Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 138 of 325
Found at i:44589311 original size:9 final size:9
Alignment explanation
Indices: 44589297--44589326 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
44589287 ACCAAACCGA
44589297 AAATGATAC
1 AAATGATAC
44589306 AAATGATAC
1 AAATGATAC
44589315 AAATGATAC
1 AAATGATAC
44589324 AAA
1 AAA
44589327 ATAATCTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (9 bp):
AAATGATAC
Found at i:44592008 original size:20 final size:20
Alignment explanation
Indices: 44591983--44592032 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
44591973 CAATCATGTA
44591983 GGTATCGATACTAGAATATG
1 GGTATCGATACTAGAATATG
44592003 GGTATCGATACTAGAATATG
1 GGTATCGATACTAGAATATG
44592023 GGTATCGATA
1 GGTATCGATA
44592033 TTTTTCTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (20 bp):
GGTATCGATACTAGAATATG
Found at i:44593322 original size:65 final size:65
Alignment explanation
Indices: 44593218--44593363 Score: 256
Period size: 65 Copynumber: 2.2 Consensus size: 65
44593208 GATACACGGA
**
44593218 TCTCCAACACACCAAATCACTCATAGAGCCAAACATATCCCAAAAGTGAAGTATAAAGCTAACAC
1 TCTCCAACACACCAAATCACTCATAGAGCCAAACATATCCCAAAAGTGAAACATAAAGCTAACAC
*
44593283 TCTCCAACACACCAAATCACTCATAGAGCCGAACATATCCCAAAAGTGAAACATAAAGCTAACAC
1 TCTCCAACACACCAAATCACTCATAGAGCCAAACATATCCCAAAAGTGAAACATAAAGCTAACAC
*
44593348 TCTTCAACACACCAAA
1 TCTCCAACACACCAAA
44593364 CATGTCCCTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.45, C:0.31, G:0.08, T:0.16
Consensus pattern (65 bp):
TCTCCAACACACCAAATCACTCATAGAGCCAAACATATCCCAAAAGTGAAACATAAAGCTAACAC
Found at i:44594126 original size:34 final size:35
Alignment explanation
Indices: 44594075--44594161 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
44594065 CAATGCCGAA
* *
44594075 CAGTCTGGGCCTAAGCCCATAT-CAGTAGCAATAT
1 CAGTGTGGGCCTTAGCCCATATACAGTAGCAATAT
* * * *
44594109 CAGTGTGGGCCTTAGCCC-TTTACAGTTGCAGTGT
1 CAGTGTGGGCCTTAGCCCATATACAGTAGCAATAT
*
44594143 TAGTGTGGGCCTTAGCCCA
1 CAGTGTGGGCCTTAGCCCA
44594162 ATTTAGTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (35 bp):
CAGTGTGGGCCTTAGCCCATATACAGTAGCAATAT
Found at i:44605172 original size:27 final size:28
Alignment explanation
Indices: 44605142--44605212 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 28
44605132 GTGTACTTCG
**
44605142 TATATATTA-CCTTTGCGGCATACTTTA
1 TATATATTAGCCTTTGCGGCATACACTA
* **
44605169 TATACATGTAGCCTTTATGGCATACACTA
1 TATATAT-TAGCCTTTGCGGCATACACTA
44605198 TATATA-TAGCCTTTG
1 TATATATTAGCCTTTG
44605213 TGGTGTACTC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
27 14 0.40
28 2 0.06
29 19 0.54
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (28 bp):
TATATATTAGCCTTTGCGGCATACACTA
Found at i:44605225 original size:27 final size:26
Alignment explanation
Indices: 44605142--44605225 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 26
44605132 GTGTACTTCG
* *
44605142 TATATATTA-CCTTTGCGGCATACTT
1 TATATATTAGCCTTTGTGGCATACTC
* *
44605167 TATATACATGTAGCCTTTATGGCATACAC
1 TATAT--AT-TAGCCTTTGTGGCATACTC
**
44605196 TATATATATAGCCTTTGTGGTGTACTC
1 TATATAT-TAGCCTTTGTGGCATACTC
44605223 TAT
1 TAT
44605226 TTGAATCACC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
25 5 0.11
27 22 0.48
28 2 0.04
29 17 0.37
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (26 bp):
TATATATTAGCCTTTGTGGCATACTC
Found at i:44606902 original size:171 final size:171
Alignment explanation
Indices: 44606617--44606958 Score: 657
Period size: 171 Copynumber: 2.0 Consensus size: 171
44606607 CACCCTGCTG
*
44606617 ACTTGCTGGCGAGTTAGAGTATTGGAACATACTAGCATTAAAGTATCCACCTATTGGAGGTATCT
1 ACTTGCTAGCGAGTTAGAGTATTGGAACATACTAGCATTAAAGTATCCACCTATTGGAGGTATCT
44606682 AAGGATTTAATTACAGGGAATTTTATAGTGAAGAAGGAATACACATGGGAAGAGTATGGCTTAGA
66 AAGGATTTAATTACAGGGAATTTTATAGTGAAGAAGGAATACACATGGGAAGAGTATGGCTTAGA
44606747 GTTTTGGTTGGGTACATAGAGCCTACAAGGTGTATGAGAAT
131 GTTTTGGTTGGGTACATAGAGCCTACAAGGTGTATGAGAAT
*
44606788 ACTTGCTAGCGAGTTAGAGTATTGGAACATACTAGCATTAAAGTGTCCACCTATTGGAGGTATCT
1 ACTTGCTAGCGAGTTAGAGTATTGGAACATACTAGCATTAAAGTATCCACCTATTGGAGGTATCT
*
44606853 AAGGATTTAATTATAGGGAATTTTATAGTGAAGAAGGAATACACATGGGAAGAGTATGGCTTAGA
66 AAGGATTTAATTACAGGGAATTTTATAGTGAAGAAGGAATACACATGGGAAGAGTATGGCTTAGA
44606918 GTTTTGGTTGGGTACATAGAGCCTACAAGGTGTATGAGAAT
131 GTTTTGGTTGGGTACATAGAGCCTACAAGGTGTATGAGAAT
44606959 GTTGTATAAG
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.30
Consensus pattern (171 bp):
ACTTGCTAGCGAGTTAGAGTATTGGAACATACTAGCATTAAAGTATCCACCTATTGGAGGTATCT
AAGGATTTAATTACAGGGAATTTTATAGTGAAGAAGGAATACACATGGGAAGAGTATGGCTTAGA
GTTTTGGTTGGGTACATAGAGCCTACAAGGTGTATGAGAAT
Found at i:44608790 original size:37 final size:37
Alignment explanation
Indices: 44608740--44608818 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
44608730 TTATTACGAA
* *
44608740 GTCTTACCCGGACATAA-TCTCCACACG-AAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGTAA-TCATCGG
44608777 GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
44608814 GTCTT
1 GTCTT
44608819 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
Found at i:44609191 original size:141 final size:141
Alignment explanation
Indices: 44608937--44609446 Score: 696
Period size: 141 Copynumber: 3.5 Consensus size: 141
44608927 CCCTTCGGGA
* * * * * * * * *
44608937 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
44609002 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
44609067 GGCCATTAGGC
131 GGCTATTAGGC
* *
44609078 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44609143 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
44609208 GGCTATTAGGC
131 GGCTATTAGGC
*
44609219 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCTATTAGGCCT
1 CTTATCACATATATACACTTTCACATTCATCACAT---C-----GG------C-C-ATTAGGCCT
*
44609284 TATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
50 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
44609349 TCACATTCATCACATCGGCTATTAGGC
115 TCACATTCATCACATCGGCTATTAGGC
*
44609376 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44609441 ACTTTC
64 ACTTTC
44609447 TTGGCTGAAT
Statistics
Matches: 329, Mismatches: 22, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
141 159 0.48
143 28 0.09
144 2 0.01
145 1 0.00
149 2 0.01
151 1 0.00
155 1 0.00
156 1 0.00
157 108 0.33
159 26 0.08
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:44609277 original size:16 final size:16
Alignment explanation
Indices: 44609256--44609287 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44609246 CATCACATCG
44609256 GCTATTAGGCCTTATC
1 GCTATTAGGCCTTATC
44609272 GCTATTAGGCCTTATC
1 GCTATTAGGCCTTATC
44609288 ACACATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
GCTATTAGGCCTTATC
Found at i:44609282 original size:63 final size:63
Alignment explanation
Indices: 44609209--44609334 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
44609199 CATCACATCG
44609209 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
44609272 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
44609335 ACACATATAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (63 bp):
GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
Found at i:44609290 original size:47 final size:47
Alignment explanation
Indices: 44608937--44609271 Score: 526
Period size: 47 Copynumber: 7.1 Consensus size: 47
44608927 CCCTTCGGGA
* * * * * * * *
44608937 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
44608984 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44609031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44609078 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44609125 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44609172 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44609219 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44609266 CTTATC
1 CTTATC
44609272 GCTATTAGGC
Statistics
Matches: 273, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:44609297 original size:110 final size:110
Alignment explanation
Indices: 44609162--44609381 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
44609152 CATCACATCG
44609162 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
44609227 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
66 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
44609272 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
44609337 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
66 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
44609382 ACATATATAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (110 bp):
GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
Found at i:44609302 original size:157 final size:158
Alignment explanation
Indices: 44609115--44609430 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 158
44609105 CATCACATCG
*
44609115 GCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
44609180 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ACATATACACTTTCACA
66 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAACATATACACTTTCACA
* *
44609244 TTCATCACATCGGCTATTAGGCCTTATC
131 TTCATCACATCGACCATTAGGCCTTATC
44609272 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
*
44609337 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCAC
66 ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA-ACATATACACTTTCAC
44609402 ATTCATCACATCGACCATTAGGCCTTATC
130 ATTCATCACATCGACCATTAGGCCTTATC
44609431 ACATATATAC
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 111 0.73
159 42 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (158 bp):
GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAACATATACACTTTCACA
TTCATCACATCGACCATTAGGCCTTATC
Found at i:44609323 original size:47 final size:47
Alignment explanation
Indices: 44609272--44609446 Score: 296
Period size: 47 Copynumber: 3.7 Consensus size: 47
44609262 AGGCCTTATC
44609272 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
44609319 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
1 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
*
44609366 GCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCTATTAGGCCTTATCAC--ACATATACACTTTCACATTCATCACATCG
* * *
44609415 ACCATTAGGCCTTATCACATATATACACTTTC
1 GCTATTAGGCCTTATCACACATATACACTTTC
44609447 TTGGCTGAAT
Statistics
Matches: 123, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 79 0.64
49 44 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
Found at i:44616770 original size:43 final size:43
Alignment explanation
Indices: 44616686--44616771 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
44616676 AAATCTTACA
* **
44616686 ATGCCAATGTCCCAGACATGGTCTTACATGTAGTCACATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGTACACACATATCG
* *
44616729 ATGCCACTGTCCCAGACAAGGTCTTAC-TCGTACACATATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACAT-GTACACACATATCG
44616772 GAGTCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAAGGTCTTACATGTACACACATATCG
Found at i:44618405 original size:43 final size:43
Alignment explanation
Indices: 44618311--44618429 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
44618301 GAAGTTTGAA
* ** * *
44618311 CTCGTTGAGTGGTCCGAGTTCATGATATATGTG-GCATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCGAG
* ** *
44618353 CTCGCTGAGTGGTTTGAGTTCATTATGGATGCGAGCATCCGAG
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCGAG
*
44618396 CTCGTTGAGTAGTCCGAGTTCATAATGGATGCGA
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
44618430 TACATGTGAT
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 26 0.41
43 37 0.59
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (43 bp):
CTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGCATCCGAG
Found at i:44620305 original size:36 final size:36
Alignment explanation
Indices: 44620258--44620329 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
44620248 TTAGTGAAGT
44620258 ATGCTAAATCATTAAAATGATGCCATGATGTATATC
1 ATGCTAAATCATTAAAATGATGCCATGATGTATATC
44620294 ATGCTAAATCATTAAAATGATGCCATGATGTATATC
1 ATGCTAAATCATTAAAATGATGCCATGATGTATATC
44620330 TTTGATGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (36 bp):
ATGCTAAATCATTAAAATGATGCCATGATGTATATC
Found at i:44638538 original size:47 final size:46
Alignment explanation
Indices: 44638469--44638596 Score: 202
Period size: 47 Copynumber: 2.7 Consensus size: 46
44638459 AATTGATAAG
*
44638469 TACCTATACCATGGGCCGTAGCCATATCAAGGTAGCTCCTCTCAAAA
1 TACCTATACCAT-GGCCGTAGCCAAATCAAGGTAGCTCCTCTCAAAA
*
44638516 TACCTATACCATGGCTCATAGCCAAATCAAGGTAGCTCCTCTCAAAA
1 TACCTATACCATGGC-CGTAGCCAAATCAAGGTAGCTCCTCTCAAAA
*
44638563 TACCTATATCATGGCCCGTAGCCAAATCAAGGTA
1 TACCTATACCATGG-CCGTAGCCAAATCAAGGTA
44638597 TTATTCACAC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 3 0.04
47 71 0.95
48 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (46 bp):
TACCTATACCATGGCCGTAGCCAAATCAAGGTAGCTCCTCTCAAAA
Found at i:44639490 original size:6 final size:6
Alignment explanation
Indices: 44639479--44639505 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44639469 CAATATATAA
44639479 TTTGGT TTTGGT TTTGGT TTTGGT TTT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTT
44639506 AATTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (6 bp):
TTTGGT
Found at i:44640966 original size:24 final size:24
Alignment explanation
Indices: 44640939--44640984 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
44640929 CCATAATATG
*
44640939 GAAGTTCACAAAGAACCTTATCAA
1 GAAGTTCACAAAGAACCATATCAA
44640963 GAAGTTCACAAAGAACCATATC
1 GAAGTTCACAAAGAACCATATC
44640985 GGAAAGCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.20
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAA
Found at i:44641059 original size:27 final size:26
Alignment explanation
Indices: 44641029--44641095 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
44641019 CATTATCAGA
*
44641029 AAGCTCATAAAGAGCCAATTTAACGGG
1 AAGCTCATAAAGAGCC-ATATAACGGG
*
44641056 AAGCTCACAAAGAGCCATATAACGGG
1 AAGCTCATAAAGAGCCATATAACGGG
*
44641082 ATGCTCAT-AAGAGC
1 AAGCTCATAAAGAGC
44641096 TAAGGTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 6 0.17
26 15 0.42
27 15 0.42
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (26 bp):
AAGCTCATAAAGAGCCATATAACGGG
Found at i:44648135 original size:29 final size:29
Alignment explanation
Indices: 44648072--44648139 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44648062 TAATCAACCA
44648072 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44648101 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44648130 CGCACACTTA
1 CGCACACTTA
44648140 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44648280 original size:29 final size:30
Alignment explanation
Indices: 44648241--44648319 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44648231 CTTAATAATC
44648241 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44648271 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44648300 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44648320 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44648310 original size:174 final size:173
Alignment explanation
Indices: 44647962--44648313 Score: 535
Period size: 174 Copynumber: 2.0 Consensus size: 173
44647952 AACTCAAGGT
* * * *
44647962 ACTTACGTTTTTCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
44648027 GAAAATATATACTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
44648092 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
44648135 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
44648200 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATACTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
* **
44648265 ACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
130 ACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
44648309 ACTTA
1 ACTTA
44648314 GTGCCAATCT
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
173 78 0.48
174 79 0.49
175 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATACTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:44656301 original size:29 final size:29
Alignment explanation
Indices: 44656238--44656305 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44656228 TAATCAACCA
44656238 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44656267 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44656296 CGCACACTTA
1 CGCACACTTA
44656306 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44656446 original size:29 final size:30
Alignment explanation
Indices: 44656407--44656485 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44656397 CTTAATAATC
44656407 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44656437 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44656466 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44656486 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44659846 original size:24 final size:24
Alignment explanation
Indices: 44659809--44659875 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
44659799 GGAAGCTCAT
*
44659809 AAGAGCCATAATCGAGAAGTTCACA
1 AAGAACCAT-ATCGAGAAGTTCACA
* *
44659834 AAGAACCTTATCGGGAAGTTCACA
1 AAGAACCATATCGAGAAGTTCACA
44659858 AAGAACCATATCGAGAAG
1 AAGAACCATATCGAGAAG
44659876 CTCTGGATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 30 0.81
25 7 0.19
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.16
Consensus pattern (24 bp):
AAGAACCATATCGAGAAGTTCACA
Found at i:44659950 original size:27 final size:27
Alignment explanation
Indices: 44659912--44659963 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
44659902 CAAGCTAGCA
* *
44659912 TTAATGGGAAGCTCATAAAGAGCCAAT
1 TTAATGGAAAGCTCAGAAAGAGCCAAT
44659939 TTAATGGAAAGCTCAGAAAGAGCCA
1 TTAATGGAAAGCTCAGAAAGAGCCA
44659964 TATAACAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (27 bp):
TTAATGGAAAGCTCAGAAAGAGCCAAT
Found at i:44665972 original size:22 final size:22
Alignment explanation
Indices: 44665947--44665988 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44665937 TTCAACCACC
*
44665947 AATATATAA-TCATTCCATTTTT
1 AATATA-AACTCATACCATTTTT
44665969 AATATAAACTCATACCATTT
1 AATATAAACTCATACCATTT
44665989 GTGACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAAACTCATACCATTTTT
Found at i:44669299 original size:27 final size:27
Alignment explanation
Indices: 44669240--44669349 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
44669230 AGAAACTGGT
*
44669240 GGTATTTTAGTAATTTTACAAGTCG-G
1 GGTATTTCAGTAATTTTACAAGTCGAG
*
44669266 GGTATTTCAGTAATTTCACTAA-TCGAG
1 GGTATTTCAGTAATTTTAC-AAGTCGAG
44669293 GGTATTTC-GATAATTTTACAA-TCGGAG
1 GGTATTTCAG-TAATTTTACAAGTC-GAG
* *
44669320 GTTATTTTAGTAATTTTACAAGTCGAG
1 GGTATTTCAGTAATTTTACAAGTCGAG
44669347 GGT
1 GGT
44669350 CTTAACGATC
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 25 0.35
27 44 0.61
28 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAGTCGAG
Found at i:44682827 original size:37 final size:37
Alignment explanation
Indices: 44682786--44682879 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
44682776 TTAGTGCTGA
* * *
44682786 GGCGTGTTATGGGTTGGATTATCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTAATGAGCATTT
**
44682823 GGCGTGTTATCGGTTGG-TCTAGCTCTAATGAGTGTTT
1 GGCGTGTTATCGGTTGGAT-TAGCTCTAATGAGCATTT
* *
44682860 GGTGTGTT-TTGGTTGGATTA
1 GGCGTGTTATCGGTTGGATTA
44682880 CTTGTGTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
36 10 0.21
37 38 0.79
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.44
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTAATGAGCATTT
Found at i:44688512 original size:19 final size:19
Alignment explanation
Indices: 44688488--44688525 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44688478 TGATGGGCCA
44688488 GTCCGAGTGGTTCCTGTTG
1 GTCCGAGTGGTTCCTGTTG
44688507 GTCCGAGTGGTTCCTGTTG
1 GTCCGAGTGGTTCCTGTTG
44688526 TTGCTGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.21, G:0.37, T:0.37
Consensus pattern (19 bp):
GTCCGAGTGGTTCCTGTTG
Found at i:44690560 original size:42 final size:39
Alignment explanation
Indices: 44690483--44690561 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 39
44690473 ATTTGGAGGC
* *
44690483 ATTACTTATACGGTGAGACTATTATTTTCACAGATCAAA
1 ATTACTTATACAGTGAGACAATTATTTTCACAGATCAAA
*
44690522 ATTACTTATACAGTGGAAAGACAATTATTTTCATAGATCA
1 ATTACTTATACAGT-G--AGACAATTATTTTCACAGATCA
44690562 TAAAAGCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 13 0.38
40 1 0.03
42 20 0.59
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (39 bp):
ATTACTTATACAGTGAGACAATTATTTTCACAGATCAAA
Found at i:44692871 original size:22 final size:22
Alignment explanation
Indices: 44692855--44692897 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44692845 ATCTTCTACT
44692855 TAGTGTCGATCTCTCTTTCGTA
1 TAGTGTCGATCTCTCTTTCGTA
44692877 TAGTGTCGATCTCTCTTTCGT
1 TAGTGTCGATCTCTCTTTCGT
44692898 GCCCTACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.47
Consensus pattern (22 bp):
TAGTGTCGATCTCTCTTTCGTA
Found at i:44695661 original size:25 final size:27
Alignment explanation
Indices: 44695628--44695682 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44695618 CTTATGAGTA
*
44695628 TCCCGATTAAA-GGTTCTTTGTGAACT
1 TCCCGATTAAATGGCTCTTTGTGAACT
*
44695654 TCCC-ATTAAATTGGCTCTTTGTGAGCT
1 TCCCGATTAAA-TGGCTCTTTGTGAACT
44695681 TC
1 TC
44695683 TCAAAAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 4 0.16
27 15 0.60
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (27 bp):
TCCCGATTAAATGGCTCTTTGTGAACT
Found at i:44713209 original size:10 final size:10
Alignment explanation
Indices: 44713194--44713218 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44713184 TCCATCTAAT
44713194 ACATACCAAA
1 ACATACCAAA
44713204 ACATACCAAA
1 ACATACCAAA
44713214 ACATA
1 ACATA
44713219 ATATCAAGTT
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:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (10 bp):
ACATACCAAA
Found at i:44715050 original size:40 final size:40
Alignment explanation
Indices: 44715006--44715193 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
44714996 GCTACTTGCT
44715006 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
44715046 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
44715086 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44715126 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
44715165 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44715194 CATCCAAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 101 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44724352 original size:40 final size:40
Alignment explanation
Indices: 44724308--44724495 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
44724298 GCTACTTGCT
*
44724308 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
44724348 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
44724388 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44724428 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
44724467 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44724496 CATCCAAATA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 100 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44724486 original size:119 final size:119
Alignment explanation
Indices: 44724275--44724495 Score: 322
Period size: 119 Copynumber: 1.9 Consensus size: 119
44724265 AAACCAAGTA
* * * *
44724275 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGAGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
*
44724340 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAACAAATG
* *
44724394 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACAAATGCCTTCG-GGCTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCTA-CTCGCACAAATGCCTTCGAGACTTAGCCCGGATA-T
*
44724456 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
44724496 CATCCAAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
118 1 0.01
119 64 0.70
120 26 0.29
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAACAAATG
Found at i:44726494 original size:24 final size:24
Alignment explanation
Indices: 44726467--44726524 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
44726457 GTAAACTCTG
*
44726467 ACGAGCTGAAAATAGTAAGCTCCT
1 ACGAGCTGAAAATAGTAAGCTCAT
*
44726491 ACGAGCTGAGAATAGTAAGCTCAT
1 ACGAGCTGAAAATAGTAAGCTCAT
*
44726515 ACGAGTTGAA
1 ACGAGCTGAA
44726525 GTGAGTCCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (24 bp):
ACGAGCTGAAAATAGTAAGCTCAT
Found at i:44736369 original size:43 final size:42
Alignment explanation
Indices: 44736315--44736469 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
44736305 ATGCCATATC
* * * *
44736315 CCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGT
1 CCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGT
* ** * *
44736357 CTCAGACATGGTCTTACACGAAATCA-ATTAAAGATGTCAATAT
1 C-CAGACATGGTCTTACACGTAATCACA-TATCGATGCCAATGT
*
44736400 CCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATGT
1 -CCAGACATGGTCTTACACGTAATCACATAT-CGATGCCAATGT
*
44736443 CCTAGACATGGTCTTACATGTAATCAC
1 CC-AGACATGGTCTTACACGTAATCAC
44736470 GTCTCGATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 5 0.05
43 84 0.92
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGT
Found at i:44748726 original size:12 final size:12
Alignment explanation
Indices: 44748709--44748734 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44748699 ATATCATGCA
44748709 TACTTACCATTT
1 TACTTACCATTT
44748721 TACTTACCATTT
1 TACTTACCATTT
44748733 TA
1 TA
44748735 ACCCCCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
TACTTACCATTT
Found at i:44751899 original size:12 final size:12
Alignment explanation
Indices: 44751882--44751909 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44751872 CAGCATAAAT
44751882 AATTGGAAATTA
1 AATTGGAAATTA
44751894 AATTGGAAATTA
1 AATTGGAAATTA
44751906 AATT
1 AATT
44751910 CAAATTTTGC
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:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
AATTGGAAATTA
Found at i:44753673 original size:12 final size:12
Alignment explanation
Indices: 44753656--44753681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44753646 CAAGGCAAGT
44753656 AATTTGGTTCCA
1 AATTTGGTTCCA
44753668 AATTTGGTTCCA
1 AATTTGGTTCCA
44753680 AA
1 AA
44753682 GTCGCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (12 bp):
AATTTGGTTCCA
Found at i:44754582 original size:151 final size:151
Alignment explanation
Indices: 44754308--44754603 Score: 520
Period size: 151 Copynumber: 2.0 Consensus size: 151
44754298 AAATTTATTA
*
44754308 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATTCGTAGGGAGATTGATTAATTAAAGTGGATG
1 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
* **
44754373 TGATTAGTTTAAAGTTAGGGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
66 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
*
44754438 GAATTGATGACTTTAGGATCG
131 GAATTGATAACTTTAGGATCG
* * *
44754459 GATTAAGGGCAATTAAAATGGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTGAAGTGGGTG
1 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
44754524 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
66 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
44754589 GAATTGATAACTTTA
131 GAATTGATAACTTTA
44754604 TGAAGTAATT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 137 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (151 bp):
GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
GAATTGATAACTTTAGGATCG
Found at i:44755595 original size:62 final size:57
Alignment explanation
Indices: 44755499--44755622 Score: 151
Period size: 62 Copynumber: 2.1 Consensus size: 57
44755489 AATATTAAGT
* * *
44755499 TAATATAATATTTATTAAGATGAATATTAGATTAAATTTAATATTAAATCTTACTAAAA
1 TAATAAAATATTTATTAAGATGAATATTAAATTAAAATTAATATTAAA-C-TACTAAAA
*
44755558 TAATAAAATATTTATCTACAAGAT-AAGTATTAAATTAAAATTAATATTAAACTATTAAAA
1 TAATAAAATATTTAT-T--AAGATGAA-TATTAAATTAAAATTAATATTAAACTACTAAAA
44755618 TAATA
1 TAATA
44755623 TTATTTTTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
59 14 0.25
60 13 0.23
61 3 0.05
62 27 0.47
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (57 bp):
TAATAAAATATTTATTAAGATGAATATTAAATTAAAATTAATATTAAACTACTAAAA
Found at i:44756068 original size:19 final size:19
Alignment explanation
Indices: 44756035--44756074 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44756025 AAAATATCAT
*
44756035 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
44756054 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
44756073 AT
1 AT
44756075 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:44758201 original size:14 final size:14
Alignment explanation
Indices: 44758155--44758202 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
44758145 TTTTTAAATT
44758155 ATTAATT-AATT-A
1 ATTAATTGAATTAA
44758167 ATTAATTGAAGTTCAA
1 ATTAATTGAA-TT-AA
44758183 A--AATTGAATTAA
1 ATTAATTGAATTAA
44758195 ATTAATTG
1 ATTAATTG
44758203 GTCATGGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 10 0.33
13 4 0.13
14 14 0.47
16 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (14 bp):
ATTAATTGAATTAA
Found at i:44761387 original size:46 final size:45
Alignment explanation
Indices: 44761334--44761508 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
44761324 TGGTTGAGCA
*
44761334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCAAACG
* * * * *
44761380 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* * *
44761427 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * *
44761473 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
44761509 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:44761490 original size:93 final size:93
Alignment explanation
Indices: 44761331--44761502 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
44761321 GGATGGTTGA
* * * * *
44761331 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
44761396 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
44761424 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
44761489 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44761503 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44764708 original size:48 final size:48
Alignment explanation
Indices: 44764633--44764958 Score: 365
Period size: 48 Copynumber: 6.8 Consensus size: 48
44764623 CACCATATTA
*
44764633 ATGTGTGCCAATGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
*
44764681 ATGTGTGCCAGTGTAAAACCATATCTGGGACATGGCATC-AGCGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGA-CGATGAT
* * * *
44764729 ATGTGTGCCTGTGTAAAACCATGTCTGGGATATGGCATCGGCAATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * * *
44764777 ATATGTGCCTA-TGTAAGACCATGTCTGGAACATGGCATCAATGATGAT
1 ATGTGTGCC-AGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * * * *
44764825 ATATGTGCCTGTGTAAGACTATGTCTAGGACATGGCATCGACAATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
44764873 ATGTGTGCCTGTGTAAGACCATGTCTGGAACATGGCATCAACGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* *
44764921 ATGTG-GATTCA-TGTAAGACCATGTC-GGAGACATGGCAT
1 ATGTGTG--CCAGTGTAAAACCATGTCTGG-GACATGGCAT
44764959 TGGCACTTTA
Statistics
Matches: 239, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
47 4 0.02
48 234 0.98
49 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
Found at i:44764896 original size:144 final size:144
Alignment explanation
Indices: 44764636--44764958 Score: 409
Period size: 144 Copynumber: 2.2 Consensus size: 144
44764626 CATATTAATG
* * * * *
44764636 TGTGCCAATGTAAAACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAAACC
1 TGTGCCTATGTAAGACCATGTCTGGAACATGGCATCAACGATGATATATGTGCCAGTGTAAAACC
* * * *
44764701 ATATCTGGGACATGGCATCAGCGATGATATGTGTGCCTGTGTAAAACCATGTCTGGGATATGGCA
66 ATATCTAGGACATGGCATCAGCAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGGCA
**
44764766 TCGGCAATGATATA
131 TCAACAATGATATA
* * * *
44764780 TGTGCCTATGTAAGACCATGTCTGGAACATGGCATCAATGATGATATATGTGCCTGTGTAAGACT
1 TGTGCCTATGTAAGACCATGTCTGGAACATGGCATCAACGATGATATATGTGCCAGTGTAAAACC
* *
44764845 ATGTCTAGGACATGGCATC-GACAATGATATGTGTGCCTGTGTAAGACCATGTCTGGAACATGGC
66 ATATCTAGGACATGGCATCAG-CAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGGC
* *
44764909 ATCAACGATGATATG
130 ATCAACAATGATATA
**
44764924 TG-GATTCATGTAAGACCATGTC-GGAGACATGGCAT
1 TGTGCCT-ATGTAAGACCATGTCTGGA-ACATGGCAT
44764959 TGGCACTTTA
Statistics
Matches: 155, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
143 6 0.04
144 149 0.96
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (144 bp):
TGTGCCTATGTAAGACCATGTCTGGAACATGGCATCAACGATGATATATGTGCCAGTGTAAAACC
ATATCTAGGACATGGCATCAGCAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGGCA
TCAACAATGATATA
Found at i:44764936 original size:96 final size:96
Alignment explanation
Indices: 44764633--44764958 Score: 431
Period size: 96 Copynumber: 3.4 Consensus size: 96
44764623 CACCATATTA
* * * *
44764633 ATGTGTGCCAATGTAAAACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCAGTGTAAA
1 ATGTGTGCCTATGTAAAACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
* * *
44764698 ACCATATCTGGGACATGGCATCAGCGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
* * * * *
44764729 ATGTGTGCCTGTGTAAAACCATGTCTGGGATATGGCATCGGCAATGATATATGTGCCTATGTAAG
1 ATGTGTGCCTATGTAAAACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
*
44764794 ACCATGTCTGGAACATGGCATCAATGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
* * * * *
44764825 ATATGTGCCTGTGTAAGACTATGTCTAGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
1 ATGTGTGCCTATGTAAAACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
44764890 ACCATGTCTGGAACATGGCATCAACGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
** *
44764921 ATGTG-GATTCATGTAAGACCATGTC-GGAGACATGGCAT
1 ATGTGTGCCT-ATGTAAAACCATGTCTGG-GACATGGCAT
44764959 TGGCACTTTA
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
95 3 0.01
96 197 0.99
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (96 bp):
ATGTGTGCCTATGTAAAACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
ACCATGTCTGGAACATGGCATCAACGATGAT
Found at i:44780787 original size:47 final size:47
Alignment explanation
Indices: 44780733--44781181 Score: 790
Period size: 47 Copynumber: 9.5 Consensus size: 47
44780723 TATTTGAATA
44780733 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44780780 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44780829 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44780876 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44780923 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44780970 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44781017 AATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44781064 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
44781111 AATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44781158 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
44781182 GAGTCCCGAA
Statistics
Matches: 387, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 340 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44786729 original size:18 final size:18
Alignment explanation
Indices: 44786706--44786746 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44786696 CTAAAATATT
44786706 AATTAATTAATTAAATTA
1 AATTAATTAATTAAATTA
** *
44786724 AATTAATTTCTTTAATTA
1 AATTAATTAATTAAATTA
44786742 AATTA
1 AATTA
44786747 TTTTTTCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTA
Found at i:44791586 original size:49 final size:50
Alignment explanation
Indices: 44791531--44791692 Score: 150
Period size: 50 Copynumber: 3.3 Consensus size: 50
44791521 TTCACATAGG
* * * *
44791531 ACCACACTTGTGACCAAAGCTATC-TTTCACATAGTGGCATGCACTTAGT
1 ACCACACATGTGACCAAAGCTATCGGTACACATAGTAGCATGCACTTAGT
* * * * *
44791580 ACCACACATGTGATCGAAGCTATCGGTACGCATAGTAGCCTGGACTTAGT
1 ACCACACATGTGACCAAAGCTATCGGTACACATAGTAGCATGCACTTAGT
* * * *
44791630 ACTACACATGTGACCTAA-CCATCTGGTATA-AGTAGTAGCATGCACTTAGT
1 ACCACACATGTGACCAAAGCTATC-GGTACACA-TAGTAGCATGCACTTAGT
* *
44791680 ACTACACACGTGA
1 ACCACACATGTGA
44791693 ACTAAAACCA
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 26 0.28
50 66 0.72
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
ACCACACATGTGACCAAAGCTATCGGTACACATAGTAGCATGCACTTAGT
Found at i:44800216 original size:40 final size:40
Alignment explanation
Indices: 44800118--44800380 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44800108 TCCTCGTTCA
* * * * *
44800118 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
44800157 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44800197 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44800237 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44800277 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
44800317 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44800357 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44800381 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44805777 original size:32 final size:32
Alignment explanation
Indices: 44805741--44805804 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
44805731 ATCTACGGTG
44805741 AATGGAGCTATGCTCAACATTCCCTTATCTCT
1 AATGGAGCTATGCTCAACATTCCCTTATCTCT
44805773 AATGGAGCTATGCTCAACATTCCCTTATCTCT
1 AATGGAGCTATGCTCAACATTCCCTTATCTCT
44805805 CCAACGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (32 bp):
AATGGAGCTATGCTCAACATTCCCTTATCTCT
Found at i:44825812 original size:13 final size:13
Alignment explanation
Indices: 44825794--44825819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44825784 AAGTTGATAC
44825794 ATCATTAATAAGT
1 ATCATTAATAAGT
44825807 ATCATTAATAAGT
1 ATCATTAATAAGT
44825820 TTAAAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCATTAATAAGT
Found at i:44828571 original size:71 final size:70
Alignment explanation
Indices: 44828476--44828785 Score: 181
Period size: 71 Copynumber: 4.4 Consensus size: 70
44828466 ATGTGTCCTA
* * * * *
44828476 CGCTGGTCGGTAGAACTGACAAATAAGTGTGCCTAGCAATAGTCGGCATAGCCGACAATAAATGT
1 CGCTGGTCGATAGAACTGAAAAATAACTGTGCCTAG-AATAGTCGGCATAACCGAAAATAAATGT
44828541 ACCCTG
65 ACCCTG
* * * * **
44828547 CGCTGGTCGATAGAGCTGAAAAATAACTGTGCCTAGACTGGTCGGTATAACCGAAAATAAATGCG
1 CGCTGGTCGATAGAACTGAAAAATAACTGTGCCTAGAATAGTCGGCATAACCGAAAATAAATGTA
* *
44828612 TCCTA
66 CCCTG
* * * * * * * * * * * *
44828617 CGCTGGTTGGTAGAA-TCAAAAAATAAGTATGCCCATCACTGGTCGGTATAATCGACAATAAATG
1 CGCTGGTCGATAGAACT-GAAAAATAACTGTGCCTA-GAATAGTCGGCATAACCGAAAATAAATG
* *
44828681 TGCCTTG
64 TACCCTG
* * ** * * * * * *
44828688 CGCTAGTAGATAGAACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAATCGACAATAAATG
1 CGCTGGTCGATAGAA-CTGAAAAATAACTGTGCCTAGAA-TAGTCGGCATAACCGAAAATAAATG
**
44828753 TGTCCTG
64 TACCCTG
* * * *
44828760 TGCTGGTCGGTAGAACAGACAAATAA
1 CGCTGGTCGATAGAACTGAAAAATAA
44828786 GTGATCATTC
Statistics
Matches: 191, Mismatches: 43, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
69 1 0.01
70 51 0.27
71 82 0.43
72 57 0.30
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (70 bp):
CGCTGGTCGATAGAACTGAAAAATAACTGTGCCTAGAATAGTCGGCATAACCGAAAATAAATGTA
CCCTG
Found at i:44828738 original size:72 final size:69
Alignment explanation
Indices: 44828417--44828775 Score: 259
Period size: 72 Copynumber: 5.0 Consensus size: 69
44828407 TGGCCTATAA
* * * * * * *
44828417 AACCAAAAAATGAGTATGCCTAGCACTAGTCGGTATAATCAAAAAACAAATGTGTCCTACGCTGG
1 AACCAAAAAATAAATATGCCTAG-ACTGGTCGGTATAATC-GACAATAAATGTG-CCTGCGCTGG
* *
44828482 TCGGTAG
63 TAGATAG
** * * * * * * ** *
44828489 AACTGACAAATAAGTGTGCCTAGCAATAGTCGGCATAGCCGACAATAAATGTACCCTGCGCTGGT
1 AACCAAAAAATAAATATGCCTAG-ACTGGTCGGTATAATCGACAATAAATGT-GCCTGCGCTGGT
*
44828554 CGATAG
64 AGATAG
* ** * * * * * * *
44828560 AGCTGAAAAATAACTGTGCCTAGACTGGTCGGTATAACCGAAAATAAATGCGTCCTACGCTGGTT
1 AACCAAAAAATAAATATGCCTAGACTGGTCGGTATAATCGACAATAAATGTG-CCTGCGCTGGTA
*
44828625 GGTAG
65 GATAG
* * * * *
44828630 AATCAAAAAATAAGTATGCCCATCACTGGTCGGTATAATCGACAATAAATGTGCCTTGCGCTAGT
1 AACCAAAAAATAAATATGCCTA-GACTGGTCGGTATAATCGACAATAAATGTGCC-TGCGCTGGT
44828695 AGATAG
64 AGATAG
*
44828701 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGTGCTGG
1 AACC-AAAAAATAAATATGCCTAG-ACTGGTCGGTATAATCGACAATAAATGTG-CCTGCGCTGG
* *
44828766 TCGGTAG
63 TAGATAG
44828773 AAC
1 AAC
44828776 AGACAAATAA
Statistics
Matches: 229, Mismatches: 51, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
70 53 0.23
71 84 0.37
72 90 0.39
73 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (69 bp):
AACCAAAAAATAAATATGCCTAGACTGGTCGGTATAATCGACAATAAATGTGCCTGCGCTGGTAG
ATAG
Found at i:44833415 original size:49 final size:49
Alignment explanation
Indices: 44833346--44833882 Score: 944
Period size: 49 Copynumber: 11.1 Consensus size: 49
44833336 GAAATGATAG
44833346 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
44833395 TAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833444 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833491 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833540 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833589 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833638 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833687 TAAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833737 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833784 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
44833832 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833879 TAAG
1 TAAG
44833883 TCCCGAAGGG
Statistics
Matches: 471, Mismatches: 11, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
46 5 0.01
47 96 0.20
48 35 0.07
49 286 0.61
50 49 0.10
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:44833609 original size:145 final size:145
Alignment explanation
Indices: 44833346--44833882 Score: 954
Period size: 145 Copynumber: 3.7 Consensus size: 145
44833336 GAAATGATAG
44833346 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
44833411 ATGTGATTAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44833476 AGTGTATATATGTGA
131 AGTGTATATATGTGA
44833491 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
44833556 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44833621 AGTGTATATATATGTGA
131 AGTG--TATATATGTGA
44833638 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGGCCTAATGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA-GGCCTAATGGCC
44833703 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
65 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
44833768 AAGTGTATATATGTGA
130 AAGTGTATATATGTGA
* * * * *
44833784 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
44833848 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
44833883 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
142 10 0.03
143 1 0.00
144 32 0.08
145 152 0.40
146 41 0.11
147 63 0.17
148 82 0.22
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (145 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGA
Found at i:44833675 original size:194 final size:194
Alignment explanation
Indices: 44833346--44833882 Score: 945
Period size: 194 Copynumber: 2.8 Consensus size: 194
44833336 GAAATGATAG
44833346 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
44833411 ATGTGATTAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44833476 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44833540 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
44833605 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44833670 AGTGTATATATATGTGATAAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
131 AGTG--TATATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
44833735 GA
193 GA
44833737 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
44833800 ATGTGATGAATGTG-AAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44833864 AGTGTATAAATGTGATAAG
131 AGTGTATATATGTGATAAG
44833883 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 9, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
191 1 0.00
192 13 0.04
194 180 0.54
195 41 0.12
196 14 0.04
197 82 0.25
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (194 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:44834056 original size:36 final size:37
Alignment explanation
Indices: 44834001--44834078 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
44833991 CCGAGCTCTA
* *
44834001 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44834037 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44834074 AAGAC
1 AAGAC
44834079 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44835992 original size:43 final size:43
Alignment explanation
Indices: 44835944--44836046 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
44835934 TTGGTTTTCA
44835944 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44835987 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44836030 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
44836047 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:44836063 original size:29 final size:29
Alignment explanation
Indices: 44836028--44836101 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
44836018 GTTGTGAGAT
* *
44836028 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44836057 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
44836086 TAGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44836102 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44836514 original size:39 final size:40
Alignment explanation
Indices: 44836453--44836557 Score: 124
Period size: 39 Copynumber: 2.6 Consensus size: 40
44836443 AAGTGACCAT
* * *
44836453 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTGGTACGAGATACTAA
* * *
44836493 TTCTGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTGGTACGAGATACTAA
44836532 ATCCGGGCTAAGTCCCGAAGAGCATT
1 ATCCGGGCTAAGTCCCGAAG-GCATT
44836558 CATGCTAGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.61
40 16 0.30
41 5 0.09
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTGGTACGAGATACTAA
Found at i:44836576 original size:40 final size:40
Alignment explanation
Indices: 44836532--44836728 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
44836522 GAGTTACTAA
*
44836532 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
44836572 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
44836612 ATCCGGGCTAAGTTCCGAAGATCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
44836652 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
44836692 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
44836729 CGTGTATTCG
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:44840260 original size:49 final size:49
Alignment explanation
Indices: 44840191--44840817 Score: 1093
Period size: 49 Copynumber: 13.1 Consensus size: 49
44840181 GAAATGATAG
44840191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840240 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840289 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840335 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840384 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840433 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840482 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840531 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840578 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840627 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840674 T-AGGCCTAATGGCCGATGTGATGAATGTG-AAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840719 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
44840767 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
44840814 TAAG
1 TAAG
44840818 TCCCGAAGGG
Statistics
Matches: 560, Mismatches: 9, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
45 17 0.03
46 73 0.13
47 101 0.18
48 69 0.12
49 300 0.54
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:44840992 original size:37 final size:37
Alignment explanation
Indices: 44840936--44841014 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44840926 CCGAGCTCTA
* * *
44840936 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44840973 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44841010 AAGAC
1 AAGAC
44841015 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44847058 original size:16 final size:16
Alignment explanation
Indices: 44847037--44847067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44847027 TTCATCACGA
44847037 CATAGATACATTTATG
1 CATAGATACATTTATG
*
44847053 CATAGATTCATTTAT
1 CATAGATACATTTAT
44847068 ATTAAAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (16 bp):
CATAGATACATTTATG
Found at i:44852347 original size:30 final size:30
Alignment explanation
Indices: 44852312--44852380 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
44852302 CCTAAAGAGG
* *
44852312 ACACACGGGCGCGTCGCATGCCTGTGTGTC
1 ACACACGGCCGCGTCGCATGCCTGTATGTC
**
44852342 ACACACGGCCGTTTCGCATGCCTGTATGTC
1 ACACACGGCCGCGTCGCATGCCTGTATGTC
44852372 ACACACGGC
1 ACACACGGC
44852381 TGAGACACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (30 bp):
ACACACGGCCGCGTCGCATGCCTGTATGTC
Found at i:44853404 original size:21 final size:21
Alignment explanation
Indices: 44853225--44853414 Score: 220
Period size: 21 Copynumber: 9.0 Consensus size: 21
44853215 CAAACACGCC
* * *
44853225 AACAGAAGCTCATAAAAGCTT
1 AACAGAAGCTCGTAAGAGCTG
* * *
44853246 AATAGAAGCTCGAAAGAGCCG
1 AACAGAAGCTCGTAAGAGCTG
* *
44853267 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
44853288 AACAGAAGCTTGTGAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* *
44853309 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
*
44853330 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
44853351 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
44853372 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
44853393 AACAGAAGCTCGTGAA-AGCTG
1 AACAGAAGCTCGT-AAGAGCTG
44853414 A
1 A
44853415 TCCACCCAAA
Statistics
Matches: 141, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
21 140 0.99
22 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:44853414 original size:42 final size:42
Alignment explanation
Indices: 44853225--44853403 Score: 268
Period size: 42 Copynumber: 4.3 Consensus size: 42
44853215 CAAACACGCC
* * * ** *
44853225 AACAGAAGCTCATAAAAGCTTAATAGAAGCTCGAAAGAGCCG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
* * *
44853267 AATAGAAGCTCATAAGAGCTGAACAGAAGCTTGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
*
44853309 AACAGAAGCTCATAAGAGTTGAACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
44853351 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
44853393 AACAGAAGCTC
1 AACAGAAGCTC
44853404 GTGAAAGCTG
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 123 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
Found at i:44865743 original size:40 final size:40
Alignment explanation
Indices: 44865662--44865882 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
44865652 AAACCAAGTA
** * *
44865662 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
44865701 CCTTCGGGACTTAGCCCGGTTATAGTAACTCTCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44865741 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44865781 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44865821 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
44865861 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
44865883 CAATCCGAAT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 26 0.15
40 142 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:44875605 original size:50 final size:52
Alignment explanation
Indices: 44875495--44875615 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
44875485 ATGAACAAAT
* * * *
44875495 GAGTTACTTAATGCATGACTTAATTTAATTATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
44875547 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
44875597 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
44875616 TTTATTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 29 0.47
51 10 0.16
52 23 0.37
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:44875719 original size:39 final size:39
Alignment explanation
Indices: 44875639--44875719 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
44875629 AAACACATAT
* * * *
44875639 TAATGATGTTCAAACTATGACATAATTAAATACTCACAC
1 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
44875678 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
44875717 TAA
1 TAA
44875720 AATAACTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (39 bp):
TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
Found at i:44875728 original size:9 final size:9
Alignment explanation
Indices: 44875714--44875747 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44875704 TAAAGACACA
44875714 AACTAAAAT
1 AACTAAAAT
*
44875723 AACTAAAGT
1 AACTAAAAT
44875732 AACTAAAAT
1 AACTAAAAT
*
44875741 AAATAAA
1 AACTAAA
44875748 TCGAAGTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (9 bp):
AACTAAAAT
Found at i:44878030 original size:21 final size:21
Alignment explanation
Indices: 44878006--44878047 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44877996 TCATCAGATC
*
44878006 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
44878027 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
44878048 AGGTGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:44880224 original size:29 final size:30
Alignment explanation
Indices: 44880181--44880239 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
44880171 ATTTAATACG
*
44880181 AACTTTGGCAAAATTACA-TTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
44880210 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
44880240 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:44883554 original size:25 final size:25
Alignment explanation
Indices: 44883519--44883568 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
44883509 GAAATTGGGA
44883519 AAATTTATATTTAAGACCTTCTCAT
1 AAATTTATATTTAAGACCTTCTCAT
*
44883544 AAATTTCTATTTAAGACCTTCTCAT
1 AAATTTATATTTAAGACCTTCTCAT
44883569 TTATAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATTTATATTTAAGACCTTCTCAT
Found at i:44888091 original size:11 final size:11
Alignment explanation
Indices: 44888072--44888101 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44888062 AAAGTAAATA
*
44888072 TATAGTTCATT
1 TATACTTCATT
44888083 TATACTTCATT
1 TATACTTCATT
44888094 TATACTTC
1 TATACTTC
44888102 TTGTGCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (11 bp):
TATACTTCATT
Found at i:44891832 original size:21 final size:21
Alignment explanation
Indices: 44891789--44891860 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
44891779 TCGAAAGAGC
* *
44891789 TAAACGGAAACCCAT-TAGGGT
1 TAAACGGAAACTCATGT-GAGT
44891810 TAAACGGAAACTCATGTGAGT
1 TAAACGGAAACTCATGTGAGT
* * * *
44891831 T-AACTGAAGCTCATGAGAGC
1 TAAACGGAAACTCATGTGAGT
44891851 TAAACGGAAA
1 TAAACGGAAA
44891861 GAAAACTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.39
21 24 0.59
22 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (21 bp):
TAAACGGAAACTCATGTGAGT
Found at i:44892983 original size:21 final size:21
Alignment explanation
Indices: 44892959--44893000 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44892949 CTTTTTAATT
*
44892959 AATTGACTATCGAAACGTTAA
1 AATTGACTAACGAAACGTTAA
* *
44892980 AATTTACTAACGAAACTTTAA
1 AATTGACTAACGAAACGTTAA
44893001 TACTAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (21 bp):
AATTGACTAACGAAACGTTAA
Found at i:44896210 original size:11 final size:11
Alignment explanation
Indices: 44896196--44896220 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44896186 CTTGTAAGAT
44896196 TCTTTATTTTG
1 TCTTTATTTTG
44896207 TCTTTATTTTG
1 TCTTTATTTTG
44896218 TCT
1 TCT
44896221 ATCTCGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (11 bp):
TCTTTATTTTG
Found at i:44901327 original size:21 final size:19
Alignment explanation
Indices: 44901279--44901327 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
44901269 GAGTACATCG
*
44901279 TAAACAGAAGCCCAAAGGC
1 TAAACAGAAGCACAAAGGC
**
44901298 TGCACAGAAGCACATAAGTGC
1 TAAACAGAAGCACA-AAG-GC
44901319 TAAACAGAA
1 TAAACAGAA
44901328 ACCCGTAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 11 0.48
20 3 0.13
21 9 0.39
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.10
Consensus pattern (19 bp):
TAAACAGAAGCACAAAGGC
Found at i:44902931 original size:23 final size:23
Alignment explanation
Indices: 44902901--44902946 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44902891 CAATTCATAG
44902901 ATTAAGCATAAATCATTATCAAT
1 ATTAAGCATAAATCATTATCAAT
44902924 ATTAAGCATAAATCATTATCAAT
1 ATTAAGCATAAATCATTATCAAT
44902947 GCCATGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
ATTAAGCATAAATCATTATCAAT
Found at i:44902984 original size:39 final size:40
Alignment explanation
Indices: 44902932--44903065 Score: 104
Period size: 39 Copynumber: 3.4 Consensus size: 40
44902922 ATATTAAGCA
*
44902932 TAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATT
1 TAAATCATCATCAATGCCATGAGCTTAGTATAAGCCTATT
* *
44902972 TAAA-CATCATCAA-GCTCAAATGTCA-TTATCAATATTAAG-C-A--
1 TAAATCATCATCAATGC-C--ATG--AGCT-T-AGTA-TAAGCCTATT
*
44903013 TAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATT
1 TAAATCATCATCAATGCCATGAGCTTAGTATAAGCCTATT
44903053 TAAA-CATCATCAA
1 TAAATCATCATCAA
44903066 GCTCAATTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 31
0.65 0.06 0.28
Matches are distributed among these distances:
36 4 0.06
37 4 0.06
38 5 0.07
39 18 0.25
40 11 0.15
41 7 0.10
42 10 0.14
43 5 0.07
44 4 0.06
45 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (40 bp):
TAAATCATCATCAATGCCATGAGCTTAGTATAAGCCTATT
Found at i:44903048 original size:81 final size:81
Alignment explanation
Indices: 44902913--44903071 Score: 318
Period size: 81 Copynumber: 2.0 Consensus size: 81
44902903 TAAGCATAAA
44902913 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
1 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
44902978 TCATCAAGCTCAAATG
66 TCATCAAGCTCAAATG
44902994 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
1 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
44903059 TCATCAAGCTCAA
66 TCATCAAGCTCAA
44903072 TTGTTAGTAG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
TCATCAAGCTCAAATG
Found at i:44907267 original size:30 final size:31
Alignment explanation
Indices: 44907201--44907273 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
44907191 AAAATTTGTT
* * *
44907201 ATTTTAGTCACTCTTGTTAGATAAGCTGTCA
1 ATTTTAGTCACTCTTATTAAATAAGCTATCA
*
44907232 ATTTTAGTCACTCTTATTAAATAAGTTAT-A
1 ATTTTAGTCACTCTTATTAAATAAGCTATCA
*
44907262 ATTTTATTCACT
1 ATTTTAGTCACT
44907274 ATATGGTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTTTAGTCACTCTTATTAAATAAGCTATCA
Found at i:44908108 original size:16 final size:16
Alignment explanation
Indices: 44908067--44908101 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
44908057 AATGATCAAT
*
44908067 TAAAGTCAAACTTATA
1 TAAAGTCAAACATATA
44908083 TAAAGTCAAACATATA
1 TAAAGTCAAACATATA
44908099 TAA
1 TAA
44908102 GCTCAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAAGTCAAACATATA
Found at i:44909002 original size:31 final size:31
Alignment explanation
Indices: 44908931--44909010 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
44908921 TTTAAAGGTA
* *
44908931 AAGTGACTAAAATTGACTACTCATCTAATGG
1 AAGTGACTAAAATTAACAACTCATCTAATGG
* *
44908962 AAGTAACTAAAATTAACAACTTATCTAACAT-G
1 AAGTGACTAAAATTAACAACTCATCT-A-ATGG
44908994 -AGTGACTAAAA-TAACAA
1 AAGTGACTAAAATTAACAA
44909011 TTTTTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 6 0.14
31 32 0.76
32 2 0.05
33 2 0.05
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (31 bp):
AAGTGACTAAAATTAACAACTCATCTAATGG
Found at i:44920533 original size:22 final size:21
Alignment explanation
Indices: 44920503--44920546 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
44920493 TTTTGCCCCC
44920503 ACTTAAGCAATCACATATGATT
1 ACTTAAGCAATCACATAT-ATT
*
44920525 ACTTGAGCAATCACATATATT
1 ACTTAAGCAATCACATATATT
44920546 A
1 A
44920547 AACTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (21 bp):
ACTTAAGCAATCACATATATT
Found at i:44925552 original size:21 final size:21
Alignment explanation
Indices: 44925528--44925597 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
44925518 GAAAAATACT
44925528 AGGTGGGTTCGGGACTATTCC
1 AGGTGGGTTCGGGACTATTCC
** * * ** * *
44925549 AGGTGGGCCCAGAAAAATACT
1 AGGTGGGTTCGGGACTATTCC
44925570 AGGTGGGTTCGGGACTATTCC
1 AGGTGGGTTCGGGACTATTCC
*
44925591 GGGTGGG
1 AGGTGGG
44925598 CCTGGAAATA
Statistics
Matches: 32, Mismatches: 17, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (21 bp):
AGGTGGGTTCGGGACTATTCC
Found at i:44925577 original size:42 final size:42
Alignment explanation
Indices: 44925518--44925640 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
44925508 GGAGGGCTTG
*
44925518 GAAAAATACTAGGTGGGTTCGGGACTATTCCAGGTGGGCCCA
1 GAAAAATACTAGGTGGGTTCGGGACTATTCCGGGTGGGCCCA
**
44925560 GAAAAATACTAGGTGGGTTCGGGACTATTCCGGGTGGGCCTG
1 GAAAAATACTAGGTGGGTTCGGGACTATTCCGGGTGGGCCCA
* * * * * *
44925602 GAAATATAATCGGCGGGTTTGGAACTATTCCGGGTGGGC
1 GAAAAATACTAGGTGGGTTCGGGACTATTCCGGGTGGGC
44925641 TTGGTGGTGG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.24
Consensus pattern (42 bp):
GAAAAATACTAGGTGGGTTCGGGACTATTCCGGGTGGGCCCA
Found at i:44925644 original size:21 final size:21
Alignment explanation
Indices: 44925583--44925644 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
44925573 TGGGTTCGGG
*
44925583 ACTATTCCGGGTGGGCCTGGA
1 ACTATTCCGGGTGGGCTTGGA
* * *
44925604 AATATAAT-C-GGCGGGTTTGGA
1 ACTAT--TCCGGGTGGGCTTGGA
44925625 ACTATTCCGGGTGGGCTTGG
1 ACTATTCCGGGTGGGCTTGG
44925645 TGGTGGGCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 26 0.87
22 1 0.03
23 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.27
Consensus pattern (21 bp):
ACTATTCCGGGTGGGCTTGGA
Found at i:44929020 original size:36 final size:36
Alignment explanation
Indices: 44928980--44929051 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
44928970 GAATAGTTAG
44928980 TACAATTTTAAACTTGAAATCAGAAAGATAAGTAAC
1 TACAATTTTAAACTTGAAATCAGAAAGATAAGTAAC
44929016 TACAATTTTAAACTTGAAATCAGAAAGATAAGTAAC
1 TACAATTTTAAACTTGAAATCAGAAAGATAAGTAAC
44929052 AACTCTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (36 bp):
TACAATTTTAAACTTGAAATCAGAAAGATAAGTAAC
Found at i:44932477 original size:13 final size:13
Alignment explanation
Indices: 44932459--44932483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44932449 TTTTTGTAAA
44932459 AGTTGTAAAAATG
1 AGTTGTAAAAATG
44932472 AGTTGTAAAAAT
1 AGTTGTAAAAAT
44932484 CTGAATTGAA
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
AGTTGTAAAAATG
Found at i:44933024 original size:48 final size:48
Alignment explanation
Indices: 44932959--44933095 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 48
44932949 GGATATGTGT
*
44932959 GATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
* * *
44933007 GA-CATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
* * * *
44933055 GATCCCATGTAAGACCATATCTGGAATATGGCATTGACATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
44933096 CTACTATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
Found at i:44936730 original size:39 final size:39
Alignment explanation
Indices: 44936663--44936841 Score: 268
Period size: 39 Copynumber: 4.5 Consensus size: 39
44936653 ACAAAGCATG
* *
44936663 CGGGACTTTAAGCCCGAATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
44936704 CGGGGCTTAGCCCAGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
44936743 CGGGGCTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44936782 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
44936821 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
44936842 TTCTCCATTA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 119 0.94
40 2 0.02
41 5 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:44941287 original size:40 final size:40
Alignment explanation
Indices: 44941232--44941452 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
44941222 TATTCGAATG
* *
44941232 ATATCCGGGCTAAGTCTCGAAGGTATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
44941272 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
44941312 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
44941352 AT-TCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
44941391 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
44941431 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44941453 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 45 0.27
40 119 0.73
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:44941410 original size:79 final size:80
Alignment explanation
Indices: 44941232--44941442 Score: 286
Period size: 79 Copynumber: 2.7 Consensus size: 80
44941222 TATTCGAATG
* * * **
44941232 ATATCCGGGCTAAGTCTCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
*
44941297 TTTGTGCTAGTGACT
66 TTTGTGCGAGTGACT
* *
44941312 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACTAT-TCCGGGCTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
44941376 TTTGTGCGAGTTG-CT
66 TTTGTGCGAG-TGACT
* *
44941391 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATG-CTATATCC-GGCTAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
44941443 ATCCCGAAGG
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 71 0.61
80 45 0.39
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
TTTGTGCGAGTGACT
Found at i:44942760 original size:36 final size:36
Alignment explanation
Indices: 44942720--44942789 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
44942710 ATGTGTTTGT
44942720 TTATAGTAATGGATCCCGATCCCAACCGAGCGGTTG
1 TTATAGTAATGGATCCCGATCCCAACCGAGCGGTTG
44942756 TTATAGTAATGGATCCCGATCCCAACCGAGCGGT
1 TTATAGTAATGGATCCCGATCCCAACCGAGCGGT
44942790 AGCTGATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (36 bp):
TTATAGTAATGGATCCCGATCCCAACCGAGCGGTTG
Found at i:44949238 original size:40 final size:40
Alignment explanation
Indices: 44949183--44949404 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
44949173 TATTAGAATG
44949183 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
44949223 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
44949263 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
44949303 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
44949343 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TGACT
*
44949383 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44949405 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 151 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:44950972 original size:18 final size:18
Alignment explanation
Indices: 44950945--44950988 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44950935 TTCTCTTTTC
* **
44950945 CTTTTCCTTTTTTGATTT
1 CTTTTTCTTTTTCAATTT
44950963 CTTTTTCTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
44950981 ATTTTTCT
1 CTTTTTCT
44950989 CTCATTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:44958742 original size:18 final size:18
Alignment explanation
Indices: 44958719--44958755 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44958709 TGATGGGCAT
44958719 ACCATAGAGCTAGAATCG
1 ACCATAGAGCTAGAATCG
44958737 ACCATAGAGCTAGAATCG
1 ACCATAGAGCTAGAATCG
44958755 A
1 A
44958756 GGCAAGATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (18 bp):
ACCATAGAGCTAGAATCG
Found at i:44961714 original size:79 final size:81
Alignment explanation
Indices: 44961612--44961796 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
44961602 GCTCCTCGTT
* *
44961612 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
44961674 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
44961692 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
44961756 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
44961772 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44961797 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:44961796 original size:40 final size:40
Alignment explanation
Indices: 44961612--44961796 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
44961602 GCTCCTCGTT
* * *
44961612 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
44961652 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
44961692 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
44961731 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
44961772 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44961797 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:44970675 original size:26 final size:25
Alignment explanation
Indices: 44970620--44970668 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
44970610 TCCCATCCCT
44970620 ATTTTACCCTATCAAAATTTTGACA
1 ATTTTACCCTATCAAAATTTTGACA
44970645 ATTTTACCTCTAGT-AAAATTTTGA
1 ATTTTACC-CTA-TCAAAATTTTGA
44970669 TGATTTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (25 bp):
ATTTTACCCTATCAAAATTTTGACA
Found at i:44972124 original size:48 final size:48
Alignment explanation
Indices: 44972050--44972195 Score: 204
Period size: 48 Copynumber: 3.0 Consensus size: 48
44972040 TAAGGTTATG
*
44972050 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGAATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
* *
44972098 TGTGATCCCATGTAAGATCATATTTGGGACATGGCATTGGCAT-GAATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCG-ATA
* * * * *
44972146 TTTGATCCCATGTAAGACCATATCTGAGATATGGCATTGGTATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
44972194 TG
1 TG
44972196 AGACATCGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 84 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
Found at i:44975801 original size:51 final size:50
Alignment explanation
Indices: 44975746--44975893 Score: 174
Period size: 49 Copynumber: 3.0 Consensus size: 50
44975736 TGTAGACAAG
* * *
44975746 GTTATCTGATATGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 GTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * *
44975797 GTTAT-TGGGTACGCATAGTAGACTGCACTTAGTACTACGCATGCGACCAA
1 GTTATCT-GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
44975847 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
44975894 TCACAATAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 39 0.48
50 4 0.05
51 38 0.47
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (50 bp):
GTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:44982212 original size:43 final size:42
Alignment explanation
Indices: 44982057--44982213 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
44982047 TGTGTTATCG
* * * **
44982057 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-A-TATTTGA-TTACA
* * *
44982101 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
* *
44982143 TGTAAGACC-CTCTCTAGGACAG-TGGCATCTATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTACA
44982186 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
44982214 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 38 0.40
44 29 0.31
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:44983201 original size:22 final size:22
Alignment explanation
Indices: 44983174--44983225 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
44983164 AGGGTCACAT
44983174 GCCCGTGTGGACACAGGGGCAC
1 GCCCGTGTGGACACAGGGGCAC
44983196 GCCCGTGTGGACACAGGGGCAC
1 GCCCGTGTGGACACAGGGGCAC
44983218 GCCCGTGT
1 GCCCGTGT
44983226 CCTTAGGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.33, G:0.40, T:0.12
Consensus pattern (22 bp):
GCCCGTGTGGACACAGGGGCAC
Found at i:44984841 original size:22 final size:22
Alignment explanation
Indices: 44984791--44984841 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
44984781 CATCATAATA
44984791 GTATCATATAACATAAATGAGT
1 GTATCATATAACATAAATGAGT
*
44984813 GTGTCATATAACATAAATGAGT
1 GTATCATATAACATAAATGAGT
*
44984835 TTATCAT
1 GTATCAT
44984842 GGCAAGAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCATATAACATAAATGAGT
Found at i:44987227 original size:24 final size:25
Alignment explanation
Indices: 44987150--44987240 Score: 148
Period size: 25 Copynumber: 3.7 Consensus size: 25
44987140 AGGAAGTGCT
*
44987150 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
44987175 AAAAAGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
44987200 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
44987224 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
44987241 ATTATTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 17 0.27
25 45 0.73
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:44987256 original size:24 final size:24
Alignment explanation
Indices: 44987150--44987256 Score: 108
Period size: 25 Copynumber: 4.4 Consensus size: 24
44987140 AGGAAGTGCT
* * *
44987150 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGATTATC
* * *
44987174 GAAAAAGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
44987199 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
44987224 AAAAGGGCTTTGCCCCA-ATTATT
1 AAAAGGGCTTTGCCCCAGATTATC
44987247 AAAAGAGGCT
1 AAAAG-GGCT
44987257 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.12
24 21 0.28
25 45 0.60
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:44988929 original size:47 final size:46
Alignment explanation
Indices: 44988817--44988943 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
44988807 ATTCATGTGT
*
44988817 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATGATGA
* * *
44988863 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-AGCAT-TGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACCATATGATGA
44988908 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCATC
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATC
44988944 GGCCTCGAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 2 0.03
46 22 0.31
47 30 0.43
48 16 0.23
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATGATGA
Found at i:44989014 original size:46 final size:46
Alignment explanation
Indices: 44988916--44989087 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
44988906 GACGAGGGCT
*
44988916 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
44988962 AATGTAAAACATGTCTGGGACATGCATCGG-CTACGAGATG-ATAGTC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
* * * * * * *
44989008 AGTGTAAGACCATGTTTGGGACATAACATC-GACTTGAGATATGAGCC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
** *
44989055 AGTGTAAGAATGTGTCTAGGACATGGCATCGGC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGC
44989088 ACTTTAACCT
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 3 0.03
46 44 0.44
47 46 0.46
48 7 0.07
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Done.