Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1355
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: 343905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:153650 original size:27 final size:27
Alignment explanation
Indices: 153601--153655 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
153591 TTTAAATGTT
*
153601 TAGTAATAATATATAGTCAATATTATTA
1 TAGTAATAATATATAGT-AATATAATTA
*
153629 TAGTTATATATATATAGT-ATATAATTA
1 TAGTAATA-ATATATAGTAATATAATTA
153656 ATGCATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 7 0.29
29 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (27 bp):
TAGTAATAATATATAGTAATATAATTA
Found at i:154152 original size:19 final size:18
Alignment explanation
Indices: 154130--154165 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
154120 TTTGTGTCCA
*
154130 TAATTTAAATTTGGATAAG
1 TAATGTAAATTT-GATAAG
154149 TAATGTAAATTTGATAA
1 TAATGTAAATTTGATAA
154166 TGAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (18 bp):
TAATGTAAATTTGATAAG
Found at i:154265 original size:19 final size:21
Alignment explanation
Indices: 154241--154283 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
154231 ATTCGTGTTC
154241 ATAATACAAATTT-A-AATAA
1 ATAATACAAATTTGATAATAA
*
154260 ATAATATAAATTTGATAATAA
1 ATAATACAAATTTGATAATAA
154281 ATA
1 ATA
154284 TCTAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAATACAAATTTGATAATAA
Found at i:154270 original size:112 final size:112
Alignment explanation
Indices: 154065--154284 Score: 307
Period size: 112 Copynumber: 2.0 Consensus size: 112
154055 CAAGGTTCAA
* * * *
154065 CTTTCATGCTTAGATAAATTTTTAATACTTTAAAAAAGTAGATATAAATTTGCTATTTGTGTCCA
1 CTTTCACGCTTAGATAAATTTTTAAAACTTTAAAAAAGTAGATATAAATTTACTATTCGTGTCCA
** ** * * *
154130 TAATTTAAATTTGGATAAGTAATGTAAATTTGATAATGAATATTAAC
66 TAATACAAATTTAAATAAATAATATAAATTTGATAATAAATATTAAC
* *
154177 CTTTCACGTTTAGCATAAA-TTTTAAAACTTTAAAAAAGTAGATATAAATTTACTATTCGTGTTC
1 CTTTCACGCTTAG-ATAAATTTTTAAAACTTTAAAAAAGTAGATATAAATTTACTATTCGTGTCC
154241 ATAATACAAATTTAAATAAATAATATAAATTTGATAATAAATAT
65 ATAATACAAATTTAAATAAATAATATAAATTTGATAATAAATAT
154285 CTAAATATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 89 0.95
113 5 0.05
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (112 bp):
CTTTCACGCTTAGATAAATTTTTAAAACTTTAAAAAAGTAGATATAAATTTACTATTCGTGTCCA
TAATACAAATTTAAATAAATAATATAAATTTGATAATAAATATTAAC
Found at i:157291 original size:21 final size:22
Alignment explanation
Indices: 157266--157322 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
157256 TGAAACATGC
*
157266 ATTGTATCGATACAAG-GTCAT
1 ATTGTATCGATACAAGTGCCAT
157287 ATTGTATCGATAC-AGTGCCAT
1 ATTGTATCGATACAAGTGCCAT
157308 ATTGTATCGATACAA
1 ATTGTATCGATACAA
157323 TGTCGCGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.91
22 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (22 bp):
ATTGTATCGATACAAGTGCCAT
Found at i:160433 original size:59 final size:59
Alignment explanation
Indices: 160343--160858 Score: 257
Period size: 59 Copynumber: 8.8 Consensus size: 59
160333 TCCATATATG
* * **
160343 TTAGGTCATTTT-TCATAATCTAAAGACTTTTATGCAATTTCATGCATTTTGGGGGGTCAT
1 TTAGGTCATTTTCT-ATGATCTAGAGACTTTTATGCAATTTCATGCATTTT-TAGGGTCAT
* * * * *
160403 TTAGTTCATTTTCTATGATCTAGAGA-TTTTATGCAAATTCCATG--TGTGTT-GGGTTAA
1 TTAGGTCATTTTCTATGATCTAGAGACTTTTATGC-AATTTCATGCAT-TTTTAGGGTCAT
* * *** ** * *
160460 TTA-GTCATTTTCCATAATCT-GAAGACTTTTATATGATTTTGTGCTTTTTTAGAGTCAT
1 TTAGGTCATTTTCTATGATCTAG-AGACTTTTATGCAATTTCATGCATTTTTAGGGTCAT
* * * * * * * *
160518 TTAGGACATTTTCAATGATCTAG-GATTTTTATACAAATTCCATGTA-TGTT-GGGCCAT
1 TTAGGTCATTTTCTATGATCTAGAGACTTTTATGC-AATTTCATGCATTTTTAGGGTCAT
* ** *
160575 TTATGTCATTTT-TCATGATCTAGAGACTTTTATGCAATTTCATAAATTTTTAAGGTCAT
1 TTAGGTCATTTTCT-ATGATCTAGAGACTTTTATGCAATTTCATGCATTTTTAGGGTCAT
* * * * *
160634 TTAGGTCATGTTCCATGATCTAGATATTTTTATGCAATTTCATGCCTTTTTAGGGTCAT
1 TTAGGTCATTTTCTATGATCTAGAGACTTTTATGCAATTTCATGCATTTTTAGGGTCAT
** * * * * * *
160693 TTAAAT-AATTTCTCATAATCTA-AGGATTTTTATACAAATTTCAT--ATATGTTAGAGTCAT
1 TTAGGTCATTTTCT-ATGATCTAGA-GACTTTTATGC-AATTTCATGCAT-TTTTAGGGTCAT
* * * *
160752 TTAGATTATTTTTCT-TGATCTA-AGGACTTTTAAGCAAATTTCAT--ATATGTT-GGGTCAT
1 TTAGGTCA-TTTTCTATGATCTAGA-GACTTTTATGC-AATTTCATGCAT-TTTTAGGGTCAT
* * * * *
160810 TTA-GTTATTTGTCTATGATTTATG-GACTTCTATGCAATTTTATGTATTT
1 TTAGGTCATTT-TCTATGATCTA-GAGACTTTTATGCAATTTCATGCATTT
160859 GGATATTATG
Statistics
Matches: 349, Mismatches: 79, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
55 1 0.00
56 25 0.07
57 62 0.18
58 64 0.18
59 152 0.44
60 39 0.11
61 6 0.02
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (59 bp):
TTAGGTCATTTTCTATGATCTAGAGACTTTTATGCAATTTCATGCATTTTTAGGGTCAT
Found at i:160539 original size:115 final size:116
Alignment explanation
Indices: 160398--160607 Score: 291
Period size: 115 Copynumber: 1.8 Consensus size: 116
160388 ATTTTGGGGG
** * * * **
160398 GTCATTTAGTTCATTTTCTATGATCTAGAGA-TTTTATGCAAATTCCATGTGTGTTGGGTTAATT
1 GTCATTTAGGACATTTTCAATGATCTAG-GATTTTTATACAAATTCCATGTATGTTGGGCCAATT
160462 A-GTCATTTTCCATAATCT-GAAGACTTTTATATGATTTTGTGCTTTTTTAGA
65 ATGTCATTTTCCATAATCTAG-AGACTTTTATATGATTTTGTGCTTTTTTAGA
*
160513 GTCATTTAGGACATTTTCAATGATCTAGGATTTTTATACAAATTCCATGTATGTTGGGCCATTTA
1 GTCATTTAGGACATTTTCAATGATCTAGGATTTTTATACAAATTCCATGTATGTTGGGCCAATTA
* *
160578 TGTCATTTTTCATGATCTAGAGACTTTTAT
66 TGTCATTTTCCATAATCTAGAGACTTTTAT
160608 GCAATTTCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 2 0.02
115 54 0.66
116 25 0.30
117 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.46
Consensus pattern (116 bp):
GTCATTTAGGACATTTTCAATGATCTAGGATTTTTATACAAATTCCATGTATGTTGGGCCAATTA
TGTCATTTTCCATAATCTAGAGACTTTTATATGATTTTGTGCTTTTTTAGA
Found at i:160652 original size:116 final size:115
Alignment explanation
Indices: 160347--160666 Score: 331
Period size: 116 Copynumber: 2.8 Consensus size: 115
160337 TATATGTTAG
* * *** *
160347 GTCATTTTTCATAATCTAAAGACTTTTATGCAATTTCATGCATTTTGGGGGGTCATTTAGTTCAT
1 GTCATTTTTCATAATCTAGAGACTTTTATGCAATTTCAT-AATTTT-TAAGGTCATTTAGGTCAT
* * * **
160412 TTTCTATGATCTAGAGA-TTTTATGCAAATTCCATGTGTGTTGGGTTAATTA
64 TTTCAATGATCTAGAGATTTTTATACAAATTCCATGTATGTTGGGCCAATTA
* *** ** ** * *
160463 GTCATTTTCCATAATCT-GAAGACTTTTATATGATTTTGTGCTTTTTTAGAGTCATTTAGGACAT
1 GTCATTTTTCATAATCTAG-AGACTTTTATGCAATTTCATAATTTTTAAG-GTCATTTAGGTCAT
*
160527 TTTCAATGATCTAG-GATTTTTATACAAATTCCATGTATGTTGGGCCATTTA
64 TTTCAATGATCTAGAGATTTTTATACAAATTCCATGTATGTTGGGCCAATTA
*
160578 TGTCATTTTTCATGATCTAGAGACTTTTATGCAATTTCATAAATTTTTAAGGTCATTTAGGTCAT
1 -GTCATTTTTCATAATCTAGAGACTTTTATGCAATTTCAT-AATTTTTAAGGTCATTTAGGTCAT
* * *
160643 GTTCCATGATCTAGATATTTTTAT
64 TTTCAATGATCTAGAGATTTTTAT
160667 GCAATTTCAT
Statistics
Matches: 163, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
114 3 0.02
115 58 0.36
116 86 0.53
117 16 0.10
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (115 bp):
GTCATTTTTCATAATCTAGAGACTTTTATGCAATTTCATAATTTTTAAGGTCATTTAGGTCATTT
TCAATGATCTAGAGATTTTTATACAAATTCCATGTATGTTGGGCCAATTA
Found at i:162428 original size:20 final size:20
Alignment explanation
Indices: 162399--162451 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
162389 ATCTAGGGAC
162399 TTTT-ATGTCATTTCATACA
1 TTTTGATGTCATTTCATACA
*
162418 TTTTGATGTCATTTCATGCA
1 TTTTGATGTCATTTCATACA
162438 TTTTGATGTCATTT
1 TTTTGATGTCATTT
162452 AGGTTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTGATGTCATTTCATACA
Found at i:162499 original size:78 final size:78
Alignment explanation
Indices: 162359--162509 Score: 189
Period size: 78 Copynumber: 1.9 Consensus size: 78
162349 TAATTTTGTG
* ***
162359 ATTTTGATGCCATTTAGGTAATTTTTCATGATCTAGGGACTTTTATGTCATTTCATACATTTTGA
1 ATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTCATTTCATACATTTTGA
*
162424 TGTCATTTCATGC
66 TATCATTTCATGC
* * **
162437 ATTTTGATGTCATTTAGGTTATTTTCCATGATCTAGGGACTCAGATG-CAATTTTGTGA-ATTTT
1 ATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTC-ATTTCAT-ACATTTT
162500 GATATCATTT
64 GATATCATTT
162510 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.02
78 60 0.97
79 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.47
Consensus pattern (78 bp):
ATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTCATTTCATACATTTTGA
TATCATTTCATGC
Found at i:162519 original size:78 final size:77
Alignment explanation
Indices: 162351--162519 Score: 173
Period size: 78 Copynumber: 2.2 Consensus size: 77
162341 CTTAGATGTA
* * ***
162351 ATTTTGTGATTTTGATGCCATTTAGGTAATTTTTCATGATCTAGGGACTTTTATGTCATTTCATA
1 ATTTTGTAATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTCATTTCATA
*
162416 CATTTTGATGTC
66 CATTTTGATATC
* * * *
162428 ATTTCATG-CATTTTGATGTCATTTAGGTTATTTTCCATGATCTAGGGACTCAGATG-CAATTTT
1 ATTT--TGTAATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTC-ATTTC
*
162491 GTGA-ATTTTGATATC
63 AT-ACATTTTGATATC
162506 ATTTTGGTAATTTT
1 ATTTT-GTAATTTT
162520 TCATGATCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
76 1 0.01
77 6 0.08
78 65 0.87
79 3 0.04
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (77 bp):
ATTTTGTAATTTTGATGCCATTTAGGTAATTTTCCATGATCTAGGGACTCAGATGTCATTTCATA
CATTTTGATATC
Found at i:162560 original size:58 final size:57
Alignment explanation
Indices: 162418--162659 Score: 214
Period size: 58 Copynumber: 4.2 Consensus size: 57
162408 ATTTCATACA
* * *
162418 TTTTGATGTCATTTCATGCATTTTGATGTCATTTAGGTTATTTTCCATGATCTAGGGAC
1 TTTT-ATGTAATTTCATGCATATTGATGTCATTTAGGTTATTTT-CATGATCTAAGGAC
*** * ** * * * * *
162477 TCAGATGCAATTTTGTGAATTTTGATATCATTTTGGTAATTTTTCATGATCTAAGGAC
1 TTTTATGTAATTTCATGCATATTGATGTCATTTAGGTTA-TTTTCATGATCTAAGGAC
** * * * *
162535 TTTTATGTTTTTTCATGCATATTGATGTCATTTAAGTTATTTTCATGATTTAATGAT
1 TTTTATGTAATTTCATGCATATTGATGTCATTTAGGTTATTTTCATGATCTAAGGAC
* * * * * *
162592 TTTTATATAATTTGATGTATATTGAGGTCATTTAGGTTACTTTTCATAATCTAGGGAC
1 TTTTATGTAATTTCATGCATATTGATGTCATTTAGGTTA-TTTTCATGATCTAAGGAC
162650 TTTTATGTAA
1 TTTTATGTAA
162660 ATTTTTATAT
Statistics
Matches: 139, Mismatches: 42, Indels: 5
0.75 0.23 0.03
Matches are distributed among these distances:
57 47 0.34
58 87 0.63
59 5 0.04
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (57 bp):
TTTTATGTAATTTCATGCATATTGATGTCATTTAGGTTATTTTCATGATCTAAGGAC
Found at i:162561 original size:136 final size:135
Alignment explanation
Indices: 162293--162567 Score: 415
Period size: 136 Copynumber: 2.0 Consensus size: 135
162283 CATTCATATG
* * *
162293 ATTTCTTGCATTTTGATGTCATTTAGATCATTTACCATGATCTAGGGACTTAGATGTAATTTTGT
1 ATTTCATGCATTTTGATGTCATTTAGATCATTTACCATGATCTAGGGACTCAGATGCAATTTTGT
* * *
162358 GATTTTGATGCCATTTAGGTAATTTTTCATGATCTAGGGACTTTTATGTCATTTCATACATTTTG
66 GATTTTGATACCATTTAGGTAATTTTTCATGATCTAAGGACTTTTATGTCATTTCATACATATTG
162423 ATGTC
131 ATGTC
* * *
162428 ATTTCATGCATTTTGATGTCATTTAGGTTATTTTCCATGATCTAGGGACTCAGATGCAATTTTGT
1 ATTTCATGCATTTTGATGTCATTTAGATCATTTACCATGATCTAGGGACTCAGATGCAATTTTGT
* * ** *
162493 GAATTTTGATATCATTTTGGTAATTTTTCATGATCTAAGGACTTTTATGTTTTTTCATGCATATT
66 G-ATTTTGATACCATTTAGGTAATTTTTCATGATCTAAGGACTTTTATGTCATTTCATACATATT
162558 GATGTC
130 GATGTC
162564 ATTT
1 ATTT
162568 AAGTTATTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
135 60 0.48
136 65 0.52
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (135 bp):
ATTTCATGCATTTTGATGTCATTTAGATCATTTACCATGATCTAGGGACTCAGATGCAATTTTGT
GATTTTGATACCATTTAGGTAATTTTTCATGATCTAAGGACTTTTATGTCATTTCATACATATTG
ATGTC
Found at i:162597 original size:57 final size:58
Alignment explanation
Indices: 162517--162655 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 58
162507 TTTTGGTAAT
* ** *
162517 TTTTCATGATCTAAGGACTTTTATGTTTTTTCATGCATATTGATGTCATTTAAGTTA-
1 TTTTCATGATCTAAGGACTTTTATATAATTTCATGCATATTGAGGTCATTTAAGTTAC
* * * * * *
162574 TTTTCATGATTTAATGATTTTTATATAATTTGATGTATATTGAGGTCATTTAGGTTAC
1 TTTTCATGATCTAAGGACTTTTATATAATTTCATGCATATTGAGGTCATTTAAGTTAC
* *
162632 TTTTCATAATCTAGGGACTTTTAT
1 TTTTCATGATCTAAGGACTTTTAT
162656 GTAAATTTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
57 47 0.71
58 19 0.29
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (58 bp):
TTTTCATGATCTAAGGACTTTTATATAATTTCATGCATATTGAGGTCATTTAAGTTAC
Found at i:164612 original size:12 final size:12
Alignment explanation
Indices: 164594--164623 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
164584 AAAAAATCAA
164594 ATAAAAAAATATT
1 ATAAAAAAAT-TT
164607 ATAAAAAAATTT
1 ATAAAAAAATTT
164619 ATAAA
1 ATAAA
164624 GGTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAAAAAATTT
Found at i:165001 original size:25 final size:24
Alignment explanation
Indices: 164973--165029 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
164963 AGATTTATAT
164973 ATTTGATAAGATTATTAAAAATAAA
1 ATTTGAT-AGATTATTAAAAATAAA
* * * *
164998 ATTTCGATAGCTTTTTAAAATTTAA
1 ATTT-GATAGATTATTAAAAATAAA
165023 ATTTGAT
1 ATTTGAT
165030 TTTAAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.11
25 21 0.78
26 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (24 bp):
ATTTGATAGATTATTAAAAATAAA
Found at i:166543 original size:79 final size:79
Alignment explanation
Indices: 166460--166606 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
166450 AAATAAGACA
* * * *
166460 AGGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAATAAAGTCG-GGATTGGAGT
1 AGGGTTGAAGTATCCCCAATTATGAG-AAATCA-ATATTTCAAAAATAAAGCCGAGG-TTGGAGT
166522 ATCCCCGTGAAAATAAT
63 ATCCCCGTGAAAATAAT
* * *
166539 AGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCGAGGTTGGAGTATC
1 AGGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGCCGAGGTTGGAGTATC
166604 CCC
66 CCC
166607 TCGGAAGTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 53 0.91
80 5 0.09
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AGGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGCCGAGGTTGGAGTATC
CCCGTGAAAATAAT
Found at i:166704 original size:107 final size:107
Alignment explanation
Indices: 166510--166713 Score: 250
Period size: 107 Copynumber: 1.9 Consensus size: 107
166500 AAAATAAAGT
* *
166510 CGGGATTGGAGTATCCCCGTGAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCGTGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* * *
166575 TTTAGAAATAAAGCCGAGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTAGAAATAAAACCGAAGTTGGAATATCCCCTCGGAAGTAA
* * * * * *
166617 CGGGATTGGAGTATCCCTGAT-AAAATAACGA-GGTTGGAGTATCCTCGATTGTGAAAAATTAGT
1 CGGGATTGGAGTATCCCCG-TGAAAATAA-GAGGGTTGGAGTATCCCCAATTATGAAAAATCAAT
* * *
166680 GTTTTGGAAATAAAATCGAAGTTGGAATATCCCC
64 ATTTTAGAAATAAAACCGAAGTTGGAATATCCCC
166714 GATTGTGGAG
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 79 0.98
108 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (107 bp):
CGGGATTGGAGTATCCCCGTGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTAGAAATAAAACCGAAGTTGGAATATCCCCTCGGAAGTAA
Found at i:166762 original size:51 final size:51
Alignment explanation
Indices: 166645--166764 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
166635 GATAAAATAA
* * *
166645 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
* * * *
166696 CGAAGTTGGAATATCCCCGATTGTGGAGAATTAGTGTTTTAGAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
* *
166747 CGGGGTTTGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
166765 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
Found at i:166900 original size:79 final size:79
Alignment explanation
Indices: 166700--166922 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 79
166690 TAAAATCGAA
* * ** *
166700 GTTGGAATATCCCCGATTGTGGAGAATTAGTGTTTTAGAAATAAAACCGGGGTTTGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCC
166765 TCAAAAATAACAGG
66 TCAAAAATAACAGG
** * * * *
166779 GTTGGAGTATTTCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCCAAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCC
** *
166843 CTCGGAAATAACGGG
65 CTCAAAAATAACAGG
* * * * *
166858 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATC-GGAGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAAG-GTTGGAGTATCCC
166922 C
65 C
166923 AATTGTGAAA
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
78 3 0.03
79 111 0.96
80 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCC
TCAAAAATAACAGG
Found at i:166921 original size:51 final size:51
Alignment explanation
Indices: 166858--166988 Score: 181
Period size: 51 Copynumber: 2.6 Consensus size: 51
166848 AAATAACGGG
* *
166858 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGA
* * * * *
166909 GTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGA
* *
166960 GTTGGAGTACCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
166989 AGAAACTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAACCGGA
Found at i:172260 original size:13 final size:13
Alignment explanation
Indices: 172242--172266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
172232 CATAAAATGT
172242 TGTATCGATACAA
1 TGTATCGATACAA
172255 TGTATCGATACA
1 TGTATCGATACA
172267 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:172264 original size:33 final size:33
Alignment explanation
Indices: 172222--172286 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
172212 TTCAACAATT
172222 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
172255 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
172287 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:172347 original size:13 final size:13
Alignment explanation
Indices: 172329--172356 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
172319 ATTACTCAAA
172329 TGTATCGATACAT
1 TGTATCGATACAT
172342 TGTATCGATACAT
1 TGTATCGATACAT
172355 TG
1 TG
172357 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:179260 original size:28 final size:28
Alignment explanation
Indices: 179220--179289 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
179210 AATAAAGCCA
** *
179220 GGGTTGGAGTATCCCCTCGGAAGTAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
179248 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
179276 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
179290 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACG
Found at i:179333 original size:107 final size:107
Alignment explanation
Indices: 179144--179339 Score: 245
Period size: 107 Copynumber: 1.8 Consensus size: 107
179134 AAAGTCGCGA
* *
179144 TTGGAGCATCCCCGTGAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGA
1 TTGGAGCATCCCCGTGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGA
* *
179209 AAATAAAGCCAGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 AAATAAAACCAGGGTTGGAATATCCCCTCGGAAGTAACGGGG
* * * * * *
179251 TTGGAGTATCCCCGATG-AAATAACGA-GGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTT
1 TTGGAGCATCCCCG-TGAAAATAA-GAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTT
*
179314 GAAAATAAAATC-GGAGTTGGAATATC
64 GAAAATAAAACCAGG-GTTGGAATATC
179340 TCCGATTGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
106 2 0.03
107 70 0.93
108 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (107 bp):
TTGGAGCATCCCCGTGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGA
AAATAAAACCAGGGTTGGAATATCCCCTCGGAAGTAACGGGG
Found at i:179412 original size:79 final size:78
Alignment explanation
Indices: 179329--179550 Score: 286
Period size: 79 Copynumber: 2.8 Consensus size: 78
179319 TAAAATCGGA
* *
179329 GTTGGAATATCTCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCC
1 GTTGGAGTATCTCCGATTGT-GAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
179394 TTGAAAATAACGGG
65 TTGAAAATAACGGG
** * * *
179408 GTTGGAGTAT-TCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCC
1 GTTGGAGTATCT-CCGATTGTGAG-AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
179472 CTTGGAAATAACGGG
64 CTTGAAAATAACGGG
* * * *
179487 GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTT-GAAAATAAAATCGGAGTTGGAGTATCCCC
1 GTTGGAGTATCTCCGATTGTGAGAATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCC
179551 GATTATGGAA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 36 0.30
79 85 0.70
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (78 bp):
GTTGGAGTATCTCCGATTGTGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
TGAAAATAACGGG
Found at i:179579 original size:51 final size:51
Alignment explanation
Indices: 179487--179616 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
179477 AAATAACGGG
* * *
179487 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGGA
*
179537 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTT-AGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGA-AAATAAAACCGGA
* *
179588 GTTGGAGTACCCCCGATTATGAAAAATTA
1 GTTGGAGTATCCCCGATTATGGAAAATTA
179617 AGAAACTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 20 0.28
51 52 0.72
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGGA
Found at i:182066 original size:19 final size:21
Alignment explanation
Indices: 182042--182093 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
182032 AGCGATACAC
**
182042 TGTATCGATACA-TTAC-TTA
1 TGTATCGATACATTTACAGAA
*
182061 TGTATCGTTACATTTACAGAA
1 TGTATCGATACATTTACAGAA
182082 TGTATCGATACA
1 TGTATCGATACA
182094 AATTATTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACAGAA
Found at i:184384 original size:87 final size:86
Alignment explanation
Indices: 184195--184462 Score: 318
Period size: 87 Copynumber: 3.2 Consensus size: 86
184185 TCATTTTGCG
*
184195 TTCCCCACCTCCTCCAGCTAATGTTCCAACACGGCCTTCCTCAAAGTCT----C-CACCACCAGC
1 TTCCCCACCTCCTCCAGCTAATGTTCCAACCCGGCCTTCCTCAAAGTCTCCACCTCACCACCAGC
184255 AAGATCTCCACCTGAAAGCGC
66 AAGATCTCCACCTGAAAGCGC
*
184276 TTCCCCTCCTCCTCCAGCTAATGTTCCAACCCGGCCTTCCTCAAAGTCTCCACCATCACCACCAG
1 TTCCCCACCTCCTCCAGCTAATGTTCCAACCCGGCCTTCCTCAAAGTCTCCACC-TCACCACCAG
*
184341 CAAGATCTCCATCTGAAAGCGC
65 CAAGATCTCCACCTGAAAGCGC
* * * *
184363 TTTCCCACCTCCTCCAGCTAATGCTT-CAATACTGG-CTT-CTGCAAAGTCTCCACCTTCACTAC
1 TTCCCCACCTCCTCCAGCTAATG-TTCCAA-CCCGGCCTTCCT-CAAAGTCTCCACC-TCACCAC
* * * *
184425 CAGCAACATCACCACCTAAAAGCTC
62 CAGCAAGATCTCCACCTGAAAGCGC
* *
184450 TTCCTCGCCTCCT
1 TTCCCCACCTCCT
184463 ATGCTTACGC
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
81 47 0.29
85 1 0.01
86 2 0.01
87 106 0.66
88 5 0.03
ACGTcount: A:0.24, C:0.43, G:0.11, T:0.23
Consensus pattern (86 bp):
TTCCCCACCTCCTCCAGCTAATGTTCCAACCCGGCCTTCCTCAAAGTCTCCACCTCACCACCAGC
AAGATCTCCACCTGAAAGCGC
Found at i:197263 original size:2 final size:2
Alignment explanation
Indices: 197256--197301 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
197246 TTTTGTTGGG
197256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
197298 AT AT
1 AT AT
197302 TTGTTTTAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197475 original size:3 final size:3
Alignment explanation
Indices: 197467--197505 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
197457 ACTAGGTTTT
*
197467 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
197506 CTAGGATGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:197655 original size:22 final size:21
Alignment explanation
Indices: 197616--197656 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
197606 AATTTTTTAA
* *
197616 TTATTTAAAATTATAATATTT
1 TTATTTAAAATAAAAATATTT
197637 TTATTATAAAATAAAAATAT
1 TTATT-TAAAATAAAAATAT
197657 AAGCTAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTTAAAATAAAAATATTT
Found at i:199287 original size:17 final size:17
Alignment explanation
Indices: 199261--199344 Score: 57
Period size: 17 Copynumber: 5.1 Consensus size: 17
199251 TGTTATAAAA
* *
199261 TTTTTGTTTAGAATAAT
1 TTTTTATTTAAAATAAT
199278 TTTTTATTTAAAATAA-
1 TTTTTATTTAAAATAAT
* * * *
199294 CTCTTATTCAAAAAAAT
1 TTTTTATTTAAAATAAT
*
199311 ATTTTT-TTTGAAATAA-
1 -TTTTTATTTAAAATAAT
* *
199327 TTTGTATTCAAAATAAT
1 TTTTTATTTAAAATAAT
199344 T
1 T
199345 AATATTTAGA
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
15 4 0.08
16 20 0.41
17 22 0.45
18 3 0.06
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTTTATTTAAAATAAT
Found at i:200053 original size:20 final size:21
Alignment explanation
Indices: 200013--200058 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
200003 TTCAACAATT
* *
200013 TGTATCGATATAATAAGTGAA
1 TGTATCAATATAATAAATGAA
200034 TGTATCAATAT-ATAAATGAA
1 TGTATCAATATAATAAATGAA
200054 TGTAT
1 TGTAT
200059 TGAAACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATCAATATAATAAATGAA
Found at i:201169 original size:21 final size:19
Alignment explanation
Indices: 201132--201176 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
201122 TCTAAACAGC
*
201132 CCATGTTCATGCATTTTGAA
1 CCATGTTCATACATTTT-AA
201152 CCATGTTCCATACATTTTAA
1 CCATGTT-CATACATTTTAA
201172 -CATGT
1 CCATGT
201177 CCAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (19 bp):
CCATGTTCATACATTTTAA
Found at i:206223 original size:52 final size:51
Alignment explanation
Indices: 206145--206274 Score: 199
Period size: 52 Copynumber: 2.5 Consensus size: 51
206135 CCCGAAATAT
* *
206145 GAAAAGTTGCTTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGG
206197 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
*
206249 GCAAATTGCCTGCATGTATCGATACA
1 GAAAATTGCCTGCATGTATCGATACA
206275 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (51 bp):
GAAAATTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
Found at i:206287 original size:51 final size:50
Alignment explanation
Indices: 206145--206294 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 50
206135 CCCGAAATAT
* * *
206145 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGG
206197 GAAAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGG
*
206249 GCAAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
206295 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 46 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (50 bp):
GAAAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGG
Found at i:206301 original size:13 final size:13
Alignment explanation
Indices: 206283--206307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206273 CAAAGATCAG
206283 TGTATCGATACAA
1 TGTATCGATACAA
206296 TGTATCGATACA
1 TGTATCGATACA
206308 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:206389 original size:33 final size:33
Alignment explanation
Indices: 206347--206416 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
206337 GGCAGTAGCT
206347 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
206380 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
206413 TACA
1 TACA
206417 AATCGTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:206390 original size:13 final size:13
Alignment explanation
Indices: 206372--206396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206362 CAAAAAAATA
206372 TGTATCGATACAT
1 TGTATCGATACAT
206385 TGTATCGATACA
1 TGTATCGATACA
206397 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:207130 original size:11 final size:11
Alignment explanation
Indices: 207114--207138 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
207104 AACAAAAGTG
207114 AACTTCCATTA
1 AACTTCCATTA
207125 AACTTCCATTA
1 AACTTCCATTA
207136 AAC
1 AAC
207139 AATATCATGT
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:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (11 bp):
AACTTCCATTA
Found at i:207343 original size:16 final size:15
Alignment explanation
Indices: 207324--207400 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 15
207314 GGTCACTTAG
207324 GGTTCGAGTCACTTTA
1 GGTTCGAGTCA-TTTA
*
207340 GGTT-TAGGTCATTTCA
1 GGTTCGA-GTCATTT-A
207356 GGTTC-AGATCATTTA
1 GGTTCGAG-TCATTTA
* *
207371 GTTTCGAATCATTTTA
1 GGTTCGAGTCA-TTTA
207387 GGTTC-AGGTCATTT
1 GGTTCGA-GTCATTT
207401 CAATTTCAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
15 17 0.35
16 32 0.65
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (15 bp):
GGTTCGAGTCATTTA
Found at i:207409 original size:47 final size:48
Alignment explanation
Indices: 207292--207409 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 48
207282 AAAATTTTCG
* * * * *
207292 GGTTCAGGTTATTTCGATTTTAGGTCACTTAGGGTTCGAGTCACTTTA
1 GGTTCAGGTCATTTCAATTTCAGATCACTTAGGGTTCGAATCACTTTA
* ** * * *
207340 GGTTTAGGTCATTTCAGGTTCAGATCATTTA-GTTTCGAATCATTTTA
1 GGTTCAGGTCATTTCAATTTCAGATCACTTAGGGTTCGAATCACTTTA
207387 GGTTCAGGTCATTTCAATTTCAG
1 GGTTCAGGTCATTTCAATTTCAG
207410 GTTCTTTCAA
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
47 33 0.59
48 23 0.41
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.42
Consensus pattern (48 bp):
GGTTCAGGTCATTTCAATTTCAGATCACTTAGGGTTCGAATCACTTTA
Found at i:208127 original size:155 final size:155
Alignment explanation
Indices: 207893--208186 Score: 360
Period size: 155 Copynumber: 1.9 Consensus size: 155
207883 TTACATAGTA
* * * * **
207893 TTTTTGTGTCTTTTAAGGTTATTGGAATACTTTCACGTCGAAAGTATACTTTAAGGGCATTTTGA
1 TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACTCCAAGGGCATTTTGA
* * * ** **
207958 TCATTTATTCAAAATCCAGTCTTAAGTGGTCA-TCGGGTCACTTTTATACCAAAGGTATTTGTTT
66 TAATTTATTCAAAATCAAGTCCTAAGTAATCACT-GGGTCACTTTTATACCAAAGGTATTCATTT
208022 AGGATAGGTTCATCCTTTAATAATTT
130 AGGATAGGTTCATCCTTTAATAATTT
* *
208048 TTTTTGTGTCCTTTAAGGTTATCGGGATAC-TTCACATCGAAACTATA-TCCCAAGGGTATTTTG
1 TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACT-CCAAGGGCATTTTG
* * ** *
208111 GTAATTTTTTCTAAAATCAAGTCCTAAGTAATCACTGGGTTGCTTTTATGCCAAAGGTATTCATT
65 ATAATTTATTC-AAAATCAAGTCCTAAGTAATCACTGGGTCACTTTTATACCAAAGGTATTCATT
208176 TAGGATAGGTT
129 TAGGATAGGTT
208187 AAACCTTTTA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
153 1 0.01
154 34 0.29
155 80 0.69
156 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (155 bp):
TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACTCCAAGGGCATTTTGA
TAATTTATTCAAAATCAAGTCCTAAGTAATCACTGGGTCACTTTTATACCAAAGGTATTCATTTA
GGATAGGTTCATCCTTTAATAATTT
Found at i:208194 original size:155 final size:153
Alignment explanation
Indices: 207893--208233 Score: 355
Period size: 155 Copynumber: 2.2 Consensus size: 153
207883 TTACATAGTA
* * * * * **
207893 TTTTTGTGTCTTTTAAGGTTATTGGAATACTTTCACGTCGAAAGTATACTTTAAGGGCATTTTGA
1 TTTTTGTGTCCTTTAAGGTTATCGGGATAC-TTCACATCGAAACTATACTCCAAGGGCATTTTGA
* * * ** **
207958 TCATTTATTCAAAATCCAGTCTTAAGTGGTCATCGGGTCACTTTTATACCAAAGGTATTTGTTTA
65 TAATTTATTCAAAATCAAGTCCTAAGTAATCATCGGGTCACTTTTATACCAAAGGTATTCATTTA
* * *
208023 GGATAGGTTCATCCTTTAATAATTT
130 GGATAGGTTAAACCTTTAATAA-TC
* *
208048 TTTTTGTGTCCTTTAAGGTTATCGGGATACTTCACATCGAAACTATA-TCCCAAGGGTATTTTGG
1 TTTTTGTGTCCTTTAAGGTTATCGGGATACTTCACATCGAAACTATACT-CCAAGGGCATTTTGA
* ** *
208112 TAATTTTTTCTAAAATCAAGTCCTAAGTAATCA-CTGGGTTGCTTTTATGCCAAAGGTATTCATT
65 TAATTTATTC-AAAATCAAGTCCTAAGTAATCATC-GGGTCACTTTTATACCAAAGGTATTCATT
* *
208176 TAGGATAGGTTAAACCTTTTATGATC
128 TAGGATAGGTTAAACCTTTAATAATC
* * *
208202 TTTTCGTGTCCTTT-AGAGTTACCGAGATACTT
1 TTTTTGTGTCCTTTAAG-GTTATCGGGATACTT
208234 TTACGTCGGA
Statistics
Matches: 154, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
153 3 0.02
154 62 0.40
155 89 0.58
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (153 bp):
TTTTTGTGTCCTTTAAGGTTATCGGGATACTTCACATCGAAACTATACTCCAAGGGCATTTTGAT
AATTTATTCAAAATCAAGTCCTAAGTAATCATCGGGTCACTTTTATACCAAAGGTATTCATTTAG
GATAGGTTAAACCTTTAATAATC
Found at i:208470 original size:152 final size:152
Alignment explanation
Indices: 208142--208536 Score: 404
Period size: 152 Copynumber: 2.6 Consensus size: 152
208132 TCCTAAGTAA
* * ** * * *
208142 TCACTGGGTTGCTTTTATGCCAAAGGTATTCATTTAGGATAGGTTAAACCTTTTATGATCTTTTC
1 TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGG-TAGGTTCATCCTTTTATGATCATTTC
* ** ** * * ** ** * * *
208207 GTGTCCTTT-AGAGTTACCGAGATACTTTTACGTCGGAGTTATACCCTCGGGGCATTTAGTTAAT
65 ATGTTTTTTAAG-GTTACTAAGATATTTTTAAGTCAAAGGCATAGCCT--AGGCATTTAGGTAAT
* *
208271 TTTTCTTAGAACCCAATTTTAAATAG
127 TTTTCATAGAACCCAATCTTAAATAG
*
208297 TCACTGGGTTGCTTTTATGTCAAAGGTAGACATTTAGGATATGGTT-ATCCTTTTATGATC-TTT
1 TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGG-TA-GGTTCATCCTTTTATGATCATTT
208360 CATGTTTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTT
64 CATGTTTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTT
* * **
208425 TTCATAGAACCGAGTCTTAGGTAG
129 TTCATAGAACCCAATCTTAAATAG
* *
208449 TCACTGAG-T-CATTGTTATGTCAAAGGTATATATTTAGGTAGGTTCATCCTTTTATGATCATTT
1 TCACTGAGTTGC-TT-TTATGTCAAAGGTAGACATTTAGGTAGGTTCATCCTTTTATGATCATTT
*
208512 CATGTTTTTTAAGGTTACTGAGATA
64 CATGTTTTTTAAGGTTACTAAGATA
208537 CTTTCATATC
Statistics
Matches: 206, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
150 5 0.02
151 19 0.09
152 89 0.43
154 36 0.17
155 53 0.26
156 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (152 bp):
TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGGTAGGTTCATCCTTTTATGATCATTTCA
TGTTTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTTTT
CATAGAACCCAATCTTAAATAG
Found at i:208593 original size:152 final size:151
Alignment explanation
Indices: 208311--208593 Score: 376
Period size: 152 Copynumber: 1.9 Consensus size: 151
208301 TGGGTTGCTT
208311 TTATGTCAAAGGTAGACATTTAGGATATGGTTATCCTTTTATGATCTTTCATGTTTTTTAAGGTT
1 TTATGTCAAAGGTAGACATTTAGGATATGGTTATCCTTTTATGATCTTTCATGTTTTTTAAGGTT
* * * * * *
208376 ACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTTTTCATAGAACCGAGTC
66 ACTAAGATACTTTCAAGTCAAAGGCATAACCAAGGCATTTAGGTAATTTAT-ATAGAACCAAGTC
208441 TTAGGTAGTCACTGAGTCATTG
130 TTAGGTAGTCACTGAGTCATTG
* *
208463 TTATGTCAAAGGTATATATTTAGG-TA-GGTTCATCCTTTTATGATCATTTCATGTTTTTTAAGG
1 TTATGTCAAAGGTAGACATTTAGGATATGGTT-ATCCTTTTATGATC-TTTCATGTTTTTTAAGG
* * * *
208526 TTACTGAGATACTTTCATA-TCAAAGGTATAACCAAAGGCATTTTGGTAACTTTAT-TAGAGCCA
64 TTACTAAGATACTTTCA-AGTCAAAGGCATAACC-AAGGCATTTAGGTAA-TTTATATAGAACCA
208589 AGTCT
126 AGTCT
208594 GATGTAGTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
150 4 0.04
151 16 0.14
152 76 0.67
153 14 0.12
154 4 0.04
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (151 bp):
TTATGTCAAAGGTAGACATTTAGGATATGGTTATCCTTTTATGATCTTTCATGTTTTTTAAGGTT
ACTAAGATACTTTCAAGTCAAAGGCATAACCAAGGCATTTAGGTAATTTATATAGAACCAAGTCT
TAGGTAGTCACTGAGTCATTG
Found at i:208718 original size:17 final size:18
Alignment explanation
Indices: 208689--208724 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
208679 ATTCTTGAAT
*
208689 ATTTTTAATAAAATTTAA
1 ATTTTTAATAAAATCTAA
208707 ATTTTTAA-AAAATCTAA
1 ATTTTTAATAAAATCTAA
208724 A
1 A
208725 CAATGTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTTAATAAAATCTAA
Found at i:210671 original size:15 final size:15
Alignment explanation
Indices: 210651--210682 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
210641 AATAAGAAAC
210651 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAGAA
*
210666 AAGAAAAACAAAGAA
1 AAGAAAAAAAAAGAA
210681 AA
1 AA
210683 CATGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:213728 original size:20 final size:20
Alignment explanation
Indices: 213684--213737 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
213674 ATTTCAACGA
213684 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
* ***
213704 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAAT
213724 TTTGTATCGATACA
1 TTTGTATCGATACA
213738 ATTCAAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:213798 original size:13 final size:13
Alignment explanation
Indices: 213780--213804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
213770 ATCAATTAAA
213780 TGTATCGATACAT
1 TGTATCGATACAT
213793 TGTATCGATACA
1 TGTATCGATACA
213805 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:213918 original size:51 final size:51
Alignment explanation
Indices: 213813--213942 Score: 206
Period size: 51 Copynumber: 2.5 Consensus size: 51
213803 CACTGATCTT
* * *
213813 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTT-TCCAGATGTATCAATACACTATAAAA
**
213865 TGTATCGATACATGCAGGCAAATTTTCCAGATGTATCAATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTTCCAGATGTATCAATACACTATAAAA
213916 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
213943 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
51 48 0.66
52 25 0.34
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTTCCAGATGTATCAATACACTATAAAA
Found at i:222039 original size:13 final size:13
Alignment explanation
Indices: 222021--222046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
222011 TACAGCAAGT
222021 ATGTATCGATACA
1 ATGTATCGATACA
222034 ATGTATCGATACA
1 ATGTATCGATACA
222047 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:224296 original size:21 final size:21
Alignment explanation
Indices: 224263--224307 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
224253 TTGCAAGTTG
*
224263 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
224285 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
224305 AAA
1 AAA
224308 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:226131 original size:15 final size:15
Alignment explanation
Indices: 226111--226141 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
226101 TAAAAATGTC
*
226111 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
226126 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
226141 C
1 C
226142 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:228233 original size:20 final size:20
Alignment explanation
Indices: 228154--228233 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
228144 AATGTCCAAA
*
228154 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
228174 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
228199 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
228219 TTGTATCGATACATT
1 ATGTATCGATACATT
228234 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:228237 original size:13 final size:13
Alignment explanation
Indices: 228219--228257 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
228209 ACATTTTTCT
228219 TTGTATCGATACA
1 TTGTATCGATACA
228232 TTGTATCGATACA
1 TTGTATCGATACA
*
228245 CTGTATCGATACA
1 TTGTATCGATACA
228258 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:228404 original size:21 final size:21
Alignment explanation
Indices: 228380--228426 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
228370 AAATCTTTTG
228380 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
228401 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
228421 CAAAAT
1 CAAAAT
228427 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:228423 original size:20 final size:19
Alignment explanation
Indices: 228382--228424 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
228372 ATCTTTTGCA
228382 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
228402 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
228422 AAA
1 AAA
228425 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:230820 original size:13 final size:13
Alignment explanation
Indices: 230802--230827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
230792 TACAGCAAGT
230802 ATGTATCGATACA
1 ATGTATCGATACA
230815 ATGTATCGATACA
1 ATGTATCGATACA
230828 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:237719 original size:1 final size:1
Alignment explanation
Indices: 237713--237773 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
237703 CGTCCTCCAC
* * * * * *
237713 AAAAAAAAAAAACAAAAACAAAAACAAAAAAAAAACAAAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
237774 GGGGTGCGGA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:237771 original size:18 final size:17
Alignment explanation
Indices: 237714--237773 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
237704 GTCCTCCACA
237714 AAAAAAAAAAACAAAAAC
1 AAAAAAAAAAA-AAAAAC
*
237732 AAAAACAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
237749 AAAAAACAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
237766 AAAAAAAA
1 AAAAAAAA
237774 GGGGTGCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
17 28 0.74
18 10 0.26
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:239282 original size:28 final size:28
Alignment explanation
Indices: 239207--239669 Score: 282
Period size: 28 Copynumber: 15.7 Consensus size: 28
239197 CATTCCTCAC
* *
239207 CCTTCAAAAGTCCACAAGTCAGTGGCATA
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-A
** *
239236 TTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
*
239264 CCTTTAAAAGCCCACAAGTCAGTGGCAT
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
239292 CTTTTTCAAAGCCCACAAGTCAGTGGCATTTTT
1 C-CTTTAAAAGCCCACAAGTCAGTGGCA----A
** *
239325 TTTTTAAAAAGCCCACAAGTCAATGGCAA
1 CCTTT-AAAAGCCCACAAGTCAGTGGCAA
* * *
239354 CC-TTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
** * * *
239381 CCTTTTTCGAAGCCCACGAGTCGGTGGCAT
1 CC--TTTAAAAGCCCACAAGTCAGTGGCAA
* * * * * * *
239411 CTTTTCCAAAGTCGACAACTCTGTGGCACT
1 CCTTT-AAAAGCCCACAAGTCAGTGGCA-A
** * * * * *
239441 CTTTTTCTTTTGTAAGCTCATAACTCTA-TAGCACT
1 C-----C-TTTAAAAGCCCACAAGTC-AGTGGCA-A
** * * *
239476 CTTTTTCTTTTTAAGCCCACAAGTTAGTGTCAC
1 C-----CTTTAAAAGCCCACAAGTCAGTGGCAA
239509 CCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCAA
239539 CCTTTAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
239567 CCTTTAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
*
239595 CCGTTAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
239623 CCTTTAAAAGCACACAAGTCAGTAGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
239651 CCTTCAAAAGCACACAAGT
1 CCTTTAAAAGCCCACAAGT
239670 TGATGCAAAC
Statistics
Matches: 353, Mismatches: 60, Indels: 43
0.77 0.13 0.09
Matches are distributed among these distances:
27 21 0.06
28 153 0.43
29 68 0.19
30 43 0.12
32 4 0.01
33 23 0.07
34 16 0.05
35 22 0.06
36 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAA
Found at i:239386 original size:90 final size:88
Alignment explanation
Indices: 239213--239415 Score: 259
Period size: 90 Copynumber: 2.3 Consensus size: 88
239203 TCACCCTTCA
* * * *
239213 AAAGTCCACAAGTCAGTGGCA--TATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTTAAAAGCCCACAAGTCAATGGCAACCTTTAAAAGCC
* *
239276 CACAAGTCAGTGGCATCTTTTTC
66 CACAAATCAGTGGCACCTTTTTC
*
239299 AAAGCCCACAAGTCAGTGGCATTTTTTTTTTAAAAAGCCCACAAGTCAATGGCAACC-TTCAAAG
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTTT-AAAAGCCCACAAGTCAATGGCAACCTTTAAAAG
239363 CCCACAAATCAGTGGCACCCTTTTTC
64 CCCACAAATCAGTGGCA-CCTTTTTC
* * * *
239389 GAAGCCCACGAGTCGGTGGCATCTTTT
1 AAAGCCCACAAGTCAGTGGCATTTTTT
239416 CCAAAGTCGA
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
86 20 0.20
89 33 0.33
90 48 0.48
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTTTAAAAGCCCACAAGTCAATGGCAACCTTTAAAAGCC
CACAAATCAGTGGCACCTTTTTC
Found at i:239387 original size:62 final size:61
Alignment explanation
Indices: 239212--239380 Score: 163
Period size: 57 Copynumber: 2.8 Consensus size: 61
239202 CTCACCCTTC
* * * * * *
239212 AAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAAC-----CTTT-
1 AAAAGCCCACAAGTCAATGGCA-ACTCTTCAAAGCCCACAAATCAGTGGC-ACTTTTTTTTTA
* * * * *
239269 AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTTTA
1 AAAAGCCCACAAGTCAATGGCAAC-TCTTCAAAGCCCACAAATCAGTGGCACTTTTTTTTTA
239331 AAAAGCCCACAAGTCAATGGCAAC-CTTCAAAGCCCACAAATCAGTGGCAC
1 AAAAGCCCACAAGTCAATGGCAACTCTTCAAAGCCCACAAATCAGTGGCAC
239381 CCTTTTTCGA
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 46 0.48
60 23 0.24
61 3 0.03
62 22 0.23
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAAGCCCACAAGTCAATGGCAACTCTTCAAAGCCCACAAATCAGTGGCACTTTTTTTTTA
Found at i:239446 original size:119 final size:119
Alignment explanation
Indices: 239212--239645 Score: 305
Period size: 119 Copynumber: 3.6 Consensus size: 119
239202 CTCACCCTTC
* * ** *
239212 AAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
1 AAAAGCCCACAAGTCAATGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCC
* * * *
239277 ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTTTA
66 ACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTCTTTTTTTA
* **
239331 AAAAGCCCACAAGTCAATGGCA-A-CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGC
1 AAAAGCCCACAAGTCAATGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACC--TTTAAAAGC
* * * * * *
239394 CCACGAGTCGGTGGCATCTTTTCCAAAGTCGACAACTCTGTGGCACTCTTTTTCTTTT
64 CCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTC-TTTT-TTTA
** * * * * * * * ** * * * *
239452 GTAAGCTCATAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGTCACCCTTTTCA
1 AAAAGCCCACAAGTCAATGGCA-----TATCCTTCAAAGCCCACAAATCAGTGGCAACC-TTT-A
* * * *
239517 AAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCAAC-C----TTT-
59 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGC-ACTCTTTTTTTA
* * * *
239572 AAAAGCCCACAAGTCAGTGGCA-A-CCGTTAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCA
1 AAAAGCCCACAAGTCAATGGCATATCC-TTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCC
239635 CACAAGTCAGT
65 CACAAGTCAGT
239646 AGCAACCTTC
Statistics
Matches: 242, Mismatches: 59, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
112 17 0.07
113 4 0.02
114 22 0.09
117 25 0.10
118 1 0.00
119 66 0.27
120 18 0.07
121 21 0.09
127 21 0.09
128 47 0.19
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (119 bp):
AAAAGCCCACAAGTCAATGGCATATCCTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCC
ACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTCAGTGGCACTCTTTTTTTA
Found at i:239680 original size:28 final size:29
Alignment explanation
Indices: 239513--239702 Score: 135
Period size: 28 Copynumber: 6.7 Consensus size: 29
239503 TGTCACCCTT
* * *
239513 TTCAAAAGCCCACAAG-TCAGTGGCAACC
1 TTCAAAAGCACACAAGTTGAGTAGCAACC
* * * *
239541 TTTAAAAGCCCACAAG-TCAGTGGCAACC
1 TTCAAAAGCACACAAGTTGAGTAGCAACC
* * * *
239569 TTTAAAAGCCCACAAG-TCAGTGGCAACC
1 TTCAAAAGCACACAAGTTGAGTAGCAACC
* * *
239597 GTT-AAAAGCCCACAAG-TCAGTGGCAACC
1 -TTCAAAAGCACACAAGTTGAGTAGCAACC
* *
239625 TTTAAAAGCACACAAG-TCAGTAGCAACC
1 TTCAAAAGCACACAAGTTGAGTAGCAACC
239653 TTCAAAAGCACACAAGTTGA-T-GCAAACC
1 TTCAAAAGCACACAAGTTGAGTAGC-AACC
239681 TCTCAAAAGCCCACACAAGTTG
1 T-TCAAAAG--CACACAAGTTG
239703 GTGGCGTCTC
Statistics
Matches: 150, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
27 4 0.03
28 124 0.83
29 11 0.07
31 11 0.07
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (29 bp):
TTCAAAAGCACACAAGTTGAGTAGCAACC
Found at i:239873 original size:43 final size:43
Alignment explanation
Indices: 239812--239947 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
239802 CACCTTCATA
*
239812 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
239855 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTT
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
* *
239899 TTTCCAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCC
1 TTT--AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
239945 TTT
1 TTT
239948 TTCTCATCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 39 0.49
44 3 0.04
46 37 0.46
47 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:239895 original size:92 final size:90
Alignment explanation
Indices: 239722--239947 Score: 276
Period size: 92 Copynumber: 2.4 Consensus size: 90
239712 CCTTTTAAGC
* * * * *
239722 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGCTGGCCTT
1 CCAATGTAGCTGACCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGCTGGCCTT
*
239787 AAATCAGCATATTGGCACCTTCATATT-TAAGT
62 AAATCAGCATATTGGCA-CTT--T-TTCCAAGT
* *
239819 CCAATGTAGCTGACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGGCCTTGAAT
1 CCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAAT
239883 CAGCATATTGGCACTTTTTCCAAGT
66 CAGCATATTGGCACTTTTTCCAAGT
* *
239908 TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTT
239948 TTCTCATCTT
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
88 2 0.02
89 36 0.31
90 5 0.04
91 3 0.03
92 41 0.35
94 1 0.01
96 1 0.01
97 27 0.23
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (90 bp):
CCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAAT
CAGCATATTGGCACTTTTTCCAAGT
Found at i:241101 original size:155 final size:155
Alignment explanation
Indices: 240867--241160 Score: 367
Period size: 155 Copynumber: 1.9 Consensus size: 155
240857 TTACATAGTA
* * * * **
240867 TTTTTGTGTCTTTTAAGGTTATTGGAATACTTTCACGTCGAAAGTATACTTTAAGGGCATTTTGA
1 TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACTCCAAGGGCATTTTGA
* * * ** * **
240932 TCATTTATTCAAAATCCAGTCTTAAGTGGTCATTGGGTCACTTTTATACCAAAGGTATTTGTTTA
66 TAATTTATTCAAAATCAAGTCCTAAGTAATCACTGGGTCACTTTTATACCAAAGGTATTCATTTA
240997 GGATAGGTTCATCCTTTAGTAATTT
131 GGATAGGTTCATCCTTTAGTAATTT
* *
241022 TTTTTGTGTCCTTTAAGGTTATCGGGATAC-TTCACATCGAAACTATA-TCCCAAGGGTATTTTG
1 TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACT-CCAAGGGCATTTTG
* * ** *
241085 GTAATTTTTTCTAAAATCAAGTCCTAAGTAATCACTGGGTTGCTTTTATGCCAAAGGTATTCATT
65 ATAATTTATTC-AAAATCAAGTCCTAAGTAATCACTGGGTCACTTTTATACCAAAGGTATTCATT
241150 TAGGATAGGTT
129 TAGGATAGGTT
241161 AAACCTTTTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
153 1 0.01
154 34 0.29
155 81 0.70
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (155 bp):
TTTTTGTGTCCTTTAAGGTTATCGGAATACTTTCACATCGAAACTATACTCCAAGGGCATTTTGA
TAATTTATTCAAAATCAAGTCCTAAGTAATCACTGGGTCACTTTTATACCAAAGGTATTCATTTA
GGATAGGTTCATCCTTTAGTAATTT
Found at i:241444 original size:152 final size:152
Alignment explanation
Indices: 241116--241510 Score: 404
Period size: 152 Copynumber: 2.6 Consensus size: 152
241106 TCCTAAGTAA
* * ** * * *
241116 TCACTGGGTTGCTTTTATGCCAAAGGTATTCATTTAGGATAGGTTAAACCTTTTATGATCTTTTC
1 TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGG-TAGGTTCATCCTTTTATGATCATTTC
* * ** * * ** ** ** *
241181 GTGTCCTTT-AGAGTTACCGAGATACTTTTACGTCGGAGTTATACGCTCGGGGCATTTAGTTAAT
65 ATGTCTTTTAAG-GTTACTAAGATATTTTTAAGTCAAAGGCATA-GC-CTAGGCATTTAGGTAAT
* *
241245 TTTTCTTAGAACCCAATTTTAAATAG
127 TTTTCATAGAACCCAATCTTAAATAG
*
241271 TCACTGGGTTGCTTTTATGTCAAAGGTAGACATTTAGGATAGGGTT-ATCCTTTTATGATC-TTT
1 TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGG-TA-GGTTCATCCTTTTATGATCATTT
241334 CATGTCTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTT
64 CATGTCTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTT
* * **
241399 TTCATAGAACCGAGTCTTAGGTAG
129 TTCATAGAACCCAATCTTAAATAG
* *
241423 TCACTGAG-T-CATTGTTATGTCAAAGGTATATATTTAGGTAGGTTCATCCTTTTATGATCATTT
1 TCACTGAGTTGC-TT-TTATGTCAAAGGTAGACATTTAGGTAGGTTCATCCTTTTATGATCATTT
* *
241486 CATGTTTTTTAAGGTTACTGAGATA
64 CATGTCTTTTAAGGTTACTAAGATA
241511 CTTTCATATC
Statistics
Matches: 206, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
150 5 0.02
151 19 0.09
152 89 0.43
153 2 0.01
154 34 0.17
155 53 0.26
156 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (152 bp):
TCACTGAGTTGCTTTTATGTCAAAGGTAGACATTTAGGTAGGTTCATCCTTTTATGATCATTTCA
TGTCTTTTAAGGTTACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTTTT
CATAGAACCCAATCTTAAATAG
Found at i:241567 original size:152 final size:151
Alignment explanation
Indices: 241285--241567 Score: 367
Period size: 152 Copynumber: 1.9 Consensus size: 151
241275 TGGGTTGCTT
241285 TTATGTCAAAGGTAGACATTTAGGATAGGGTTATCCTTTTATGATCTTTCATGTCTTTTAAGGTT
1 TTATGTCAAAGGTAGACATTTAGGATAGGGTTATCCTTTTATGATCTTTCATGTCTTTTAAGGTT
* * * * * *
241350 ACTAAGATATTTTTAAGTCAAAGGCATAGCCTAGGCATTTAGGTAATTTTTCATAGAACCGAGTC
66 ACTAAGATACTTTCAAGTCAAAGGCATAACCAAGGCATTTAGGTAATTTAT-ATAGAACCAAGTC
241415 TTAGGTAGTCACTGAGTCATTG
130 TTAGGTAGTCACTGAGTCATTG
* * *
241437 TTATGTCAAAGGTATATATTTAGG-TA-GGTTCATCCTTTTATGATCATTTCATGTTTTTTAAGG
1 TTATGTCAAAGGTAGACATTTAGGATAGGGTT-ATCCTTTTATGATC-TTTCATGTCTTTTAAGG
* * * *
241500 TTACTGAGATACTTTCATA-TCAAAGGTATAACCAAAGGCATTTTGGTAACTTTAT-TAGAGCCA
64 TTACTAAGATACTTTCA-AGTCAAAGGCATAACC-AAGGCATTTAGGTAA-TTTATATAGAACCA
241563 AGTCT
126 AGTCT
241568 GATGTAGTTA
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
150 4 0.04
151 16 0.14
152 75 0.66
153 14 0.12
154 4 0.04
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (151 bp):
TTATGTCAAAGGTAGACATTTAGGATAGGGTTATCCTTTTATGATCTTTCATGTCTTTTAAGGTT
ACTAAGATACTTTCAAGTCAAAGGCATAACCAAGGCATTTAGGTAATTTATATAGAACCAAGTCT
TAGGTAGTCACTGAGTCATTG
Found at i:241692 original size:17 final size:18
Alignment explanation
Indices: 241663--241698 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
241653 ATTCTTGAAT
*
241663 ATTTTTAATAAAATTTAA
1 ATTTTTAATAAAATCTAA
241681 ATTTTTAA-AAAATCTAA
1 ATTTTTAATAAAATCTAA
241698 A
1 A
241699 CAATGTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTTAATAAAATCTAA
Found at i:243647 original size:15 final size:15
Alignment explanation
Indices: 243627--243658 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
243617 AATAAGAAAC
243627 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAGAA
*
243642 AAGAAAAACAAAGAA
1 AAGAAAAAAAAAGAA
243657 AA
1 AA
243659 CATGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:244714 original size:27 final size:27
Alignment explanation
Indices: 244676--244740 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
244666 TTGAAAACGA
244676 GGTTGGAGTGTTCCTTCGGAGGAATGG
1 GGTTGGAGTGTTCCTTCGGAGGAATGG
244703 GGTTGGAGTGTTCCTTCGGAGGAATGG
1 GGTTGGAGTGTTCCTTCGGAGGAATGG
244730 GGTTGGAGTGT
1 GGTTGGAGTGT
244741 CCCCAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.14, C:0.09, G:0.46, T:0.31
Consensus pattern (27 bp):
GGTTGGAGTGTTCCTTCGGAGGAATGG
Found at i:246717 original size:33 final size:33
Alignment explanation
Indices: 246680--246746 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
246670 TTCAACGATT
246680 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
246713 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
246746 T
1 T
246747 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:246718 original size:13 final size:13
Alignment explanation
Indices: 246700--246724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246690 CATAAAATGT
246700 TGTATCGATACAA
1 TGTATCGATACAA
246713 TGTATCGATACA
1 TGTATCGATACA
246725 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:246805 original size:13 final size:13
Alignment explanation
Indices: 246787--246811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246777 ATCACTTAAA
246787 TGTATCGATACAT
1 TGTATCGATACAT
246800 TGTATCGATACA
1 TGTATCGATACA
246812 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:246949 original size:52 final size:52
Alignment explanation
Indices: 246800--246950 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
246790 ATCGATACAT
** *
246800 TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
* **
246852 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
246904 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTC
246951 ATATTTCGGG
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 88 0.99
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:251543 original size:99 final size:95
Alignment explanation
Indices: 251420--251722 Score: 268
Period size: 87 Copynumber: 3.2 Consensus size: 95
251410 CGAAGAATGA
* * * *
251420 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGAAGAA-TGCCAATGTGCTGACACAAG
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGAAGAAGTGCCAATGTGCT-ACACAAG
251484 GCCAGCGACATTGGGCTTAGGAATGTTA-AAGATGC
65 GCCAGCGACATTGGGCTTA--AA-G--ACAAGATGC
* * * **
251519 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTATTCAAG
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGAAGAA-GTGCCAATGTGCTACACAAG
* *
251584 GCCAGCGACATTGGTCTTAAAGACAAGGTGC
65 GCCAGCGACATTGGGCTTAAAGACAAGATGC
* ** * ** *
251615 CAATATGCTGATTCAAGGCCAACGATATTGGGCTT--------A-TGCCAATGTGCTGATTCATG
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGAAGAAGTGCCAATGTGCT-ACACAAG
* * *
251671 GCCAACGACATTGGTCTTAAAGACAAGGTGC
65 GCCAGCGACATTGGGCTTAAAGACAAGATGC
251702 CAATATGCTGATTCAAGGCCA
1 CAATATGCTGATTCAAGGCCA
251723 GCGATATTGG
Statistics
Matches: 185, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
86 12 0.06
87 57 0.31
88 1 0.01
95 1 0.01
96 39 0.21
97 1 0.01
98 2 0.01
99 37 0.20
100 23 0.12
101 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (95 bp):
CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGAAGAAGTGCCAATGTGCTACACAAGG
CCAGCGACATTGGGCTTAAAGACAAGATGC
Found at i:251585 original size:48 final size:48
Alignment explanation
Indices: 251464--251871 Score: 387
Period size: 48 Copynumber: 8.6 Consensus size: 48
251454 TGAAGAAGAA
* ** * * * *
251464 TGCCAATGTGCTGACACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA--AA-GAT-AAGG
* * *
251516 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
* * *
251565 TGCCAATGTGCT-ATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* *
251612 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T-A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* * * * *
251651 TGCCAATGTGCTGATTCATGGCCAACGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* *
251699 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA-A-GAT-AAGG
* *
251750 TGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
* *
251793 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-AAGG
*
251842 TGCCAATATGCTGATTCAAGGCCAGTGATA
1 TGCCAATATGCTGATTCAAGGCCAGCGATA
251872 CTGGACTTGA
Statistics
Matches: 294, Mismatches: 43, Indels: 41
0.78 0.11 0.11
Matches are distributed among these distances:
39 32 0.11
40 1 0.00
41 1 0.00
43 38 0.13
46 1 0.00
47 17 0.06
48 81 0.28
49 48 0.16
50 3 0.01
51 40 0.14
52 32 0.11
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAGG
Found at i:251666 original size:39 final size:39
Alignment explanation
Indices: 251612--251689 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
251602 AAAGACAAGG
*
251612 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
* * *
251651 TGCCAATGTGCTGATTCATGGCCAACGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
251690 AAGACAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
Found at i:251680 original size:87 final size:86
Alignment explanation
Indices: 251565--251737 Score: 310
Period size: 87 Copynumber: 2.0 Consensus size: 86
251555 AAGATGAAGG
*
251565 TGCCAATGTGCTATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 TGCCAATGTGCTATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
251630 AGGCCAACGATATTGGGCTTA
66 AGGCCAACGATATTGGGCTTA
*
251651 TGCCAATGTGCTGATTCATGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCT-ATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
251716 AAGGCCAGCGATATTGGGCTTA
65 AAGGCCAACGATATTGGGCTTA
251738 AGATGGTAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
86 12 0.14
87 71 0.86
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (86 bp):
TGCCAATGTGCTATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
AGGCCAACGATATTGGGCTTA
Found at i:251805 original size:43 final size:43
Alignment explanation
Indices: 251744--251885 Score: 167
Period size: 43 Copynumber: 3.2 Consensus size: 43
251734 CTTAAGATGG
*
251744 TAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
251787 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T
* *
251831 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATACTGGACT
1 -----TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
*
251879 TGAAGGT
1 TAAAGGT
251886 ACCACGGAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
43 44 0.53
44 1 0.01
48 1 0.01
49 37 0.45
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:251885 original size:92 final size:94
Alignment explanation
Indices: 251695--251885 Score: 296
Period size: 92 Copynumber: 2.1 Consensus size: 94
251685 TCTTAAAGAC
* * *
251695 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAGATGGTAAAGGTGCCGATATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAGATGATAAAGGTGCCAATATG
*
251760 CTGATTCAAGGCCAGCGATATTGGACTTA
66 CTGATTCAAGGCCAGCGATACTGGACTTA
* *
251789 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GATAAAGGTGCCAATATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAGATGATAAAGGTGCCAATATG
* *
251852 CTGATTCAAGGCCAGTGATACTGGACTTG
66 CTGATTCAAGGCCAGCGATACTGGACTTA
251881 AAGGT
1 AAGGT
251886 ACCACGGAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 47 0.53
93 1 0.01
94 41 0.46
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (94 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAGATGATAAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATACTGGACTTA
Found at i:251984 original size:33 final size:33
Alignment explanation
Indices: 251881--253620 Score: 903
Period size: 34 Copynumber: 54.9 Consensus size: 33
251871 ACTGGACTTG
*
251881 AAGGTACCACGGAGTTGTGGACTTACAGAAA-AAA
1 AAGGTGCCACGGAGTTGTGGACTTA-A-AAAGAAA
* ** ** * * * *
251915 GATATGTAACGAAGGTGTGGGCTTAAAACGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAA-AGAAA
* * * *
251949 AGGGTACCACAGAGTCGTGGACTTAAAAAG-AA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *** * *
251981 AAGGTTCTACGGAGTTAAAGACTTAAAAGGAAC
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252014 AAGGTGCCACGGAGTTGTGCACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * * * *
252047 AAGATACCATGGAGGTGTGGGCTTAAAAGGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAA-AGAAA
* **
252081 AGGGTGCCACGGAGTCATGGACTTAAAAAG-AA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
252113 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* *
252147 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
** * *
252180 AAGAGTGCCATAGAGTTATGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* * *
252215 AATGTGCCACAGAGTTGTAGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252244 --GGTGCCACAGAGTTGTGGACTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* * **
252276 AAGGTGCCACAGAGTCGTGGACTT--TTAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252307 AAGATGCCACGAAGTTGTGGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252336 --GGTGCCATGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
** * * **
252367 AAAATGCCATGAAGTCATAGG-CTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGT-GGAC-TTAAAAAGAAA
* *
252401 AAGTTGTCACGGAGTTGTGGACTT------AAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
252428 AAGGTGCCACGGAGTTGTGCATTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * ** * * *
252461 AAGATACCACAAAGGTGTGGGCTTAAAAGGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAA-AGAAA
** ** * **
252495 GGGGTGCCACAAACTCATGGACTTAAAAAG-AA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
**
252527 AAGGTGCCACGGAGTTGTGGGTTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGT-GGACTTAAAAAGAAA
* * *
252561 AAGGTGCCACGGAGTTATAGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
** *
252594 AAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* *
252629 AAAGTGCCACGGAGTTGTAGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
252658 --GGTGCCACAGAGTTGTAGACTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* ** * ***
252690 AATGTGCCATAGAGTCGTGGACTT--TGGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252721 AAGATGCCACGAAGTTGTGGACTT------AAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
252748 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * **
252781 AAGATGCCACAGAGTCATAGG-CTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGT-GGAC-TTAAAAAGAAA
* *
252815 AAGGTGTCACGGAGTTGTGGACTT-AATAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
252844 --GGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
252875 AAGAGTGCCCCGGAATTGTGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
*
252910 AAGGTGCTACGGAGTTGTGGAC-TAAAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
252939 --GGTGCCACAGAGTTGTGGACTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* * **
252971 AAGGTGCCACAGAGTCGTGGACTT--TGAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
253002 AAGATGCCACGGAGTTGTGGACTT------AAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * **
253029 AATGTGCCATGGTGTTACGGACTT--AAA-AA-
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * ** * *
253058 --TGTGCCATGGTGTTACGAACTT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
253088 AAGGATGCCATGGAGTTGTGGGCTTTAAAAAGAAA
1 AAGG-TGCCACGGAGTTGTGGAC-TTAAAAAGAAA
253123 AAGGTGCCACGGAGTTGTGGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * *
253152 --GGTGCCACGGAGTTATGAACTTAAAAGGAAG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
253183 TAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
253218 AAGGTGCCACGGAGTTGTGGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
253247 --GGTGCCACAGAGTTGTGGTCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* ** **
253279 AAGGTG-CACAGAGTCATGGACTT--TGAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * *
253309 AAGATGCCACGAAGTTATAGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
*
253338 --GGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * ** *
253369 AAGATGTCACGGAGTCATGGGCTTCAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTT-AAAAAGAAA
*
253403 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
253436 AAGAGTGCCACGGAGTTATGGGCTTTAAAAGGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* * * *
253471 AAAGTGTCATGGAGTTGTGGACTT------TAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * * *
253498 ATGGTGTCACAGAGTTGTGGACTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAA
* * **
253532 AAGGTGCCACAGAGTCGTGGACTT--TGAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* * *
253563 AAGATGCCACGAAATTGTGGACTT-AAAAG---
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
253592 --GGTGTCACGGAGTTATGGACTTAAAAAGA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGA
253621 GATGCCGCTG
Statistics
Matches: 1306, Mismatches: 286, Indels: 233
0.72 0.16 0.13
Matches are distributed among these distances:
27 277 0.21
28 31 0.02
29 22 0.02
30 12 0.01
31 110 0.08
32 98 0.08
33 231 0.18
34 453 0.35
35 72 0.06
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (33 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
Found at i:252006 original size:32 final size:33
Alignment explanation
Indices: 251968--252242 Score: 108
Period size: 33 Copynumber: 8.3 Consensus size: 33
251958 CAGAGTCGTG
* *
251968 GACTTAAAAAGAA-AAGGTTCTACGGAGTTAAA
1 GACTTAAAAAGAACAAGGTGCCACGGAGTTAAA
* **
252000 GACTTAAAAGGAACAAGGTGCCACGGAGTT-GT
1 GACTTAAAAAGAACAAGGTGCCACGGAGTTAAA
* * * * * * ***
252032 GCACTTAAAAGGAAAAAGATACCATGGAGGTGTG
1 G-ACTTAAAAAGAACAAGGTGCCACGGAGTTAAA
* * * **
252066 GGCTTAAAAGGGAA-AAGGGTGCCACGGAGTCATG
1 GACTTAAAA-AGAACAA-GGTGCCACGGAGTTAAA
***
252100 GACTTAAAAAGAA-AAGGTGCCACGGAGTTGTG
1 GACTTAAAAAGAACAAGGTGCCACGGAGTTAAA
* * * ***
252132 GGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTG
1 GAC-TTAAAAAGAACAAGGTGCCACGGAGTTAAA
* * ** **
252166 GACTTAAAAGGAAAAAGAGTGCCATAGAGTTATG
1 GACTTAAAAAGAACAAG-GTGCCACGGAGTTAAA
* * * * **
252200 GGCTTTAAAAAGAAAAATGTGCCACAGAGTTGTA
1 GAC-TTAAAAAGAACAAGGTGCCACGGAGTTAAA
252234 GACTTAAAA
1 GACTTAAAA
252243 GGGTGCCACA
Statistics
Matches: 196, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
32 30 0.15
33 80 0.41
34 74 0.38
35 12 0.06
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (33 bp):
GACTTAAAAAGAACAAGGTGCCACGGAGTTAAA
Found at i:252072 original size:66 final size:67
Alignment explanation
Indices: 252003--253494 Score: 677
Period size: 61 Copynumber: 23.5 Consensus size: 67
251993 AGTTAAAGAC
* * * * *
252003 TTAAAAGGAACAAGGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCATGGAGGTGTGGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252068 C-
66 CT
* * ** * * *
252069 TTAAAAGGGAAAAGGGTGCCACGGAGTCATGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTGG
1 TTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGG
252133 GCT
65 GCT
* * *
252136 TTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTATGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCATGGAGTTGTGG
252201 GCT
65 GCT
* * * ** *
252204 TTAAAAAGAAAAATGTGCCACAGAGTTGTAGACTTAAAAGG-----G-TGCCACAGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252263 CT
66 CT
* * * ** * * *
252265 TTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT-TTA-GAAAAAGATGCCACGAAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252328 C-
66 CT
* * * ** *
252329 TT-AAAAG-----GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAAATGCCATGAAGTCATAGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252388 CT
66 CT
* * * *
252390 TTAAAAAGAAAAAGTTGTCACGGAGTTGTGGACTT------AAAAAGGTGCCACGGAGTTGT--G
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252447 CAT
66 C-T
* * * ** * * ** * *** * **
252450 TTAAAAGGAAAAAGATACCACAAAGGTGTGGGCTTAAAAGGGAAAGGGGTGCCACAAACTCATGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGATGCCATGGAGTTGTGG
*
252515 AC-
65 GCT
** * * * * *
252517 TTAAAAAG-AAAAGGTGCCACGGAGTTGTGGGTTTTAAAAAGAAAAAGGTGCCACGGAGTTATAG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGG
*
252581 AC-
65 GCT
* ** * * *
252583 TTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAA-AGTGCCACGGAGTTGT
1 TTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA-TGCCATGGAGTTGT
* *
252647 AGAC-
63 GGGCT
* * * *
252651 TT-AAAAG-----GGTGCCACAGAGTTGTAGACTTTGAAAA-GAAAAATG-TGCCATAGAGTCGT
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAA-GATGCCATGGAGTTGT
*
252708 GGACT
63 GGGCT
** * * * * *
252713 TT---GGGAAAAAGATGCCACGAAGTTGTGGACTT------AAAAAGGTGCCACGGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252769 C-
66 CT
* * * ** * * * *
252770 TTAAAAGGAAAAAGATGCCACAGAGTCATAGG-CTTTAAAAAGAAAAAGGTGTCACGGAGTTGTG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGT-GGAC-TTAAAAGGAAAAAGATGCCATGGAGTTGTG
*
252834 GAC-
64 GGCT
* ** *
252837 TT-AATAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCATGGAGTTGTGG
252896 GCT
65 GCT
* * ** *
252899 TTAAAAAGAAAAAGGTGCTACGGAGTTGTGGACTAAAAAGG-----G-TGCCACAGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
252958 CT
66 CT
* * * ** * *
252960 TTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT-TGA-GAAAAAGATGCCACGGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
253023 C-
66 CT
* * * ** * * ** **
253024 TT------AAAAATGTGCCATGGTGTTACGGACTT--AA--AAA-TG-TGCCATGGTGTTACGAA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
253077 C-
66 CT
* * * * * *
253078 TT-AAAAGGAAAAGGATGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
1 TTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCATGGAGTTGTG
*
253142 GAC-
64 GGCT
* * ** * *
253145 TT-AAAAG-----GGTGCCACGGAGTTATGAACTTAAAAGGAAGTAGAGTGCCACGGTGTTGTGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCATGGAGTTGTGG
253204 GCT
65 GCT
** *
253207 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCACAGAGTTGTGGT
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
253266 CT
66 CT
* * ** ** * * * * *
253268 TTGAAAAGAAAAAGGTG-CACAGAGTCATGGACTT-TGA-GAAAAAGATGCCACGAAGTTATAGA
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
253330 C-
66 CT
* * **
253331 TT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTCATGGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
253390 CT
66 CT
* * *
253392 TCAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGG
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCATGGAGTTGTGG
253457 GCT
65 GCT
* * * *
253460 TTAAAAGGAAAAAAGTGTCATGGAGTTGTGGACTT
1 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
253495 TAAATGGTGT
Statistics
Matches: 1105, Mismatches: 213, Indels: 214
0.72 0.14 0.14
Matches are distributed among these distances:
54 15 0.01
55 1 0.00
56 3 0.00
57 8 0.01
58 74 0.07
59 12 0.01
60 146 0.13
61 244 0.22
62 28 0.03
63 22 0.02
64 21 0.02
65 52 0.05
66 100 0.09
67 180 0.16
68 198 0.18
69 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (67 bp):
TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGG
CT
Found at i:252093 original size:100 final size:98
Alignment explanation
Indices: 251936--253494 Score: 340
Period size: 95 Copynumber: 16.4 Consensus size: 98
251926 AAGGTGTGGG
** * * * *
251936 CTTAAAACGGAAAAGGGTACCACAGA-GTCGTGGACTTAAAAAG-AAAAG-GTTCTACGGAGTTA
1 CTTAAAA-GGAAAAAAGTACCACGGAGGT-GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTA
** *
251998 AAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGCA
64 TGGACTTAAAAAGAA-AAGGTGCCACGGAGTTGTG-A
* * * * *
252035 CTTAAAAGG-AAAAAGATACCATGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTCAT
1 CTTAAAAGGAAAAAAG-TACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
*
252099 GGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGG
65 GGACTTAAAAAGAAAAGGTGCCACGGAGTTGT-GA
* * * **
252134 CTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTAT
1 C-TTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * *
252199 GGGCTTTAAAAAGAAAAATGTGCCACAGAGTTGTAGA
65 GGAC-TTAAAAAG-AAAAGGTGCCACGGAGTTGT-GA
* * * * **
252236 CTTAAAAGG------GTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGTCG
1 CTTAAAAGGAAAAAAGTACCACGGAGGTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTA
** * * *
252293 TGGACTTTTAGA-AAAAGATGCCACGAAGTTGTGGA
64 TGGACTTAAAAAGAAAAGGTGCCACGGAGTTGT-GA
* * * * * * *
252328 CTTAAAAGG------GTGCCATGGAGTTGTGGACTTAAAAGGAAAAA-AATGCCATGAAGTCATA
1 CTTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT-
* *
252386 GG-CTTTAAAAAGAAAAAGTTGTCACGGAGTTGTGGA
65 GGAC-TTAAAAAG-AAAAGGTGCCACGGAGTTGT-GA
* * * * * * ** * *
252422 CTT------AAAAAGGTGCCACGGAGTTGTGCATTTAAAAGGAAAAAGA-TACCACAAAGGTGTG
1 CTTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATG
* * * ** *
252480 GGCTTAAAAGGGAAAGGGGTGCCACAAACTCATG-GA
66 GACTTAAAA-AGAAA-AGGTGCCACGGAGT--TGTGA
* * * * ** *
252516 CTTAAAAAG-AAAAGGTGCCACGGAGTTGTGGGTTTTAAAAAGAAAAAG-GTGCCACGGAGTTAT
1 CTTAAAAGGAAAAAAGTACCACGGAGGTGT-GGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * ** *
252579 AGACTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGG
65 GGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGT-GA
* * * * * *
252616 CTTTAAAAAGAAAAAAGTGCCACGGAGTTGTAGACTTAAAA-G-----G-GTGCCACAGAGTTGT
1 C-TTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * * ** *
252674 AGACTTTGAAAAGAAAAATGTGCCATAGAGTCGTGGA
65 GGAC-TTAAAAAG-AAAAGGTGCCACGGAGTTGT-GA
* * * * * *
252711 CTT---TGGGAAAAAGATGCCACGAAGTTGTGGACTT------AAAAAG-GTGCCACGGAGTTGT
1 CTTAAAAGGAAAAAAG-TACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * * ** *
252766 GGACTTAAAAGGAAAAAGATGCCACAGAGTCATAGG
65 GGACTTAAAAAG-AAAAGGTGCCACGGAGTTGT-GA
* * ** * * *
252802 CTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAATA-G-----G-GTGCCACGGAGTTGT
1 C-TTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * * *
252860 GGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGGG
65 GGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGT-GA
* * * * * * * *
252897 CTTTAAAAAGAAAAAGGTGCTACGGAGTTGTGGAC-T------AAAAAGGGTGCCACAGAGTTGT
1 C-TTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * *
252955 GGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGA
65 GGAC-TTAAAAAG-AAAAGGTGCCACGGAGTTGT-GA
** * * * * * *
252992 CTT-TGA-G-AAAAAGATGCCACGGAGTTGTGGACTT------AAAAA-TGTGCCATGGTGTTAC
1 CTTAAAAGGAAAAAAG-TACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTAT
* * * **
253047 GGACTT----A-AAAATGTGCCATGGTGTTACGAA
65 GGACTTAAAAAGAAAAGGTGCCACGGAGTTGTG-A
* * * * * * *
253077 CTTAAAAGG-AAAAGGATGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTG
1 CTTAAAAGGAAAAAAG-TACCACGGAGGTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTA
*
253140 TGGACTT-AAAAG----GGTGCCACGGAGTTATGAA
64 TGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTG-A
* * * * * * * *
253171 CTTAAAAGGAAGTAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTG
1 CTTAAAAGGAA-AAAAGTACCACGGAGGTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTA
* *
253235 TGGACTT-AAAAG----GGTGCCACAGAGTTGTGGT
64 TGGACTTAAAAAGAAAAGGTGCCACGGAGTTGT-GA
* * * * ** *
253266 CTTTGAAAA-GAAAAAGGT-GCACAGA-GTCATGGACTT-TGA-GAAAAAGA-TGCCACGAAGTT
1 C-TT-AAAAGGAAAAAAGTACCACGGAGGT-GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTT
*
253325 ATAGACTT-AAAAG----GGTGCCACGGAGTTGTGGA
63 ATGGACTTAAAAAGAAAAGGTGCCACGGAGTTGT-GA
* * *
253357 CTTAAAAGGAAAAAGATGT--CACGGA-GTCATGGGCTTCAAAAAGAAAAAG-GTGCCACGGAGT
1 CTTAAAAGGAAAAA-A-GTACCACGGAGGT-GTGGACTT-AAAAGGAAAAAGAGTGCCACGGAGT
* * * *
253418 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGG
62 TATGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGT-GA
** * *
253458 CTTTAAAAGGAAAAAAGTGTCATGGAGTTGTGGACTT
1 C-TTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTT
253495 TAAATGGTGT
Statistics
Matches: 1147, Mismatches: 204, Indels: 215
0.73 0.13 0.14
Matches are distributed among these distances:
84 1 0.00
85 17 0.01
86 1 0.00
87 24 0.02
88 2 0.00
89 4 0.00
90 12 0.01
91 120 0.10
92 123 0.11
93 22 0.02
94 215 0.19
95 231 0.20
96 42 0.04
97 13 0.01
98 23 0.02
99 56 0.05
100 123 0.11
101 54 0.05
102 63 0.05
103 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (98 bp):
CTTAAAAGGAAAAAAGTACCACGGAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATG
GACTTAAAAAGAAAAGGTGCCACGGAGTTGTGA
Found at i:252125 original size:132 final size:133
Alignment explanation
Indices: 251927--252183 Score: 381
Period size: 132 Copynumber: 1.9 Consensus size: 133
251917 TATGTAACGA
* * *
251927 AGGTGTGGGCTTAAAACGGAAAAGGGTACCACAGAGTCGTGGACTTAAAAAGAAAAGGTTCTACG
1 AGGTGTGGGCTTAAAACGGAAAAGGGTACCACAGAGTCATGGACTTAAAAAGAAAAGGTGCCACG
* * *
251992 GAGTTAAAGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCA
66 GAGTTAAAGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCA
252056 TGG
131 TGG
* * *
252059 AGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTCATGGACTTAAAAAGAAAAGGTGCCACG
1 AGGTGTGGGCTTAAAACGGAAAAGGGTACCACAGAGTCATGGACTTAAAAAGAAAAGGTGCCACG
*** * *
252124 GAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
66 GAGTTAAAGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGA
252184 GTGCCATAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 66 0.60
133 44 0.40
ACGTcount: A:0.39, C:0.12, G:0.31, T:0.18
Consensus pattern (133 bp):
AGGTGTGGGCTTAAAACGGAAAAGGGTACCACAGAGTCATGGACTTAAAAAGAAAAGGTGCCACG
GAGTTAAAGACTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCA
TGG
Found at i:252250 original size:27 final size:27
Alignment explanation
Indices: 252218--252363 Score: 123
Period size: 27 Copynumber: 5.0 Consensus size: 27
252208 AAAGAAAAAT
*
252218 GTGCCACAGAGTTGTAGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
252245 GTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
* *
252279 GTGCCACAGAGTCGTGGACTTTTAGAAAAAG
1 GTGCCACAGAGTTGTGGAC--TT--AAAAGG
*
252310 ATGCCAC-GAAGTTGTGGACTTAAAAGG
1 GTGCCACAG-AGTTGTGGACTTAAAAGG
**
252337 GTGCCATGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
252364 AAAAAAATGC
Statistics
Matches: 100, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
27 46 0.46
28 3 0.03
29 7 0.07
30 1 0.01
31 16 0.16
34 19 0.19
35 3 0.03
36 5 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.23
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:252438 original size:27 final size:27
Alignment explanation
Indices: 252398--252455 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
252388 CTTTAAAAAG
* * *
252398 AAAAAGTTGTCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGCACTT
*
252425 AAAAAGGTGCCACGGAGTTGTGCATTT
1 AAAAAGGTGCCACGGAGTTGTGCACTT
252452 AAAA
1 AAAA
252456 GGAAAAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (27 bp):
AAAAAGGTGCCACGGAGTTGTGCACTT
Found at i:252484 original size:94 final size:94
Alignment explanation
Indices: 252144--252474 Score: 366
Period size: 94 Copynumber: 3.5 Consensus size: 94
252134 CTTTAAAAAG
* * * *
252144 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTATGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACAAAGTCATGGGCTTTAAA
* *
252209 AAGAAAAA-TGTGCCACAGAGTTGTAGACTT
65 AAGAAAAAGT-TGCCACGGAGTTGTGGACTT
* * * * * *
252239 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGGTGCCACAGAGTCGTGGACTTT--
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCACAAAGTCATGGGCTTTAA
* * *
252301 -TAGAAAAAGATGCCACGAAGTTGTGGACTT
64 AAAGAAAAAGTTGCCACGGAGTTGTGGACTT
* * * ** *
252331 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAAATGCCATGAAGTCATAGGCTTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTCATGGGCTTTAAAA
*
252396 AGAAAAAGTTGTCACGGAGTTGTGGACTT
66 AGAAAAAGTTGCCACGGAGTTGTGGACTT
* * *
252425 AAAAAGGTGCCACGGAGTTGTGCATTTAAAAGGAAAAAGATACCACAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAG
252475 GTGTGGGCTT
Statistics
Matches: 194, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
90 4 0.02
91 23 0.12
92 47 0.24
94 68 0.35
95 39 0.20
96 9 0.05
97 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.21
Consensus pattern (94 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTCATGGGCTTTAAAA
AGAAAAAGTTGCCACGGAGTTGTGGACTT
Found at i:252677 original size:95 final size:95
Alignment explanation
Indices: 252558--253617 Score: 561
Period size: 95 Copynumber: 11.3 Consensus size: 95
252548 TTTTAAAAAG
* * * * *
252558 AAAAAGGTGCCACGGAGTTATAGACTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAA
*
252623 AAGAAAAAAGTGCCACGGAGTTGTAGACTT
66 AAGAAAAAAGTGCCACGGAGTTGTGGACTT
* * * * *
252653 AAAAGGGTGCCACAGAGTTGTAGACTTTGAAAA-GAAAAA-TGTGCCATAGAGTCGTGGACTTT-
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTA
* * *
252715 ---GGGAAAAAGATGCCACGAAGTTGTGGACTT
64 AAAAGAAAAAAG-TGCCACGGAGTTGTGGACTT
* * *
252745 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACAGAGTCATAGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAA
* *
252809 AAGAAAAAGGTGTCACGGAGTTGTGGACTT
66 AAGAAAAAAGTGCCACGGAGTTGTGGACTT
* * * * *
252839 AATAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAA
* * *
252904 AAGAAAAAGGTGCTACGGAGTTGTGGACTA
66 AAGAAAAAAGTGCCACGGAGTTGTGGACTT
* *
252934 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGTCGTGGACTTT-
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTA
*
252996 --GAG-AAAAAGATGCCACGGAGTTGTGGACTT
64 AAAAGAAAAAAG-TGCCACGGAGTTGTGGACTT
** * * ** * ** * *** **
253026 AAAAATGTGCCATGGTGTTACGGACTT------AAAAA-TGTGCCATGGTGTTACGAAC-TT-AA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAA
* * * *
253082 AAGGAAAAGGATGCCATGGAGTTGTGGGCTTT
66 AAGAAAAAAG-TGCCACGGAGTTGTGGAC-TT
* ** **
253114 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACGGAGTTATGAAC
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGC
* * * * *
253172 -TTAAAAGGAAGTAGAGTGCCACGGTGTTGTGGGCTTT
60 TTTAAAAAGAA-AAAAGTGCCACGGAGTTGTGGAC-TT
* *
253209 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACAGAGTTGTGGTC
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGC
* * * **
253267 TTTGAAAAGAAAAAGGTG-CACAGAGTCATGGACTTT
60 TTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGAC-TT
* * * * * * * *
253303 GAGAAAAAGATGCCACGAAGTTATAGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGAC-TT
1 ---AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTT
* * ** *
253360 -AAAAGGAAAAAGATGTCACGGAGTCATGGGCTT
63 AAAAAGAAAAAAG-TGCCACGGAGTTGTGGACTT
* **
253393 CAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGG
1 --AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGG
* * *
253458 CTTTAAAAGGAAAAAAGTGTCATGGAGTTGTGGACTT
59 CTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTT
* * * * *
253495 TAAATGGTGTCACAGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGTCGTGGACTTT-
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTA
* * *
253557 --GAG-AAAAAGATGCCACGAAATTGTGGACTT
64 AAAAGAAAAAAG-TGCCACGGAGTTGTGGACTT
* *
253587 AAAAGGGTGTCACGGAGTTATGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA
253618 AGAGATGCCG
Statistics
Matches: 773, Mismatches: 138, Indels: 113
0.75 0.13 0.11
Matches are distributed among these distances:
84 2 0.00
85 17 0.02
86 2 0.00
87 22 0.03
88 2 0.00
89 18 0.02
90 14 0.02
91 101 0.13
92 116 0.15
94 126 0.16
95 252 0.33
96 40 0.05
97 12 0.02
100 4 0.01
101 17 0.02
102 18 0.02
103 10 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.22
Consensus pattern (95 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAA
AAGAAAAAAGTGCCACGGAGTTGTGGACTT
Found at i:252756 original size:27 final size:27
Alignment explanation
Indices: 252718--252775 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
252708 GGACTTTGGG
252718 AAAAAGATGCCACGAAGTTGTGGACTT
1 AAAAAGATGCCACGAAGTTGTGGACTT
* *
252745 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGATGCCACGAAGTTGTGGACTT
252772 AAAA
1 AAAA
252776 GGAAAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (27 bp):
AAAAAGATGCCACGAAGTTGTGGACTT
Found at i:252875 original size:281 final size:280
Alignment explanation
Indices: 252498--253617 Score: 1046
Period size: 281 Copynumber: 4.0 Consensus size: 280
252488 AGGGAAAGGG
* * * *
252498 GTGCCACAAACTCAT-GGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTGGGTTTTAAAAAGAAA
1 GTGCCACAGAGTCATAGG-CTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGG-CTTAAAAAG---
* * ** *
252561 AAGGTGCCACGGAGTTATAGACTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAG
61 -AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAG
* *
252626 AAAAAAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTGAAAAGAAAA
125 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAA
* * *
252691 ATGTGCCATAGAGTCGTGGACTTTGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCC
190 AGGTGCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCC
*
252756 ACGGAGTTGTGGACTTAAAAGGAAAAA
255 ACGGAGTTATGGACTTAAAAGG-AAAA
* *
252783 GATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTT-AATAG-GG
1 G-TGCCACAGAGTCATAGGC-TTAAAAAGAAAAAGGTGTCACGGAGTTGTGGGCTTAAAAAGAGG
* * *
252846 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGGGCTTTAAAAAGAAAA
64 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAA
* * *
252911 AGGTGCTACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGT
129 AAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGT
* * *
252976 GCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAATGTGCCATGG
194 GCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGG
* * *
253041 TGTTACGGACTT--AA--AAAT
259 AGTTATGGACTTAAAAGGAAAA
* ** * * * *
253059 GTGCCA-TG-GTGTTACGAACTT-AAAAGGAAAAGGATGCCATGGAGTTGTGGGCTTTAAAAAGA
1 GTGCCACAGAGTCATA-G-GCTTAAAAAGAAAAAGG-TGTCACGGAGTTGTGGGC-TTAAAAAG-
**
253121 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACGGAGTTATGAAC-TTAAAA
61 ---AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAA
* * * * * *
253178 GGAAGTAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT
123 AGAA-AAAAGTGCCACGGAGTTGTGGAC-TT-AAAAG-----GGTGCCACAGAGTTGTGGACTTT
* * * **
253242 -AAAAG-----GGTGCCACAGAGTTGTGGTCTTTGAAAAGAAAAAGGTG-CAC-AGAGTCATGGA
180 GAAAAGAAAAAGGTGCCACAGAGTCGTGGACTTTG---AGAAAAAGATGCCACGA-AGTTGTGGA
* * *
253299 CTTTGAGAAAAAGATGCCACGAAGTTATAGACTTAAAAGG----
241 C-TT---AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAA
* ** * * **
253339 GTGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGATGTCACGGAGTCATGGGCTTCAAAAAGAAA
1 GTGCCACAGAGTCATAGG-CTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGGCTT-AAAAAG---
*
253403 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAGG
61 -AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAG
* * * * *
253468 AAAAAAGTGTCATGGAGTTGTGGACTTTAAATGGTGTCACAGAGTTGTGGACTTTGAAAAGAAAA
125 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAA
* * *
253533 AGGTGCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGAAATTGTGGACTTAAAAGGGTGTC
190 AGGTGCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCC
253598 ACGGAGTTATGGACTTAAAA
255 ACGGAGTTATGGACTTAAAA
253618 AGAGATGCCG
Statistics
Matches: 682, Mismatches: 97, Indels: 116
0.76 0.11 0.13
Matches are distributed among these distances:
273 24 0.04
274 72 0.11
275 10 0.01
276 24 0.04
277 12 0.02
279 9 0.01
280 102 0.15
281 273 0.40
282 10 0.01
284 12 0.02
285 14 0.02
286 21 0.03
287 68 0.10
288 31 0.05
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.22
Consensus pattern (280 bp):
GTGCCACAGAGTCATAGGCTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGGCTTAAAAAGAGGTG
CCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAA
GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGC
CACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGGAG
TTATGGACTTAAAAGGAAAA
Found at i:252938 original size:414 final size:409
Alignment explanation
Indices: 252016--253452 Score: 1551
Period size: 414 Copynumber: 3.5 Consensus size: 409
252006 AAAGGAACAA
* * *
252016 GGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCATGGAGGTGTGGGCTTAAAAGGGAAA
1 GGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCACGGAAGTGTGGGCTTAAAAGAGAAA
* *
252081 AGGGTGCCACGGAGTCATGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
66 AAGGTGCCACGAAGTCATGGACTTAAAAAG----GGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* ** * * *
252146 AAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTATGGGCTTTAAAAA
127 AAAGGTGCCACGGAGTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGAC-TTAAAAA
* * *
252211 GAAAAATGTGCCACAGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAA
191 GAAAAAAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTGAAAAGAAA
* *
252276 AAGGTGCCACAGAGTCGTGGACTTTTAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGGTGC
256 AAGGTGCCATAGAGTCGTGGACTTTAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGGTGC
* * * *
252341 CATGGAGTTGTGGACTTAAAAGGAAAAAAATGCCA-TGAAGTCATAGGCTTTAAAAAGAAAAAGT
321 CACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAG-AGTCATAGGCTTTAAAAAGAAAAAGG
*
252405 TGTCACGGAGTTGTGGACTTAAAAA
385 TGTCACGGAGTTGTGGACTTAAAAG
* * *
252430 GGTGCCACGGAGTTGTGCATTTAAAAGGAAAAAGATACCAC-AAAGGTGTGGGCTTAAAAGGGAA
1 GGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCACGGAA-GTGTGGGCTTAAAAGAGAA
** * * *
252494 AGGGGTGCCACAAACTCATGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGTTTTAAAAAGA
65 AAAGGTGCCACGAAGTCATGGACTTAAAAAG----GGTGCCACGGAGTTGTGGGCTTTAAAAAGA
* * * *
252559 AAAAGGTGCCACGGAGTTATAGACTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAA
126 AAAAGGTGCCACGGAGTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGAC-TTAAAA
252624 AGAAAAAAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTGAAAAGAA
190 AGAAAAAAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTGAAAAGAA
* ** *
252689 AAATGTGCCATAGAGTCGTGGACTTTGGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTG
255 AAAGGTGCCATAGAGTCGTGGACTTTAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGGTG
252754 CCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGG
320 CCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGG
*
252819 TGTCACGGAGTTGTGGACTTAATAG
385 TGTCACGGAGTTGTGGACTTAAAAG
* * * *
252844 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGGGCTTTAAAA-AGA
1 GGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGA-TACCACGGAAGTGTGGGC-TTAAAAGAGA
* * ** * * *
252908 AAAAGGTGCTACGGAGTTGTGGAC-TAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAA
64 AAAAGGTGCCACGAAGTCATGGACTTAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
* * ** *
252972 AGGTGCCACAGAGTCGTGGACTT-TGA-GAAAAAGA-TGCCACGGAGTTGTGGACTT------AA
129 AGGTGCCACGGAGTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAAGAA
* * * *** ** * *
253028 AAATGTGCCATGGTGTTACGGACTTAAAAATGTGCCA-TG-G-TGTTACGAAC-TT-AAAAGGAA
194 AAAAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTG-TA-G-ACTTTGAAAAGAAA
* * * * *
253088 AAGGATGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
256 AAGG-TGCCATAGAGTCGTGGACTTT---AAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGG
* * ** * * ** *
253153 GTGCCACGGAGTTATGAACTTAAAAGGAAGTAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAA
317 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACAGAGTCATAGGCTTTAAAAAGAAA
*
253218 AAGGTGCCACGGAGTTGTGGACTTAAAAG
381 AAGGTGTCACGGAGTTGTGGACTTAAAAG
* ** * * * * * *
253247 GGTGCCACAGAGTTGTGGTCTTTGAAAA-GAAAAAGGT-GCACAG-AGTCATGGACTT---TGAG
1 GGTGCCACGGAGTTGTGCAC-TT-AAAAGGAAAAAGATACCACGGAAGT-GTGGGCTTAAAAGAG
* * * * *
253306 AAAAAGATGCCACGAAGTTATAGACTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
63 AAAAAGGTGCCACGAAGTCATGGACTTAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
* * * * * *
253369 AAGATGTCACGGAGTCATGGGCTTCAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
128 AAGGTGCCACGGAGTCATGGACTT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAAG
253433 AAAAAGAGTGCCACGGAGTT
192 AAAAA-AGTGCCACGGAGTT
253453 ATGGGCTTTA
Statistics
Matches: 881, Mismatches: 113, Indels: 64
0.83 0.11 0.06
Matches are distributed among these distances:
397 2 0.00
398 41 0.05
399 68 0.08
400 35 0.04
401 31 0.04
402 68 0.08
403 71 0.08
404 9 0.01
405 4 0.00
406 2 0.00
407 20 0.02
408 19 0.02
409 1 0.00
410 48 0.05
413 1 0.00
414 423 0.48
415 30 0.03
416 8 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (409 bp):
GGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCACGGAAGTGTGGGCTTAAAAGAGAAA
AAGGTGCCACGAAGTCATGGACTTAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
GTGCCACGGAGTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAAGAAAA
AAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTGAAAAGAAAAAGGT
GCCATAGAGTCGTGGACTTTAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGTCAC
GGAGTTGTGGACTTAAAAG
Found at i:252951 original size:27 final size:26
Alignment explanation
Indices: 252907--252959 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
252897 CTTTAAAAAG
* *
252907 AAAAAGGTGCTACGGAGTTGTGGACT
1 AAAAAGGTGCCACAGAGTTGTGGACT
252933 AAAAAGGGTGCCACAGAGTTGTGGACT
1 AAAAA-GGTGCCACAGAGTTGTGGACT
252960 TTGAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (26 bp):
AAAAAGGTGCCACAGAGTTGTGGACT
Found at i:253037 original size:27 final size:27
Alignment explanation
Indices: 252968--253064 Score: 86
Period size: 27 Copynumber: 3.4 Consensus size: 27
252958 CTTTGAAAAG
* * *
252968 AAAAAGGTGCCACAGAGTCGTGGACTTT
1 AAAAATGTGCCACGGAGTTGTGGAC-TT
*
252996 GAGAAAAAGATGCCACGGAGTTGTGGACTT
1 -A-AAAATG-TGCCACGGAGTTGTGGACTT
* * **
253026 AAAAATGTGCCATGGTGTTACGGACTT
1 AAAAATGTGCCACGGAGTTGTGGACTT
253053 AAAAATGTGCCA
1 AAAAATGTGCCA
253065 TGGTGTTACG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 28 0.48
28 5 0.09
29 2 0.03
30 7 0.12
31 16 0.28
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (27 bp):
AAAAATGTGCCACGGAGTTGTGGACTT
Found at i:253065 original size:27 final size:27
Alignment explanation
Indices: 253020--253083 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
253010 ACGGAGTTGT
253020 GGACTTAAAAATGTGCCATGGTGTTAC
1 GGACTTAAAAATGTGCCATGGTGTTAC
253047 GGACTTAAAAATGTGCCATGGTGTTAC
1 GGACTTAAAAATGTGCCATGGTGTTAC
*
253074 GAACTTAAAA
1 GGACTTAAAA
253084 GGAAAAGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (27 bp):
GGACTTAAAAATGTGCCATGGTGTTAC
Found at i:253114 original size:308 final size:307
Alignment explanation
Indices: 252718--253363 Score: 941
Period size: 308 Copynumber: 2.1 Consensus size: 307
252708 GGACTTTGGG
* * ** ** *
252718 AAAAAGATGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 AAAAAGGTGCCACGGAGTTACGGACTTAAAAAGGTGCCACGGAGTTACGAACTTAAAAGGAAAAA
* *
252783 GATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAATAGGGTG
66 GATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
* * *
252848 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCCCGGAATTGTGGGCTTTAAAAAGAAAAAG
131 CCACGGAGTTATGAACTTAAAAGGAAAAAGAGTGCCACGGAATTGTGGGCTTTAAAAAGAAAAAG
*
252913 GTGCTACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGC
196 GTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTG-
* * * *
252978 CACAGAGTCGTGGACTTTGAGAAAAAGATGCCACGGAGTTGTGGACTT
260 CACAGAGTCATGGACTTTGAGAAAAAGATGCCACGAAGTTATAGACTT
* * * * * * *
253026 AAAAATGTGCCATGGTGTTACGGACTTAAAAATGTGCCATGGTGTTACGAACTTAAAAGGAAAAG
1 AAAAAGGTGCCACGGAGTTACGGACTTAAAAAGGTGCCACGGAGTTACGAACTTAAAAGGAAAAA
** ** *
253091 GATGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
66 GATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
** **
253156 CCACGGAGTTATGAACTTAAAAGGAAGTAGAGTGCCACGGTGTTGTGGGCTTTAAAAAGAAAAAG
131 CCACGGAGTTATGAACTTAAAAGGAAAAAGAGTGCCACGGAATTGTGGGCTTTAAAAAGAAAAAG
* *
253221 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTTGAAAAGAAAAAGGTGC
196 GTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGC
253286 ACAGAGTCATGGACTTTGAGAAAAAGATGCCACGAAGTTATAGACTT
261 ACAGAGTCATGGACTTTGAGAAAAAGATGCCACGAAGTTATAGACTT
* **
253333 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTACGGACTTAAAA
253364 GGAAAAAGAT
Statistics
Matches: 297, Mismatches: 41, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
307 69 0.23
308 228 0.77
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (307 bp):
AAAAAGGTGCCACGGAGTTACGGACTTAAAAAGGTGCCACGGAGTTACGAACTTAAAAGGAAAAA
GATGCCACAGAGTCATAGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
CCACGGAGTTATGAACTTAAAAGGAAAAAGAGTGCCACGGAATTGTGGGCTTTAAAAAGAAAAAG
GTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGC
ACAGAGTCATGGACTTTGAGAAAAAGATGCCACGAAGTTATAGACTT
Found at i:253158 original size:27 final size:28
Alignment explanation
Indices: 253120--253363 Score: 129
Period size: 27 Copynumber: 8.1 Consensus size: 28
253110 CTTTAAAAAG
253120 AAAAA-GGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
* *
253147 -AAAAGGGTGCCACGGAGTTATGAACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
* *
253174 AAAAGGAAGTAGAGTGCCACGGTGTTGTGGGCTTT
1 -AAA--AAG--G-GTGCCACGGAGTTGTGGAC-TT
253209 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAG-----GGTGCCACGGAGTTGTGGACTT
* *
253242 -AAAAGGGTGCCACAGAGTTGTGGTCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGAC-TT
* * **
253270 GAAAAGAAAAAGGTG-CACAGAGTCATGGACTTT
1 ----A-AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * *
253303 GAGAAAAAGATGCCACGAAGTTATAGACTT
1 -A-AAAAGGGTGCCACGGAGTTGTGGACTT
253333 -AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
253360 AAAA
1 AAAA
253364 GGAAAAAGAT
Statistics
Matches: 170, Mismatches: 26, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
26 4 0.02
27 60 0.35
28 5 0.03
29 2 0.01
30 12 0.07
31 14 0.08
32 8 0.05
33 18 0.11
34 43 0.25
35 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:253335 original size:91 final size:91
Alignment explanation
Indices: 253118--253388 Score: 258
Period size: 91 Copynumber: 2.9 Consensus size: 91
253108 GGCTTTAAAA
* * * * * * * *
253118 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGAACTTAAAAGGAAG
1 AGAAAAAGATGCCACGAAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAA
* * * * ** * *
253183 TAGAGTGCCACGGTGTTGTGGGCTTTAAAA
66 AAGA-TGTCACAGAGTCATGGACTTT---G
* * * * *
253213 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTTGAAAA-GA
1 AGAAAAAGATGCCACGAAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGGA
*
253277 AAAAGGTG-CACAGAGTCATGGACTTTG
64 AAAAGATGTCACAGAGTCATGGACTTTG
*
253304 AGAAAAAGATGCCACGAAGTTATAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AGAAAAAGATGCCACGAAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAA
*
253369 AAGATGTCACGGAGTCATGG
66 AAGATGTCACAGAGTCATGG
253389 GCTTCAAAAA
Statistics
Matches: 151, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
89 4 0.03
90 11 0.07
91 60 0.40
94 13 0.09
95 52 0.34
96 7 0.05
97 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (91 bp):
AGAAAAAGATGCCACGAAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAA
AAGATGTCACAGAGTCATGGACTTTG
Found at i:253685 original size:61 final size:60
Alignment explanation
Indices: 253530--253959 Score: 451
Period size: 61 Copynumber: 7.1 Consensus size: 60
253520 TTTGAAAAGA
* * * * *
253530 AAAAGGTGCCACAGAGTCGTGGACTTTGAGAAAAAGATGCCAC-GAAATTGTGGAC-TT-A-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG-AAGAGATGCCACTG-AGTCGTGGACTTTGAG
* * * * ** * * * *
253588 AAAGGGTGTCACGGAGTTATGGAC-TTAAAAAGAGATGCCGCTGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTG-AG
* * *
253648 AAAAGATGCCACTGAGTCATGGACTTTGGGACA-AGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGA-AGAGATGCCACTGAGTCGTGGACTTTG-AG
* * *
253709 AAAAAAGATACCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGG
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-AGAAGAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
253772 AAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTAAGTTGTGGACTTTGAC
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
253833 AAAAGATGCCACTGAGTCATGGACTTTG-GAAAGAGATGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG-AAGAGATGCCACTGAGTCGTGGACTTTGAG
* *
253893 AAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTTGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAG
253954 AAAAGA
1 AAAAGA
253960 GATTTGAAGA
Statistics
Matches: 313, Mismatches: 44, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
56 19 0.06
57 6 0.02
58 19 0.06
59 1 0.00
60 79 0.25
61 134 0.43
62 1 0.00
63 28 0.09
64 26 0.08
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (60 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:253769 original size:31 final size:30
Alignment explanation
Indices: 253530--253959 Score: 451
Period size: 30 Copynumber: 14.2 Consensus size: 30
253520 TTTGAAAAGA
* *
253530 AAAAGGTGCCACAGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
253560 AAAAAGATGCCAC-GAAATTGTGGAC-TT-A-
1 -AAAAGATGCCACTG-AGTCGTGGACTTTGAG
* * * * ** *
253588 AAAGGGTGTCACGGAGTTATGGAC-TT-AA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
253616 AAAGAGATGCCGCTGAGTTGTGGACTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-AG
* *
253648 AAAAGATGCCACTGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
253678 ACAAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
253709 AAAAAAGATACCACTGAGTCGTGGACTTTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
253742 AAAAGATGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
253772 AAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
253802 AAGAGATTGCCACTAAGTTGTGGACTTTGAC
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
253833 AAAAGATGCCACTGAGTCATGGACTTTG-G
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
253862 AAAGAGATGCCACTGAGTCGTGGACTTTGGG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAG
*
253893 AAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
253923 AAGAGATTGCCACTGAGTTGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
253954 AAAAGA
1 AAAAGA
253960 GATTTGAAGA
Statistics
Matches: 344, Mismatches: 41, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.06
28 4 0.01
29 19 0.06
30 143 0.42
31 126 0.37
32 4 0.01
33 28 0.08
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:255258 original size:25 final size:25
Alignment explanation
Indices: 255228--255277 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
255218 TGCCTTTGCA
* *
255228 CTTTTTTTTTGTTTTTTGTTTTTTTT
1 CTTTTCTTTT-TTTTTTGTGTTTTTT
255254 CTTTTCTTTTTTTTTTGTGTTTTT
1 CTTTTCTTTTTTTTTTGTGTTTTT
255278 ACTTGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (25 bp):
CTTTTCTTTTTTTTTTGTGTTTTTT
Found at i:266488 original size:37 final size:37
Alignment explanation
Indices: 266438--266512 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
266428 ATTAAAGAAG
*
266438 AAGTCAAGAAGCAGTTTGATGTAGGGTTCATCGGAGT
1 AAGTCAAGAAGCAGTTTGATGCAGGGTTCATCGGAGT
266475 AAGTCAAGAAGCAGTTTGATGCAGGGTTCATCGGAGT
1 AAGTCAAGAAGCAGTTTGATGCAGGGTTCATCGGAGT
266512 A
1 A
266513 GCCAAATATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGTCAAGAAGCAGTTTGATGCAGGGTTCATCGGAGT
Found at i:269544 original size:12 final size:12
Alignment explanation
Indices: 269527--269615 Score: 76
Period size: 12 Copynumber: 7.2 Consensus size: 12
269517 CGTCCTCTGC
269527 AAACAAAACAAA
1 AAACAAAACAAA
269539 AAAC-AAACAAA
1 AAACAAAACAAA
*
269550 CAAA-AAAAGCAGA
1 -AAACAAAA-CAAA
*
269563 AAA-AAAACACA
1 AAACAAAACAAA
269574 AAACAAAACAAA
1 AAACAAAACAAA
*
269586 AACAAACAAACGAAA
1 AA-ACA-AAAC-AAA
269601 AAACAATAACAAA
1 AAACAA-AACAAA
269614 AA
1 AA
269616 GGGTCTGGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
11 13 0.20
12 26 0.41
13 11 0.17
14 9 0.14
15 5 0.08
ACGTcount: A:0.79, C:0.17, G:0.03, T:0.01
Consensus pattern (12 bp):
AAACAAAACAAA
Found at i:269547 original size:16 final size:16
Alignment explanation
Indices: 269526--269606 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
269516 GCGTCCTCTG
269526 CAAACAAAACAAAAAA
1 CAAACAAAACAAAAAA
269542 CAAAC-AAAC-AAAAA
1 CAAACAAAACAAAAAA
*
269556 -AAGCAGAAA-AAAAACA
1 CAAACA-AAACAAAAA-A
269572 CAAAACAAAAC-AAAAA
1 C-AAACAAAACAAAAAA
269588 CAAAC-AAACGAAAAAA
1 CAAACAAAAC-AAAAAA
269604 CAA
1 CAA
269607 TAACAAAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
13 3 0.06
14 9 0.17
15 15 0.28
16 16 0.30
17 7 0.13
18 4 0.07
ACGTcount: A:0.78, C:0.19, G:0.04, T:0.00
Consensus pattern (16 bp):
CAAACAAAACAAAAAA
Found at i:269548 original size:11 final size:11
Alignment explanation
Indices: 269527--269595 Score: 61
Period size: 11 Copynumber: 6.0 Consensus size: 11
269517 CGTCCTCTGC
269527 AAACAAAACAAA
1 AAAC-AAACAAA
269539 AAACAAACAAA
1 AAACAAACAAA
*
269550 CAAAAAAAGCAGAA
1 -AAACAAA-CA-AA
*
269564 AAA-AAACACA
1 AAACAAACAAA
269574 AAACAAA-ACAA
1 AAACAAACA-AA
269585 AAACAAACAAA
1 AAACAAACAAA
269596 CGAAAAAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 5 0.10
11 22 0.46
12 14 0.29
13 5 0.10
14 2 0.04
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (11 bp):
AAACAAACAAA
Found at i:269603 original size:22 final size:21
Alignment explanation
Indices: 269526--269613 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 21
269516 GCGTCCTCTG
*
269526 CAAACAAAACA-AAAAACAAA
1 CAAACAAAAAACAAAAACAAA
*
269546 CAAACAAAAAAAGCAGAAAAAAAA
1 CAAAC-AAAAAA-CA-AAAACAAA
269570 CACAA-AACAAAACAAAAACAAA
1 CA-AACAA-AAAACAAAAACAAA
*
269592 CAAACGAAAAAACAATAACAAA
1 CAAAC-AAAAAACAAAAACAAA
269614 AAGGGTCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.09
21 7 0.12
22 22 0.39
23 7 0.12
24 13 0.23
25 2 0.04
ACGTcount: A:0.77, C:0.18, G:0.03, T:0.01
Consensus pattern (21 bp):
CAAACAAAAAACAAAAACAAA
Found at i:283737 original size:99 final size:96
Alignment explanation
Indices: 283625--284050 Score: 242
Period size: 99 Copynumber: 4.4 Consensus size: 96
283615 CAAAGAATGA
* *
283625 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA-TGCCAATGTGCTAAGACAAG
1 CAATATGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGAAGTGCCAATGTGCTAAGACAAG
283689 GCCAACGACATTGGGCTAAGGAATGTTA-AAGATGC
66 GCCAACGACATTGGGCTAA--AA-G--ACAAGATGC
* * * * * * * **
283724 CAATATGTTGATTCGA-GGCCAACGATATCAGACTTAAAGATGAAGGTGCCAATGTGTTGATTCA
1 CAATATGCTGATTC-ATGGCCAGCGACATTAGACTTAAAGAAGAA-GTGCCAATGTGCTAAGACA
* * * *
283788 AGGCCAGCGACATTGGTCTTAAAGACAAGGTGC
64 AGGCCAACGACATTGGGCTAAAAGACAAGATGC
* * * * * * **
283821 CAATATGCTGATTCATGACCAGCGACATTGGTCTTAAAGACA-AGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCATGGCCAGCGACATTAGACTTAAAGA-AGAAGTGCCAATGTGCTAAGACAA
* * * * *
283885 GGCTAGCGATATTGGGCTTAAGATGGTA-AAGGTGC
65 GGCCAACGACATTGGGC-TAA-A-AG-ACAAGATGC
* * * * * * * * **
283920 CGATATGCTGATCCAAGGCTAGCAATATTGGACTT--A-AAG--GTGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGAAGTGCCAATGTGCTAAGACAAG
* * * * *
283980 GCCAGCGACATTGGTCTTAAAGATAAAGGTGC
66 GCCAACGACATTGGGCTAAAAGA-CAAGATGC
* * * *
284012 CAATATGCTGATTTAAGGCCAACGATATTAGACTTAAAG
1 CAATATGCTGATTCATGGCCAGCGACATTAGACTTAAAG
284051 GTACCACTGA
Statistics
Matches: 259, Mismatches: 52, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
90 1 0.00
91 1 0.00
92 36 0.14
93 2 0.01
94 34 0.13
95 1 0.00
96 35 0.14
97 41 0.16
98 2 0.01
99 72 0.28
100 2 0.01
101 32 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (96 bp):
CAATATGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGAAGTGCCAATGTGCTAAGACAAG
GCCAACGACATTGGGCTAAAAGACAAGATGC
Found at i:283835 original size:48 final size:47
Alignment explanation
Indices: 283716--284050 Score: 318
Period size: 48 Copynumber: 7.0 Consensus size: 47
283706 AAGGAATGTT
* * * * **
283716 AAAGATGCCAATATGTTGATTCGAGGCCAACGATATCAGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
283763 ATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * *
283812 ACAAGGTGCCAATATGCTGATTCATGACCAGCGACATTGGTCTTAAAG
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* *
283860 ACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAGATGG
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A--G
* * * *
283911 TAAAGGTGCCGATATGCTGATCCAAGGCTAGCAATATTGGACTT----
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
283955 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
284002 ATAAAGGTGCCAATATGCTGATTTAAGGCCAACGATATTAGACTTAAAG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
284051 GTACCACTGA
Statistics
Matches: 241, Mismatches: 35, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
43 36 0.15
47 1 0.00
48 83 0.34
49 81 0.34
51 39 0.16
52 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (47 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:283972 original size:43 final size:43
Alignment explanation
Indices: 283911--284001 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
283901 CTTAAGATGG
* * *
283911 TAAAGGTGCCGATATGCTGATCCAAGGCTAGCAATATTGGACT
1 TAAAGGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGACT
* * * *
283954 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGACT
283997 TAAAG
1 TAAAG
284002 ATAAAGGTGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATCCAAGGCCAGCAACATTGGACT
Found at i:284205 original size:33 final size:33
Alignment explanation
Indices: 284047--285753 Score: 1132
Period size: 34 Copynumber: 53.8 Consensus size: 33
284037 TATTAGACTT
* * *
284047 AAAGGTACCACTGAGTTGTGGACTTACAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
284079 AAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
284115 AAAGGTGCCACGAAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
284147 AAAGGCGCTACAGAGTTGAGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
284180 CAAGGTACCACGGAGTTGTGCACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * * *
284213 AAAGATACCACGAAGGTGTGGGCTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
284247 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
284279 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
284313 AAATGTGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* *
284347 AAGGGATGCCACGGAGGTGTGGACTTAAAAGGAAA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAAGG-AA
* * *
284382 AAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
284416 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
284446 ---GGTGCTACAGAGTTATGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
** * *
284477 AAAGGTGCCACAAAGTCGTGGACTT---TGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* * *
284508 AAAGATGCCATGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * * *
284541 AAAGATGCCACAGAGTCGTGGGCTTTAAAATGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
284575 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
284605 ---GGTGCTACGGAGTTGTGGACTTAAAAGGAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG--AA
* * *
284637 AAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
284671 AAAGGTGCCACGGAGTTGTAGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
284701 ---GGTGCCACAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * *
284732 AAAGGTGCCACAGAGTCGTGGACTT-TAA-GCA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
284763 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
284793 ---GGTGCCACGAAGTAATGAACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** * *
284823 AAAGATGCCACGGAGTCATGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
284857 AAAGGTGTCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
284887 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
284917 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
284952 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
284982 ---GGTGCCACAAAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
** * *
285013 AAAGGTGCCACAAAGTCGTGGACTT-TAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
285044 AAAGATGCCACGAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
** *
285074 ---GGTGCCACGGAGTAATGGACTTAAGAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * ** * *
285104 AAAGATGCCATGGAGTCATGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
285138 AAAGGTGTCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
285168 ---GGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
285198 AAGGAGTGCCACGGTCTTGTGG-CTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* **
285232 AAATGTGCCACAAAGTTGTGGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
285259 AAAGGTGCCATAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
285293 AAAGGTGCCACAGAGTTGTGGACTT-TAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
285324 AAAGATGCCACAGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
285354 ---GGTGCCACTGAGTTATAGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* **
285384 AAAGATGCCACGGAGTTGTAGG-CTTTAAAAAAAA
1 AAAGGTGCCACGGAGTTGT-GGAC-TTAAAAGGAA
*
285418 AAAGGTGTCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
285451 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
285486 AAAGGTGCCACGGAGTTGTGGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
285513 AAAGGTGCCACAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* ** ***
285547 AAAGGTGCCACAGAGTCATGGA-TTTTGA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
285578 AAAGATGCCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
285608 ---GGTGCCACAGAGTTGTGGACTT-AAA--AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * **
285635 AGAGATGCCACTGAGTTGTGGACTTTGAA-G-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
285666 AAAGATGCCACTGAGTCGTGGACTT--TA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * * ** *
285696 CAAGATGCCACTGAGTCGTGGACTTTGAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
285729 AAAGATGCCACTGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
285754 TGAAGAAAAG
Statistics
Matches: 1349, Mismatches: 207, Indels: 237
0.75 0.12 0.13
Matches are distributed among these distances:
26 3 0.00
27 256 0.19
28 16 0.01
29 17 0.01
30 46 0.03
31 152 0.11
32 71 0.05
33 237 0.18
34 458 0.34
35 80 0.06
36 13 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:284242 original size:66 final size:66
Alignment explanation
Indices: 284047--285606 Score: 906
Period size: 61 Copynumber: 24.4 Consensus size: 66
284037 TATTAGACTT
* * * *
284047 AAAGGTACCACTGAGTTGTGGACTT-ACAAGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA--GATGCCACGGAGGTGTGGACTTAAAA-
284111 GGAA
63 GGAA
* * ** * * * *
284115 AAAGGTGCCACGAAGTCGTGGACTTAAAAAG-AAAAGGCGCTACAGAGTTGAGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGA
284179 A
66 A
* * * * * * *
284180 CAAGGTACCACGGAGTTGTGCACTTAAAAGGAAAAAGATACCACGAAGGTGTGGGCTTAAAAGGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAA-GG
284245 AA
65 AA
* * * * * *
284247 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGAC-TTAAAAGG
284311 AA
65 AA
* * *
284313 AAATGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGGATGCCACGGAGGTGTGGACTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-AGAAAA-AGATGCCACGGAGGTGTGGACTTAAAAG
284378 GAAA
64 G-AA
* * * *
284382 AAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG
284446 --
65 AA
* * * * * * * *
284446 ---GGTGCTACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCAC-AAAGTCGTGGACTT---TG
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGT-GTGGACTTAAAAG
284504 GAAA
64 G-AA
* * * * * * *
284508 AAAGATGCCATGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGA-GTCGTGGGCTTTAAAAT
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGT-GTGGAC-TTAAAAG
284572 GAA
64 GAA
* * *
284575 AAAGGTGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCTACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG-
284634 AAA
65 -AA
* * * * *
284637 AAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTAAAA-G
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG
284701 --
65 AA
* * * * *
284701 ---GGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGA-GTCGTGGACTT-TAA-
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGT-GTGGACTTAAAAG
*
284760 GCA
64 GAA
* * * * *
284763 AAAGATGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCCAC-GAAGTAATGAACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGT-GTGGACTTAAAAGG
284821 AA
65 AA
* ** * * * *
284823 AAAGATGCCACGGAGTCATGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAAAA-G
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG
284887 --
65 AA
* * * * *
284887 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGA-TGCCACGGAGGTGTGGAC-TTAAAAG
284949 GAA
64 GAA
* ** *
284952 AAAGGTGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCCACAAAGTTGTGGACTTTGAAAA-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGAC-TT-AAAAG
285010 GAA
64 GAA
** * * * *
285013 AAAGGTGCCACAAAGTCGTGGACTT--TAAGAAAAAGATGCCACGAAGTTGTGGACTTAAAA-G-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGA
285074 -
66 A
** * * * * * *
285074 ---GGTGCCACGGAGTAATGGACTTAAGAGGAAAAAGATGCCATGGA-GTCATGGGCTTTAAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGT-GTGGAC-TTAAAAG
285135 GAA
64 GAA
* * * *
285138 AAAGGTGTCACGGAGTTGTGGACTT-AAAAG-----GGTGCCACGGAGTTATGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGA
285197 A
66 A
* ** ** *
285198 AAGGAGTGCCACGGTCTTGTGG-CTTTAAAAAGAAAAATG-TGCCACAAAGTTGTGGACTT----
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAA-GATGCCACGGAGGTGTGGACTTAAAA
285257 --AA
63 GGAA
** * * * * *
285259 AAAGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-TAA-G
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG
285322 AA
65 AA
* * * * * * *
285324 AAAGATGCCACAGAGTTGTGGACTT-AAAAG-----GGTGCCACTGAGTTATAGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGA
285383 A
66 A
* * * * *
285384 AAAGATGCCACGGAGTTGTAGG-CTTTAAAAAAAAAAAGGTGTCACGGAGTTGTGGACTTAAAAG
1 AAAGGTGCCACGGAGTTGT-GGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAG
285448 GAA
64 GAA
* * * *
285451 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT-----
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAG
285511 -AA
64 GAA
* * * * * ***
285513 AAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGA-GTCATGGA-TTTTGA-
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCACGGAGGT-GTGGACTTAAAAG
285575 GAA
64 GAA
* *
285578 AAAGATGCCATGGAGTTGTGGACTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA
285607 GGGTGCCACA
Statistics
Matches: 1191, Mismatches: 194, Indels: 218
0.74 0.12 0.14
Matches are distributed among these distances:
57 2 0.00
58 53 0.04
59 6 0.01
60 123 0.10
61 302 0.25
62 57 0.05
63 18 0.02
64 42 0.04
65 127 0.11
66 97 0.08
67 150 0.13
68 135 0.11
69 73 0.06
70 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGA
A
Found at i:284458 original size:27 final size:27
Alignment explanation
Indices: 284414--284467 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
284404 CTTTAAAAAG
* *
284414 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTATGGACTT
* *
284441 AAAAGGGTGCTACAGAGTTATGGACTT
1 AAAAAGGTGCCACAGAGTTATGGACTT
284468 TGAAAAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTTATGGACTT
Found at i:284481 original size:103 final size:103
Alignment explanation
Indices: 284187--284447 Score: 264
Period size: 103 Copynumber: 2.6 Consensus size: 103
284177 GAACAAGGTA
** * * * * * * *
284187 CCACGGAGTTGTGCAC-TTAAAAGGAAAAAGATACCACGAAGGTGTGGGCTTAAAAGGGAAAA-G
1 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAACA
* *** *
284250 GGTGCCACGGAG-TCGTGGACTTAAAAA-G--AAAAGGTG
66 GATGCCACGGAGCT-GT-GAAAGAAAAAGGAAAAAAAGTG
* **
284286 CCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAGG
1 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAACA
* * ***
284351 GATGCCACGGAGGTGTGGACTTAAAAGGAAAAAAAGTG
66 GATGCCACGGAGCTGTGAAAGAAAAAGGAAAAAAAGTG
284389 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
284448 TGCTACAGAG
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
99 14 0.10
100 45 0.32
101 15 0.11
102 1 0.01
103 65 0.46
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (103 bp):
CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAACA
GATGCCACGGAGCTGTGAAAGAAAAAGGAAAAAAAGTG
Found at i:284517 original size:31 final size:30
Alignment explanation
Indices: 284474--284566 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 30
284464 ACTTTGAAAA
*
284474 GAAAAAGGTGCCACAAAGTCGTGGACTTTG
1 GAAAAAGATGCCACAAAGTCGTGGACTTTG
** * *
284504 GAAAAAAGATGCCATGAAGTTGTGGACTTAAAAG
1 G-AAAAAGATGCCACAAAGTCGTGGACTT---TG
* *
284538 GAAAAAGATGCCACAGAGTCGTGGGCTTT
1 GAAAAAGATGCCACAAAGTCGTGGACTTT
284567 AAAATGAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
30 1 0.02
31 23 0.48
33 22 0.46
34 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (30 bp):
GAAAAAGATGCCACAAAGTCGTGGACTTTG
Done.