Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 310 of 378
Found at i:94204212 original size:40 final size:38
Alignment explanation
Indices: 94204093--94204220 Score: 166
Period size: 38 Copynumber: 3.3 Consensus size: 38
94204083 GCAGGCTATA
* *
94204093 TGCTGGAATTATATCCGGGTTAAATCCCGCATGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
94204131 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
94204169 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
*
94204209 TGCTGGTGTTAT
1 TGCTGGTATTAT
94204221 GTTCAGGTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 50 0.64
39 6 0.08
40 22 0.28
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:94204349 original size:2 final size:2
Alignment explanation
Indices: 94204342--94204378 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
94204332 CTGGTATGTG
94204342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94204379 GTGAGATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:94207404 original size:40 final size:39
Alignment explanation
Indices: 94207360--94207541 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
94207350 GTTCAAAACA
* * ** * *
94207360 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
94207400 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
94207440 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
94207479 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
94207518 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
94207542 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:94207471 original size:39 final size:39
Alignment explanation
Indices: 94207390--94207542 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
94207380 TATGGTAACC
* *
94207390 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
94207430 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
94207469 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
94207508 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
94207543 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:94215461 original size:40 final size:39
Alignment explanation
Indices: 94215417--94215598 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
94215407 GTTCAAAACA
* * ** * *
94215417 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
94215457 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
94215497 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
94215536 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
94215575 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
94215599 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:94215528 original size:39 final size:39
Alignment explanation
Indices: 94215447--94215599 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
94215437 TATGGTAACC
* *
94215447 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
94215487 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
94215526 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
94215565 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
94215600 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:94223536 original size:40 final size:39
Alignment explanation
Indices: 94223492--94223673 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
94223482 GTTCAAAACA
* * ** * *
94223492 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
94223532 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
94223572 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
94223611 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
94223650 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
94223674 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:94223603 original size:39 final size:39
Alignment explanation
Indices: 94223522--94223674 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
94223512 TATGGTAACC
* *
94223522 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
94223562 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
94223601 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
94223640 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
94223675 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:94226368 original size:23 final size:23
Alignment explanation
Indices: 94226342--94226413 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
94226332 TTTCTCAGTC
94226342 ATCAGATATTTCAAACTTTTATG
1 ATCAGATATTTCAAACTTTTATG
* ** *
94226365 ATCA-A-A-AT-AAACATGATATT
1 ATCAGATATTTCAAAC-TTTTATG
94226385 ATCAGATATTTCAAACTTTTATG
1 ATCAGATATTTCAAACTTTTATG
94226408 ATCAGA
1 ATCAGA
94226414 ATAAACATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
19 4 0.11
20 9 0.25
21 2 0.06
22 2 0.06
23 15 0.42
24 4 0.11
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (23 bp):
ATCAGATATTTCAAACTTTTATG
Found at i:94226390 original size:43 final size:43
Alignment explanation
Indices: 94226342--94226423 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
94226332 TTTCTCAGTC
94226342 ATCAGATATTTCAAACTTTTATGATCAAAATAAACATGATATT
1 ATCAGATATTTCAAACTTTTATGATCAAAATAAACATGATATT
*
94226385 ATCAGATATTTCAAACTTTTATGATCAGAATAAACATGA
1 ATCAGATATTTCAAACTTTTATGATCAAAATAAACATGA
94226424 CATTTCTCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (43 bp):
ATCAGATATTTCAAACTTTTATGATCAAAATAAACATGATATT
Found at i:94247211 original size:7 final size:7
Alignment explanation
Indices: 94247199--94247231 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
94247189 CATTTTTAAT
94247199 TATTTTA
1 TATTTTA
94247206 TATTTTA
1 TATTTTA
*
94247213 TAATTTA
1 TATTTTA
94247220 TATTTTA
1 TATTTTA
94247227 TATTT
1 TATTT
94247232 AAATTAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATTTTA
Found at i:94257293 original size:20 final size:18
Alignment explanation
Indices: 94257251--94257293 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
94257241 TTACTTGGCT
*
94257251 TTAAAAATACTGGAAATA
1 TTAAAAATACTGGAAAAA
*
94257269 TTAAAAATAAGTGGTAAAAA
1 TTAAAAAT-ACTGG-AAAAA
94257289 TTAAA
1 TTAAA
94257294 TTGAAGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (18 bp):
TTAAAAATACTGGAAAAA
Found at i:94263457 original size:29 final size:29
Alignment explanation
Indices: 94263419--94263511 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
94263409 TTTATTGTCC
94263419 CTCTCTCTCATCTTCTTCATCTAATCTTTT
1 CTCT-TCTCATCTTCTTCATCTAATCTTTT
* **
94263449 CTCTTCTCATCTTCTTCATCATCACTCTTAA
1 CTCTTCTCATCTTCTTCATC-T-AATCTTTT
*
94263480 C-C-ACTCATCTTCTTCATCTAATCTTTT
1 CTCTTCTCATCTTCTTCATCTAATCTTTT
94263507 CTCTT
1 CTCTT
94263512 AACATGAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 31 0.61
30 6 0.12
31 6 0.12
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.49
Consensus pattern (29 bp):
CTCTTCTCATCTTCTTCATCTAATCTTTT
Found at i:94263954 original size:143 final size:145
Alignment explanation
Indices: 94263691--94263980 Score: 417
Period size: 143 Copynumber: 2.0 Consensus size: 145
94263681 TCCAAATCAC
* *
94263691 ATTTTATAGATCTATTATTAAAAAATGGGTTTTAGTTTTAGTTTTTCTGTTATCTTCTAGAAATT
1 ATTTTATAGATCTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTCTGTTATCTTCTAGAAATT
** * *
94263756 GATTGAGAGTTGAAACTATTGAGAAATAAATCTTTATTCTTTCTTGTTATATTCTAGAAATTGAT
66 GATCAAGAGTTGAAACTATTAAGAAATAAATCTTTATTCTTTCTTATTATATTCTAGAAATTGAT
94263821 GGA-GAGTAGAAGAGA
131 GGATG-GTAGAAGAGA
* *
94263836 ATTTTATAGATCTATTATTAAGAAATGAGTTTTTGTTTTAATTTTT-T-TTATCTTCTAGAAATT
1 ATTTTATAGATCTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTCTGTTATCTTCTAGAAATT
* * * * *
94263899 GGTCAAGAGTTGAAAGTGTTAAGAAA-AGAATTTTTATTCTTTCTTATTATGTTCTAGAAATTGA
66 GATCAAGAGTTGAAACTATTAAGAAATA-AATCTTTATTCTTTCTTATTATATTCTAGAAATTGA
94263963 TGGATGGTAGAAGAGA
130 TGGATGGTAGAAGAGA
94263979 AT
1 AT
94263981 GAGGAGTAAG
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
142 1 0.01
143 85 0.65
144 2 0.02
145 42 0.32
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (145 bp):
ATTTTATAGATCTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTCTGTTATCTTCTAGAAATT
GATCAAGAGTTGAAACTATTAAGAAATAAATCTTTATTCTTTCTTATTATATTCTAGAAATTGAT
GGATGGTAGAAGAGA
Found at i:94271711 original size:16 final size:17
Alignment explanation
Indices: 94271690--94271731 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
94271680 CGATATAACA
94271690 AATAAA-AATGTTTTTG
1 AATAAAGAATGTTTTTG
*
94271706 AATAAAGTATGTTTTT-
1 AATAAAGAATGTTTTTG
94271722 AGATAAAGAA
1 A-ATAAAGAA
94271732 ATAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (17 bp):
AATAAAGAATGTTTTTG
Found at i:94273650 original size:95 final size:95
Alignment explanation
Indices: 94273483--94273738 Score: 352
Period size: 95 Copynumber: 2.7 Consensus size: 95
94273473 CATTACATGG
* * * * * * * *
94273483 TGCTGCTCACACAAGCTATGAAGAAT-CGCAGTACATCCAGAATCTTAGCCATTGGCAAGGTATC
1 TGCTACTCACACGAGCTATGAAGAATCCGCAATATATGCAGGATCTTAGCCATCGGTAAGGTATC
*
94273547 CACTAAATCGAAACATTAACCGTTACACAA
66 CAATAAATCGAAACATTAACCGTTACACAA
* * *
94273577 TGCTATTCACACGAGCTGTGAAGAATCCGCAATATATGCAGGATCTTAGCCATCGATAAGGTATC
1 TGCTACTCACACGAGCTATGAAGAATCCGCAATATATGCAGGATCTTAGCCATCGGTAAGGTATC
** *
94273642 CAATAAATCGTGACATTAACTGTTACACAA
66 CAATAAATCGAAACATTAACCGTTACACAA
* *
94273672 TGCTGCTCACACGAGCTATGAAGAATCCGCAATATATGCAAGATCTTAGCCATCGGTAAGGTATC
1 TGCTACTCACACGAGCTATGAAGAATCCGCAATATATGCAGGATCTTAGCCATCGGTAAGGTATC
94273737 CA
66 CA
94273739 CCACTAGTAC
Statistics
Matches: 141, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 22 0.16
95 119 0.84
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (95 bp):
TGCTACTCACACGAGCTATGAAGAATCCGCAATATATGCAGGATCTTAGCCATCGGTAAGGTATC
CAATAAATCGAAACATTAACCGTTACACAA
Found at i:94278424 original size:6 final size:6
Alignment explanation
Indices: 94278413--94278437 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94278403 TAAATAAAGG
94278413 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
94278438 TAAAAGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:94280596 original size:20 final size:20
Alignment explanation
Indices: 94280573--94280626 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
94280563 TGTGGTACCT
*
94280573 CACACGTCCGTGTGTCTGAA
1 CACACGACCGTGTGTCTGAA
*
94280593 CACACGACCATGTGTCTGAA
1 CACACGACCGTGTGTCTGAA
94280613 CACACGACCGTGTG
1 CACACGACCGTGTG
94280627 CTTTGCCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (20 bp):
CACACGACCGTGTGTCTGAA
Found at i:94287367 original size:42 final size:42
Alignment explanation
Indices: 94287312--94287396 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
94287302 AAACATAAGA
94287312 TAGTTTCTTTTAAACCAATTAATGATTTATCTACAAGTATAG
1 TAGTTTCTTTTAAACCAATTAATGATTTATCTACAAGTATAG
94287354 TAGTTTCTTTTAAACCAATTAATGATTTATCTACAAGTATAG
1 TAGTTTCTTTTAAACCAATTAATGATTTATCTACAAGTATAG
94287396 T
1 T
94287397 TCAACAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (42 bp):
TAGTTTCTTTTAAACCAATTAATGATTTATCTACAAGTATAG
Found at i:94289287 original size:28 final size:28
Alignment explanation
Indices: 94289239--94289292 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
94289229 GTATACATGA
* *
94289239 ATGTGAAATGGATGGTGTATGATTATTG
1 ATGTCAAATGGATGGTATATGATTATTG
*
94289267 ATGTCAAA-GGATGGTTATATGTTTAT
1 ATGTCAAATGGATGG-TATATGATTAT
94289293 GCCTGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.41
Consensus pattern (28 bp):
ATGTCAAATGGATGGTATATGATTATTG
Found at i:94289673 original size:23 final size:23
Alignment explanation
Indices: 94289629--94289673 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
94289619 GAAAGAATAA
* *
94289629 ACCTTTGTGGAGAATTATGAAAG
1 ACCTTTGTGGAGAACTACGAAAG
*
94289652 ACCTTTGTGGTGAACTACGAAA
1 ACCTTTGTGGAGAACTACGAAA
94289674 AAATAAGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (23 bp):
ACCTTTGTGGAGAACTACGAAAG
Found at i:94289721 original size:27 final size:27
Alignment explanation
Indices: 94289652--94289721 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 27
94289642 ATTATGAAAG
* *
94289652 ACCTTTGTGGTGAACTACGAAAAAATA
1 ACCTTTGCGGTGAACTACAAAAAAATA
*
94289679 AGCCTTTGCGATGAACTACAAAAAAATA
1 A-CCTTTGCGGTGAACTACAAAAAAATA
*
94289707 ACCTTTGCGGCGAAC
1 ACCTTTGCGGTGAAC
94289722 AATAATGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 13 0.35
28 24 0.65
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
ACCTTTGCGGTGAACTACAAAAAAATA
Found at i:94290212 original size:47 final size:47
Alignment explanation
Indices: 94290143--94290287 Score: 254
Period size: 47 Copynumber: 3.1 Consensus size: 47
94290133 GGGTTAGTAG
94290143 AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTTAA
1 AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTTAA
*
94290190 AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTTGA
1 AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTTAA
* *
94290237 AGTCGGGTTTGTGAATCGAGAGAGAGTGGTCATGCCTTAATTTTTGAA
1 AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTT-AA
94290285 AAT
1 AAT
94290288 TTATCTATAC
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 89 0.97
48 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (47 bp):
AATCGGGTTTGTGAATCGAGAGAGAGTGGCCATGCCTTAATTTTTAA
Found at i:94294598 original size:21 final size:21
Alignment explanation
Indices: 94294574--94294619 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
94294564 AAGGGAGGAA
94294574 AAGGCCCAAACCATCCACTTG
1 AAGGCCCAAACCATCCACTTG
* *
94294595 AAGGCCCAAATCGTCCACTTG
1 AAGGCCCAAACCATCCACTTG
94294616 AAGG
1 AAGG
94294620 AAAAACTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.15
Consensus pattern (21 bp):
AAGGCCCAAACCATCCACTTG
Found at i:94296562 original size:15 final size:15
Alignment explanation
Indices: 94296537--94296573 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
94296527 TAATTAATCC
94296537 TAATTATATTAATTAA
1 TAATTA-ATTAATTAA
94296553 TAATTAATTAATTAA
1 TAATTAATTAATTAA
94296568 -AATTAA
1 TAATTAA
94296574 ACATATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 9 0.43
16 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTAATTAATTAA
Found at i:94299831 original size:47 final size:47
Alignment explanation
Indices: 94299767--94299879 Score: 208
Period size: 47 Copynumber: 2.4 Consensus size: 47
94299757 ATCCATAAGT
* *
94299767 GAACTTGGACTCAACTCAATGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
94299814 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
94299861 GAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAA
94299880 CAAGTTCGGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:94302020 original size:27 final size:26
Alignment explanation
Indices: 94301990--94302256 Score: 178
Period size: 27 Copynumber: 9.9 Consensus size: 26
94301980 AGACAGTTCA
*
94301990 TTCAGATTTTACCACAAAGACTATTCC
1 TTCAGAGTTTACCACAAAGACTA-TCC
*
94302017 TTCAAAGTTTACCACAAAGACTATTCC
1 TTCAGAGTTTACCACAAAGACTA-TCC
* * ** *
94302044 TTTAAAGTTCGCCACAAAGAGTATTCC
1 TTCAGAGTTTACCACAAAGACTA-TCC
* * * **
94302071 TTCAGAGTTCACCATAAGGGTTATCC
1 TTCAGAGTTTACCACAAAGACTATCC
* ** * *
94302097 TTTTAGAGTTCGCCATAAAGGCTATCC
1 -TTCAGAGTTTACCACAAAGACTATCC
*
94302124 TTTCAGAG-TTAGCCACAAAGGCTATCC
1 -TTCAGAGTTTA-CCACAAAGACTATCC
* *
94302151 TTTCAGAGTTTACTACGAAGACTATCC
1 -TTCAGAGTTTACCACAAAGACTATCC
* *
94302178 TTACAGAGTTCACCACAAAGTCTATCC
1 TT-CAGAGTTTACCACAAAGACTATCC
* * *
94302205 TTACAGAGTTTTCCACAAAGGCTACCC
1 TT-CAGAGTTTACCACAAAGACTATCC
* *
94302232 TAAT-AGAGTTCACCACAAAGGCTAT
1 T--TCAGAGTTTACCACAAAGACTAT
94302257 GAAAATGCCA
Statistics
Matches: 199, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.03
27 189 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (26 bp):
TTCAGAGTTTACCACAAAGACTATCC
Found at i:94302060 original size:54 final size:52
Alignment explanation
Indices: 94302001--94302256 Score: 219
Period size: 54 Copynumber: 4.8 Consensus size: 52
94301991 TCAGATTTTA
* * * *
94302001 CCACAAAGACTATTCCTTCAAAGTTTACCACAAAGACTATTCCTTTAAAGTTCG
1 CCACAAAGACTA-TCCTTCAGAGTTCACCACAAAGGCTA-TCCTTTAGAGTTCG
* * * *
94302055 CCACAAAGAGTATTCCTTCAGAGTTCACCATAAGGGTTATCCTTTTAGAGTTCG
1 CCACAAAGACTA-TCCTTCAGAGTTCACCACAAAGGCTATCC-TTTAGAGTTCG
* * **
94302109 CCATAAAGGCTATCCTTTCAGAGTT-AGCCACAAAGGCTATCCTTTCAGAGTTTA
1 CCACAAAGACTATCC-TTCAGAGTTCA-CCACAAAGGCTATCCTTT-AGAGTTCG
* * * * **
94302163 CTACGAAGACTATCCTTACAGAGTTCACCACAAAGTCTATCCTTACAGAGTTTT
1 CCACAAAGACTATCCTT-CAGAGTTCACCACAAAGGCTATCCTT-TAGAGTTCG
* *
94302217 CCACAAAGGCTACCCTAAT-AGAGTTCACCACAAAGGCTAT
1 CCACAAAGACTATCCT--TCAGAGTTCACCACAAAGGCTAT
94302257 GAAAATGCCA
Statistics
Matches: 165, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
53 12 0.07
54 151 0.92
55 1 0.01
56 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (52 bp):
CCACAAAGACTATCCTTCAGAGTTCACCACAAAGGCTATCCTTTAGAGTTCG
Found at i:94304951 original size:15 final size:16
Alignment explanation
Indices: 94304931--94304963 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94304921 TGGTTAAACT
94304931 AAGGAG-AGGGGAAGA
1 AAGGAGTAGGGGAAGA
*
94304946 AAGGAGTAGGTGAAGA
1 AAGGAGTAGGGGAAGA
94304962 AA
1 AA
94304964 ACTAGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.45, T:0.06
Consensus pattern (16 bp):
AAGGAGTAGGGGAAGA
Found at i:94305031 original size:14 final size:15
Alignment explanation
Indices: 94305012--94305040 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94305002 TATGACTGCA
94305012 ATGAGAAGAG-GGAG
1 ATGAGAAGAGTGGAG
94305026 ATGAGAAGAGTGGAG
1 ATGAGAAGAGTGGAG
94305041 GTACGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.48, T:0.10
Consensus pattern (15 bp):
ATGAGAAGAGTGGAG
Found at i:94306671 original size:27 final size:27
Alignment explanation
Indices: 94306641--94306727 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
94306631 GCTAAAAAAT
*
94306641 GCCTTTGTGGCACACTCTGAATGAATA
1 GCCTTTGTGGCATACTCTGAATGAATA
94306668 GCC--TGTGGCATACTCTGTATAT-ATATA
1 GCCTTTGTGGCATACTCTG-A-ATGA-ATA
* * *
94306695 GCCTTTGTGGCATACTCTGTATGGATC
1 GCCTTTGTGGCATACTCTGAATGAATA
94306722 GCCTTT
1 GCCTTT
94306728 ATGGTATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 13 0.26
26 2 0.04
27 21 0.42
29 14 0.28
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGAATGAATA
Found at i:94306706 original size:29 final size:29
Alignment explanation
Indices: 94306641--94306716 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
94306631 GCTAAAAAAT
*
94306641 GCCTTTGTGGCACACTCTG-A-ATGAATA
1 GCCTTTGTGGCATACTCTGTATATGAATA
94306668 GCC--TGTGGCATACTCTGTATAT-ATATA
1 GCCTTTGTGGCATACTCTGTATATGA-ATA
94306695 GCCTTTGTGGCATACTCTGTAT
1 GCCTTTGTGGCATACTCTGTAT
94306717 GGATCGCCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 13 0.30
26 2 0.05
27 11 0.26
29 17 0.40
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (29 bp):
GCCTTTGTGGCATACTCTGTATATGAATA
Found at i:94313951 original size:25 final size:25
Alignment explanation
Indices: 94313923--94313993 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
94313913 CCTCTTTAAT
* *
94313923 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCAATA
94313948 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
94313973 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
94313994 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 33 0.77
26 10 0.23
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:94314068 original size:20 final size:20
Alignment explanation
Indices: 94314043--94314109 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
94314033 TTATGAATAC
94314043 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
94314063 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
94314083 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
94314103 ATCATGT
1 ATCATGT
94314110 ATATCAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:94314074 original size:11 final size:11
Alignment explanation
Indices: 94314043--94314098 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
94314033 TTATGAATAC
94314043 ATCATGTGCAT
1 ATCATGTGCAT
*
94314054 ATCA--TACAT
1 ATCATGTGCAT
94314063 ATCATGTGCAT
1 ATCATGTGCAT
*
94314074 ATCA--TACAT
1 ATCATGTGCAT
94314083 ATCATGTGCAT
1 ATCATGTGCAT
94314094 ATCAT
1 ATCAT
94314099 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:94314115 original size:9 final size:10
Alignment explanation
Indices: 94314043--94314115 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
94314033 TTATGAATAC
94314043 ATCATGTGCAT
1 ATCATGT-CAT
*
94314054 ATCAT-ACAT
1 ATCATGTCAT
94314063 ATCATGTGCAT
1 ATCATGT-CAT
*
94314074 ATCAT-ACAT
1 ATCATGTCAT
94314083 ATCATGTGCAT
1 ATCATGT-CAT
*
94314094 ATCATATCA-
1 ATCATGTCAT
94314103 ATCATGT-AT
1 ATCATGTCAT
94314112 ATCA
1 ATCA
94314116 AAATCCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:94322148 original size:25 final size:26
Alignment explanation
Indices: 94322127--94322194 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 26
94322117 TGGTAAATTA
94322127 GGGCA-AAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTG
94322152 GGGCATAAGCCCATTTTCAATAAACTG
1 GGGCATAAGCCC-TTTTCAATAAACTG
*
94322179 GGGTATAAGCCCTTTT
1 GGGCATAAGCCCTTTT
94322195 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 5 0.12
26 10 0.25
27 25 0.62
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (26 bp):
GGGCATAAGCCCTTTTCAATAAACTG
Found at i:94322173 original size:27 final size:25
Alignment explanation
Indices: 94322097--94322194 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 25
94322087 CCTCTTTAAT
* ***
94322097 AACTGGGGCAAAGCCATTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
* *
94322122 AATTAGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
94322147 AACTGGGGCATAAGCCCATTTTCAATA
1 AACTGGGGCA-AAGCCC-TTTTCAATA
*
94322174 AACTGGGGTATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
94322195 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
25 27 0.44
26 10 0.16
27 25 0.40
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:94322272 original size:20 final size:20
Alignment explanation
Indices: 94322244--94322310 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
94322234 TTATGAATAC
94322244 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
94322264 ATTATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
94322284 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
94322304 ATCATGT
1 ATCATGT
94322311 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:94322295 original size:11 final size:11
Alignment explanation
Indices: 94322244--94322299 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
94322234 TTATGAATAC
94322244 ATCATGTGCAT
1 ATCATGTGCAT
*
94322255 ATCA--TACAT
1 ATCATGTGCAT
*
94322264 ATTATGTGCAT
1 ATCATGTGCAT
*
94322275 ATCA--TACAT
1 ATCATGTGCAT
94322284 ATCATGTGCAT
1 ATCATGTGCAT
94322295 ATCAT
1 ATCAT
94322300 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:94322374 original size:25 final size:25
Alignment explanation
Indices: 94322346--94322393 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94322336 ATAAGTAAAC
* * *
94322346 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
94322371 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
94322394 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:94343689 original size:30 final size:30
Alignment explanation
Indices: 94343653--94343711 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
94343643 CAGTGATGAT
**
94343653 TAAATTTGAATACTGATTATTAAATTTAAC
1 TAAATTTGAATACTGACGATTAAATTTAAC
* *
94343683 TAAATTTGGATAGTGACGATTAAATTTAA
1 TAAATTTGAATACTGACGATTAAATTTAA
94343712 TTGAATGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (30 bp):
TAAATTTGAATACTGACGATTAAATTTAAC
Found at i:94346457 original size:21 final size:21
Alignment explanation
Indices: 94346417--94346457 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94346407 AGCCCATGTG
*
94346417 AAGGCCACACACGCCAGTGTA
1 AAGGCCACACACACCAGTGTA
*
94346438 AAGGCCACACACACCTGTGT
1 AAGGCCACACACACCAGTGT
94346458 GGAGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (21 bp):
AAGGCCACACACACCAGTGTA
Found at i:94352197 original size:17 final size:17
Alignment explanation
Indices: 94352175--94352217 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
94352165 TTGAACATAC
94352175 TTATGAACAAAATGTTT
1 TTATGAACAAAATGTTT
*
94352192 TTATGAATAAAATGTTT
1 TTATGAACAAAATGTTT
*
94352209 TTCTGAACA
1 TTATGAACA
94352218 TTCATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (17 bp):
TTATGAACAAAATGTTT
Found at i:94362467 original size:6 final size:6
Alignment explanation
Indices: 94362456--94362484 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
94362446 ATAGTCCATG
94362456 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
94362485 GTGTTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:94362965 original size:48 final size:48
Alignment explanation
Indices: 94362894--94362993 Score: 191
Period size: 48 Copynumber: 2.1 Consensus size: 48
94362884 CACTTAGGAT
*
94362894 TTAACCCGCATAACTTGTAAACAATTTACTCATTGAATTAACCCCTAG
1 TTAACCCACATAACTTGTAAACAATTTACTCATTGAATTAACCCCTAG
94362942 TTAACCCACATAACTTGTAAACAATTTACTCATTGAATTAACCCCTAG
1 TTAACCCACATAACTTGTAAACAATTTACTCATTGAATTAACCCCTAG
94362990 TTAA
1 TTAA
94362994 TCCTGTTGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (48 bp):
TTAACCCACATAACTTGTAAACAATTTACTCATTGAATTAACCCCTAG
Found at i:94363961 original size:11 final size:11
Alignment explanation
Indices: 94363945--94363969 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94363935 ACTTGGGAGC
94363945 AAAATGAGTGA
1 AAAATGAGTGA
94363956 AAAATGAGTGA
1 AAAATGAGTGA
94363967 AAA
1 AAA
94363970 CCGAAGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:94374530 original size:24 final size:24
Alignment explanation
Indices: 94374490--94374551 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
94374480 GATTATGTAG
94374490 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
94374514 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
94374539 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
94374552 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:94375755 original size:29 final size:29
Alignment explanation
Indices: 94375722--94375786 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
94375712 GTGACGAGAT
*
94375722 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
94375751 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
94375780 CGGCACT
1 TGGCACT
94375787 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:94379462 original size:51 final size:49
Alignment explanation
Indices: 94379294--94379525 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
94379284 CTGGTACGCA
* * * *
94379294 TAGTAGCCTGCAGTTCGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** ** * *
94379343 TAGTAGCTTGCATTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
94379393 TAGCAGCCTGCACTTAGTACTACACACGTGACCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-TTATCCGGTACACG
* *
94379444 TAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
94379493 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
94379526 TCACAATAGA
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 69 0.45
50 44 0.29
51 39 0.26
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:94392110 original size:7 final size:8
Alignment explanation
Indices: 94392091--94392124 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
94392081 ATATTTTATA
94392091 AAAAATAT
1 AAAAATAT
94392099 AAAAATAT
1 AAAAATAT
**
94392107 AAAAATCC
1 AAAAATAT
94392115 AAAAATAT
1 AAAAATAT
94392123 AA
1 AA
94392125 TGAATATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:94392884 original size:22 final size:22
Alignment explanation
Indices: 94392859--94392902 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
94392849 TAGTCATATA
94392859 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
94392881 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
94392903 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:94392938 original size:13 final size:14
Alignment explanation
Indices: 94392922--94392963 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
94392912 TTTCAATTTT
94392922 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
94392935 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
94392950 ATTTTAAATAATAT
1 ATTTT-AATAATAT
94392964 TATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:94392948 original size:16 final size:16
Alignment explanation
Indices: 94392926--94392962 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
94392916 AATTTTATTT
94392926 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
94392943 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
94392958 TAATA
1 TAATA
94392963 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:94393619 original size:8 final size:8
Alignment explanation
Indices: 94393606--94393630 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
94393596 ATCTTTATAT
94393606 TAATTGTA
1 TAATTGTA
94393614 TAATTGTA
1 TAATTGTA
94393622 TAATTGTA
1 TAATTGTA
94393630 T
1 T
94393631 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TAATTGTA
Found at i:94396427 original size:2 final size:2
Alignment explanation
Indices: 94396420--94396452 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
94396410 TGAAATGTAA
*
94396420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94396453 AATGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94401308 original size:17 final size:17
Alignment explanation
Indices: 94401262--94401309 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
94401252 TTTTAAATAT
* *
94401262 AAATATAAAAATATAAA
1 AAATAAAAAAATTTAAA
**
94401279 AAATAAATTAATTTAAA
1 AAATAAAAAAATTTAAA
94401296 AAATAAAAAAATTT
1 AAATAAAAAAATTT
94401310 GTATCAATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAAAAAAATTTAAA
Found at i:94415605 original size:16 final size:16
Alignment explanation
Indices: 94415584--94415636 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
94415574 CTTCCATAGC
*
94415584 AATAATTGTTGTTTAG
1 AATAATTATTGTTTAG
94415600 AATAATTATTGTTTAG
1 AATAATTATTGTTTAG
* *
94415616 AACAACTATTGTTTGAG
1 AATAATTATTGTTT-AG
94415633 AATA
1 AATA
94415637 GCTATGTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 27 0.84
17 5 0.16
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (16 bp):
AATAATTATTGTTTAG
Found at i:94421537 original size:44 final size:44
Alignment explanation
Indices: 94421488--94421576 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
94421478 TGTCTATGAA
* * *
94421488 AAGAAAAATACTATTTGTGTAATTATGGATTGTTTGACGAAGCC
1 AAGAAAAATACTATTTGCGTAATTATCGATTATTTGACGAAGCC
*
94421532 AAGAAAAATACTATTTGCGTAATTATCGATTATTTGATGAAGCC
1 AAGAAAAATACTATTTGCGTAATTATCGATTATTTGACGAAGCC
94421576 A
1 A
94421577 GCACATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (44 bp):
AAGAAAAATACTATTTGCGTAATTATCGATTATTTGACGAAGCC
Found at i:94426513 original size:27 final size:27
Alignment explanation
Indices: 94426250--94426512 Score: 373
Period size: 27 Copynumber: 9.7 Consensus size: 27
94426240 TACTAAAATG
** *
94426250 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
94426277 CCCTCGATTTATAGAATTACAGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
94426304 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
94426331 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
94426358 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
94426385 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
94426412 CCCTTGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
94426439 CCCTCGATTTACAGCATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
94426466 CCCTTGATTTGCAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
94426493 GCCTTGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
94426513 TAAAATACCC
Statistics
Matches: 215, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 215 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:94426524 original size:27 final size:27
Alignment explanation
Indices: 94426494--94426822 Score: 195
Period size: 27 Copynumber: 12.2 Consensus size: 27
94426484 ACTGTTTTAG
* *
94426494 CCTTGATTTACAAAATTACTAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* *
94426521 CCTTGGTTTACAAAATTACCAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* * *
94426548 CCTCGA-TCAGTAAAATTACCGAAATAC
1 CCTTGATTTA-TAAAATTACCAAAATAC
* * * *
94426575 CCTAG-TCTATAAAATTGCTAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* * *
94426601 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* * *
94426628 CCCT-AGTTTGTAAAGTTACCAAAATAC
1 CCTTGA-TTTATAAAATTACCAAAATAC
* * * * *
94426655 CACTAG-TTTGTGAAATTACCGAAATAG
1 C-CTTGATTTATAAAATTACCAAAATAC
** *
94426682 CCTCAATTTGTAAAATTACCAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* *
94426709 CCCTGATTTACAAAATTA-CAAAATAC
1 CCTTGATTTATAAAATTACCAAAATAC
* *
94426735 CCTTGACTTTCTAAAAATTA-TAGAAATAC
1 CCTTGA-TTTAT-AAAATTACCA-AAATAC
* * **
94426764 CATT-AGTTTACAAAATTACTGAAATAC
1 CCTTGA-TTTATAAAATTACCAAAATAC
* * * * * *
94426791 CTTTGGTTTGTAGATTTACCAAAACAC
1 CCTTGATTTATAAAATTACCAAAATAC
94426818 CCTTG
1 CCTTG
94426823 TAGGATGAAA
Statistics
Matches: 234, Mismatches: 56, Indels: 24
0.75 0.18 0.08
Matches are distributed among these distances:
26 34 0.15
27 177 0.76
28 14 0.06
29 9 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
CCTTGATTTATAAAATTACCAAAATAC
Found at i:94426538 original size:54 final size:54
Alignment explanation
Indices: 94426262--94426540 Score: 353
Period size: 54 Copynumber: 5.2 Consensus size: 54
94426252 CTCGATTTGT
* * *
94426262 AGAATTACCATTTTACCCTCGATTTATAGAATTA-CAGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCA-TTTTACCCTTGATTTAC
* *
94426316 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
** *
94426370 AGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTTGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
* * *
94426424 AGAATTACTGTTTTACCCTCGATTTACAGCATTACCATTTTACCCTTGATTTGC
1 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
* * * * * *** *
94426478 AGAATTACTGTTTTAGCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
*
94426532 AAAATTACC
1 AGAATTACC
94426541 AAAATACCCT
Statistics
Matches: 200, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 199 1.00
55 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (54 bp):
AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
Found at i:94426641 original size:80 final size:80
Alignment explanation
Indices: 94426505--94426737 Score: 240
Period size: 80 Copynumber: 2.9 Consensus size: 80
94426495 CTTGATTTAC
* ** ** *
94426505 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCG
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCA
94426569 AAATACCCTAGTCTAT
65 AAATACCCTAGTCTAT
* *
94426585 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAGTTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
* *
94426649 AAATACCACTAGTTTGT
65 AAATACC-CTAGTCTAT
* ** * ** **
94426666 GAAATTACCGAAATA-GCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CA
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
94426729 AAATACCCT
65 AAATACCCT
94426738 TGACTTTCTA
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
79 3 0.02
80 68 0.53
81 56 0.44
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
AATACCCTAGTCTAT
Found at i:94426884 original size:28 final size:27
Alignment explanation
Indices: 94426853--94426914 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
94426843 ACCCCTAATA
94426853 GGTAAAAAGACCGTAAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAA-CCCCTGTAG
** * * *
94426881 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAAAACCCCTGTAG
94426908 GGTAAAA
1 GGTAAAA
94426915 TGACAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAACCCCTGTAG
Found at i:94426906 original size:27 final size:28
Alignment explanation
Indices: 94426853--94426918 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
94426843 ACCCCTAATA
*
94426853 GGTAAAAAGACCGTAAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAAGCCCCTGTAG
* * * *
94426881 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAAAAGCCCCTGTAG
94426908 GGTAAAATGAC
1 GGTAAAATGAC
94426919 AAATATGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (28 bp):
GGTAAAATGACCGTAAAAGCCCCTGTAG
Found at i:94429680 original size:30 final size:30
Alignment explanation
Indices: 94429656--94429719 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
94429646 ATTTTATTTG
94429656 AATTTAATTCAACTTACACAATTTTTGGTA
1 AATTTAATTCAACTTACACAATTTTTGGTA
94429686 AATTTAATTCAACTTACACAA-TTTTGGTA
1 AATTTAATTCAACTTACACAATTTTTGGTA
94429715 AATTT
1 AATTT
94429720 TCAAATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (30 bp):
AATTTAATTCAACTTACACAATTTTTGGTA
Found at i:94430120 original size:50 final size:50
Alignment explanation
Indices: 94429991--94430284 Score: 362
Period size: 50 Copynumber: 5.9 Consensus size: 50
94429981 TAGCCGAAGC
* *
94429991 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
94430040 TATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * *
94430090 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * *
94430140 CATCTGATACACATAGTAGCCT-CACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * * *
94430190 TATCAGGTACGCATAGTAG-CTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
94430238 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
94430285 CACAATAGCT
Statistics
Matches: 211, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
48 17 0.08
49 91 0.43
50 103 0.49
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:94430166 original size:99 final size:100
Alignment explanation
Indices: 94429987--94430284 Score: 395
Period size: 99 Copynumber: 3.0 Consensus size: 100
94429977 CTTGTAGCCG
* *
94429987 AAGCTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
* * *
94430052 GTAATAGCCTGCACTTAGTACTACACACATGACCT
66 GTAGTAGCCTACACTTAGTACTACACACGTGACCT
* * * * ** *
94430087 AA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACA
* * *
94430151 CATAGTAGCCT-CACTTAGTACTACACACGTGATCG
65 CGTAGTAGCCTACACTTAGTACTACACACGTGACCT
** * *
94430186 AAGTTATCAGGTACGCATAGTAG-CTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
94430250 GTAGTAGCCTACACTTAGTACTACACACGTGACCT
66 GTAGTAGCCTACACTTAGTACTACACACGTGACCT
94430285 CACAATAGCT
Statistics
Matches: 167, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
98 21 0.13
99 111 0.66
100 35 0.21
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (100 bp):
AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
GTAGTAGCCTACACTTAGTACTACACACGTGACCT
Found at i:94435840 original size:49 final size:49
Alignment explanation
Indices: 94435774--94436018 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
94435764 TAGCCGAAGC
* * *
94435774 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
94435823 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
94435873 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
94435924 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
94435973 TCTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
94436019 TCACAATAGC
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 47 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:94436695 original size:30 final size:30
Alignment explanation
Indices: 94436661--94436720 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94436651 CTTTAATACG
94436661 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
94436691 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
94436721 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:94441508 original size:21 final size:21
Alignment explanation
Indices: 94441470--94441509 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94441460 AGTGACCTTA
* * *
94441470 TATTATAATGGTTTTATATTT
1 TATTATAAAGGATATATATTT
94441491 TATTATAAAGGATATATAT
1 TATTATAAAGGATATATAT
94441510 GTAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (21 bp):
TATTATAAAGGATATATATTT
Found at i:94444361 original size:53 final size:52
Alignment explanation
Indices: 94444214--94444365 Score: 189
Period size: 52 Copynumber: 2.9 Consensus size: 52
94444204 TGACGGAAAA
* * * *
94444214 GATGTGATATGTGCTTCCGTATAAGACCATAGCTAGGTTATGGCATCAGTGC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGT
* * * *
94444266 AATGTGATACGTG-TTCCCGTATAAGACCACAGCTGGGCTATGGCATCAGTGT
1 GATGTGATATGTGATT-CCGTATAAGACCATAGCTGGGATATGGCATCAGTGT
* *
94444318 GATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATC
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATC
94444366 GGTATGATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.02
52 50 0.59
53 31 0.36
54 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCAGTGT
Found at i:94449843 original size:55 final size:54
Alignment explanation
Indices: 94449756--94450010 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
94449746 ATTAGGGTTT
*
94449756 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
94449811 AATGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
94449866 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
94449919 AAGGATGCCATGAAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
94449968 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
94450011 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:94449962 original size:108 final size:110
Alignment explanation
Indices: 94449763--94449963 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
94449753 TTTAAGGATA
* * *
94449763 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAATGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGAAAGA
*
94449828 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* **
94449873 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATGCCATGAAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGAAAG
*
94449935 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
94449964 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.55
109 7 0.09
110 27 0.33
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGAAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:94450223 original size:16 final size:16
Alignment explanation
Indices: 94450202--94450232 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94450192 ATAAATTTGA
94450202 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
94450218 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
94450233 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:94454163 original size:20 final size:22
Alignment explanation
Indices: 94454138--94454187 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
94454128 TAAATTGTAA
*
94454138 AAATTG-AAAAGTTT-GGGCAT
1 AAATTGTAAAAATTTAGGGCAT
94454158 AAATTGTAAAAATTTAAGGGCAT
1 AAATTGTAAAAATTT-AGGGCAT
94454181 AAATTGT
1 AAATTGT
94454188 GAAATAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 7 0.27
23 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (22 bp):
AAATTGTAAAAATTTAGGGCAT
Found at i:94454653 original size:53 final size:51
Alignment explanation
Indices: 94454512--94454706 Score: 197
Period size: 52 Copynumber: 3.9 Consensus size: 51
94454502 TGATGGAAAA
* *
94454512 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGTTATGGCATCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGTGT
** *
94454562 GCAATGTGATACATG-TTCCCCTATAAGACCATAGCTGGGCTATGGCATCTGTGT
1 G--ATGTGATATGTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATC-GTGT
* * *
94454616 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATCTGGCATCG-GT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGTGT
* * *
94454667 -A--TGATATGTGA-TCCGCATAAGACCATTGCGGGGCTATGGC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGC
94454707 TTTAGTGTGT
Statistics
Matches: 122, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
46 23 0.19
47 6 0.05
48 4 0.03
50 2 0.02
51 4 0.03
52 47 0.39
53 31 0.25
54 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGTGT
Found at i:94456787 original size:19 final size:19
Alignment explanation
Indices: 94456751--94456789 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
94456741 TTTTCATCAT
* *
94456751 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
94456770 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
94456789 A
1 A
94456790 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:94457293 original size:55 final size:56
Alignment explanation
Indices: 94457228--94457342 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
94457218 AGCATGGCTG
* * *
94457228 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
94457284 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
94457339 CCAG
1 CCAG
94457343 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:94457339 original size:28 final size:27
Alignment explanation
Indices: 94457253--94457342 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
94457243 GTGACAGAGT
*
94457253 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
94457282 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
94457309 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
94457337 CACCAG
1 CACCAG
94457343 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:94457495 original size:28 final size:28
Alignment explanation
Indices: 94457448--94457512 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
94457438 AAATTAACCC
*
94457448 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
94457476 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
94457504 TAGGGGTAT
1 TAGGGGTAT
94457513 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:94458596 original size:12 final size:13
Alignment explanation
Indices: 94458577--94458609 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
94458567 GGGTTCGGCT
94458577 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
94458590 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
94458602 ATGGAGAA
1 ATGGAGAA
94458610 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:94464613 original size:19 final size:19
Alignment explanation
Indices: 94464577--94464615 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
94464567 TTTTCATCAT
* *
94464577 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
94464596 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
94464615 A
1 A
94464616 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:94465116 original size:55 final size:56
Alignment explanation
Indices: 94465051--94465165 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
94465041 AGCATGGCTG
* * *
94465051 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
94465107 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
94465162 CCAG
1 CCAG
94465166 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:94465162 original size:28 final size:27
Alignment explanation
Indices: 94465076--94465165 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
94465066 GTGACAGAGT
*
94465076 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
94465105 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
94465132 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
94465160 CACCAG
1 CACCAG
94465166 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:94465318 original size:28 final size:28
Alignment explanation
Indices: 94465271--94465335 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
94465261 AAATTAACCC
*
94465271 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
94465299 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
94465327 TAGGGGTAT
1 TAGGGGTAT
94465336 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:94466415 original size:12 final size:13
Alignment explanation
Indices: 94466396--94466428 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
94466386 GGGTTCGGCT
94466396 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
94466409 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
94466421 ATGGAGAA
1 ATGGAGAA
94466429 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:94473278 original size:21 final size:21
Alignment explanation
Indices: 94473253--94473292 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94473243 AGTGACCTTA
* *
94473253 TATTATAATGGTTTTATATTT
1 TATTATAAAGGTTATATATTT
94473274 TATTATAAAGGTTATATAT
1 TATTATAAAGGTTATATAT
94473293 GTAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TATTATAAAGGTTATATATTT
Found at i:94473693 original size:29 final size:26
Alignment explanation
Indices: 94473644--94473697 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
94473634 GATTTTGAGT
*
94473644 AATTAGGGCTAAATTGCAAAAATAAAA
1 AATTAGGGCTAAAATGC-AAAATAAAA
*
94473671 AATTGAGGGACTAAAATGTAAAATAAA
1 AATT-AGGG-CTAAAATGCAAAATAAA
94473698 TGAAATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.22
Consensus pattern (26 bp):
AATTAGGGCTAAAATGCAAAATAAAA
Found at i:94474274 original size:43 final size:41
Alignment explanation
Indices: 94474209--94474305 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 41
94474199 TTCCTATTTT
* *
94474209 TTTGTGTAAGACCACGTATGGGACGTTGGCATCG-ATCTATGA
1 TTTGTGTAAGACCACGTATGGGACATCGGCATCGTAT-T-TGA
* *
94474251 TTATGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
1 TT-TGTGTAAGACCACGTATGGGACATCGGCATCGTATTTGA
94474293 TTTGTGTAAGACC
1 TTTGTGTAAGACC
94474306 CTATCTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 11 0.22
42 7 0.14
43 29 0.59
44 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTGTGTAAGACCACGTATGGGACATCGGCATCGTATTTGA
Found at i:94478131 original size:19 final size:19
Alignment explanation
Indices: 94478107--94478145 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
94478097 GTATCGATGC
94478107 TTCGATGATACAGATCTGA
1 TTCGATGATACAGATCTGA
*
94478126 TTCGATGATATAGATCTGA
1 TTCGATGATACAGATCTGA
94478145 T
1 T
94478146 CCCTCGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (19 bp):
TTCGATGATACAGATCTGA
Found at i:94479132 original size:40 final size:40
Alignment explanation
Indices: 94479088--94479197 Score: 184
Period size: 40 Copynumber: 2.8 Consensus size: 40
94479078 GCGTATCAAG
94479088 ATAGCTTCGGCTATATAAAGCACTTAGTGTACAAATCAGA
1 ATAGCTTCGGCTATATAAAGCACTTAGTGTACAAATCAGA
* *
94479128 ATAGCTTCGGCTATATAAAGCACTTAGTGTACGAATCGGA
1 ATAGCTTCGGCTATATAAAGCACTTAGTGTACAAATCAGA
**
94479168 ATAGCTTCGGCTATATATGGCACTTAGTGT
1 ATAGCTTCGGCTATATAAAGCACTTAGTGT
94479198 GGGAGATTGA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (40 bp):
ATAGCTTCGGCTATATAAAGCACTTAGTGTACAAATCAGA
Found at i:94482648 original size:26 final size:26
Alignment explanation
Indices: 94482618--94482674 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
94482608 TGTACCTGAA
* *
94482618 TAGCAAG-TCGTGGGCCGGTTATCATT
1 TAGCAAGCT-GTGAGCCGATTATCATT
*
94482644 TAGCAAGCTTTGAGCCGATTATCATT
1 TAGCAAGCTGTGAGCCGATTATCATT
94482670 TAGCA
1 TAGCA
94482675 GGTACTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (26 bp):
TAGCAAGCTGTGAGCCGATTATCATT
Found at i:94486028 original size:30 final size:30
Alignment explanation
Indices: 94485992--94486053 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
94485982 TGAAGCTGAG
94485992 ATAGTTTGTTCTAAAAATACCATAGATAGT
1 ATAGTTTGTTCTAAAAATACCATAGATAGT
94486022 ATAGTTTGTTCTAAAAATACCATAGATAGT
1 ATAGTTTGTTCTAAAAATACCATAGATAGT
94486052 AT
1 AT
94486054 CTTTTAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
ATAGTTTGTTCTAAAAATACCATAGATAGT
Found at i:94489399 original size:16 final size:17
Alignment explanation
Indices: 94489378--94489416 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
94489368 ATGCAAATAC
*
94489378 AAATAT-TAAATTTAAA
1 AAATATATAAATATAAA
94489394 AAATATAATAAATATAAA
1 AAATAT-ATAAATATAAA
94489412 AAATA
1 AAATA
94489417 AACAATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATATATAAATATAAA
Found at i:94489489 original size:29 final size:29
Alignment explanation
Indices: 94489456--94489513 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
94489446 AAAGAAATTT
*
94489456 GAAATCAACAATATATAAAACAATTTAAA
1 GAAATAAACAATATATAAAACAATTTAAA
** * *
94489485 GAAATAAATTATATATAAAAGATTTTAAA
1 GAAATAAACAATATATAAAACAATTTAAA
94489514 ATAAATAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (29 bp):
GAAATAAACAATATATAAAACAATTTAAA
Found at i:94493172 original size:21 final size:20
Alignment explanation
Indices: 94493131--94493175 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
94493121 AGCACATGTA
*
94493131 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
94493151 TTCATCAAAA-TTTACAACTT
1 TTCAT-AAAATTTTACAATTT
94493171 TTCAT
1 TTCAT
94493176 TTCAGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:94505265 original size:75 final size:75
Alignment explanation
Indices: 94505139--94505289 Score: 194
Period size: 75 Copynumber: 2.0 Consensus size: 75
94505129 CAAAAGTTGA
* * * * **
94505139 AAGATAGTTTTGTTGACGCCACACGAGCGTGTTGTAGGCCGTGTGCAAAAACACGATTGTATGGT
1 AAGATAGTTCTGTTAACGCCACACGAGCGTGTGGTAGGCCATGTGCAAAAACACGACCGTATGGT
94505204 CGATGAGGGT
66 CGATGAGGGT
* * * ** *
94505214 AAGATAGTTCTGTTAATGCCACATGGGCGTGTGGTAGGCCATGTGTGAAAACACGGCCGTATGGT
1 AAGATAGTTCTGTTAACGCCACACGAGCGTGTGGTAGGCCATGTGCAAAAACACGACCGTATGGT
94505279 CGATGAGGGT
66 CGATGAGGGT
94505289 A
1 A
94505290 TGGCTATGCG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (75 bp):
AAGATAGTTCTGTTAACGCCACACGAGCGTGTGGTAGGCCATGTGCAAAAACACGACCGTATGGT
CGATGAGGGT
Found at i:94512701 original size:27 final size:26
Alignment explanation
Indices: 94512671--94512764 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
94512661 TTGCTGGAAA
94512671 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCAC-ATTATCTGATCTGGTGGCTC
*
94512698 TGCCACATATATCTGCTCTGGTGGCTC
1 TGCCACAT-TATCTGATCTGGTGGCTC
*
94512725 T-CCACGATTATCTGTATCTGGTGACTC
1 TGCCAC-ATTATCTG-ATCTGGTGGCTC
**
94512752 TATCACATTATCT
1 TGCCACATTATCT
94512765 ATTCTGGCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.20
27 44 0.75
28 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (26 bp):
TGCCACATTATCTGATCTGGTGGCTC
Found at i:94519659 original size:26 final size:26
Alignment explanation
Indices: 94519622--94519705 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
94519612 TGATACAAAT
* *
94519622 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94519648 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94519674 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94519700 TGATAA
1 TGATAA
94519706 AATATCATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94521239 original size:26 final size:26
Alignment explanation
Indices: 94521187--94521239 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94521177 TCTACAGTTT
*
94521187 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
94521213 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
94521239 T
1 T
94521240 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:94523468 original size:28 final size:26
Alignment explanation
Indices: 94523437--94523500 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
94523427 AATTACTTGA
**
94523437 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGGAAAATTACCATT
* *
94523465 ATACCCCTAGGTGTAAAATTACCATT
1 ATACCCCTAGATGGAAAATTACCATT
94523491 ATACCCCTAG
1 ATACCCCTAG
94523501 GGTTACTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGGAAAATTACCATT
Found at i:94523639 original size:27 final size:26
Alignment explanation
Indices: 94523609--94523716 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
94523599 AGCGTCCTGA
*
94523609 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCAC-ATTATCTGATCTGG
* *
94523636 TGGCTCTACCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGATCTGG
*
94523663 TGGCTCTGCCACGATTATCCGTATCTGG
1 TGGCTCTGCCAC-ATTATCTG-ATCTGG
* * *
94523691 TGACTCTGTCACATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGATCTGG
94523717 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 44 0.65
28 17 0.25
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGATCTGG
Found at i:94523709 original size:54 final size:54
Alignment explanation
Indices: 94523609--94523716 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
94523599 AGCGTCCTGA
* *
94523609 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTGG
1 TGGCTATGCCACAATTATCCGATCTGGTGACTCTACCACATATATCTGTTCTGG
* * **
94523663 TGGCTCTGCCACGATTATCCGTATCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TGGCTATGCCACAATTATCCG-ATCTGGTGACTCTACCACATATATCTGTTCTGG
94523717 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGCTATGCCACAATTATCCGATCTGGTGACTCTACCACATATATCTGTTCTGG
Found at i:94525754 original size:17 final size:17
Alignment explanation
Indices: 94525732--94525765 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
94525722 ATCAGAACAG
94525732 AAGATTCCAAAATCATT
1 AAGATTCCAAAATCATT
94525749 AAGATTCCAAAATCATT
1 AAGATTCCAAAATCATT
94525766 CTGACTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
AAGATTCCAAAATCATT
Found at i:94526310 original size:51 final size:51
Alignment explanation
Indices: 94526233--94526431 Score: 310
Period size: 51 Copynumber: 3.9 Consensus size: 51
94526223 CAGATACACG
*
94526233 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* * *
94526284 GTGGCCTTCACCTAGTACCACACTTGTGTCCGAAGCTATTTAATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
94526335 GGGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
94526386 GTGGCCTTCACATAGTACCACACTTGTGTCCAAATCCATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
94526432 CTATGGTTCA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 133 0.99
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:94526498 original size:24 final size:24
Alignment explanation
Indices: 94526466--94526589 Score: 158
Period size: 24 Copynumber: 5.0 Consensus size: 24
94526456 CACTTAGCAC
*
94526466 AATGCCATGGACTTATTTGACTTA
1 AATGCCATGGACTTATTTCACTTA
* *
94526490 GATGACATGGACTTATTTCACTTAA
1 AATGCCATGGACTTATTTCACTT-A
*
94526515 CACATTGCCATGGACTTATTTTACTTA
1 -A-A-TGCCATGGACTTATTTCACTTA
*
94526542 AATGCCATGGTCTTATTTCACTTA
1 AATGCCATGGACTTATTTCACTTA
*
94526566 AATGCCATGGTCTTATTTCACTTA
1 AATGCCATGGACTTATTTCACTTA
94526590 GCACAATGTC
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
24 64 0.73
25 2 0.02
26 1 0.01
27 2 0.02
28 19 0.22
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (24 bp):
AATGCCATGGACTTATTTCACTTA
Found at i:94526524 original size:52 final size:51
Alignment explanation
Indices: 94526455--94526590 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 51
94526445 GGGAAATTTA
* *
94526455 TCACTTAGCACAATGCCATGGACTTATTTGACTTAGATGACATGGACTTATT
1 TCACTTAACAC-ATGCCATGGACTTATTTCACTTAGATGACATGGACTTATT
* * * *
94526507 TCACTTAACACATTGCCATGGACTTATTTTACTTAAATGCCATGGTCTTATT
1 TCACTTAACACA-TGCCATGGACTTATTTCACTTAGATGACATGGACTTATT
*
94526559 TCACTT-A-A-ATGCCATGGTCTTATTTCACTTAG
1 TCACTTAACACATGCCATGGACTTATTTCACTTAG
94526591 CACAATGTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 20 0.27
49 1 0.01
50 1 0.01
51 2 0.03
52 51 0.68
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (51 bp):
TCACTTAACACATGCCATGGACTTATTTCACTTAGATGACATGGACTTATT
Found at i:94532911 original size:2 final size:2
Alignment explanation
Indices: 94532904--94532936 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94532894 ACAAGGTAAC
94532904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94532937 GTCATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94545878 original size:16 final size:17
Alignment explanation
Indices: 94545842--94545880 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
94545832 AAAAAAAAGG
94545842 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
94545859 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
94545876 AAAAC
1 AAAAC
94545881 TTAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:94554409 original size:21 final size:21
Alignment explanation
Indices: 94554356--94554410 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
94554346 AATAATTTAC
*
94554356 ATATATAAATATAGTAAAATAA
1 ATATAT-AATAAAGTAAAATAA
**
94554378 ATA-ATATATAAAGTAAAATGT
1 ATATATA-ATAAAGTAAAATAA
94554399 ATATATAATAAA
1 ATATATAATAAA
94554411 AATTTATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGTAAAATAA
Found at i:94555029 original size:13 final size:14
Alignment explanation
Indices: 94555011--94555039 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94555001 AAAGGGGAGC
94555011 CCTCCGGCC-TCGG
1 CCTCCGGCCTTCGG
94555024 CCTCCGGCCTTCGG
1 CCTCCGGCCTTCGG
94555038 CC
1 CC
94555040 ATTGCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.55, G:0.28, T:0.17
Consensus pattern (14 bp):
CCTCCGGCCTTCGG
Found at i:94564684 original size:17 final size:17
Alignment explanation
Indices: 94564662--94564704 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
94564652 ATTCCATTTA
**
94564662 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
94564679 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
94564696 AAAT-TCAAT
1 AAATGTCAAT
94564705 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:94567886 original size:49 final size:49
Alignment explanation
Indices: 94567814--94567913 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
94567804 TACGAATCTG
94567814 TCGAAAATGATCAAAGTTACTCAAAATTTATTATAAAATTAAGTAAAAT
1 TCGAAAATGATCAAAGTTACTCAAAATTTATTATAAAATTAAGTAAAAT
94567863 TCGAAAATGATCAAAGTTACTCAAAATTTATTATAAAATTAAGTAAAAT
1 TCGAAAATGATCAAAGTTACTCAAAATTTATTATAAAATTAAGTAAAAT
94567912 TC
1 TC
94567914 AACATGTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (49 bp):
TCGAAAATGATCAAAGTTACTCAAAATTTATTATAAAATTAAGTAAAAT
Found at i:94567889 original size:27 final size:27
Alignment explanation
Indices: 94567814--94567890 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
94567804 TACGAATCTG
94567814 TCGAAAATGATCAAAGTTACTCAAAAT
1 TCGAAAATGATCAAAGTTACTCAAAAT
* * * *
94567841 T----TATTAT-AAAATTAAGT-AAAAT
1 TCGAAAATGATCAAAGTT-ACTCAAAAT
94567863 TCGAAAATGATCAAAGTTACTCAAAAT
1 TCGAAAATGATCAAAGTTACTCAAAAT
94567890 T
1 T
94567891 TATTATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
22 11 0.31
23 6 0.17
26 6 0.17
27 12 0.34
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (27 bp):
TCGAAAATGATCAAAGTTACTCAAAAT
Found at i:94567942 original size:19 final size:19
Alignment explanation
Indices: 94567920--94567958 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
94567910 ATTCAACATG
*
94567920 TTAATAATTTAATTATAAT
1 TTAATAATTTAATAATAAT
* *
94567939 TTAATTATTTTATAATAAT
1 TTAATAATTTAATAATAAT
94567958 T
1 T
94567959 ATAAAGTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATAATTTAATAATAAT
Found at i:94577942 original size:126 final size:126
Alignment explanation
Indices: 94577717--94577974 Score: 453
Period size: 126 Copynumber: 2.0 Consensus size: 126
94577707 CGATGTGAGG
* *
94577717 CACACGGCCGTGTCCCAACTCGTGTCCTTACCCGTGTAACTCTTTGACTTGTGCCACACGGTCTG
1 CACACGACCGTGTCCCAACTCGTGTCCTTACCCGTGTAACTCTTTGACTTGTGCCACACGATCTG
* **
94577782 GCACACGCCCATGTTCTAGGCTGTATGGTTAATTTAATTTTCACAAATTAGGTGCAAGTTT
66 GCACACACCCATGTTCTAGGCCATATGGTTAATTTAATTTTCACAAATTAGGTGCAAGTTT
94577843 CACACGACCGTGTCCCAACTCGTGTCCTTACCCGTGTAACTCTTTGACTTGTGCCACACGATCTG
1 CACACGACCGTGTCCCAACTCGTGTCCTTACCCGTGTAACTCTTTGACTTGTGCCACACGATCTG
* *
94577908 GCACACACCCATGTTCTAGGCCATGTGGTTAATTTAATTTTCCCAAATTAGGTGCAAGTTT
66 GCACACACCCATGTTCTAGGCCATATGGTTAATTTAATTTTCACAAATTAGGTGCAAGTTT
94577969 CACACG
1 CACACG
94577975 GCCAAGACAC
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (126 bp):
CACACGACCGTGTCCCAACTCGTGTCCTTACCCGTGTAACTCTTTGACTTGTGCCACACGATCTG
GCACACACCCATGTTCTAGGCCATATGGTTAATTTAATTTTCACAAATTAGGTGCAAGTTT
Found at i:94579194 original size:24 final size:25
Alignment explanation
Indices: 94579144--94579209 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
94579134 ATATAAGGGA
* *
94579144 AAGCTCA-TAAGAGCTATAATCGAG
1 AAGCTCACAAAGAGCCATAATCGAG
* *
94579168 AAGTTCACAAAGAGCCAT-ATCGGG
1 AAGCTCACAAAGAGCCATAATCGAG
94579192 AAGCTCACAAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
94579210 GTAACGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 28 0.78
25 8 0.22
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AAGCTCACAAAGAGCCATAATCGAG
Found at i:94583929 original size:40 final size:40
Alignment explanation
Indices: 94583884--94584051 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
94583874 CGGAATATAA
94583884 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
94583924 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
94583964 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
94584004 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
94584044 CCGGATAT
1 CCGGATAT
94584052 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:94588781 original size:40 final size:40
Alignment explanation
Indices: 94588707--94588884 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
94588697 GAGTCACGTA
** *
94588707 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
94588746 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
94588786 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
94588826 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
94588866 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
94588885 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Done.