCC
* * *
508916 TCAAGTGAGGCTTTTAAAAT-TGCTAGAAACATCT
1 TCAAGAGAGG-TTTTAAAATCT-CTAAAAACATCA
* * * * *
508950 TTAAGAGAGGCTTATAAAATTTTTGAAAAATATTC-
1 TCAAGAGAGG-TTTTAAAATCTCT-AAAAACA-TCA
* * *
508985 TCAAGAGAGGCTTTTAACATTTCTAAAAACATCC
1 TCAAGAGAGG-TTTTAAAATCTCTAAAAACATCA
* * * *
509019 TCAGGAGAGGTTATGAAATCTCTTAAAACATCA
1 TCAAGAGAGGTTTTAAAATCTCTAAAAACATCA
* *
509052 TCAAAAGAGGTTTTAAAATCACTAAAAA
1 TCAAGAGAGGTTTTAAAATCTCTAAAAA
509080 ATCCTCAGAA
Statistics
Matches: 102, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
33 41 0.40
34 33 0.32
35 26 0.25
36 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (33 bp):
TCAAGAGAGGTTTTAAAATCTCTAAAAACATCA
Found at i:509101 original size:32 final size:32
Alignment explanation
Indices: 509007--509102 Score: 86
Period size: 32 Copynumber: 2.9 Consensus size: 32
508997 TTTAACATTT
* * * *
509007 CTAAAAACATCCTCAGGAGAGGTTATGAAATCT
1 CTAAAAA-ATCCTCAGAAAAGGTTATAAAATCA
* * *
509040 CTTAAAACATCATCA-AAAGAGGTTTTAAAATCA
1 C-TAAAAAATCCTCAGAAA-AGGTTATAAAATCA
*
509073 CTAAAAAATCCTCAGAAAAGCTTATAAAAT
1 CTAAAAAATCCTCAGAAAAGGTTATAAAAT
509103 TTGTGAAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
32 22 0.45
33 22 0.45
34 5 0.10
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (32 bp):
CTAAAAAATCCTCAGAAAAGGTTATAAAATCA
Found at i:509110 original size:133 final size:135
Alignment explanation
Indices: 508957--509268 Score: 350
Period size: 133 Copynumber: 2.3 Consensus size: 135
508947 TCTTTAAGAG
*
508957 AGGCTTATAAAATTTTTGAAAAATATTCTCAAGAGAGGCTTTTAACAT-TTCTAAAAACATCCTC
1 AGGCTTATAAAA-TTTTGAAAAATATTCTCAAGAGAGGCTTTTAACATATT-TAAAAACAACCTC
* * *
509021 AGGAG-AGGTTATGAAATCTCTTAAAACATCATCAA-A-AGAGGTTTTAAAATCACT-AAAAAAT
64 AAGAGAAGCTTATGAAATCTCTTAAAA-ATCATCAAGACA-AGCTTTTAAAATCACTGAAAAAAT
509082 CCTCAGA-AA
127 CCTCA-ATAA
* * * *
509091 A-GCTTATAAAATTTGTGAAAAATATTCTGATGAGAGGCTTTTAACATATTTGAAATCAACCTCA
1 AGGCTTATAAAATTT-TGAAAAATATTCTCAAGAGAGGCTTTTAACATATTTAAAAACAACCTCA
* * * * * *
509155 AGAGAAGCTTGTGAAATTTCTTAAAAATCATTAAGACAATCTTTTAAAATCACTGAAGACATCCT
65 AGAGAAGCTTATGAAATCTCTTAAAAATCATCAAGACAAGCTTTTAAAATCACTGAAAAAATCCT
*
509220 TAATAA
130 CAATAA
* *
509226 AGGCTTATAAAATCTTTAAAAAAGTATCCTCAAGAGAGGCTTT
1 AGGCTTATAAAAT-TTTGAAAAA-TATTCTCAAGAGAGGCTTT
509269 GGGAAATTTT
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
132 3 0.02
133 61 0.41
134 37 0.25
135 13 0.09
136 17 0.11
137 18 0.12
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (135 bp):
AGGCTTATAAAATTTTGAAAAATATTCTCAAGAGAGGCTTTTAACATATTTAAAAACAACCTCAA
GAGAAGCTTATGAAATCTCTTAAAAATCATCAAGACAAGCTTTTAAAATCACTGAAAAAATCCTC
AATAA
Found at i:511319 original size:19 final size:20
Alignment explanation
Indices: 511287--511324 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
511277 AAATTTGAAA
511287 AAAAAAAAGAAAAAACAAAG
1 AAAAAAAAGAAAAAACAAAG
*
511307 AAAAGAAAG-AAAAACAAA
1 AAAAAAAAGAAAAAACAAA
511325 AACAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAAAAAACAAAG
Found at i:523202 original size:22 final size:23
Alignment explanation
Indices: 523177--523224 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
523167 AAACGCACAC
523177 AAAATG-AAAAGAAAAACAAAAA
1 AAAATGCAAAAGAAAAACAAAAA
* *
523199 AAAATGCAAAAGCAAAATAAAAA
1 AAAATGCAAAAGAAAAACAAAAA
523222 AAA
1 AAA
523225 CAACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (23 bp):
AAAATGCAAAAGAAAAACAAAAA
Found at i:523231 original size:23 final size:23
Alignment explanation
Indices: 523183--523232 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
523173 ACACAAAATG
*
523183 AAAAGAAAAACAAAAAAAAATGC
1 AAAAGAAAAACAAAAAAAAATAC
* *
523206 AAAAGCAAAATAAAAAAAACA-AC
1 AAAAGAAAAACAAAAAAAA-ATAC
523229 AAAA
1 AAAA
523233 ATAAAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.80, C:0.10, G:0.06, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAACAAAAAAAAATAC
Found at i:524622 original size:113 final size:113
Alignment explanation
Indices: 524408--524702 Score: 306
Period size: 113 Copynumber: 2.6 Consensus size: 113
524398 TTCCCTTTCA
* * * * *
524408 AAAGCCCACAAGTCAGTGGTATCGTTTCAAAAGCCATAAGTCAGTGACACCCTTTCAAAGCCCAC
1 AAAGCCCATAAGTCAGTGGCATCCTTTCAAAAGCCAAAAGTAAGTGACACCCTTTCAAAGCCCAC
* * * * * *
524473 AAATCAGTGGCACTCTTTCAAAGCTCACGAGTCAGTGGCACCC-TTTG
66 AAATCAATGGCACACTTCCAAAGCCCACAAGCCAGTGGCACCCTTTTG
* * * * *
524520 AAAGCCCATAAGTCAGTGGCATCCTTTTAAAAGCCCAAAATTAAGTGGCACCCTTTTAAAGGCCA
1 AAAGCCCATAAGTCAGTGGCATCCTTTCAAAAG-CCAAAAGTAAGTGACACCCTTTCAAAGCCCA
* * * *
524585 CGAGTTAATGGGACACTTCCAAAGCCCACAAGCCAGTGGCACCCTTTTG
65 CAAATCAATGGCACACTTCCAAAGCCCACAAGCCAGTGGCACCCTTTTG
* * * * *
524634 -AAGCCCATAAGTTAGTGGCATCCTTTCAAACGCCTACACAAGTTAGTGGCATCCTTTCTAAAGC
1 AAAGCCCATAAGTCAGTGGCATCCTTTCAAAAGCC-A-A-AAGTAAGTGACACCCTTTC-AAAGC
524698 CCACA
62 CCACA
524703 CAAGTTGGTG
Statistics
Matches: 148, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
112 31 0.21
113 89 0.60
114 5 0.03
115 15 0.10
116 8 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (113 bp):
AAAGCCCATAAGTCAGTGGCATCCTTTCAAAAGCCAAAAGTAAGTGACACCCTTTCAAAGCCCAC
AAATCAATGGCACACTTCCAAAGCCCACAAGCCAGTGGCACCCTTTTG
Found at i:524730 original size:32 final size:32
Alignment explanation
Indices: 524669--525387 Score: 430
Period size: 32 Copynumber: 22.8 Consensus size: 32
524659 TCAAACGCCT
* * *
524669 ACACAAGTTAGTGGC-ATCCTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
524700 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
*** * * * *
524732 ATGTAAGTTGGTGGC-ATCCTTTCTATAGCCT
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * *
524763 ACATAAGTTGGTGGCAACCCCTTATAAAGCCT
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
*
524795 ACACAAGTCGGTGGCAACCCCTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* *
524827 ACACAAGCTGATGGCAACTCCCCTT-TCAAAGCCC
1 ACACAAGTTGGTGGCAA--CCCCTTCT-AAAGCCC
*
524861 ACACAA-TTCAGTGGCAA-CCCTTCTTTAAAG-CC
1 ACACAAGTT-GGTGGCAACCCCTTC--TAAAGCCC
* * *
524893 ACACAAGCTGGTGACAACACCCTTTTAAAGCCC
1 ACACAAGTTGGTGGCAAC-CCCTTCTAAAGCCC
* * * *
524926 ACACAAGTCGATGGC-A-CCCTTTTGAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * * *
524956 ACACAAGTTGGTGG-TAGCCTTTTTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * *
524987 AAAAAAGTTGGTGGCAACCCTTTC-AAAG--C
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* *** * * *
525016 TCACAAGTCAATAGC-A-TCCTTTTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* *
525046 ACACAAGTTGATGGCAACCCTTTC-AAAG-CC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * * *
525076 -CACGAGTTAGTGGC-ATCCTTTC-AAAG-CC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* ** * **
525104 -CATAAGTCAGTGGC-ATCTTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * * *
525134 ACACAAGTTGGTGGTAACTCCTTTTAAAGCCT
1 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
* * **
525166 ACACAAGTCGATGGCAACCATTCTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCCT-TCTAAAGCCC
* *
525199 ACACAAGTCGGTGGCAACCCCTTTTTTAAAGCCC
1 ACACAAGTTGGTGGCAACCCC--TTCTAAAGCCC
* * *
525233 ACAC--GCTGGTGGCAA-CCTTTTTCAAAGCCC
1 ACACAAGTTGGTGGCAACCCCTTCT-AAAGCCC
* * *
525263 ACATAATGATGGTGGCAA-CCCTTCTCAAAGCCT
1 ACACAA-GTTGGTGGCAACCCCTTCT-AAAGCCC
* *
525296 ATACAAGTCGGTGGCAACCCCTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCC-TTCTAAAGCCC
* * ** *
525329 ACATAAATCAGTGGCAA-CCCTCTCGAAAGCCC
1 ACACAAGTTGGTGGCAACCCCT-TCTAAAGCCC
* * *
525361 ACACAAATCGGTGGCAACTCCTTCTAA
1 ACACAAGTTGGTGGCAACCCCTTCTAA
525388 GCCTAATGAC
Statistics
Matches: 539, Mismatches: 113, Indels: 71
0.75 0.16 0.10
Matches are distributed among these distances:
27 3 0.01
28 36 0.07
29 28 0.05
30 52 0.10
31 90 0.17
32 184 0.34
33 97 0.18
34 48 0.09
35 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (32 bp):
ACACAAGTTGGTGGCAACCCCTTCTAAAGCCC
Found at i:525044 original size:90 final size:87
Alignment explanation
Indices: 524437--525164 Score: 301
Period size: 85 Copynumber: 8.1 Consensus size: 87
524427 TATCGTTTCA
* * * * * * *
524437 AAAG-CCATAAGTCAGTGACACCCTTTCAAAGCCCACAAATCAGTGGCA-CTCTTTCAAAG--CT
1 AAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATC-CTTTTAAAGCCCA
* ** * *
524498 CACGAGTCAGTGG-CACCCTTTG
65 CACAAGTTGGTGGTAACCCTTTT
* * * * * * * *
524520 AAAGCCCATAAGTCAGTGGCATCCTTTTAAAAGCCCA-AAATTAAGTGGCACCCTTTTAAAG-GC
1 AAAGCCCAAAAGTTAGTGGCA-CCCTTTCAAAGCCCACAAGTCAA-TGGCATCCTTTTAAAGCCC
* ** * * **
524583 -CACGAGTTAATGG-GACACTTCC
64 ACACAAGTTGGTGGTAACCCTTTT
* ** ** * * * * *
524605 AAAGCCCACAAGCCAGTGGCACCCTTTTGAAGCCCATAAGTTAGTGGCATCCTTTCAAACGCCTA
1 AAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTTAAA-GCCCA
* * *
524670 CACAAGTTAGTGG-CATCCTTTCT
65 CACAAGTTGGTGGTAACCCTTT-T
* * * *** *
524693 AAAGCCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCATGTAAGTTGGTGGCATCCTTTCTAT
1 AAAGCCCA-A-AAGTTAGTGGC-ACCCTTTC-AAAGCCCA--CAAGTCAATGGCATCCTTT-TAA
* * * *
524758 AGCCTACATAAGTTGGTGGCAACCCCTTAT
59 AGCCCACACAAGTTGGTGGTAA-CCCTTTT
* ** * *
524788 AAAGCCTACACAAGTCGGTGGCAACCCCTTCTAAAGCCCACACAAG-CTGATGGCAACTCCCCTT
1 AAAGCC--CAAAAGTTAGTGGC-ACCCTTTC-AAAG-CC-CACAAGTC-AATGGC-A-T--CCTT
* * *
524852 TCAAAGCCCACACAA-TTCAGTGGCAACCCTTCTTT
55 TTAAAGCCCACACAAGTT-GGTGGTAACCC-T-TTT
* * * * * * * *
524887 AAAGCCACACAAGCTGGTGACAACACCCTTTTAAAGCCCACACAAGTCGATGGCACCCTTTTGAA
1 AAAGCC-CAAAAGTTAGTG---GCACCCTTTCAAAG-CC-CACAAGTCAATGGCATCCTTTTAAA
* *
524952 GCCCACACAAGTTGGTGGTAGCCTTTTT
60 GCCCACACAAGTTGGTGGTAACCCTTTT
* * *
524980 AAAGCCCAAAAAAGTTGGTGGCAACCCTTTCAAAGCTCACAAGTCAATAGCATCCTTTTAAAGCC
1 AAAGCCC--AAAAGTTAGTGGC-ACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTTAAAGCC
* * *
525045 CACACAAGTTGATGGCAACCCTTTC
63 CACACAAGTTGGTGGTAACCCTTTT
** * * * *
525070 AAAGCCCACGAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCTAAAGCCCA
1 AAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTT-TAAAGCCCA
525135 CACAAGTTGGTGGTAACTCCTTTT
65 CACAAGTTGGTGGTAAC-CCTTTT
525159 AAAGCC
1 AAAGCC
525165 TACACAAGTC
Statistics
Matches: 510, Mismatches: 94, Indels: 76
0.75 0.14 0.11
Matches are distributed among these distances:
83 4 0.01
84 45 0.09
85 67 0.13
86 2 0.00
87 44 0.09
88 42 0.08
89 11 0.02
90 59 0.12
91 8 0.02
92 19 0.04
93 9 0.02
94 44 0.09
95 66 0.13
96 9 0.02
97 10 0.02
98 30 0.06
99 33 0.06
100 7 0.01
101 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (87 bp):
AAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTTAAAGCCCAC
ACAAGTTGGTGGTAACCCTTTT
Done.