Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 156 of 228
Found at i:46920933 original size:37 final size:37
Alignment explanation
Indices: 46920883--46920961 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46920873 TTATTACGAA
* *
46920883 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
46920920 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
46920957 GTCTT
1 GTCTT
46920962 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:46921158 original size:47 final size:47
Alignment explanation
Indices: 46921080--46921600 Score: 871
Period size: 47 Copynumber: 11.1 Consensus size: 47
46921070 CCCTTCGGGA
* * * * * * * *
46921080 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
46921127 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46921174 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46921221 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46921268 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46921315 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46921362 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46921409 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46921456 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46921503 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46921550 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46921597 CTTA
1 CTTA
46921601 CTATCATTTC
Statistics
Matches: 452, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 452 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:46928621 original size:65 final size:65
Alignment explanation
Indices: 46928407--46928703 Score: 264
Period size: 65 Copynumber: 4.6 Consensus size: 65
46928397 AATAAGCATA
* * * * *
46928407 TTACTTTAAAGAGGTAAAGCCACTTTAAAGAATTGTGCAACATAGGTTCGCTTTAAAGAAGC-GT
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAA-CTGT
46928471 G
65 G
* * * * *
46928472 ATACCTAAAAAAAGGTAAAGCCACTTTAAAGAAGTGTGGCAACACAA-GTTTAATTTAAA-AA-T
1 TTACCT-TAAAAAGGTAAAGCCACTTTAAAGAAATGT-GCAACA-AAGGTTCACTTTAAAGAACT
46928534 GTG
63 GTG
* * * *
46928537 TATTACCTTATAAAGGTAAAGCCACTTTAAAGAAATGTGTAATAAAGGTTCACTTTAAAGAACTA
1 --TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTG
46928602 TG
64 TG
* * ** * * *
46928604 TTACCTTAAAAAGGTAAATCCACTTTAAAGAAGTGTATAACATAGGTT-ACTTTAAAAAAGTGTG
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
* * * *
46928668 TTACATTAAAGAA-GTAAAGTCATTTTAAAAAAATGT
1 TTACCTTAAA-AAGGTAAAGCCACTTTAAAGAAATGT
46928704 TAAAGTTCGC
Statistics
Matches: 189, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
64 42 0.22
65 65 0.34
66 58 0.31
67 23 0.12
68 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (65 bp):
TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
Found at i:46965806 original size:367 final size:366
Alignment explanation
Indices: 46965133--46966227 Score: 1940
Period size: 367 Copynumber: 3.0 Consensus size: 366
46965123 GTTGATAGTG
* * ** *
46965133 GAGAGTTACCGGGTTTACGAGGCAGCTGAGAGTAGAAGGAAAGTTCCTCTAACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
46965198 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
46965263 AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACTTGGGGAAGGATCCGCGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
46965328 TCCAACACTTGGGTATATTGCACGAAATGTCCTTCAGATCTTACAGGGTTTTTAAATCGGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
46965393 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
46965458 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
*
46965500 GAGAGTTACCAGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
* * *
46965565 AGGGTTTTAAGAGGCATTTATAAGTGTTTAAAACATCACCGTTTGGGGCTAGATTCAATGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
46965630 AAAACGGTGCCGTATTATTATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCACGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
46965695 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTTAGATCTTACAGGGTTTTTAAATCTGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
46965760 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCG-TGTCACT
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCT-TCACT
*
46965824 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAT
324 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
* **
46965867 GAAAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAATGTCCTCTGACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
46965932 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
46965997 AAAACGGTGCCGTATTATCATCTGATCCACGCCGTGACCCGACCTGGGGAAGGATCCGCGTGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
46966062 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGATCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCG-TCCTC
* *
46966127 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTTGTCCGCATCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
46966192 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
46966228 GCCCCCTCAT
Statistics
Matches: 694, Mismatches: 31, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
366 2 0.00
367 692 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (366 bp):
GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGTCCTCT
TTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTAC
GCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
Found at i:46974069 original size:26 final size:26
Alignment explanation
Indices: 46974002--46974072 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
46973992 TCCTGAAGTG
* *
46974002 TTCTAAAACTGATACAGGTTATGGTA
1 TTCTAAAACTGATATAGGTTATGATA
* *
46974028 TTCTGAAACTGATATATGTTATGATA
1 TTCTAAAACTGATATAGGTTATGATA
46974054 TTCTAAAACT-ACTATAGGT
1 TTCTAAAACTGA-TATAGGT
46974073 AGTATACTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.03
26 37 0.97
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
TTCTAAAACTGATATAGGTTATGATA
Found at i:46981107 original size:21 final size:21
Alignment explanation
Indices: 46981064--46981108 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
46981054 GTGCTTTAGT
46981064 GCACCGAAGTGTCACTTTCACTA
1 GCACCGAAGTGT--CTTTCACTA
46981087 GCACCGAAGTGT-TTATCACTA
1 GCACCGAAGTGTCTT-TCACTA
46981108 G
1 G
46981109 TGCGCTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.10
21 7 0.33
23 12 0.57
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GCACCGAAGTGTCTTTCACTA
Found at i:46986456 original size:25 final size:25
Alignment explanation
Indices: 46986428--46986485 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
46986418 TTTACGTGGT
46986428 GCCTTTGTAGCAAAATGTTTGGGAA
1 GCCTTTGTAGCAAAATGTTTGGGAA
* * **
46986453 GCCTTTATGGTGAAATGTTTGGGAA
1 GCCTTTGTAGCAAAATGTTTGGGAA
46986478 GCCTTTGT
1 GCCTTTGT
46986486 GGTAGGTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.36
Consensus pattern (25 bp):
GCCTTTGTAGCAAAATGTTTGGGAA
Found at i:46986488 original size:25 final size:25
Alignment explanation
Indices: 46986440--46986488 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46986430 CTTTGTAGCA
46986440 AAATGTTTGGGAAGCCTTTATGGTG
1 AAATGTTTGGGAAGCCTTTATGGTG
*
46986465 AAATGTTTGGGAAGCCTTTGTGGT
1 AAATGTTTGGGAAGCCTTTATGGT
46986489 AGGTTACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.33, T:0.37
Consensus pattern (25 bp):
AAATGTTTGGGAAGCCTTTATGGTG
Found at i:46990007 original size:26 final size:26
Alignment explanation
Indices: 46989976--46990050 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
46989966 ACCAATAGCA
*
46989976 CAGCAAAGCTGTCAGTAATAGTATCG
1 CAGCAAAGCTGCCAGTAATAGTATCG
* * *
46990002 TAGCAAAGCTGCCAGTAACAGTATTG
1 CAGCAAAGCTGCCAGTAATAGTATCG
46990028 CAGCAAAGCTGCCAGT-ATAGTAT
1 CAGCAAAGCTGCCAGTAATAGTAT
46990051 ACTTCCTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 6 0.14
26 37 0.86
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTATCG
Found at i:46992454 original size:38 final size:38
Alignment explanation
Indices: 46992403--46992480 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
46992393 TATCGAAACG
*
46992403 AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
1 AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
*
46992441 AGATAAAATAAGATTACTTTCGTAAAGAGTATACAATA
1 AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
46992479 AG
1 AG
46992481 GTGTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (38 bp):
AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
Found at i:46992922 original size:13 final size:13
Alignment explanation
Indices: 46992904--46992928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46992894 TTCAATGGGT
46992904 AATTGAACTTGAA
1 AATTGAACTTGAA
46992917 AATTGAACTTGA
1 AATTGAACTTGA
46992929 GATCGTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:47007892 original size:17 final size:17
Alignment explanation
Indices: 47007870--47007906 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
47007860 GATAAGTATC
**
47007870 CATTGTCATTGCATTTT
1 CATTGTCATTAAATTTT
47007887 CATTGTCATTAAATTTT
1 CATTGTCATTAAATTTT
47007904 CAT
1 CAT
47007907 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTAAATTTT
Found at i:47010519 original size:15 final size:15
Alignment explanation
Indices: 47010501--47010532 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47010491 GCCTCAAATT
47010501 TTGGGCCTAGAAGAA
1 TTGGGCCTAGAAGAA
*
47010516 TTGGGTCTAGAAGAA
1 TTGGGCCTAGAAGAA
47010531 TT
1 TT
47010533 TAGATAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (15 bp):
TTGGGCCTAGAAGAA
Found at i:47012521 original size:27 final size:27
Alignment explanation
Indices: 47012380--47012523 Score: 171
Period size: 27 Copynumber: 5.3 Consensus size: 27
47012370 ACTTACAAAC
* *
47012380 TAAAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
47012407 TAAAATAATCGAAATACCCCCATAGAG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
47012434 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
47012461 TAAAATGACCGAAATACCCCCATCGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
47012488 TAGAATGACCGTAATACCCCCATCGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
47012515 TTAAATGAC
1 TAAAATGAC
47012524 TAAAATTGAT
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:47014158 original size:32 final size:32
Alignment explanation
Indices: 47014118--47014221 Score: 129
Period size: 32 Copynumber: 3.2 Consensus size: 32
47014108 ACGATGCTAT
* **
47014118 TGATGGCTTTGTACCGATCATATTACCATTTT
1 TGATGGCTTTGTACCAATCATATTACCATTAC
** * *
47014150 TGATGGCTTTGTGTCAATTATATTACCGTTAC
1 TGATGGCTTTGTACCAATCATATTACCATTAC
47014182 TGATGGCTTTG-AGCCAATCATATTACCATTAC
1 TGATGGCTTTGTA-CCAATCATATTACCATTAC
47014214 TGATGGCT
1 TGATGGCT
47014222 GTAAGTCGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTACCAATCATATTACCATTAC
Found at i:47014219 original size:64 final size:64
Alignment explanation
Indices: 47014118--47014271 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 64
47014108 ACGATGCTAT
* ** * ** * *
47014118 TGATGGCTTTGTA-CCGATCATATTACCATTTTTGATGGCTTTGTGTCAATTATATTAC-CGTTA
1 TGATGGCTTTG-AGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTC-CTA
47014181 C
64 C
*
47014182 TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCGATTATATCACTCCTAC
1 TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTCCTAC
*
47014246 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGAGCCAATCATATTAC
47014272 TGTACTTATG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 76 0.97
65 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (64 bp):
TGATGGCTTTGAGCCAATCATATTACCATTACTGATGGCTGTAAGTCAATTATATCACTCCTAC
Found at i:47014302 original size:22 final size:21
Alignment explanation
Indices: 47014277--47014350 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
47014267 ATTACTGTAC
47014277 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
47014299 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
* *
47014321 TTACGGCTCTTAGCCATTCTGG
1 TTATGGCT-TTAGCCATTCTGT
47014343 TTACTGGC
1 TTA-TGGC
47014351 AGCTTTGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
22 32 0.80
23 6 0.15
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:47023239 original size:18 final size:18
Alignment explanation
Indices: 47023216--47023260 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
47023206 ATTTTGAAAA
*
47023216 TGGTCAAAATTAT-GTTCC
1 TGGTCAAAATTATAATT-C
47023234 TGGTCAAAATTATAATTC
1 TGGTCAAAATTATAATTC
47023252 TGGTCAAAA
1 TGGTCAAAA
47023261 GTGGCTTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TGGTCAAAATTATAATTC
Found at i:47023495 original size:69 final size:69
Alignment explanation
Indices: 47023379--47023515 Score: 220
Period size: 69 Copynumber: 2.0 Consensus size: 69
47023369 GCGCCGAACA
* * * *
47023379 TATAGGCCTCAAGAGTATGGGCCGCATGATGGGATTGATGGTGCTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
47023444 TGGT
66 TGGT
* *
47023448 TATAGGCCTCAAAATTATGGGCCACATGATGGGATTGGTGGTACTGTTGGGCCGAATGGTGGCGT
1 TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
47023513 TGG
66 TGG
47023516 GCCGAAGGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.19, C:0.14, G:0.39, T:0.28
Consensus pattern (69 bp):
TATAGGCCTCAAAAGTATGGGCCACATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
TGGT
Found at i:47023509 original size:21 final size:20
Alignment explanation
Indices: 47023483--47023521 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47023473 ATGATGGGAT
47023483 TGGTGGTACTGTTGGGCCGAA
1 TGGTGGTAC-GTTGGGCCGAA
47023504 TGGTGG--CGTTGGGCCGAA
1 TGGTGGTACGTTGGGCCGAA
47023522 GGATGGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 1 0.06
21 6 0.33
ACGTcount: A:0.13, C:0.15, G:0.46, T:0.26
Consensus pattern (20 bp):
TGGTGGTACGTTGGGCCGAA
Found at i:47023533 original size:18 final size:18
Alignment explanation
Indices: 47023494--47023536 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47023484 GGTGGTACTG
*
47023494 TTGGGCCGAATGGTGGCG
1 TTGGGCCGAATGGTGGCA
*
47023512 TTGGGCCGAA-GGATGGTA
1 TTGGGCCGAATGG-TGGCA
47023530 TTGGGCC
1 TTGGGCC
47023537 AAATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.14, C:0.16, G:0.47, T:0.23
Consensus pattern (18 bp):
TTGGGCCGAATGGTGGCA
Found at i:47031181 original size:18 final size:18
Alignment explanation
Indices: 47031133--47031201 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
47031123 TTTAAAATTA
*
47031133 AAAATTA-TAACAAATATTT
1 AAAATTATTAA-AAAT-TGT
*
47031152 AAAAATATTAAAAATTGT
1 AAAATTATTAAAAATTGT
*
47031170 AAAATTACTAAAAATTGT
1 AAAATTATTAAAAATTGT
47031188 AAAATTATTAAAAA
1 AAAATTATTAAAAA
47031202 CATTAACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
18 31 0.70
19 10 0.23
20 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAAAATTGT
Found at i:47031201 original size:10 final size:10
Alignment explanation
Indices: 47031129--47031201 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
47031119 TTATTTTAAA
47031129 ATTAAAAATT
1 ATTAAAAATT
47031139 A-TAACAAA-T
1 ATTAA-AAATT
47031148 ATTTAAAAA-T
1 A-TTAAAAATT
47031158 ATTAAAAATT
1 ATTAAAAATT
*
47031168 -GT-AAAATT
1 ATTAAAAATT
*
47031176 ACTAAAAATT
1 ATTAAAAATT
*
47031186 -GT-AAAATT
1 ATTAAAAATT
47031194 ATTAAAAA
1 ATTAAAAA
47031202 CATTAACAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
8 12 0.24
9 16 0.31
10 20 0.39
11 3 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:47033793 original size:24 final size:23
Alignment explanation
Indices: 47033766--47033882 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
47033756 TTACCAATTT
*
47033766 TTTTTTATTAAGTTTTGCATCAAG
1 TTTTTTATCAAGTTTT-CATCAAG
* *
47033790 TTTTTTTTTAAGCTTTTCATCAAG
1 TTTTTTATCAAG-TTTTCATCAAG
* * *
47033814 TCTTTCATCAAGTGTTTTTCATAAAG
1 TTTTTTATCAA--G-TTTTCATCAAG
* * *
47033840 TTTTTAAGCAAGTTTCCATCAAG
1 TTTTTTATCAAGTTTTCATCAAG
* *
47033863 TTTTTAATCAAGCTTTCATC
1 TTTTTTATCAAGTTTTCATC
47033883 TTCTAAAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
23 26 0.35
24 26 0.35
25 4 0.05
26 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTTTATCAAGTTTTCATCAAG
Found at i:47033819 original size:12 final size:12
Alignment explanation
Indices: 47033775--47033874 Score: 76
Period size: 12 Copynumber: 8.2 Consensus size: 12
47033765 TTTTTTTATT
*
47033775 AAGTTTTGCATC
1 AAGTTTTTCATC
** *
47033787 AAGTTTTTTTTT
1 AAGTTTTTCATC
*
47033799 AAGCTTTTCATC
1 AAGTTTTTCATC
*
47033811 AAGTCTTTCATC
1 AAGTTTTTCATC
*
47033823 AAGTGTTTTTCATA
1 AA--GTTTTTCATC
* *
47033837 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
47033849 AAG-TTTCCATC
1 AAGTTTTTCATC
*
47033860 AAGTTTTTAATC
1 AAGTTTTTCATC
47033872 AAG
1 AAG
47033875 CTTTCATCTT
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
11 8 0.12
12 47 0.72
14 10 0.15
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:47033851 original size:26 final size:26
Alignment explanation
Indices: 47033803--47033852 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47033793 TTTTTTAAGC
* * *
47033803 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATAAAGTCTTTAAGCAAGTGT
*
47033829 TTTTCATAAAGTTTTTAAGCAAGT
1 TTTTCATAAAGTCTTTAAGCAAGT
47033853 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (26 bp):
TTTTCATAAAGTCTTTAAGCAAGTGT
Found at i:47041023 original size:21 final size:21
Alignment explanation
Indices: 47040974--47041026 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
47040964 ATACCTTAAC
*
47040974 CTTTCACCCATCAAATCCTAAT
1 CTTTCACCTATCAAATCC-AAT
*
47040996 CTTTCACCTATCACATCC-AT
1 CTTTCACCTATCAAATCCAAT
47041016 CTTTTCACCTA
1 C-TTTCACCTA
47041027 GAAAACTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 9 0.32
22 16 0.57
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (21 bp):
CTTTCACCTATCAAATCCAAT
Found at i:47044156 original size:23 final size:22
Alignment explanation
Indices: 47044120--47044164 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
47044110 AATTTTTTTA
47044120 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATCAAG-TCTTT
47044143 TTAAGCTTTT-CATCAAGTCTTT
1 TTAAG-TTTTGCATCAAGTCTTT
47044165 CATCAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (22 bp):
TTAAGTTTTGCATCAAGTCTTT
Found at i:47044167 original size:12 final size:12
Alignment explanation
Indices: 47044122--47044220 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
47044112 TTTTTTTATT
*
47044122 AAGTTTTGCATC
1 AAGTTTTTCATC
*
47044134 AAGTTCTTT--TT
1 AAGTT-TTTCATC
*
47044145 AAGCTTTTCATC
1 AAGTTTTTCATC
*
47044157 AAGTCTTTCATC
1 AAGTTTTTCATC
*
47044169 AAGTGTTTTTTATC
1 AA--GTTTTTCATC
* *
47044183 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
47044195 AAG-TTTCCATC
1 AAGTTTTTCATC
*
47044206 AAGTTTTTAATC
1 AAGTTTTTCATC
47044218 AAG
1 AAG
47044221 CTTTCATCTT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.05
11 13 0.20
12 38 0.58
13 2 0.03
14 10 0.15
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:47044197 original size:26 final size:26
Alignment explanation
Indices: 47044149--47044198 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47044139 CTTTTTAAGC
* *
47044149 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATCAAGTCTTTAAGCAAGTGT
* *
47044175 TTTTTATCAAGTTTTTAAGCAAGT
1 TTTTCATCAAGTCTTTAAGCAAGT
47044199 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTTCATCAAGTCTTTAAGCAAGTGT
Found at i:47044210 original size:23 final size:24
Alignment explanation
Indices: 47044180--47044225 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
47044170 AGTGTTTTTT
47044180 ATCAAGTTTTTAAGCAAG-TTTCC
1 ATCAAGTTTTTAAGCAAGCTTTCC
*
47044203 ATCAAGTTTTTAATCAAGCTTTC
1 ATCAAGTTTTTAAGCAAGCTTTC
47044226 ATCTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (24 bp):
ATCAAGTTTTTAAGCAAGCTTTCC
Found at i:47053548 original size:63 final size:61
Alignment explanation
Indices: 47053481--47053655 Score: 188
Period size: 63 Copynumber: 2.8 Consensus size: 61
47053471 ACTTAACGAA
* * *
47053481 TTTGGATTTGGGTCATACGGGCAAGCCACACGGGTATGTGTCCAGGCTGTATAACTCATTGAC
1 TTTGGATTTGGGTCACACGGGCAAGCCACAC-GGT-TGTGTCCAGGCTGTATAACTCACTAAC
* * * ** *
47053544 TTTGGATTTAGGTTACACGGGCAAGCCACACAGGTGTGTGTCTAGGCCATGTAACTCACTAAC
1 TTTGGATTTGGGTCACACGGGCAAGCCACAC-GGT-TGTGTCCAGGCTGTATAACTCACTAAC
** * *
47053607 TTCAGATTTGGGTCACACAGGCAAGCCACACGATTGTGTGCCAGGCTGT
1 TTTGGATTTGGGTCACACGGGCAAGCCACACGGTTGTGT-CCAGGCTGT
47053656 GTAGAGGCAC
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
61 5 0.05
62 8 0.09
63 78 0.86
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (61 bp):
TTTGGATTTGGGTCACACGGGCAAGCCACACGGTTGTGTCCAGGCTGTATAACTCACTAAC
Found at i:47054934 original size:15 final size:16
Alignment explanation
Indices: 47054901--47054941 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47054891 CTTTTCATTG
* *
47054901 CTTAATTTTTCTAGCA
1 CTTAATTTTTCCAGTA
47054917 CTTAATTTTTCCA-TA
1 CTTAATTTTTCCAGTA
47054932 CTTAATTTTT
1 CTTAATTTTT
47054942 ACTTTACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (16 bp):
CTTAATTTTTCCAGTA
Found at i:47055384 original size:57 final size:57
Alignment explanation
Indices: 47055323--47055436 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
47055313 AATTTACCAC
47055323 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
1 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
47055380 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
1 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
47055437 ACATAAAGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (57 bp):
TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
Found at i:47055977 original size:40 final size:40
Alignment explanation
Indices: 47055873--47055978 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 40
47055863 TTTGGACAAC
* * *
47055873 AAACGCAGCTAAAAATCGAGCATTAGCGGCACATTAAGGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
* * * ***
47055913 AAACTCCGCT-AAAATAAAGAATTAGCAGCAC-TTTTTGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
47055951 GAAACGCCGCTAAAAATAGAGCATTAGC
1 -AAACGCCGCTAAAAATAGAGCATTAGC
47055979 GGCGTTTATA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
38 4 0.08
39 26 0.50
40 22 0.42
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (40 bp):
AAACGCCGCTAAAAATAGAGCATTAGCAGCACATTAAGGA
Found at i:47056110 original size:41 final size:40
Alignment explanation
Indices: 47056045--47056358 Score: 214
Period size: 41 Copynumber: 7.8 Consensus size: 40
47056035 GCTTTAGGGA
* * *
47056045 CTTTAGCGGCATTTTTCAAAAAGCGCCACTAATGATCTGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
*
47056086 CTTTAGCTGCGTTTTTGAAGAAGCG-C-C----G-T-TGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
* *
47056119 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATTTGGG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGATCTGGG
* * ** *
47056160 CTTTAGCGGTGTTTTTTAGAAAGCGCCGCTAATTCTTTGGG
1 CTTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGATCTGGG
* * * * * *
47056201 CTTTAGCGGCATTTTTTAGAAAGCGTCGCTATTGCTTTGGG
1 CTTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGATCTGGG
* * * *
47056242 CTTTAGCGCCATTTTTTAGGAAGCACCGCTAAT-ACTCTGGG
1 CTTTAGCGGC-GTTTTTAAGAAGCGCCGCTAATGA-TCTGGG
* * * * * *
47056283 CATTAGCAGCGTTTTTAACGAGAGCGCCGATATTGCTCTGGA
1 CTTTAGCGGCGTTTTTAA-GA-AGCGCCGCTAATGATCTGGG
* *
47056325 CTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATG
47056359 GTGGAAAGTT
Statistics
Matches: 219, Mismatches: 39, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
33 27 0.12
34 2 0.01
35 2 0.01
39 2 0.01
40 9 0.04
41 139 0.63
42 36 0.16
43 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGATCTGGG
Found at i:47056124 original size:33 final size:33
Alignment explanation
Indices: 47056082--47056146 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
47056072 ACTAATGATC
*
47056082 TGGGCTTTAGCTGCGTTTTTGAAGAAGCGCCGT
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
*
47056115 TGGGCTTTAGCGGCGTTTTTGAATAAGCGCCG
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCG
47056147 CTAATGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.32
Consensus pattern (33 bp):
TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
Found at i:47056257 original size:82 final size:81
Alignment explanation
Indices: 47056114--47056357 Score: 256
Period size: 82 Copynumber: 3.0 Consensus size: 81
47056104 AGAAGCGCCG
* * * *
47056114 TTGGGCTTTAGCGGCGTTTTTGAA-TAAGCGCCGCTAATGATTTGGGCTTTAGCGGTGTTTTTTA
1 TTGGGCTTTAGCGGCGTTTTT-AAGAAAGCGCCGCTATTGCTTTGGGCTTTAGC-GCGTTTTTTA
*
47056178 GAAAGCGCCGCTAATTCT
64 GAAAGCGCCGCTAATACT
* * * *
47056196 TTGGGCTTTAGCGGCATTTTTTAGAAAGCGTCGCTATTGCTTTGGGCTTTAGCGCCATTTTTTAG
1 TTGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTATTGCTTTGGGCTTTAGCG-CGTTTTTTAG
* *
47056261 GAAGCACCGCTAATACT
65 AAAGCGCCGCTAATACT
* * * * * * * *
47056278 CTGGGCATTAGCAGCGTTTTTAACGAGAGCGCCGATATTGCTCTGGACTTTAGCAGCGTTTTTGA
1 TTGGGCTTTAGCGGCGTTTTTAA-GAAAGCGCCGCTATTGCTTTGGGCTTTAGC-GCGTTTTTTA
*
47056343 AAAAGCGCCGCTAAT
64 GAAAGCGCCGCTAAT
47056358 GGTGGAAAGT
Statistics
Matches: 132, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
81 2 0.02
82 85 0.64
83 44 0.33
84 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (81 bp):
TTGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTATTGCTTTGGGCTTTAGCGCGTTTTTTAGA
AAGCGCCGCTAATACT
Found at i:47056540 original size:7 final size:7
Alignment explanation
Indices: 47056530--47056589 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
47056520 AGAGTTTTGA
47056530 GTTTAGG
1 GTTTAGG
*
47056537 GTTTATG
1 GTTTAGG
*
47056544 GTGTA-G
1 GTTTAGG
47056550 GTTTAGG
1 GTTTAGG
*
47056557 GTTTGGG
1 GTTTAGG
47056564 GTTT-GG
1 GTTTAGG
*
47056570 GATTTAAG
1 G-TTTAGG
*
47056578 ATTTAGG
1 GTTTAGG
47056585 GTTTA
1 GTTTA
47056590 TGTTTTAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.19
7 33 0.79
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:47056685 original size:21 final size:21
Alignment explanation
Indices: 47056661--47056701 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47056651 TAGGGCTTGA
* * *
47056661 TGTTTATGGTTTATGGTTTAG
1 TGTTAATGATTTAAGGTTTAG
47056682 TGTTAATGATTTAAGGTTTA
1 TGTTAATGATTTAAGGTTTA
47056702 CAATGTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
TGTTAATGATTTAAGGTTTAG
Found at i:47056733 original size:14 final size:14
Alignment explanation
Indices: 47056710--47056764 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
47056700 TACAATGTAT
*
47056710 GATTTTGGGTTTTG
1 GATTTAGGGTTTTG
*
47056724 GATTTAGGGTTTAG
1 GATTTAGGGTTTTG
* * *
47056738 GGTTTAGTGTTATG
1 GATTTAGGGTTTTG
47056752 GATTTTAGGGTTT
1 GA-TTTAGGGTTT
47056765 AATTACTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (14 bp):
GATTTAGGGTTTTG
Found at i:47057098 original size:14 final size:14
Alignment explanation
Indices: 47057074--47057106 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
47057064 TAAAAATATC
47057074 ATATT-TTTAAATA
1 ATATTATTTAAATA
47057087 ATATTATTTAAATA
1 ATATTATTTAAATA
47057101 ATATTA
1 ATATTA
47057107 ATAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTTAAATA
Found at i:47058177 original size:31 final size:31
Alignment explanation
Indices: 47058139--47058218 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
47058129 TTGGATTTTA
*
47058139 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
47058170 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
47058201 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
47058219 ATCAACCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:47059065 original size:12 final size:12
Alignment explanation
Indices: 47059048--47059075 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47059038 GCTAGCCATG
47059048 ATGTTACTATTA
1 ATGTTACTATTA
47059060 ATGTTACTATTA
1 ATGTTACTATTA
47059072 ATGT
1 ATGT
47059076 CCTTAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (12 bp):
ATGTTACTATTA
Found at i:47059207 original size:10 final size:10
Alignment explanation
Indices: 47059194--47059218 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47059184 TTTTTTCTTT
47059194 TTTTTTTAAG
1 TTTTTTTAAG
47059204 TTTTTTTAAG
1 TTTTTTTAAG
47059214 TTTTT
1 TTTTT
47059219 CATGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTAAG
Found at i:47060467 original size:43 final size:43
Alignment explanation
Indices: 47060406--47060503 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
47060396 TTTGTGGTTA
* * * * * *
47060406 TTAGCGGTGATTGTGGGTAAAGTGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
*
47060449 TTAGCGGCGTTTGTGGGTAAAGCGTCGCAAAAGAACATGATCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
47060492 TTAGCGGCGTTT
1 TTAGCGGCGTTT
47060504 TTTCTCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
Found at i:47064849 original size:41 final size:41
Alignment explanation
Indices: 47064781--47065053 Score: 397
Period size: 41 Copynumber: 6.7 Consensus size: 41
47064771 CCATTCGGGG
* ** *
47064781 CTTTAGTGGCGTTTTTTAAAAAAGCGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
*
47064824 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* **
47064864 CTTTAGCGACGTTTTTGGGGAAGCGCC-CTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* *
47064904 CTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
47064945 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
47064986 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
47065027 CTTTAGCGGCGTTTTTGGGAAAGCGCC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCC
47065054 ACAAAAACAA
Statistics
Matches: 207, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 37 0.18
41 161 0.78
42 9 0.04
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:47065010 original size:122 final size:123
Alignment explanation
Indices: 47064800--47065053 Score: 413
Period size: 122 Copynumber: 2.1 Consensus size: 123
47064790 CGTTTTTTAA
*
47064800 AAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGTC
1 AAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
*
47064865 TTTAGCGACGTTTTTGGGGAAGCGCC-CTAATGCTCTGGTCTTTAGCAGCATTTTTGG
66 TTTAGCGACGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCTTTAGCAGCATTTTTGG
* *
47064922 AAAAGCGCCGCTAATGCTC-TGGTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
1 AAAAGCGCCGCTAATGCTCAGGGT-TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* * *
47064986 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGG
65 CTTTAGCGACGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCTTTAGCAGCATTTTTGG
*
47065045 GAAAGCGCC
1 AAAAGCGCC
47065054 ACAAAAACAA
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
121 3 0.02
122 82 0.67
123 37 0.30
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.31
Consensus pattern (123 bp):
AAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
TTTAGCGACGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCTTTAGCAGCATTTTTGG
Found at i:47065422 original size:22 final size:23
Alignment explanation
Indices: 47065376--47065432 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
47065366 GATTTAGAGC
*
47065376 TTAAGGTTTA-GGAGTTACTATT
1 TTAAGGTTTATGGAGTTACTAGT
47065398 TTAAGGTTTATGGA-TTA-TGAGT
1 TTAAGGTTTATGGAGTTACT-AGT
* *
47065420 TTAGGGGTTATGG
1 TTAAGGTTTATGG
47065433 TTTACACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 26 0.87
23 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.44
Consensus pattern (23 bp):
TTAAGGTTTATGGAGTTACTAGT
Found at i:47065450 original size:7 final size:7
Alignment explanation
Indices: 47065397--47065485 Score: 52
Period size: 7 Copynumber: 12.6 Consensus size: 7
47065387 GAGTTACTAT
*
47065397 TTTAAGG
1 TTTATGG
47065404 TTTATGG
1 TTTATGG
*
47065411 ATTATGAG
1 TTTATG-G
*
47065419 TTTAGGG
1 TTTATGG
*
47065426 GTTATGG
1 TTTATGG
***
47065433 TTTACAC
1 TTTATGG
47065440 TTTATGG
1 TTTATGG
* *
47065447 TTTAAGA
1 TTTATGG
*
47065454 TTTAGGG
1 TTTATGG
*
47065461 TTTAAGG
1 TTTATGG
* *
47065468 GTTACGG
1 TTTATGG
47065475 TTTATGG
1 TTTATGG
47065482 TTTA
1 TTTA
47065486 AGGGTATAGA
Statistics
Matches: 59, Mismatches: 22, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
7 54 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:47065460 original size:35 final size:36
Alignment explanation
Indices: 47065404--47065487 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 36
47065394 TATTTTAAGG
* * * *
47065404 TTTATGGATTATGAGTTTAGGGGTTATGGTTTACAC
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
* **
47065440 TTTATGGTTTAAGA-TTTAGGGTTTAAGGGTTACGG
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
47065475 TTTATGGTTTAAG
1 TTTATGGTTTAAG
47065488 GGTATAGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 29 0.71
36 12 0.29
ACGTcount: A:0.23, C:0.04, G:0.29, T:0.45
Consensus pattern (36 bp):
TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
Found at i:47065515 original size:14 final size:14
Alignment explanation
Indices: 47065445--47065547 Score: 71
Period size: 14 Copynumber: 6.9 Consensus size: 14
47065435 TACACTTTAT
**
47065445 GGTTTAAGATTTAG
1 GGTTTAAGGGTTAG
*
47065459 GGTTTAAGGGTTAC
1 GGTTTAAGGGTTAG
* *
47065473 GGTTTATGGTTTAAG
1 GGTTTAAGGGTT-AG
47065488 GGTATAGATTAAGGGTTAG
1 GG--T---TTAAGGGTTAG
*
47065507 GGTTTAAGGTTTAG
1 GGTTTAAGGGTTAG
*
47065521 GGATTAAGGGTTAG
1 GGTTTAAGGGTTAG
* *
47065535 GGGTTGAGGGTTA
1 GGTTTAAGGGTTA
47065548 AGAGTTAGGG
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
14 54 0.77
15 3 0.04
17 2 0.03
19 4 0.06
20 7 0.10
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:47065554 original size:21 final size:22
Alignment explanation
Indices: 47065514--47065560 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
47065504 TAGGGTTTAA
* *
47065514 GGTTTAGGGATTAAGGGTTAGG
1 GGTTGAGGGATTAAGAGTTAGG
47065536 GGTTGAGGG-TTAAGAGTTAGG
1 GGTTGAGGGATTAAGAGTTAGG
47065557 GGTT
1 GGTT
47065561 TAAGATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (22 bp):
GGTTGAGGGATTAAGAGTTAGG
Found at i:47065576 original size:7 final size:7
Alignment explanation
Indices: 47065440--47065577 Score: 61
Period size: 7 Copynumber: 19.7 Consensus size: 7
47065430 TGGTTTACAC
*
47065440 TTTATGG
1 TTTAGGG
* *
47065447 TTTAAGA
1 TTTAGGG
47065454 TTTAGGG
1 TTTAGGG
47065461 TTTAAGGG
1 TTT-AGGG
*
47065469 -TTACGG
1 TTTAGGG
*
47065475 TTTATGG
1 TTTAGGG
47065482 TTTAAGGG
1 TTT-AGGG
* *
47065490 TATA-GA
1 TTTAGGG
*
47065496 TTAAGGG
1 TTTAGGG
47065503 -TTAGGG
1 TTTAGGG
*
47065509 TTTAAGG
1 TTTAGGG
47065516 TTTAGGG
1 TTTAGGG
*
47065523 ATTAAGGG
1 -TTTAGGG
47065531 -TTAGGGG
1 TTTA-GGG
*
47065538 TTGAGGG
1 TTTAGGG
* *
47065545 TTAAGAG
1 TTTAGGG
47065552 -TTAGGGG
1 TTTA-GGG
* *
47065559 TTTAAGA
1 TTTAGGG
47065566 TTTAGGG
1 TTTAGGG
47065573 TTTAG
1 TTTAG
47065578 ATTAATTAGT
Statistics
Matches: 95, Mismatches: 26, Indels: 20
0.67 0.18 0.14
Matches are distributed among these distances:
6 15 0.16
7 60 0.63
8 20 0.21
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:47065917 original size:21 final size:22
Alignment explanation
Indices: 47065901--47065941 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
47065891 ATGGTTTATT
47065901 GTTTAAGGGTT-GGGGTTTAAA
1 GTTTAAGGGTTAGGGGTTTAAA
*
47065922 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGGTTTA
47065942 GGATTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGGTTTAAA
Found at i:47072631 original size:86 final size:86
Alignment explanation
Indices: 47072523--47072689 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 86
47072513 AAAGGTTTGT
* * **
47072523 TCTATAGCGGCGTTTGTGGTAAAAGCG-CTGCTAAAGGTCTTTAGT-TATAGCGGCATTTGTGGG
1 TCTATAGCGGCGTTTCTCGTAAAAGCGTC-GCTAAAGG-CCATAGTCTATAGCGGCATTTGTGGG
47072586 AAAAGCGCCGCTAAAGATCCTGA
64 AAAAGCGCCGCTAAAGATCCTGA
* * * * * *
47072609 TCTATAGCGGTGTTTCTCGTAAAAGCGTCGCTAAAGGCCATGGTCTTTAGCGGCGTTTGTTGGAG
1 TCTATAGCGGCGTTTCTCGTAAAAGCGTCGCTAAAGGCCATAGTCTATAGCGGCATTTGTGGGAA
47072674 AAGCGCCGCTAAAGAT
66 AAGCGCCGCTAAAGAT
47072690 TAGGATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.06
86 64 0.93
87 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (86 bp):
TCTATAGCGGCGTTTCTCGTAAAAGCGTCGCTAAAGGCCATAGTCTATAGCGGCATTTGTGGGAA
AAGCGCCGCTAAAGATCCTGA
Found at i:47072703 original size:86 final size:85
Alignment explanation
Indices: 47072570--47072751 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 85
47072560 TCTTTAGTTA
* ** ** *
47072570 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCCTGATCTATAGCGGTGTTTCTCGTAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTT-TCGGAAAAGC
* * *
47072635 GTCGCTAAAGGCCATGGTCTT
65 GCCACTAAAGGCCATGGCCTT
* * * * * *
47072656 TAGCGGCGTTTGTTGGAGAAGCGCCGCTAAAGATTAGGATTTTTAGCGGCATTTTTGGAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTTTCGGAAAAGCG
*
47072721 CCACTAAAGGTCATGGCCTT
66 CCACTAAAGGCCATGGCCTT
47072741 TAGCGGCGTTT
1 TAGCGGCGTTT
47072752 ATTTCTAAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
85 36 0.45
86 44 0.55
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGATCTATAGCGGCATTTTCGGAAAAGCG
CCACTAAAGGCCATGGCCTT
Found at i:47072743 original size:42 final size:43
Alignment explanation
Indices: 47072527--47072747 Score: 162
Period size: 43 Copynumber: 5.2 Consensus size: 43
47072517 GTTTGTTCTA
* * * * * *
47072527 TAGCGGCGTTTG-TGGTAAAAGCGCTGCTAAAGGTCTTTAGT-TA
1 TAGCGGCATTTGTTGG-AAAAGCGCCGCTAAAGATC-ATGGTCTT
* * * *
47072570 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
** * * * * **
47072613 TAGCGGTGTTTCTCGTAAAAGCGTCGCTAAAGGCCATGGTCTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
* * * *
47072656 TAGCGGCGTTTGTTGGAGAAGCGCCGCTAAAGATTA-GGATTTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGG-TCTT
* * *
47072699 TAGCGGCATTT-TTGGAAAAGCGCCACTAAAGGTCATGGCCTT
1 TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
47072741 TAGCGGC
1 TAGCGGC
47072748 GTTTATTTCT
Statistics
Matches: 139, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
42 33 0.24
43 104 0.75
44 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TAGCGGCATTTGTTGGAAAAGCGCCGCTAAAGATCATGGTCTT
Found at i:47080010 original size:12 final size:12
Alignment explanation
Indices: 47079993--47080059 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
47079983 CTTTATACCT
*
47079993 TATATATGTACA
1 TATATATATACA
47080005 TATATATATACA
1 TATATATATACA
* *
47080017 CATATACATACA
1 TATATATATACA
* * **
47080029 TATTTTTATTTA
1 TATATATATACA
*
47080041 TACATATATACA
1 TATATATATACA
*
47080053 TACATAT
1 TATATAT
47080060 TTATCTCTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:47080073 original size:28 final size:28
Alignment explanation
Indices: 47080005--47080063 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
47079995 TATATGTACA
* *
47080005 TATATATATACACATATACATACATATT
1 TATATTTATACATATATACATACATATT
*
47080033 TTTATTTATACATATATACATACATATT
1 TATATTTATACATATATACATACATATT
47080061 TAT
1 TAT
47080064 CTCTTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (28 bp):
TATATTTATACATATATACATACATATT
Found at i:47084940 original size:27 final size:24
Alignment explanation
Indices: 47084897--47084959 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
47084887 AAATTGTTAA
47084897 AAAAAAGAAGAGAAAGAAGGAAAAAG
1 AAAAAAGAAGAGAAAGAA-G-AAAAG
47084923 AAAAAAGACAGA-AGAAGAAGAAAAG
1 AAAAAAGA-AGAGA-AAGAAGAAAAG
*
47084948 AAAAAATAAGAG
1 AAAAAAGAAGAG
47084960 GCCAAGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 3 0.09
25 12 0.36
26 10 0.30
27 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (24 bp):
AAAAAAGAAGAGAAAGAAGAAAAG
Found at i:47086415 original size:132 final size:132
Alignment explanation
Indices: 47086178--47086550 Score: 498
Period size: 132 Copynumber: 2.8 Consensus size: 132
47086168 CAGATCGGTG
* * * * * * *
47086178 AAACCACCAGTCTTATCTCCCTT-AGCAGCAGTGGAGTAGGTCAAAAATTATAGATCCTGTCTCC
1 AAACCACCAGTCCTATCT-CCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCC
* * * * * **
47086242 CTAAGCAGTAGTACAACAAATCGAATACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGA
65 CTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGA
47086307 TTT
130 TTT
* *
47086310 AAACCACCACTCCTATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
1 AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
* *
47086375 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
66 TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
47086440 TT
131 TT
* * * * *
47086442 GAACCATCAGTCCTATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTATCTCCC
1 AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
* *
47086507 TAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTA-CTTCCC
66 TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCC
47086551 TGGCGGTCTA
Statistics
Matches: 211, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
131 9 0.04
132 202 0.96
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (132 bp):
AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
TT
Found at i:47086542 original size:44 final size:44
Alignment explanation
Indices: 47086331--47086544 Score: 164
Period size: 44 Copynumber: 4.9 Consensus size: 44
47086321 CCTATCTTCT
* * ** * *
47086331 TAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
* *
47086375 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATC-TCCC
* * * * * * * *
47086420 AAAGTAGTAG-GGAAACAGATTTGAA-CCA-TCAGTCCTATCTCCC
1 TAAGCAGTAGTGG-AGCAGA-TCGAAGACAGTGAATCTTATCTCCC
* * * ** *
47086463 TAAACAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTATCTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
* *
47086507 TAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTA
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTA
47086545 CTTCCCTGGC
Statistics
Matches: 126, Mismatches: 38, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
42 4 0.03
43 14 0.11
44 87 0.69
45 18 0.14
46 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
Found at i:47086599 original size:50 final size:50
Alignment explanation
Indices: 47086537--47087048 Score: 340
Period size: 50 Copynumber: 10.3 Consensus size: 50
47086527 CGAAGACAGT
* *
47086537 GAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * * *
47086587 GAATCTTGCTTCCCCGACATTGCAATTA-AAAAGATTGAAGCCACAACAGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* *
47086637 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGAC
1 GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
** ** * * * *
47086687 GAATCTTACTT-CCTCAACATTGCAATTGAAAAGATTGAAGCTACAACAGC
1 GAATCTTACTTCCCT-GGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * *
47086737 GAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGC
1 GAATCTTAC-TTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * * * ** * ** *
47086788 TAATATTGCTTCCCCGACATTGCAATTA-AA-AGATTGTGGCCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * *
47086837 GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGC
1 GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * *
47086887 GAATCTTGCTTCCCCGACATTACAATTA-AA-AGATTGAAGCCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * *
47086936 GAATCTTGCTTCCCCGACATTGCAGTTA-AAAAGATTGAAACCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGCAG-TAGAACAGATTGAAGCTACAACGGC
* * * * * *
47086986 GGATCTTACTT-CCTATGCGATGCAGTGGAACAGATTGAAGCTACAACAGT
1 GAATCTTACTTCCCT-GGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
47087036 GAATCTTACTTCC
1 GAATCTTACTTCC
47087049 TCGACATTGC
Statistics
Matches: 349, Mismatches: 99, Indels: 27
0.73 0.21 0.06
Matches are distributed among these distances:
48 3 0.01
49 84 0.24
50 218 0.62
51 43 0.12
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
Found at i:47086710 original size:100 final size:99
Alignment explanation
Indices: 47086532--47086949 Score: 595
Period size: 100 Copynumber: 4.2 Consensus size: 99
47086522 CAGATCGAAG
* * * *
47086532 ACAGTGAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCTGGCGGTGC-AGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
47086596 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATT-AAAAGATTGAAGCCACA
* *
47086632 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTACT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* * *
47086697 TCCTCAACATTGCAATTGAAAAGATTGAAGCTACA
66 TCCCCGACATTGCAATT-AAAAGATTGAAGCCACA
* * * * *
47086732 ACAGCGAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGCTAATATTGC
1 ACAGCGAATCTTAC-TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
**
47086797 TTCCCCGACATTGCAATTAAAAGATTGTGGCCACA
65 TTCCCCGACATTGCAATTAAAAGATTGAAGCCACA
* * *
47086832 ACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
*
47086897 TCCCCGACATTACAATTAAAAGATTGAAGCCACA
66 TCCCCGACATTGCAATTAAAAGATTGAAGCCACA
* *
47086931 ACGGCGAATCTTGCTTCCC
1 ACAGCGAATCTTACTTCCC
47086950 CGACATTGCA
Statistics
Matches: 282, Mismatches: 34, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
99 93 0.33
100 129 0.46
101 60 0.21
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (99 bp):
ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
TCCCCGACATTGCAATTAAAAGATTGAAGCCACA
Found at i:47086971 original size:99 final size:100
Alignment explanation
Indices: 47086532--47086998 Score: 546
Period size: 100 Copynumber: 4.7 Consensus size: 100
47086522 CAGATCGAAG
* * * * * *
47086532 ACAGTGAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCCGACGGTGC-AGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
47086596 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * *
47086632 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTACT
1 ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* * * *
47086697 TCCTCAACATTGCAATTGAAAAGATTGAAGCTACA
66 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * ** * *
47086732 ACAGCGAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGCTAATATTGC
1 ACAGCGAATCTTAC-TTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
**
47086797 TTCCCCGACATTGCAATT-AAAAGATTGTGGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * *
47086832 ACGGCGAATCTTACTT-CCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCCGA-CGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
*
47086896 TTCCCCGACATTACAATT-AAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * ** ** * * * * *
47086931 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAACCACAACGGCGGATCTTACT
1 ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
47086996 TCC
66 TCC
47086999 TATGCGATGC
Statistics
Matches: 317, Mismatches: 46, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
98 1 0.00
99 123 0.39
100 133 0.42
101 60 0.19
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (100 bp):
ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
Found at i:47087197 original size:44 final size:45
Alignment explanation
Indices: 47087088--47087200 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
47087078 TAGTAAACCT
* *
47087088 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAACCAATCT
1 TATCT-CCTGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
* * * * *
47087134 TATCTCCTTGAAGTTGCAGTGGAGTAGATT-GAAGT-TACTAGTCC
1 TATCTCC-TGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
47087178 TATCTCTCTGAAGTTGCAGTGGA
1 TATCTC-CTGAAGTTGCAGTGGA
47087201 ACGGATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 26 0.45
45 6 0.10
46 26 0.45
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
TATCTCCTGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
Found at i:47087445 original size:45 final size:45
Alignment explanation
Indices: 47087384--47087547 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 45
47087374 CATAATAAGT
* * ***
47087384 CTTATCTCCCTAAAGTTGCAGTGAAGCAGACCGAAGATAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
* * *
47087429 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATACCTCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA--ACAAAC
* * **
47087476 CTTATCACCCTGAAGTTGCAGTGGAGTAGGTTGAAGAT-ACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
*
47087520 CTTATCTCCCTGACGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
47087548 AACTAAAACT
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 28 0.28
45 32 0.32
47 39 0.39
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
Found at i:47089374 original size:12 final size:12
Alignment explanation
Indices: 47089357--47089423 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
47089347 TTTTATACCT
*
47089357 TATATATGTACA
1 TATATATATACA
47089369 TATATATATACA
1 TATATATATACA
* *
47089381 CATATACATACA
1 TATATATATACA
* * **
47089393 TATTTTTATTTA
1 TATATATATACA
*
47089405 TACATATATACA
1 TATATATATACA
*
47089417 TACATAT
1 TATATAT
47089424 TTATTTCTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:47092686 original size:23 final size:22
Alignment explanation
Indices: 47092654--47092715 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
47092644 CCCGACCCGT
47092654 TTTTTAATTAAAATTAAAAATATA
1 TTTTT-ATTAAAATTAAAAATA-A
*
47092678 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAAATAA
*
47092700 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
47092716 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAAATAA
Found at i:47092708 original size:16 final size:16
Alignment explanation
Indices: 47092689--47092745 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
47092679 TTTTATTAAA
*
47092689 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
47092705 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
47092721 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
47092737 ATTAAAATT
1 ATTAAAATT
47092746 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:47093233 original size:27 final size:27
Alignment explanation
Indices: 47093198--47093259 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
47093188 AACATTGAAT
47093198 TTTTTATTTTTATATTTTTAAA-ATGTC
1 TTTTTATTTTTATATTTTTAAAGA-GTC
* *
47093225 TTTTTATTTTTTTATTTTTAAAGAGTT
1 TTTTTATTTTTATATTTTTAAAGAGTC
47093252 TTTTTATT
1 TTTTTATT
47093260 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (27 bp):
TTTTTATTTTTATATTTTTAAAGAGTC
Found at i:47093264 original size:27 final size:26
Alignment explanation
Indices: 47093197--47093265 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 26
47093187 AAACATTGAA
47093197 TTTTTTATTTTTATATTTTTAAAATGT
1 TTTTTTATTTTT-TATTTTTAAAATGT
*
47093224 CTTTTTATTTTTTTATTTTTAAAGA-GT
1 TTTTTTA-TTTTTTATTTTTAAA-ATGT
47093251 TTTTTTATTATTTTA
1 TTTTTTATT-TTTTA
47093266 AAAATTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 29 0.78
28 6 0.16
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTTTATTTTTTATTTTTAAAATGT
Found at i:47093279 original size:16 final size:16
Alignment explanation
Indices: 47093254--47093288 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47093244 AAAGAGTTTT
*
47093254 TTTATTATTTTAAAAA
1 TTTATAATTTTAAAAA
*
47093270 TTTATAATTTTTAAAA
1 TTTATAATTTTAAAAA
47093286 TTT
1 TTT
47093289 TATGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATAATTTTAAAAA
Found at i:47094961 original size:9 final size:9
Alignment explanation
Indices: 47094950--47095017 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
47094940 TTTGGTTAAA
*
47094950 AATTACCCA
1 AATTACCCG
47094959 AATTACCCG
1 AATTACCCG
*
47094968 AATTAACCG
1 AATTACCCG
*
47094977 AATTAACCG
1 AATTACCCG
47094986 AATTA-CCG
1 AATTACCCG
* *
47094994 AAAAATACCTG
1 --AATTACCCG
47095005 AATTACCCG
1 AATTACCCG
47095014 AATT
1 AATT
47095018 TTTTTATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
8 3 0.06
9 41 0.82
10 4 0.08
11 2 0.04
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:47095179 original size:13 final size:13
Alignment explanation
Indices: 47095157--47095186 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47095147 TTTTAGTTTT
*
47095157 ATTGGGTTGGGTA
1 ATTGGATTGGGTA
47095170 ATTGGATTGGGTA
1 ATTGGATTGGGTA
47095183 ATTG
1 ATTG
47095187 AGTTTGGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
ATTGGATTGGGTA
Found at i:47096047 original size:20 final size:18
Alignment explanation
Indices: 47096010--47096048 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
47096000 AAAATACTAA
47096010 TTAAAAATATTTAAATAT
1 TTAAAAATATTTAAATAT
*
47096028 TTAAAATATAGTTTATATAT
1 TTAAAA-ATA-TTTAAATAT
47096048 T
1 T
47096049 CTAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAAAATATTTAAATAT
Found at i:47096100 original size:30 final size:30
Alignment explanation
Indices: 47096066--47096124 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47096056 AATTTTATAA
47096066 ATAATTAATA-TTTAT-TACTTAAAAATATTT
1 ATAATTAATATTTTATATA-TT-AAAATATTT
*
47096096 ATAATTTATATTTTATATATTAAAATATT
1 ATAATTAATATTTTATATATTAAAATATT
47096125 AACAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 17 0.65
31 7 0.27
32 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
ATAATTAATATTTTATATATTAAAATATTT
Found at i:47096311 original size:13 final size:13
Alignment explanation
Indices: 47096295--47096352 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
47096285 TTTAAACTAA
47096295 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
47096308 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
47096321 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
47096334 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
47096347 ACTTTT
1 ACTTTT
47096353 TCACAGCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 4 0.11
13 28 0.78
14 4 0.11
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:47096336 original size:26 final size:26
Alignment explanation
Indices: 47096307--47096357 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
47096297 TTTTCAAAAG
47096307 CACTTCTCAAAAGTACTTTTCCACAA
1 CACTTCTCAAAAGTACTTTTCCACAA
* *
47096333 CACTTTTCAAAAGTACTTTTTCACA
1 CACTTCTCAAAAGTACTTTTCCACA
47096358 GCAATGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (26 bp):
CACTTCTCAAAAGTACTTTTCCACAA
Found at i:47096468 original size:33 final size:35
Alignment explanation
Indices: 47096431--47096496 Score: 102
Period size: 33 Copynumber: 1.9 Consensus size: 35
47096421 GAATTTTAAA
47096431 TTTTAAAATTTTT-TA-TTTT-TTTAAAAATATACT
1 TTTTAAAATTTTTATACTTTTATTT-AAAATATACT
47096464 TTTTAAAATTTTTATACTTTTATTTAAAATATA
1 TTTTAAAATTTTTATACTTTTATTTAAAATATA
47096497 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 13 0.43
34 2 0.07
35 12 0.40
36 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTTAAAATTTTTATACTTTTATTTAAAATATACT
Found at i:47096842 original size:22 final size:22
Alignment explanation
Indices: 47096812--47096854 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47096802 ACACCAAAAC
*
47096812 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
47096834 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
47096855 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:47097048 original size:43 final size:43
Alignment explanation
Indices: 47096992--47097131 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 43
47096982 TTAGTGGAAG
* * *
47096992 CGCCGCTAAAGACCCTGATCTTTCGCGGCGCTTTCCCCTAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* *
47097035 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* * *
47097078 CGCCGCTAAAGACCCTTATCTTTAGCGGCGTTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
* *
47097121 CTCCACTAAAG
1 CGCCGCTAAAG
47097132 GCCAACACCT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.02
43 81 0.95
44 2 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAAAAA
Found at i:47097144 original size:43 final size:43
Alignment explanation
Indices: 47097057--47097174 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
47097047 CCCTGATCTA
* * *** *
47097057 TAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
* *
47097100 TAGCGGCGTTTTGACCAAAAACTCCACTAAAGGCCAACACCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
* * **
47097143 TAGTGGCGTTTTTTAAGAAAAACGCCACTAAA
1 TAGCGGCG-TTTTGACCAAAAACGCCACTAAA
47097175 TTTGGCAGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
43 42 0.69
44 19 0.31
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
Found at i:47097294 original size:16 final size:17
Alignment explanation
Indices: 47097268--47097318 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
47097258 CAAAAGTAAT
*
47097268 AAATAAATATATTAAAC
1 AAATAAATATAATAAAC
*
47097285 AAAT-AATATAATAAAT
1 AAATAAATATAATAAAC
*
47097301 ATCAATAAATAAAATAAA
1 A--AATAAATATAATAAA
47097319 AATCGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 3 0.11
19 10 0.36
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATATAATAAAC
Found at i:47097309 original size:10 final size:9
Alignment explanation
Indices: 47097265--47097318 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
47097255 AGCCAAAAGT
47097265 AATA-AATA
1 AATATAATA
*
47097273 AATATATTA
1 AATATAATA
*
47097282 AACA-AAT-
1 AATATAATA
47097289 AATATAATA
1 AATATAATA
47097298 AATATCAATA
1 AATAT-AATA
*
47097308 AATAAAATA
1 AATATAATA
47097317 AA
1 AA
47097319 AATCGTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 3 0.08
8 9 0.24
9 17 0.46
10 8 0.22
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (9 bp):
AATATAATA
Found at i:47097507 original size:21 final size:21
Alignment explanation
Indices: 47097481--47097593 Score: 109
Period size: 21 Copynumber: 5.4 Consensus size: 21
47097471 TTTGACGCTG
47097481 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
47097502 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
47097523 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
47097544 CTGTACTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
47097565 CTTTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
47097586 ATCTGCTT
1 CTCTGCTT
47097594 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:47097654 original size:66 final size:66
Alignment explanation
Indices: 47097569--47097729 Score: 200
Period size: 66 Copynumber: 2.4 Consensus size: 66
47097559 TGCCGCCTTT
* *
47097569 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
47097632 TCA
64 TCA
* * * *
47097635 GCTTCTCTCGCTGCTGCATCTTCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
47097700 A
66 A
* * * *
47097701 GCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAG
47097730 TTGTGTAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 76 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:47103218 original size:25 final size:25
Alignment explanation
Indices: 47103187--47103291 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
47103177 TAATATATAT
*
47103187 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
47103212 TTATGTATGT--GTATAAGTTATGTAAG
1 TTATGTAT-TAAGTA-AA-TTATGTAAG
* *
47103238 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
47103263 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
47103288 TTAT
1 TTAT
47103292 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.04
25 43 0.64
26 18 0.27
27 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:47103237 original size:9 final size:9
Alignment explanation
Indices: 47103198--47103448 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
47103188 TATGTATTAA
*
47103198 GTAAATTAT
1 GTAAGTTAT
*
47103207 GTAGGTTAT
1 GTAAGTTAT
*
47103216 GTATGTGTA-
1 GTAAGT-TAT
47103225 -TAAGTTAT
1 GTAAGTTAT
*
47103233 GTAAGTTTT
1 GTAAGTTAT
*
47103242 GT-A-TTAA
1 GTAAGTTAT
**
47103249 GTAAACTAT
1 GTAAGTTAT
*
47103258 GTAAGTTGT
1 GTAAGTTAT
47103267 GT-A-TTAT
1 GTAAGTTAT
*
47103274 GTAACTTAT
1 GTAAGTTAT
47103283 GTAAGTTAT
1 GTAAGTTAT
** *
47103292 CAAAGTAAT
1 GTAAGTTAT
*
47103301 GTATGTTAT
1 GTAAGTTAT
47103310 GTAAG-T-T
1 GTAAGTTAT
47103317 GTAAGTTAT
1 GTAAGTTAT
*
47103326 -TATGTATTAT
1 GTAAG--TTAT
* * *
47103336 ATAACTTCT
1 GTAAGTTAT
47103345 GTAAGTTAT
1 GTAAGTTAT
47103354 GTAAGTTAT
1 GTAAGTTAT
*
47103363 GTAAGTTGT
1 GTAAGTTAT
*
47103372 GTAAGCTAT
1 GTAAGTTAT
* *
47103381 TTTAGTTAT
1 GTAAGTTAT
47103390 GTAAGCTT-T
1 GTAAG-TTAT
47103399 GT-A-TTAT
1 GTAAGTTAT
47103406 GTAAGTTAT
1 GTAAGTTAT
* *
47103415 GTAGGTTAA
1 GTAAGTTAT
*
47103424 GTAAGTTGT
1 GTAAGTTAT
*
47103433 GTAAATTAT
1 GTAAGTTAT
47103442 GTAAGTT
1 GTAAGTT
47103449 CTTGTACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 15 0.08
9 134 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:47103250 original size:51 final size:50
Alignment explanation
Indices: 47103190--47103289 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
47103180 TATATATTTA
* * * *
47103190 TGTATTAAGTAAATTATGTAGGTTATGTATGTGTATAAGTTATGTAAGTTT
1 TGTATTAAGTAAACTATGTAAGTTATGTAT-TATATAACTTATGTAAGTTT
* *
47103241 TGTATTAAGTAAACTATGTAAGTTGTGTATTATGTAACTTATGTAAGTT
1 TGTATTAAGTAAACTATGTAAGTTATGTATTATATAACTTATGTAAGTT
47103290 ATCAAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 16 0.37
51 27 0.63
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (50 bp):
TGTATTAAGTAAACTATGTAAGTTATGTATTATATAACTTATGTAAGTTT
Found at i:47103492 original size:16 final size:16
Alignment explanation
Indices: 47103471--47103514 Score: 79
Period size: 16 Copynumber: 2.7 Consensus size: 16
47103461 AATTTTGGTT
47103471 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
47103487 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
47103503 ATGTAAGTATAT
1 ATGTAAG-ATAT
47103515 CAGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
ATGTAAGATATGTATG
Found at i:47103755 original size:100 final size:100
Alignment explanation
Indices: 47103700--47104305 Score: 1108
Period size: 100 Copynumber: 6.1 Consensus size: 100
47103690 ATACTTAAAA
* **
47103700 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAACGATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
47103765 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
47103798 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
47103863 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
47103898 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
47103963 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
47103998 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
47104063 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
47104098 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
47104163 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
47104198 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
*
47104263 TAATAAGTTAAATTATATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
47104298 ATATATAT
1 ATATATAT
47104306 ATTTTTTTAA
Statistics
Matches: 493, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
98 95 0.19
100 398 0.81
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:47104737 original size:7 final size:7
Alignment explanation
Indices: 47104712--47104798 Score: 111
Period size: 7 Copynumber: 12.3 Consensus size: 7
47104702 CACTTCATTC
47104712 AACAGAA
1 AACAGAA
*
47104719 AATAGCAA
1 AACAG-AA
47104727 AACAGAA
1 AACAGAA
*
47104734 AACAAAA
1 AACAGAA
*
47104741 AATAGAA
1 AACAGAA
47104748 AACAGAA
1 AACAGAA
47104755 AACAGAA
1 AACAGAA
** *
47104762 TGCAAAA
1 AACAGAA
47104769 AACAGAA
1 AACAGAA
47104776 AACAGAA
1 AACAGAA
47104783 AACAGAA
1 AACAGAA
47104790 AACAGAA
1 AACAGAA
47104797 AA
1 AA
47104799 TAAAGAAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
7 61 0.91
8 6 0.09
ACGTcount: A:0.71, C:0.13, G:0.13, T:0.03
Consensus pattern (7 bp):
AACAGAA
Found at i:47105610 original size:10 final size:10
Alignment explanation
Indices: 47105595--47105619 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47105585 TTCGACATGG
47105595 TTTTGAACAA
1 TTTTGAACAA
47105605 TTTTGAACAA
1 TTTTGAACAA
47105615 TTTTG
1 TTTTG
47105620 CAATTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Found at i:47106407 original size:198 final size:198
Alignment explanation
Indices: 47106067--47106478 Score: 641
Period size: 198 Copynumber: 2.1 Consensus size: 198
47106057 TAATTAACCC
47106067 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* ** * * * *
47106132 TAACTCTAAGTCATTGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
66 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
*
47106197 GGCGTTTACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 GGCGTGTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
47106261 TGT-A
195 T-TAA
* * *
47106265 CTTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCG-TTCCCTGATTAG
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCC-GATCAG
*
47106329 TAAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAATAATTTTG
65 TAAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTG
* *
47106394 CGGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTC
130 CGGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
47106459 TTAA
195 TTAA
*
47106463 AATTGCGGCGTTTATA
1 ATTTGCGGCGTTTATA
47106479 CATAAACGCC
Statistics
Matches: 195, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
197 6 0.03
198 188 0.96
199 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
TAA
Found at i:47106956 original size:47 final size:47
Alignment explanation
Indices: 47106868--47106959 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
47106858 GTTAATTTCG
* **
47106868 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
47106915 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
47106960 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:47106975 original size:18 final size:19
Alignment explanation
Indices: 47106947--47106995 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
47106937 AAAAATAAAA
47106947 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
47106966 TTTTTA-TTTTTTATTTTC
1 ATTTTATTTTTTTATTTTC
47106984 ATTTTATTTTTT
1 ATTTTATTTTTT
47106996 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 10 0.38
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:47106977 original size:17 final size:18
Alignment explanation
Indices: 47106955--47106995 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
47106945 AAATTTTAGT
*
47106955 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
47106972 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
47106990 TTTTTT
1 TTTTTT
47106996 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:47107061 original size:16 final size:14
Alignment explanation
Indices: 47107032--47107058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47107022 TTTACAATTC
47107032 CAAATTATTATATT
1 CAAATTATTATATT
47107046 CAAATTATTATAT
1 CAAATTATTATAT
47107059 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:47107212 original size:7 final size:7
Alignment explanation
Indices: 47107193--47107228 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
47107183 CCCGACTCCA
*
47107193 AACCCAT
1 AACCCCT
47107200 AA-CCCT
1 AACCCCT
47107206 AACCCCT
1 AACCCCT
47107213 AACCCCT
1 AACCCCT
47107220 AACCCCT
1 AACCCCT
47107227 AA
1 AA
47107229 ACTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCCT
Found at i:47107319 original size:21 final size:20
Alignment explanation
Indices: 47107267--47107387 Score: 93
Period size: 21 Copynumber: 5.9 Consensus size: 20
47107257 ACTAATTAAT
* * *
47107267 CTAAACCTTAAACCATAACC
1 CTAACCCTTAACCCCTAACC
*
47107287 C-AATCCTTAACCCCTAACC
1 CTAACCCTTAACCCCTAACC
*
47107306 TCTAA-CCTCTAACCACTAACC
1 -CTAACCCT-TAACCCCTAACC
* *
47107327 CTTAACCCTTAATCCTTAACC
1 C-TAACCCTTAACCCCTAACC
* *
47107348 CTAAACCCTTAACCCATGACC
1 CT-AACCCTTAACCCCTAACC
*
47107369 TCTAACCCCTAACCCCTAA
1 -CTAACCCTTAACCCCTAA
47107388 AACTTATTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.19
20 7 0.09
21 54 0.67
22 5 0.06
ACGTcount: A:0.34, C:0.42, G:0.01, T:0.23
Consensus pattern (20 bp):
CTAACCCTTAACCCCTAACC
Found at i:47107380 original size:7 final size:7
Alignment explanation
Indices: 47107294--47107387 Score: 73
Period size: 7 Copynumber: 13.4 Consensus size: 7
47107284 ACCCAATCCT
47107294 TAACCCC
1 TAACCCC
*
47107301 TAACCTC
1 TAACCCC
*
47107308 TAACCTC
1 TAACCCC
*
47107315 TAACCAC
1 TAACCCC
*
47107322 TAACCCT
1 TAACCCC
*
47107329 TAACCCT
1 TAACCCC
* *
47107336 TAATCCT
1 TAACCCC
47107343 TAA-CCC
1 TAACCCC
*
47107349 TAAACCCT
1 T-AACCCC
*
47107357 TAACCCA
1 TAACCCC
* *
47107364 TGACCTC
1 TAACCCC
47107371 TAACCCC
1 TAACCCC
47107378 TAACCCC
1 TAACCCC
47107385 TAA
1 TAA
47107388 AACTTATTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
6 3 0.04
7 66 0.92
8 3 0.04
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:47107453 original size:7 final size:7
Alignment explanation
Indices: 47107443--47107496 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
47107433 GAAACTCTAA
47107443 CCTAACC
1 CCTAACC
47107450 CCTAACC
1 CCTAACC
*
47107457 CATAACC
1 CCTAACC
47107464 CCTAACC
1 CCTAACC
47107471 CCTAACC
1 CCTAACC
*
47107478 CATAACC
1 CCTAACC
47107485 CCTAACC
1 CCTAACC
47107492 CCTAA
1 CCTAA
47107497 TCCATAAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAACC
Found at i:47107464 original size:14 final size:14
Alignment explanation
Indices: 47107445--47107503 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
47107435 AACTCTAACC
47107445 TAACCCCTAACCCA
1 TAACCCCTAACCCA
*
47107459 TAACCCCTAACCCC
1 TAACCCCTAACCCA
* *
47107473 TAACCCATAACCCC
1 TAACCCCTAACCCA
*
47107487 TAACCCCTAATCCA
1 TAACCCCTAACCCA
47107501 TAA
1 TAA
47107504 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (14 bp):
TAACCCCTAACCCA
Found at i:47107468 original size:21 final size:21
Alignment explanation
Indices: 47107443--47107503 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
47107433 GAAACTCTAA
47107443 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
47107464 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
47107485 CCTAACCCCTAATCCATAA
1 CCTAACCCCTAACCCATAA
47107504 ACCTTAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAACCCCTAACCCATAACC
Found at i:47107476 original size:158 final size:158
Alignment explanation
Indices: 47107192--47107499 Score: 401
Period size: 158 Copynumber: 1.9 Consensus size: 158
47107182 ACCCGACTCC
47107192 AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
1 AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
* * * * * *
47107257 ACTAATTAATCTAAACCTTAAACCATAACCCAATCCTTAACCCCTAACCTCTAACCTCTAA-CCA
66 ACTAATTAATCTAAACCTGAAACCATAACCCAACCCCTAACCCATAACCCCTAACCCCTAACCCA
* *
47107321 CTAACCCTTAACCCTTAATCCTTAACCCT
131 -TAACCCCTAACCCCTAATCCTTAACCCT
* * * ** *
47107350 AAACCCTTAACCCATGACCTCTAACCCCTAACCCCTAAAAC-TTATTTAATATAT-ACTTAAAAC
1 AAACCCATAACCC-TAACCCCTAACCCCTAACCCCT-AAACTTTATTTAATATATAAAATAAAAA
*
47107413 ACACTAATTAATCTAAA-CTCGAAACTC-TAACCTAACCCCTAACCCATAACCCCTAACCCCTAA
64 ACACTAATTAATCTAAACCT-GAAAC-CATAACCCAACCCCTAACCCATAACCCCTAACCCCTAA
47107476 CCCATAACCCCTAACCCCTAATCC
127 CCCATAACCCCTAACCCCTAATCC
47107500 ATAAACCTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
157 2 0.02
158 87 0.67
159 37 0.28
160 4 0.03
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (158 bp):
AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
ACTAATTAATCTAAACCTGAAACCATAACCCAACCCCTAACCCATAACCCCTAACCCCTAACCCA
TAACCCCTAACCCCTAATCCTTAACCCT
Found at i:47108117 original size:74 final size:75
Alignment explanation
Indices: 47108038--47108177 Score: 196
Period size: 74 Copynumber: 1.9 Consensus size: 75
47108028 GTTTTTTTAA
* * **
47108038 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAA-G-ATGTTTGCG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTAT-TTTGCG
47108100 GCGTTTTATCGT
64 GCGTTTTATCGT
*
47108112 AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTATTTTGCGGC
47108177 G
66 G
47108178 AATAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
73 1 0.02
74 45 0.78
75 10 0.17
76 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTATTTTGCGGC
GTTTTATCGT
Found at i:47108229 original size:188 final size:188
Alignment explanation
Indices: 47107912--47108306 Score: 619
Period size: 188 Copynumber: 2.1 Consensus size: 188
47107902 TTCTTTAGCA
*
47107912 GCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
** ** * *
47107977 GCATTTTGCGCCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGTGTTTTTTTAAAAAC
66 GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
* * * *
47108042 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATGTTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
47108100 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
* * *
47108165 GTATTTTGCGGCGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
66 GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
*
47108230 GCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
47108288 GCGCTTTACCGAAAACGCC
1 GCGTTTTACCGTAAACGCC
47108307 GCGAATACTA
Statistics
Matches: 187, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (188 bp):
GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
Found at i:47108514 original size:114 final size:115
Alignment explanation
Indices: 47108112--47108690 Score: 422
Period size: 114 Copynumber: 5.1 Consensus size: 115
47108102 GTTTTATCGT
* * *
47108112 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAGGTATTTTGCGG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* ** * *
47108176 CGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
66 CGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * * *
47108226 AAACGCCACTAATA-CTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATA-TTTGCGG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* * * * * * *
47108289 CGCTTTACC-GA-AAACGCCGCGAA-TACTATTCTTCTGCGGCG-TTTTATAGA
66 CGC-AT-CCAAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTATA-A
* * * * *
47108339 AAACGCCAC-AATGTCTAATATACAACT-GA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
1 AAACGCCACTAATATCTAATATAC--CTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGC
*
47108401 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTAA
64 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCG-TTTTTATAA
* ** ** * *
47108454 AAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATA-TTTGCAG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* ***** * * * *
47108517 CGCTTTTTGTTAACCGCCGCTAA-TACTATTC-TTTAGCGGTGTTTTTATAAA
66 CGCATCCAAATAAACGCCACTAATTA-TGTTCTTTTA-CGGCGTTTTTAT-AA
* * ** * *
47108568 AAACGCCACAAAT-TCTAATATACAATTGA-ACC-AACGCTGCGTTTTGGTTAA-AGTATTTTGC
1 AAACGCCACTAATATCTAATATAC-CTCAAGACCAAACACTGCGTTTTCGTTAAGA-TATTTTGC
* * * * * * *
47108629 AGCGCTTAC-AATAAATGCCACTAATTATGTTCTTTTACTGCGTTTTTTTAG
64 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
47108680 AAACGCCACTA
1 AAACGCCACTA
47108691 GTTCTTCAGG
Statistics
Matches: 359, Mismatches: 80, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
112 25 0.07
113 127 0.35
114 153 0.43
115 44 0.12
116 10 0.03
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (115 bp):
AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
CGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
Found at i:47108606 original size:228 final size:226
Alignment explanation
Indices: 47108096--47108690 Score: 804
Period size: 227 Copynumber: 2.6 Consensus size: 226
47108086 TTAAGATGTT
*** * ** *
47108096 TGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACACTGCGTTTTGG
1 TGCGGCGTTTTATAAAAAACGCCAC-AATTCTAATATACAAT-TGAACCAAACGCTGCGTTTTGG
* * *
47108160 TTAAGGTATTTTGCGGCGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTA
64 TTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTA
* *
47108225 AAAACGCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCGGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGC
47108290 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
194 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
* *
47108323 TGCGGCGTTTTATAGAAAACGCCACAATGTCTAATATACAACTGAACCAAACGCTGCGTTTTGGT
1 TGCGGCGTTTTATAAAAAACGCCACAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTTGGT
* *
47108388 TAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTA
65 TAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCG-TTTTTTTA
* * * *
47108453 AAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCAGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGC
** * * *
47108518 GCTTT-TTGTTAACCGCCGCTAATACTATTCTT-
194 GCTTTACCG-AAAACGCCGCGAATACTATTCTTC
*
47108550 TAGCGGTGTTTTTATAAAAAACGCCACAAATTCTAATATACAATTGAACC-AACGCTGCGTTTTG
1 T-GCGGCG-TTTTATAAAAAACGCCAC-AATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
* * * *
47108614 GTTAAAGTATTTTGCAGCGCTTAC-AATAAATGCCACTAATTATGTTCTTTTACTGCGTTTTTTT
63 GTTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
*
47108678 AGAAACGCCACTA
128 AAAAACGCCACTA
47108691 GTTCTTCAGG
Statistics
Matches: 328, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
226 22 0.07
227 138 0.42
228 130 0.40
229 35 0.11
230 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (226 bp):
TGCGGCGTTTTATAAAAAACGCCACAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTT
AAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAA
AACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGCGC
TTTACCGAAAACGCCGCGAATACTATTCTTC
Found at i:47113890 original size:16 final size:16
Alignment explanation
Indices: 47113866--47113919 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
47113856 TTTGGTTCGC
* *
47113866 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
47113882 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
47113898 TGTAATGGAATAGAAG
1 TGTAATGGAATAGAGG
47113914 TGTAAT
1 TGTAAT
47113920 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:47113964 original size:45 final size:44
Alignment explanation
Indices: 47113898--47113988 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
47113888 GGAATAGAGG
*
47113898 TGTAATGGAATAGAAGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
47113943 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
47113987 TG
1 TG
47113989 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:47115863 original size:20 final size:20
Alignment explanation
Indices: 47115840--47115878 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
47115830 CATTGAGATT
47115840 TCGAAACATCTTGCATCAGG
1 TCGAAACATCTTGCATCAGG
47115860 TCGAAACATCTTGCATCAG
1 TCGAAACATCTTGCATCAG
47115879 AACCAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGAAACATCTTGCATCAGG
Found at i:47124112 original size:25 final size:25
Alignment explanation
Indices: 47124092--47124142 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
47124082 CATAAAAATC
47124092 TAAAAAAA-TGTAATATTTAAAAAAA
1 TAAAAAAATTGTAAT-TTTAAAAAAA
*
47124117 TAAAAAAATTGTACTTTTAAAAAAA
1 TAAAAAAATTGTAATTTTAAAAAAA
47124142 T
1 T
47124143 TATGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAAAATTGTAATTTTAAAAAAA
Found at i:47124591 original size:25 final size:24
Alignment explanation
Indices: 47124563--47124610 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47124553 ATTTTGGATT
* *
47124563 TTTTATATTTTTAAAATGGTTTTTA
1 TTTTATAATTTT-AAATAGTTTTTA
*
47124588 TTTTTTAATTTTAAATAGTTTTT
1 TTTTATAATTTTAAATAGTTTTT
47124611 TACTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTATAATTTTAAATAGTTTTTA
Found at i:47124611 original size:25 final size:26
Alignment explanation
Indices: 47124560--47124620 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
47124550 TGAATTTTGG
47124560 ATTTTTTATATTTTTAAAATGGTTTTT
1 ATTTTTTA-ATTTTTAAAATGGTTTTT
*
47124587 ATTTTTTAA-TTTT-AAATAGTTTTTT
1 ATTTTTTAATTTTTAAAAT-GGTTTTT
*
47124612 ACTTTTTAA
1 ATTTTTTAA
47124621 AAAACTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.13
25 18 0.58
26 1 0.03
27 8 0.26
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATTTTTAAAATGGTTTTT
Found at i:47124856 original size:8 final size:8
Alignment explanation
Indices: 47124843--47124874 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
47124833 TTGAAATAGC
47124843 TTTTTTAA
1 TTTTTTAA
47124851 TTTTTTAA
1 TTTTTTAA
47124859 -TTTTTAA
1 TTTTTTAA
47124866 TTTTTTAA
1 TTTTTTAA
47124874 T
1 T
47124875 AATTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAA
Found at i:47124864 original size:15 final size:15
Alignment explanation
Indices: 47124844--47124874 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47124834 TGAAATAGCT
47124844 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
47124859 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
47124874 T
1 T
47124875 AATTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:47124880 original size:15 final size:15
Alignment explanation
Indices: 47124847--47124883 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
47124837 AATAGCTTTT
**
47124847 TTAATTTTTTAATTT
1 TTAATTTTTTAATAA
47124862 TTAATTTTTTAATAA
1 TTAATTTTTTAATAA
47124877 TTAATTT
1 TTAATTT
47124884 ACTTTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTTAATAA
Done.