Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 123 of 208
Found at i:37618902 original size:28 final size:28
Alignment explanation
Indices: 37618853--37618942 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
37618843 TAAAGGTTTT
* * * *
37618853 TTTTTCGTAGATAACCATAAAGGCTTCC
1 TTTTTCGTAGATCACCACAAAGACTTTC
* * *
37618881 TTTTTCGTAGATCGCCACAAAGCCTTTA
1 TTTTTCGTAGATCACCACAAAGACTTTC
*
37618909 TTTTTCATAGATCACCACAAAGACTTTC
1 TTTTTCGTAGATCACCACAAAGACTTTC
37618937 TTTTTC
1 TTTTTC
37618943 TGGCATGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (28 bp):
TTTTTCGTAGATCACCACAAAGACTTTC
Found at i:37634043 original size:16 final size:16
Alignment explanation
Indices: 37634022--37634054 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37634012 GTTCGTATAT
37634022 CATAAAACATAACTTA
1 CATAAAACATAACTTA
37634038 CATAAAACATAACTTA
1 CATAAAACATAACTTA
37634054 C
1 C
37634055 CATTTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
CATAAAACATAACTTA
Found at i:37648333 original size:51 final size:50
Alignment explanation
Indices: 37648239--37648334 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 50
37648229 TGAAATACCA
* *** *
37648239 TTTGTGGACAAGCCACCATTTTTTGTAGATAAACTGCCACTGATAACCCT
1 TTTGTAGACAAGCCACCATGAATTGCAGATAAACTGCCACTGATAACCCT
*
37648289 TTTGTAGACAAGCCACCACTGAATTGCAGATATACTGCCACTGATA
1 TTTGTAGACAAGCCACCA-TGAATTGCAGATAAACTGCCACTGATA
37648335 TGATAATCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 17 0.44
51 22 0.56
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (50 bp):
TTTGTAGACAAGCCACCATGAATTGCAGATAAACTGCCACTGATAACCCT
Found at i:37652740 original size:29 final size:29
Alignment explanation
Indices: 37652698--37652881 Score: 226
Period size: 29 Copynumber: 6.3 Consensus size: 29
37652688 TCATCAACCA
* *
37652698 ATGAAAAAGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
37652727 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
37652756 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * * *
37652785 ATGAAAAAGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* *
37652814 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
37652843 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
37652872 ATGAAAAGGG
1 ATGAAAAGGG
37652882 GTGGTGACGA
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 127 0.97
30 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:37652846 original size:87 final size:87
Alignment explanation
Indices: 37652724--37652895 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
37652714 TCGGCTATTG
37652724 AATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGA
1 AATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGA
37652789 AAAAGGATGGTGACGACCATCA
66 AAAAGGATGGTGACGACCATCA
* *
37652811 AATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATAGCTTTGGCTATCGATTATGA
1 AATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGA
* *
37652876 AAAGGGGTGGTGACGACCAT
66 AAAAGGATGGTGACGACCAT
37652896 TGGTTAATGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (87 bp):
AATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGA
AAAAGGATGGTGACGACCATCA
Found at i:37662082 original size:59 final size:61
Alignment explanation
Indices: 37662012--37662127 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
37662002 ATCACTTTAA
* * * *
37662012 TATTAAATTAATATAATA-T-TCAACAAGATAAATATTATATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTATCAACAAAATAAACATTAAATTAAATTTAATATTAAATCT
* *
37662071 TATTAAATTAATAGAATATTTATCTACAAAATAAACATTAAATTAAATTTACTATTA
1 TATTAAATTAATAGAATA-TTATCAACAAAATAAACATTAAATTAAATTTAATATTA
37662128 CGATAATTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 17 0.35
61 1 0.02
62 30 0.62
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTATCAACAAAATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:37663557 original size:15 final size:15
Alignment explanation
Indices: 37663514--37663547 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
37663504 TATACTCAAG
37663514 TCATATTCAAATAAC
1 TCATATTCAAATAAC
37663529 TCATATTCAAATAAC
1 TCATATTCAAATAAC
37663544 TCAT
1 TCAT
37663548 TTTACAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (15 bp):
TCATATTCAAATAAC
Found at i:37671943 original size:62 final size:56
Alignment explanation
Indices: 37671877--37671990 Score: 147
Period size: 57 Copynumber: 1.9 Consensus size: 56
37671867 TAAAAAGGAT
* *
37671877 CTAGCCCGGACGGGTGATCGTATCCCGATGTAGCCCTCCTGAAGAATATGTGTGAAAAATAC
1 CTAGCCCGGACGGGTGATC-T-T---GATATAGCCCTCCCGAAGAATATGTG-GAAAAATAC
*
37671939 CTAGCCCGGATGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAA
1 CTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAA
37671991 TGGATTTAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
56 5 0.10
57 24 0.49
60 1 0.02
61 1 0.02
62 18 0.37
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (56 bp):
CTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAAATAC
Found at i:37672247 original size:67 final size:67
Alignment explanation
Indices: 37672139--37672267 Score: 222
Period size: 67 Copynumber: 1.9 Consensus size: 67
37672129 TTATATTACA
** *
37672139 GGGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGT
1 GGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGT
37672204 AG
66 AG
*
37672206 GGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGGGTGTGCTCTCT
1 GGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
37672268 AAATTGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (67 bp):
GGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGT
AG
Found at i:37676115 original size:20 final size:20
Alignment explanation
Indices: 37676090--37676129 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37676080 TGTACAGAAG
37676090 TATGATTCGATTATGAGTAT
1 TATGATTCGATTATGAGTAT
37676110 TATGATTCGATTATGAGTAT
1 TATGATTCGATTATGAGTAT
37676130 GAGTAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (20 bp):
TATGATTCGATTATGAGTAT
Found at i:37676515 original size:23 final size:23
Alignment explanation
Indices: 37676485--37676767 Score: 295
Period size: 23 Copynumber: 12.3 Consensus size: 23
37676475 AAACAGAGCT
*
37676485 TTTGTGGCATATT-TCATAATGCC
1 TTTGTGGCATATTCT-GTAATGCC
*
37676508 TTTATGGCATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
* * *
37676531 TTTGTGACATATTCTTTAATGTC
1 TTTGTGGCATATTCTGTAATGCC
* *
37676554 TTTGTGG-AGTATTCTATAATGTC
1 TTTGTGGCA-TATTCTGTAATGCC
* * * *
37676577 TTTATGGCGTATTTTATAATGCC
1 TTTGTGGCATATTCTGTAATGCC
37676600 TTTGTGGCATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
* *
37676623 CTTGTGGCATATTCTGTAATGTC
1 TTTGTGGCATATTCTGTAATGCC
* *
37676646 TTTGTGACATATTCTGTAATACC
1 TTTGTGGCATATTCTGTAATGCC
*
37676669 TTTGTGACATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
*
37676692 TTTGTGGCATATT-TAGTAGTGCC
1 TTTGTGGCATATTCT-GTAATGCC
* *
37676715 TATGTGGCATATTCTGTAATGAC
1 TTTGTGGCATATTCTGTAATGCC
** * *
37676738 TTTACGACATATTTTGTAATGTCC
1 TTTGTGGCATATTCTGTAATG-CC
37676762 -TTGTGG
1 TTTGTGG
37676768 TAAGTTCTGT
Statistics
Matches: 217, Mismatches: 37, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
22 2 0.01
23 212 0.98
24 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (23 bp):
TTTGTGGCATATTCTGTAATGCC
Found at i:37680660 original size:60 final size:61
Alignment explanation
Indices: 37680563--37680715 Score: 148
Period size: 63 Copynumber: 2.5 Consensus size: 61
37680553 ACAGCTTAGG
* * ** * * ** * *
37680563 CCCAATGTGTGAAA-AATTGTCAAGTTTAAGAGTTAACTT-TGACAAAAAAAAAGTTTAAGT
1 CCCAATGT-TAAAATAATTGTCAAGTTTAGGAACTAACTTATAAAAAAAAAAAAAATCAAAT
*
37680623 TCCAATGTTAAAATAATTGTCAAGTTTAGGAACTAACTTAAGTAAAAAAAAAAAAAATCAAAT
1 CCCAATGTTAAAATAATTGTCAAGTTTAGGAACTAACTT-A-TAAAAAAAAAAAAAATCAAAT
* *
37680686 CCCAATGTAAAAATAATTATCAAGTTTAGG
1 CCCAATGTTAAAATAATTGTCAAGTTTAGG
37680716 CTCCAAAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
59 4 0.05
60 29 0.39
63 42 0.56
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (61 bp):
CCCAATGTTAAAATAATTGTCAAGTTTAGGAACTAACTTATAAAAAAAAAAAAAATCAAAT
Found at i:37681113 original size:20 final size:20
Alignment explanation
Indices: 37681090--37681175 Score: 104
Period size: 19 Copynumber: 4.2 Consensus size: 20
37681080 AAATTATAAA
37681090 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
*
37681110 AAAAACTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
*
37681130 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTTT
*
37681148 AAAAATTTAAAATTTATATTTTT
1 AAAAATTCAAAA--TA-ATTTTT
37681171 AAAAA
1 AAAAA
37681176 AATTATAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
18 5 0.09
19 21 0.38
20 19 0.34
21 1 0.02
23 10 0.18
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:37681237 original size:9 final size:9
Alignment explanation
Indices: 37681173--37681216 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
37681163 ATATTTTTAA
37681173 AAAAATTAT
1 AAAAATTAT
37681182 AAAAATTAT
1 AAAAATTAT
*
37681191 AATAAATTCT
1 AA-AAATTAT
37681201 AAAAGATATAT
1 AAAA-AT-TAT
37681212 AAAAA
1 AAAAA
37681217 AGTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 13 0.43
10 11 0.37
11 6 0.20
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37681344 original size:16 final size:16
Alignment explanation
Indices: 37681325--37681355 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37681315 TTGAATTTTT
37681325 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
37681341 TTTCAAATTTATATG
1 TTTCAAATATATATG
37681356 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:37696386 original size:20 final size:20
Alignment explanation
Indices: 37696336--37696374 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37696326 TGGAGTAGGA
*
37696336 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
37696356 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
37696375 AGTATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:37705765 original size:2 final size:2
Alignment explanation
Indices: 37705758--37705793 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
37705748 CAAATGAATG
37705758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37705794 ATACCTATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37708529 original size:12 final size:12
Alignment explanation
Indices: 37708511--37708541 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
37708501 TATGTAGAGG
37708511 TTTTTTTTTCATC
1 TTTTTTTTTC-TC
37708524 TTTTTTTTTCTC
1 TTTTTTTTTCTC
37708536 TTTTTT
1 TTTTTT
37708542 CCCTTATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:37709706 original size:21 final size:21
Alignment explanation
Indices: 37709654--37709710 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
37709644 ATAGAGCTCA
*
37709654 GACCGTGTGGTTCAAACACAT
1 GACCGTGTGGCTCAAACACAT
* *
37709675 GGCCGTATGGCTCAAACACAT
1 GACCGTGTGGCTCAAACACAT
* *
37709696 TATCGTGTGGC-CAAA
1 GACCGTGTGGCTCAAA
37709711 ACCTGTAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (21 bp):
GACCGTGTGGCTCAAACACAT
Found at i:37711049 original size:28 final size:28
Alignment explanation
Indices: 37711018--37711073 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
37711008 TATAATCAAA
* *
37711018 TCATATAAACAATTTATATATTCATTTT
1 TCATATAAACAATTCATATACTCATTTT
* *
37711046 TCATATAATCGATTCATATACTCATTTT
1 TCATATAAACAATTCATATACTCATTTT
37711074 ATATATTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (28 bp):
TCATATAAACAATTCATATACTCATTTT
Found at i:37711077 original size:13 final size:13
Alignment explanation
Indices: 37711030--37711092 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
37711020 ATATAAACAA
37711030 TTTATATATTCATT
1 TTTATATATTCA-T
*
37711044 TTTCATATAATCGA-
1 TTT-ATATATTC-AT
* *
37711058 TTCATATACTCAT
1 TTTATATATTCAT
37711071 TTTATATATTCAT
1 TTTATATATTCAT
*
37711084 TTTCTATAT
1 TTTATATAT
37711093 AACTGATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 1 0.03
13 26 0.65
14 5 0.12
15 7 0.17
16 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.56
Consensus pattern (13 bp):
TTTATATATTCAT
Found at i:37711128 original size:41 final size:42
Alignment explanation
Indices: 37710974--37711128 Score: 169
Period size: 41 Copynumber: 3.8 Consensus size: 42
37710964 TCCATATGCC
* * *
37710974 CGATTCTTAAAATCATTTTGTATA-TC-TATTTC-CATATAAT
1 CGATTCATATAATCATTTTATATATTCAT-TTTCTCATATAAT
* * * *
37711014 CAAATCATATAAACAATTTATATATTCATTTT-TCATATAAT
1 CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
*
37711055 CGATTCATATACTCATTTTATATATTCATTTTCT-ATATAA-
1 CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
*
37711095 CTGATTCATATAATCATTTTATAAATTCATTTTC
1 C-GATTCATATAATCATTTTATATATTCATTTTC
37711129 CACCCGATGA
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
40 18 0.19
41 76 0.79
42 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (42 bp):
CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
Found at i:37712294 original size:20 final size:21
Alignment explanation
Indices: 37712249--37712296 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
37712239 TCATGGTCTT
37712249 TGCTT-CTTCTTTACTTACTC
1 TGCTTACTTCTTTACTTACTC
* *
37712269 T-TTTACTTGTTTACTTAC-C
1 TGCTTACTTCTTTACTTACTC
37712288 TGCTTACTT
1 TGCTTACTT
37712297 AAATAACTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (21 bp):
TGCTTACTTCTTTACTTACTC
Found at i:37712705 original size:56 final size:50
Alignment explanation
Indices: 37712489--37712730 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
37712479 GATAATAACG
* ** * *
37712489 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTC--CTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-TAA
* * * * ** * **
37712538 TGCCAATGTCATATCCCAGATATGGTCTTACATTGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTAA
* * ** *
37712588 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTAA
*
37712638 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT---TAA
*
37712694 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37712731 TCTCATTCCC
Statistics
Matches: 154, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 35 0.23
50 79 0.51
51 1 0.01
53 2 0.01
56 37 0.24
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTAA
Found at i:37714554 original size:73 final size:73
Alignment explanation
Indices: 37714433--37714578 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
37714423 ATGCTCTTAA
*
37714433 AATTTGGGCACATGATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATTGGA
1 AATTTGGGCACATGATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
37714498 ACCTACTC
66 ACCTACTC
* *
37714506 AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAAGATTACTCTGTAGTTCATCGGA
1 AATTTGGGCACATGATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
37714571 ACCTACTC
66 ACCTACTC
37714579 GATTGGATTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (73 bp):
AATTTGGGCACATGATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
ACCTACTC
Found at i:37716255 original size:13 final size:14
Alignment explanation
Indices: 37716237--37716296 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 14
37716227 CATATCTATC
37716237 CATATAAAC-ATTT
1 CATATAAACTATTT
* *
37716250 CATATACAC-AATT
1 CATATAAACTATTT
37716263 CATAT-AACTATTT
1 CATATAAACTATTT
37716276 CCATAT-AACTATTT
1 -CATATAAACTATTT
*
37716290 CGTATAA
1 CATATAA
37716297 TCGTTTCGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.05
13 23 0.59
14 14 0.36
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (14 bp):
CATATAAACTATTT
Found at i:37716349 original size:40 final size:41
Alignment explanation
Indices: 37716313--37716437 Score: 180
Period size: 40 Copynumber: 3.0 Consensus size: 41
37716303 CGTATATCTA
* * *
37716313 TTTCTATATAATCTATTCATGTAATAATTTTATATATTCATT
1 TTTC-ATATAATCGATTCATATAATCATTTTATATATTCATT
*
37716355 TTTCATAGAATCGATTCATATAATCA-TTTATATATTCATT
1 TTTCATATAATCGATTCATATAATCATTTTATATATTCATT
* *
37716395 TTTCATATCACCGATTCATATAATCATTTTATATATTCATT
1 TTTCATATAATCGATTCATATAATCATTTTATATATTCATT
37716436 TT
1 TT
37716438 CCTCATGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 37 0.49
41 34 0.45
42 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (41 bp):
TTTCATATAATCGATTCATATAATCATTTTATATATTCATT
Found at i:37716355 original size:13 final size:13
Alignment explanation
Indices: 37716312--37716437 Score: 53
Period size: 13 Copynumber: 9.4 Consensus size: 13
37716302 TCGTATATCT
37716312 ATTTCTATATAATC
1 ATTT-TATATAATC
* * *
37716326 -TATTCATGTAATA
1 AT-TTTATATAATC
*
37716339 ATTTTATATATTC
1 ATTTTATATAATC
*
37716352 ATTTTTCATAGAATC
1 A-TTTT-ATATAATC
*
37716367 GA-TTCATATAATC
1 -ATTTTATATAATC
*
37716380 A-TTTATATATTC
1 ATTTTATATAATC
* *
37716392 ATTTTTCATATCACC
1 A-TTTT-ATATAATC
*
37716407 GA-TTCATATAATC
1 -ATTTTATATAATC
*
37716420 ATTTTATATATTC
1 ATTTTATATAATC
37716433 ATTTT
1 ATTTT
37716438 CCTCATGATG
Statistics
Matches: 81, Mismatches: 21, Indels: 21
0.66 0.17 0.17
Matches are distributed among these distances:
12 12 0.15
13 42 0.52
14 14 0.17
15 11 0.14
16 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (13 bp):
ATTTTATATAATC
Found at i:37716513 original size:25 final size:24
Alignment explanation
Indices: 37716480--37716549 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
37716470 ATACACGAGA
37716480 ATAAA-GCTCACTCATGCTGTAACT
1 ATAAATGCTCACTCA-GCTGTAACT
* * *
37716504 ATAATTGCTCACATGAGCTGTAATT
1 ATAAATGCTCAC-TCAGCTGTAACT
*
37716529 ATAAATGCTCACACAAGCTGT
1 ATAAATGCTCACTC-AGCTGT
37716550 GAAATGGGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 4 0.11
25 31 0.84
26 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (24 bp):
ATAAATGCTCACTCAGCTGTAACT
Found at i:37720995 original size:79 final size:78
Alignment explanation
Indices: 37720846--37721078 Score: 297
Period size: 79 Copynumber: 3.0 Consensus size: 78
37720836 AATTATTGTA
* * * * * **
37720846 TGAATACACATACGTGCCCCTGTTGTACTTCGTTACCCCCGAATGCACATACGTGCCATTGCTTG
1 TGAATGCACATACGTGCCCCTATTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTG-TTG
37720911 TACTTCGGTACCCC
65 TACTTCGGTACCCC
* * *
37720925 TGAATGCACATACATGCCCTTATTTGTACTTTGGTACCCCTGAATGCACATACATGCCCCTGTTG
1 TGAATGCACATACGTGCCCCTA-TTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTG
37720990 TACTTCGGTACCCC
65 TACTTCGGTACCCC
* * * *
37721004 TAAATGCACATACGTTCCCCTATTGTAC-TTGAGTACCTCTGTATGCACATACGTGCCCCTGTTG
1 TGAATGCACATACGTGCCCCTATTGTACTTTG-GTACCCCTGAATGCACATACGTGCCCCTGTTG
*
37721068 TACTGCGGTAC
65 TACTTCGGTAC
37721079 ATACGCGCCT
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
77 3 0.02
78 45 0.34
79 53 0.40
80 33 0.25
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (78 bp):
TGAATGCACATACGTGCCCCTATTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTGT
ACTTCGGTACCCC
Found at i:37721002 original size:39 final size:39
Alignment explanation
Indices: 37720846--37721078 Score: 288
Period size: 39 Copynumber: 5.9 Consensus size: 39
37720836 AATTATTGTA
* *
37720846 TGAATACACATACGTGCCCCTGTTGTACTTCGTTACCCC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* **
37720885 CGAATGCACATACGTGCCATTGCTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTG-TTGTACTTCGGTACCCC
* * * *
37720925 TGAATGCACATACATGCCCTTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCT-GTTGTACTTCGGTACCCC
*
37720965 TGAATGCACATACATGCCCCTGTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* * * *
37721004 TAAATGCACATACGTTCCCCTATTGTACTT-GAGTACCTC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCG-GTACCCC
* *
37721043 TGTATGCACATACGTGCCCCTGTTGTACTGCGGTAC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCGGTAC
37721079 ATACGCGCCT
Statistics
Matches: 167, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 95 0.57
40 71 0.43
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
Found at i:37733444 original size:16 final size:17
Alignment explanation
Indices: 37733419--37733453 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
37733409 ACATCATCCT
37733419 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
37733435 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
37733452 TC
1 TC
37733454 TCAAATCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:37741228 original size:27 final size:27
Alignment explanation
Indices: 37741198--37741472 Score: 367
Period size: 27 Copynumber: 10.2 Consensus size: 27
37741188 TTACACTGTT
* *
37741198 ATGACCAAAATACCTCTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
37741225 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
37741252 ATGACCGAAATACCCAC-ATAGGGTAAA
1 ATGACCGAAATACCC-CTATAGGGTAAA
* * * *
37741279 ATGATCGAAATACCCTTATGGGGTAGA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
37741306 ATAACCGAAATA-CCCTCATAGGGTAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAA
* * *
37741333 ATGATCGAAATACCCCTATAGGATAGA
1 ATGACCGAAATACCCCTATAGGGTAAA
* *
37741360 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
37741387 ATGACCGAAATACCCCTATAGGGTAGA
1 ATGACCGAAATACCCCTATAGGGTAAA
*
37741414 ATGACCTAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
37741441 ATGACCGAAATACCTCC-ATAGGGTAAA
1 ATGACCGAAATACC-CCTATAGGGTAAA
37741468 ATGAC
1 ATGAC
37741473 TGTTATACCG
Statistics
Matches: 218, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 208 0.95
28 7 0.03
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (27 bp):
ATGACCGAAATACCCCTATAGGGTAAA
Found at i:37752379 original size:18 final size:18
Alignment explanation
Indices: 37752346--37752384 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37752336 TAAAACAACC
*
37752346 AAAACAAAAATAAAAATA
1 AAAACAAAAATAAAAAGA
* *
37752364 AAAACAAAACTGAAAAGA
1 AAAACAAAAATAAAAAGA
37752382 AAA
1 AAA
37752385 TAAAGAAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAACAAAAATAAAAAGA
Found at i:37753988 original size:12 final size:12
Alignment explanation
Indices: 37753965--37754007 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
37753955 AAGACTAGAA
37753965 AAAAATAA-AAG
1 AAAAATAATAAG
37753976 AAAAATAATAAG
1 AAAAATAATAAG
*
37753988 AAAGATAATAAG
1 AAAAATAATAAG
*
37754000 AATAATAA
1 AAAAATAA
37754008 AAAATTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (12 bp):
AAAAATAATAAG
Found at i:37753991 original size:16 final size:16
Alignment explanation
Indices: 37753947--37753992 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
37753937 TAAGTACATC
*
37753947 AAAATAATAAGACTAGA
1 AAAATAATAAGA-AAGA
37753964 AAAA-AAT-A-AAAGA
1 AAAATAATAAGAAAGA
37753977 AAAATAATAAGAAAGA
1 AAAATAATAAGAAAGA
37753993 TAATAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.28
14 4 0.16
15 2 0.08
16 8 0.32
17 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (16 bp):
AAAATAATAAGAAAGA
Found at i:37754047 original size:14 final size:14
Alignment explanation
Indices: 37753963--37754052 Score: 51
Period size: 14 Copynumber: 6.3 Consensus size: 14
37753953 ATAAGACTAG
*
37753963 AAAAAAATAAAAGA-
1 AAAATAATAAAA-AT
*
37753977 AAAATAATAAGAAAG
1 AAAATAATAA-AAAT
* * *
37753992 ATAATAAGAATAAT
1 AAAATAATAAAAAT
*
37754006 AAAA-AATTACTAAAT
1 AAAATAA-TA-AAAAT
37754021 AAAATAA-ATAAAAT
1 AAAATAATA-AAAAT
*
37754035 AAAATAATAAAAAG
1 AAAATAATAAAAAT
37754049 AAAA
1 AAAA
37754053 AGACTAAGGG
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
13 2 0.03
14 36 0.62
15 18 0.31
16 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:37755740 original size:50 final size:50
Alignment explanation
Indices: 37755506--37755739 Score: 224
Period size: 50 Copynumber: 4.7 Consensus size: 50
37755496 ACATGACAAA
** * * *
37755506 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--TG-CCATT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-TTCGGTGCCCA-T
* * * * **
37755555 GTCATATCCCGGATATGGTCTTACATGGGAGTTCTCATATT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-TTCGGTGCCCAT
* *** * *
37755605 GCCATGTCTCAGACATGGTCTTATGGGGGACCTCTCATCTCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGGTGCCCAT
* * * *
37755655 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATTTCGGTTCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGGTGCCCAT
37755705 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37755740 TTACCCAAAT
Statistics
Matches: 149, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 32 0.21
50 114 0.77
51 3 0.02
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGGTGCCCAT
Found at i:37763702 original size:26 final size:27
Alignment explanation
Indices: 37763659--37763721 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
37763649 CATAAAACAT
* *
37763659 ACAACCATTTTATAACAT-AGGGCATA
1 ACAATCATTTTACAACATGAGGGCATA
* * *
37763685 ACAGTCATTTTACCACATGGGGGCATA
1 ACAATCATTTTACAACATGAGGGCATA
37763712 ACAATCATTT
1 ACAATCATTT
37763722 CATATCAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (27 bp):
ACAATCATTTTACAACATGAGGGCATA
Found at i:37769753 original size:19 final size:21
Alignment explanation
Indices: 37769707--37769762 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
37769697 CACGGGCTGG
* *
37769707 TCACACTGGCGTTTGTGGCCT
1 TCACACAGGCGTGTGTGGCCT
37769728 TCACACAGGCGTGTGTGGCCT
1 TCACACAGGCGTGTGTGGCCT
* **
37769749 CCACATGGGCGTGT
1 TCACACAGGCGTGT
37769763 AGACCCCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.27
Consensus pattern (21 bp):
TCACACAGGCGTGTGTGGCCT
Found at i:37772052 original size:21 final size:21
Alignment explanation
Indices: 37772023--37772062 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37772013 TTAACTATCA
37772023 AATTAAATTAATTTAACAATT
1 AATTAAATTAATTTAACAATT
* * *
37772044 AATTTAATTCATTTGACAA
1 AATTAAATTAATTTAACAA
37772063 CTAAATACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTAAATTAATTTAACAATT
Found at i:37781416 original size:28 final size:29
Alignment explanation
Indices: 37781352--37781432 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
37781342 AGAGCACTGA
* *
37781352 AGTGCTAGATAGTAAGCACCAAAGTGCATTC
1 AGTG-TAG-TAGTAAGCACCGAAGTGCATAC
*
37781383 -GCGTAGTAGTAAGCACCGAAGTGCA-AC
1 AGTGTAGTAGTAAGCACCGAAGTGCATAC
* * *
37781410 AGTGTAGCAGTAAACACTGAAGT
1 AGTGTAGTAGTAAGCACCGAAGT
37781433 TCAATCACGT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.02
28 36 0.86
29 3 0.07
30 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (29 bp):
AGTGTAGTAGTAAGCACCGAAGTGCATAC
Found at i:37782499 original size:26 final size:27
Alignment explanation
Indices: 37782442--37782500 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
37782432 TGAAAAATTG
*
37782442 ATATATGAAAGAAAAGTGGAATTGAAATAC
1 ATATATGAAAGAAAAGTGGAATT---ACAC
*
37782472 ATATATGAAAGAAAAGTGTAATT-CAC
1 ATATATGAAAGAAAAGTGGAATTACAC
37782498 ATA
1 ATA
37782501 CCCACAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
30 22 0.81
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.25
Consensus pattern (27 bp):
ATATATGAAAGAAAAGTGGAATTACAC
Found at i:37792036 original size:47 final size:47
Alignment explanation
Indices: 37791955--37792069 Score: 149
Period size: 47 Copynumber: 2.4 Consensus size: 47
37791945 GTCACAATAA
* * **
37791955 TGTAGATAAACTGCCACATAATCAATATTGTGGACAAGCCACCAAAAT
1 TGTAGATAAACTGACA-ATAATCAAAATAATGGACAAGCCACCAAAAT
* *
37792003 TGTAGATATACTGTCAATAATCAAAATAATGGACAAGCCACCAAAAT
1 TGTAGATAAACTGACAATAATCAAAATAATGGACAAGCCACCAAAAT
* *
37792050 CGTATATAAACTGACAATAA
1 TGTAGATAAACTGACAATAA
37792070 CTTCCACCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
47 44 0.76
48 14 0.24
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (47 bp):
TGTAGATAAACTGACAATAATCAAAATAATGGACAAGCCACCAAAAT
Found at i:37792455 original size:29 final size:29
Alignment explanation
Indices: 37792435--37792493 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
37792425 AACATAGACT
* *
37792435 TAATTTGGTTTAGTGTTAAAACCCACACC
1 TAATCTGGTTTAGTGTTAAAACACACACC
*
37792464 TAATCTGGTTTAGTGTTAAAACCCACACC
1 TAATCTGGTTTAGTGTTAAAACACACACC
37792493 T
1 T
37792494 GATCATAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (29 bp):
TAATCTGGTTTAGTGTTAAAACACACACC
Found at i:37804452 original size:20 final size:21
Alignment explanation
Indices: 37804422--37804460 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
37804412 CTATTCAACT
37804422 CAAGACTTAAATTATTCCTTG
1 CAAGACTTAAATTATTCCTTG
37804443 CAAG-CTTAAATTATTCCT
1 CAAGACTTAAATTATTCCT
37804461 CGCGACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (21 bp):
CAAGACTTAAATTATTCCTTG
Found at i:37809514 original size:50 final size:50
Alignment explanation
Indices: 37809401--37809648 Score: 266
Period size: 50 Copynumber: 4.9 Consensus size: 50
37809391 ACATTAAGAG
*
37809401 GATGAGA--TCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCATCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
37809452 GATTATGGGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * *
37809505 GATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGAACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * * *
37809555 GATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
37809605 TATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
37809649 TAATACACGA
Statistics
Matches: 169, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
50 123 0.73
51 1 0.01
53 4 0.02
54 5 0.03
55 1 0.01
56 35 0.21
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:37813590 original size:51 final size:48
Alignment explanation
Indices: 37813523--37813694 Score: 155
Period size: 51 Copynumber: 3.4 Consensus size: 48
37813513 TGGCACGAAT
* * * * *
37813523 TATGTGTAGGCCACTATGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTAC
1 TATGTGCAGGCTACTATGT-AACG-GATAGT-ATGGTCACATGTGTAGTAC
* * * *
37813574 TATGTGCAGGCTACTATGTGTACCAGATAGTTTCGATCACATGTGTAGTAC
1 TATGTGCAGGCTACTA--TGTAACGGATAGTAT-GGTCACATGTGTAGTAC
* *
37813625 TATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTAC
1 TATGTGCAGGCTACTA--TGTAACGGATAGT-ATGGTCACATGTGTAGTAC
*
37813676 TATGTGTAGGCTACTATGT
1 TATGTGCAGGCTACTATGT
37813695 GAACCGAACA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
49 3 0.03
50 1 0.01
51 92 0.91
52 2 0.02
53 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (48 bp):
TATGTGCAGGCTACTATGTAACGGATAGTATGGTCACATGTGTAGTAC
Found at i:37813753 original size:45 final size:45
Alignment explanation
Indices: 37813697--37813791 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
37813687 TACTATGTGA
*
37813697 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTAATTTC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAATTTC
* * * *
37813742 ACCGGACATCATTGATTAATAAGGTGGTTGGTATGTGCTAAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAATTTC
37813787 ACCGA
1 ACCGA
37813792 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAATTTC
Found at i:37817176 original size:13 final size:13
Alignment explanation
Indices: 37817154--37817183 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37817144 TGATTAAATA
*
37817154 TAAATTAATTTTT
1 TAAATCAATTTTT
37817167 TAAATCAATTTTT
1 TAAATCAATTTTT
37817180 TAAA
1 TAAA
37817184 AACGATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAATCAATTTTT
Found at i:37819387 original size:15 final size:15
Alignment explanation
Indices: 37819360--37819399 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37819350 AAATCACTAG
*
37819360 TATATTATATTATTT
1 TATATTATTTTATTT
*
37819375 TATTTTATTTTATTT
1 TATATTATTTTATTT
37819390 TATA-TATTTT
1 TATATTATTTT
37819400 TTAAAAGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATATTATTTTATTT
Found at i:37821052 original size:29 final size:29
Alignment explanation
Indices: 37821020--37821080 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
37821010 TTTCCAAAAG
* *
37821020 AAAATTA-TGGAAATGGGCCGTTTTCTTTA
1 AAAATTACTGGAAA-GGGCCGCTTTCCTTA
*
37821049 AAAATTACTGGAAAGGGCTGCTTTCCTTA
1 AAAATTACTGGAAAGGGCCGCTTTCCTTA
37821078 AAA
1 AAA
37821081 TGCGCTAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (29 bp):
AAAATTACTGGAAAGGGCCGCTTTCCTTA
Found at i:37821413 original size:29 final size:29
Alignment explanation
Indices: 37821355--37821442 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
37821345 CAATTTTTAG
*
37821355 GGGTTCTAAAAAAATAA-TTTGTACGGGAT
1 GGGTTCTGAAAAAATAATTTTG-ACGGGAT
37821384 GGGTTCTGAAAAAATAATTTTGA-GGTGAT
1 GGGTTCTGAAAAAATAATTTTGACGG-GAT
* * * *
37821413 GTGTTTTGAAGAAATAATTTTGACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACGGGAT
37821442 G
1 G
37821443 CGTTGAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.04
29 44 0.86
30 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACGGGAT
Found at i:37823696 original size:16 final size:17
Alignment explanation
Indices: 37823669--37823703 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
37823659 AGAGAGTTGA
37823669 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
37823686 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
37823702 GA
1 GA
37823704 TTGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:37843372 original size:39 final size:39
Alignment explanation
Indices: 37843324--37843462 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
37843314 CATATTCACT
* * *
37843324 TTTAGGCATATATCACATTACACATATAATTACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
* *
37843363 TTTAAGCATATATTACAATACTCATATAATCACA-AAACA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAA-A
**
37843402 TTTAAGCATATATCACAATACTCATATAATTACATACCA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
37843441 TTTAAGCATATATCACAATACT
1 TTTAAGCATATATCACAATACT
37843463 TGTAAGGCCC
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.03
39 85 0.96
40 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATTACATAAAA
Found at i:37849327 original size:33 final size:34
Alignment explanation
Indices: 37849279--37849349 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
37849269 CCTACAAATG
*
37849279 CAGTAATAGTCTGGGCCTGAGCCCTAT-TCAGTAA
1 CAGTAATAGTCTGGGCCTGAGCCCGATAT-AGTAA
* *
37849313 CAGT-ATAGTGTGGGCCTTAGCCCGATATAGTAA
1 CAGTAATAGTCTGGGCCTGAGCCCGATATAGTAA
37849346 CAGT
1 CAGT
37849350 GTAGGCCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (34 bp):
CAGTAATAGTCTGGGCCTGAGCCCGATATAGTAA
Found at i:37849421 original size:28 final size:28
Alignment explanation
Indices: 37849317--37849422 Score: 149
Period size: 28 Copynumber: 3.8 Consensus size: 28
37849307 CAGTAACAGT
* * *
37849317 ATAGTGTGGGCCTTAGCCCGATATAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAGAA
* * *
37849345 ACAGTGTAGGCCTTAGCCCAGTACAGAA
1 ATAGTGTGGGCCTTAGCCCAATACAGAA
*
37849373 ATAGTATGGGCCTTAGCCCAATACAGAA
1 ATAGTGTGGGCCTTAGCCCAATACAGAA
37849401 ATAGTGTGGGCCTTAGCCCAAT
1 ATAGTGTGGGCCTTAGCCCAAT
37849423 CCAGCCAACA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
ATAGTGTGGGCCTTAGCCCAATACAGAA
Found at i:37850225 original size:26 final size:26
Alignment explanation
Indices: 37850196--37850246 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
37850186 ACACCAATAT
*
37850196 CGCAATAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
37850222 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
37850247 TATGTGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:37850398 original size:27 final size:27
Alignment explanation
Indices: 37850379--37850620 Score: 313
Period size: 27 Copynumber: 9.0 Consensus size: 27
37850369 GGGTATAACA
*
37850379 GTCATTTTACCCATCGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * * *
37850406 ATCATTTTATCCTTTGGGGTTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * ***
37850433 GACATTTTACCTTTTAAGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
37850460 GTCATTTTACCCTTCGGTGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* *
37850487 GTCATTTTACCCTTCAGGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * *
37850514 ATCATTTTACCCATCTGGAGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
37850541 GTCATTTTACCCATCGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
37850568 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
37850595 GTCATTTTACCCTTCGGGGGTATTTC
1 GTCATTTTACCCTTCGGGGGTATTTC
37850621 AGACAATTGC
Statistics
Matches: 183, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTCG
Found at i:37865513 original size:11 final size:11
Alignment explanation
Indices: 37865497--37865529 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
37865487 TTCCATGTGT
37865497 CTATGTTTTTA
1 CTATGTTTTTA
37865508 CTATGTTTTTA
1 CTATGTTTTTA
*
37865519 CTATATTTTTA
1 CTATGTTTTTA
37865530 TGGCCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (11 bp):
CTATGTTTTTA
Found at i:37866801 original size:50 final size:50
Alignment explanation
Indices: 37866634--37866875 Score: 175
Period size: 50 Copynumber: 4.7 Consensus size: 50
37866624 GGTAAAGAGA
* * **
37866634 TCCCATGGAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATGAGAAC
* * * * * * **
37866690 TCCTATGTAAAACCATGTCTAGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
*** *
37866740 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* * * **
37866790 TCCCATGTAAGACCATATCTGGGATATGGCATTGGTA--G-TACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAG-AAC
* * *
37866838 ATCCCATGTAAGACCATTTCTGGGACATGTCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37866876 TGCTATTATC
Statistics
Matches: 150, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.03
48 4 0.03
49 32 0.21
50 76 0.51
51 1 0.01
55 1 0.01
56 32 0.21
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
Found at i:37870269 original size:27 final size:27
Alignment explanation
Indices: 37870239--37870391 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 27
37870229 TCAACTCCTA
37870239 GGGGTATTTCGATCATTTTACCCATCG
1 GGGGTATTTCGATCATTTTACCCATCG
*
37870266 GGGGTATTTCGATCATTTTACCCATCC
1 GGGGTATTTCGATCATTTTACCCATCG
* * * *
37870293 AGGATATTT-TAGTCATTTTACCCTTCG
1 GGGGTATTTCGA-TCATTTTACCCATCG
* * *
37870320 GGGGTATTTCAATC-TTTCACCAATCG
1 GGGGTATTTCGATCATTTTACCCATCG
* * * *
37870346 AGGGTATTTTCG-TTATTTTACCTATCA
1 GGGGTA-TTTCGATCATTTTACCCATCG
37870373 GGGGTATTTC-AGTCATTTT
1 GGGGTATTTCGA-TCATTTT
37870392 GCTCTTTAAG
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 20 0.20
27 79 0.79
28 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGATCATTTTACCCATCG
Found at i:37870377 original size:53 final size:54
Alignment explanation
Indices: 37870240--37870390 Score: 173
Period size: 53 Copynumber: 2.8 Consensus size: 54
37870230 CAACTCCTAG
* * * *
37870240 GGGTA-TTTCGATCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCATCCA
1 GGGTATTTTCG-TCATTTTACCTATCGGGGGTATTTCAATCATTTCACCAATCCA
* * *
37870294 GGATATTTTAGTCATTTTACCCT-TCGGGGGTATTTCAATC-TTTCACCAATCGA
1 GGGTATTTTCGTCATTTTA-CCTATCGGGGGTATTTCAATCATTTCACCAATCCA
* * *
37870347 GGGTATTTTCGTTATTTTACCTATCAGGGGTATTTCAGTCATTT
1 GGGTATTTTCGTCATTTTACCTATCGGGGGTATTTCAATCATTT
37870391 TGCTCTTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.04
53 41 0.51
54 31 0.38
55 6 0.07
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTTCGTCATTTTACCTATCGGGGGTATTTCAATCATTTCACCAATCCA
Found at i:37870381 original size:80 final size:81
Alignment explanation
Indices: 37870239--37870391 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 81
37870229 TCAACTCCTA
* * * * *
37870239 GGGGTATTTCGATCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCATCCAGGATATTTTA
1 GGGGTATTTCAATCATTTCACCAATCGAGGGTATTTCGATCATTTTACCCATCCAGGATATTTCA
37870304 GTCATTTTACCCTTCG
66 GTCATTTTACCCTTCG
* * *
37870320 GGGGTATTTCAATC-TTTCACCAATCGAGGGTATTTTCG-TTATTTTACCTAT-CAGGGGTATTT
1 GGGGTATTTCAATCATTTCACCAATCGAGGGTA-TTTCGATCATTTTACCCATCCA-GGATATTT
37870382 CAGTCATTTT
64 CAGTCATTTT
37870392 GCTCTTTAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
79 2 0.03
80 42 0.68
81 18 0.29
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCAATCATTTCACCAATCGAGGGTATTTCGATCATTTTACCCATCCAGGATATTTCA
GTCATTTTACCCTTCG
Found at i:37870405 original size:80 final size:81
Alignment explanation
Indices: 37870240--37870409 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 81
37870230 CAACTCCTAG
* * * * *
37870240 GGGTATTTCGATCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCATCCAGGATATTTTAG
1 GGGTATTTCAATCATTTCACCAATCGAGGGTATTTCGATCATTTTACCCATCCAGGATATTTCAG
**
37870305 TCATTTTACCCTTCGG
66 TCATTTTACCCTTCAA
* * *
37870321 GGGTATTTCAATC-TTTCACCAATCGAGGGTATTTTCG-TTATTTTACCTAT-CAGGGGTATTTC
1 GGGTATTTCAATCATTTCACCAATCGAGGGTA-TTTCGATCATTTTACCCATCCA-GGATATTTC
* * *
37870383 AGTCATTTTGCTCTTTAA
64 AGTCATTTTACCCTTCAA
37870401 GGGTATTTC
1 GGGTATTTC
37870410 GATAATTTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
79 2 0.03
80 55 0.74
81 17 0.23
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAATCATTTCACCAATCGAGGGTATTTCGATCATTTTACCCATCCAGGATATTTCAG
TCATTTTACCCTTCAA
Found at i:37872026 original size:27 final size:27
Alignment explanation
Indices: 37872007--37872405 Score: 394
Period size: 27 Copynumber: 14.9 Consensus size: 27
37871997 GGGTATAACT
37872007 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37872034 GTCATTCTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
37872061 GTCATTTTACCCTACGCGGGTATAACT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37872088 GTCATTTTATCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
37872115 ATCATTCTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
37872142 ATCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37872169 GTTATTTTACCCTATGGGGGTATTT-G
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
37872195 TTCATTTTACTCTATGGGCATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37872222 GTCATTCTACCTTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37872248 GTCATTTTTCCCTATGAGGGTATATT-A
1 GTCATTTTACCCTATGGGGGTAT-TTCG
* *
37872275 GTTATTTTACCCTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
37872302 ATTATTTTACCCTAT-ACGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37872328 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37872355 ATCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37872381 ATCATTTTACCCTATGAGTGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
37872406 TGGGGTCTCG
Statistics
Matches: 299, Mismatches: 67, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
26 89 0.30
27 208 0.70
28 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:37872220 original size:53 final size:53
Alignment explanation
Indices: 37872007--37872405 Score: 401
Period size: 53 Copynumber: 7.5 Consensus size: 53
37871997 GGGTATAACT
* * * *
37872007 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGGGGTATTTCG
* * ** * *
37872061 GTCATTTTACCCTACGCGGGTATAACTG-TCATTTTATCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTAT-GGGGTATTTCG
* * * * *
37872115 ATCATTCTACCTTACGGGGGTATTTCGATCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGGGGTATTTCG
* * * *
37872169 GTTATTTTACCCTATGGGGGTATTT-GTTCATTTTACTCTATGGGCATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGG-GTATTTCG
* * * * *
37872222 GTCATTCTACCTTAT-GGGGTATTTCGGTCATTTTTCCCTATGAGGGTATATT-A
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG-GGGTAT-TTCG
* * * ** *
37872275 GTTATTTTACCCTATGGGAGTATTTCGATTATTTTACCCTATACGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCG
*
37872328 GTCAATTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCG
* * *
37872381 ATCATTTTACCCTATGAGTGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
37872406 TGGGGTCTCG
Statistics
Matches: 280, Mismatches: 55, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
52 14 0.05
53 135 0.48
54 130 0.46
55 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCG
Found at i:37872299 original size:80 final size:78
Alignment explanation
Indices: 37872007--37872405 Score: 397
Period size: 80 Copynumber: 5.0 Consensus size: 78
37871997 GGGTATAACT
* * * * *
37872007 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCTTACGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTT--GTCATTTTACCCTATGGGAGTATTTCGATCATTTTACC
* ** *
37872072 CTACGCGGGTATAACT
64 CTATG-GGGTATTTCG
* * * * * *
37872088 GTCATTTTATCCTATAGGGGTATTTTGATCATTCTACCTTACGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGGGGTA-TTTG-TCATTTTACCCTATGGGAGTATTTCGATCATTTTACC
*
37872153 CTACAGGGGTATTTCG
64 CTA-TGGGGTATTTCG
* * * *
37872169 GTTATTTTACCCTATGGGGGTATTTGTTCATTTTACTCTATGGGCA-TATTTCGGTCATTCTACC
1 GTCATTTTACCCTATGGGGGTATTTG-TCATTTTACCCTATGGG-AGTATTTCGATCATTTTACC
*
37872233 TTATGGGGTATTTCG
64 CTATGGGGTATTTCG
* * * *
37872248 GTCATTTTTCCCTATGAGGGTATATTAGTTATTTTACCCTATGGGAGTATTTCGATTATTTTACC
1 GTCATTTTACCCTATGGGGGTAT-TT-GTCATTTTACCCTATGGGAGTATTTCGATCATTTTACC
** *
37872313 CTATACGGTATTTCA
64 CTATGGGGTATTTCG
*
37872328 GTCAATTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGG-GTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTT-G-TCATTTTACCCTATGGGAGTATTTCGATCATTTTACC
*
37872392 CTATGAGTGTATTT
64 CTATG-GGGTATTT
37872406 TGGGGTCTCG
Statistics
Matches: 268, Mismatches: 41, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
79 57 0.21
80 121 0.45
81 86 0.32
82 4 0.01
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (78 bp):
GTCATTTTACCCTATGGGGGTATTTGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCT
ATGGGGTATTTCG
Found at i:37873712 original size:16 final size:18
Alignment explanation
Indices: 37873679--37873713 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
37873669 CGTAAACTGT
37873679 AATAATTCATATTCATTC
1 AATAATTCATATTCATTC
37873697 AATAA-TCATA-TCATTC
1 AATAATTCATATTCATTC
37873713 A
1 A
37873714 TATTTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTCATATTCATTC
Found at i:37894564 original size:16 final size:16
Alignment explanation
Indices: 37894539--37894572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37894529 AATTGTTTTT
37894539 TTTATGTCTTTAGGAA
1 TTTATGTCTTTAGGAA
* *
37894555 TTTATTTCTTTAGTAA
1 TTTATGTCTTTAGGAA
37894571 TT
1 TT
37894573 AGGATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTATGTCTTTAGGAA
Found at i:37910254 original size:40 final size:40
Alignment explanation
Indices: 37910194--37910335 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 40
37910184 GACATTAAAA
* **
37910194 TGCATTCAGGGATACTGAAGTACAAACAGGGGCACGTATAG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTAT-G
* * *
37910235 -GCATTCAGGGGTACCGAAGTACCAACAGGGGCACATATG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATG
* * *
37910274 TGTAATT-AGGGGGTACCAAAGTACAAATAAGGGCACGTATG
1 TG-CATTCA-GGGGTACCAAAGTACAAACAGGGGCACGTATG
37910315 TGCATTCA-GGGTACCAAAGTA
1 TGCATTCAGGGGTACCAAAGTA
37910336 AATTCACATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
39 14 0.16
40 39 0.45
41 33 0.38
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
TGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATG
Found at i:37918439 original size:51 final size:51
Alignment explanation
Indices: 37918372--37918565 Score: 209
Period size: 51 Copynumber: 3.8 Consensus size: 51
37918362 GATACCGGTT
* * *
37918372 CACATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* * * * *
37918423 CACTTAGTAGCTTGCACATAGTATTACACACGTGATCGA--AGCTATTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *
37918474 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
37918524 GACGTAGTAGCCTGCA-ATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
37918566 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
48 4 0.03
49 19 0.16
50 21 0.18
51 69 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:37918495 original size:102 final size:100
Alignment explanation
Indices: 37918374--37918557 Score: 271
Period size: 102 Copynumber: 1.8 Consensus size: 100
37918364 TACCGGTTCA
* * * *
37918374 CATAGTAGCCTGCACATAGTACTGCACATGTGACC-ATCACTATCTGATACACTTAGTAGCTTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACACGTAGTAGCCTGC
*
37918438 ACATAGTATTACACACGTGATCGAAGCTATTTGGTACG
64 A-ATAGTACTACACACGTGATCGAAGCTATTTGGTACG
* *
37918476 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTAGACGTAGTAGCCTGCAA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAGTAGCCTGCAA
37918541 TAGTACTACACACGTGA
66 TAGTACTACACACGTGA
37918558 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 17 0.23
101 19 0.26
102 34 0.46
103 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAGTAGCCTGCAA
TAGTACTACACACGTGATCGAAGCTATTTGGTACG
Found at i:37920636 original size:30 final size:30
Alignment explanation
Indices: 37920581--37920642 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
37920571 CACTAAAAAA
37920581 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
37920610 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
37920641 GT
1 GT
37920643 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:37920882 original size:25 final size:25
Alignment explanation
Indices: 37920854--37920918 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 25
37920844 GGCTCAAACA
37920854 AGCTGAGAATCGGTAAACTC-TCACG
1 AGCTGAGAATCGGTAAACTCAT-ACG
* *
37920879 AGCTG-CAATCGGTAAGCTCATACG
1 AGCTGAGAATCGGTAAACTCATACG
37920903 AGCTGAGAATCGGTAA
1 AGCTGAGAATCGGTAA
37920919 TCCCTAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 20 0.57
25 15 0.43
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
AGCTGAGAATCGGTAAACTCATACG
Found at i:37920917 original size:49 final size:50
Alignment explanation
Indices: 37920795--37920918 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
37920785 GTACATGTAT
** * * *
37920795 GCTCATACAAGCT-ATGAATCGGTATCCTCTCACGAGCTATAAATTAGTAG
1 GCTCATACAAGCTGA-GAATCGGTAAACTCTCACGAGCTAGAAATCAGTAA
* * *
37920845 GCTCAAACAAGCTGAGAATCGGTAAACTCTCACGAGCT-GCAATCGGTAA
1 GCTCATACAAGCTGAGAATCGGTAAACTCTCACGAGCTAGAAATCAGTAA
*
37920894 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACAAGCTGAGAATCGGTAA
37920919 TCCCTAATGA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 29 0.46
50 33 0.52
51 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
GCTCATACAAGCTGAGAATCGGTAAACTCTCACGAGCTAGAAATCAGTAA
Found at i:37938239 original size:15 final size:16
Alignment explanation
Indices: 37938219--37938248 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37938209 ACGATGTGAT
37938219 TATAATAT-TGAATGA
1 TATAATATATGAATGA
37938234 TATAATATATGAATG
1 TATAATATATGAATG
37938249 TTTTTGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (16 bp):
TATAATATATGAATGA
Found at i:37945133 original size:28 final size:28
Alignment explanation
Indices: 37945091--37945169 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
37945081 AGACATATAG
*
37945091 TGCCTTAGGGATGAGTAACCCTAGGTCT
1 TGCCTTAGGGGTGAGTAACCCTAGGTCT
37945119 TGCCTTAGGGGTGAGTAACCCTAGGTCT
1 TGCCTTAGGGGTGAGTAACCCTAGGTCT
*
37945147 TACCTTAGGGGTGAGTAACCCTA
1 TGCCTTAGGGGTGAGTAACCCTA
37945170 CTAGCCTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (28 bp):
TGCCTTAGGGGTGAGTAACCCTAGGTCT
Found at i:37948307 original size:15 final size:15
Alignment explanation
Indices: 37948287--37948316 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37948277 ATGTTATTTG
37948287 ATATGTGTGAAAATT
1 ATATGTGTGAAAATT
37948302 ATATGTGTGAAAATT
1 ATATGTGTGAAAATT
37948317 TCGTGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
ATATGTGTGAAAATT
Found at i:37949445 original size:42 final size:43
Alignment explanation
Indices: 37949398--37949510 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 43
37949388 ATTTTCGAGG
* **
37949398 TATGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCG-TA
1 TATGATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
*
37949440 TATGA-TTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA
1 TATGATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
* ** * *
37949482 TGTGATAACATGTAAGACCATATCTGGGA
1 TATGATTTCGTGTAAGACCATGTCTGGGA
37949511 TATGGTATTG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 30 0.51
42 11 0.19
43 18 0.31
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TATGATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
Found at i:37953031 original size:27 final size:26
Alignment explanation
Indices: 37952990--37953171 Score: 220
Period size: 27 Copynumber: 6.7 Consensus size: 26
37952980 CGGGAAGGTT
37952990 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTA-CGAAATACCCTCGATGG
37953017 GTAAAATTACAGAAATACCCTCGATGG
1 GTAAAATTAC-GAAATACCCTCGATGG
*
37953044 GTAAAATTACTGAAATACCCTCGATGA
1 GTAAAATTAC-GAAATACCCTCGATGG
* *
37953071 GTAAAATTACTAAAGTACCCTCAATGG
1 GTAAAATTACGAAA-TACCCTCGATGG
* * *
37953098 TTAAAATTATCGAAATACCCCCGAAGG
1 GTAAAATTA-CGAAATACCCTCGATGG
* * *
37953125 GTGAAATTACCGAAATACCCCCGAAGG
1 GTAAAATTA-CGAAATACCCTCGATGG
37953152 GTAAAATTACTGAAATACCC
1 GTAAAATTAC-GAAATACCC
37953172 CCTTAGGGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.04
27 128 0.93
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
GTAAAATTACGAAATACCCTCGATGG
Found at i:37953197 original size:54 final size:52
Alignment explanation
Indices: 37952990--37953199 Score: 165
Period size: 54 Copynumber: 3.9 Consensus size: 52
37952980 CGGGAAGGTT
* * * * *
37952990 GTAAAATTA-TCGAAATACCCTCGATGGGTAAAATTACAGAAATACCCTCGATGG
1 GTAAAATTACT-GAAATACCC-CCAAGGGTAAAATTAC-TAAATACCCCCGAAGG
* * * *
37953044 GTAAAATTACTGAAATACCCTCGATGAGTAAAATTACTAAAGTACCCTC-AATGG
1 GTAAAATTACTGAAATACCC-CCAAGGGTAAAATTACTAAA-TACCCCCGAA-GG
* * *
37953098 TTAAAATTA-TCGAAATACCCCCGAAGGGTGAAATTACCGAAATACCCCCGAAGG
1 GTAAAATTACT-GAAATACCCCC-AAGGGTAAAATTA-CTAAATACCCCCGAAGG
* * *
37953152 GTAAAATTACTGAAATACCCCCTTAGGGTAAAATGACTATTATACCCC
1 GTAAAATTACTGAAATACCCCC-AAGGGTAAAATTACTA-AATACCCC
37953200 TAGGAAGTCA
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
53 8 0.06
54 114 0.88
55 8 0.06
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (52 bp):
GTAAAATTACTGAAATACCCCCAAGGGTAAAATTACTAAATACCCCCGAAGG
Found at i:37954209 original size:17 final size:17
Alignment explanation
Indices: 37954187--37954222 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37954177 GGTTTTGTAC
*
37954187 AAGTTTTAAATGGCAAG
1 AAGTTTGAAATGGCAAG
*
37954204 AAGTTTGAAATTGCAAG
1 AAGTTTGAAATGGCAAG
37954221 AA
1 AA
37954223 AGGTTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (17 bp):
AAGTTTGAAATGGCAAG
Found at i:37957720 original size:27 final size:27
Alignment explanation
Indices: 37957678--37957902 Score: 236
Period size: 27 Copynumber: 8.3 Consensus size: 27
37957668 TGAGAAGGTT
*
37957678 GTAAAATTACTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * * *
37957705 ATAAAATTACCAAAATACCCTAGATGT
1 GTAAAATTACCGAAATACCCTCGATGG
* * * *
37957732 GTAAAATTATCGAAATACCTTCAATTG
1 GTAAAATTACCGAAATACCCTCGATGG
*
37957759 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
37957786 GTAAAATTATCGAAGTACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
37957813 GTAAAATTACCAAAATAACCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * * * *
37957840 TTGAAATTACTGAAGTACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
37957867 GTAAAATTGCCGAAATA-CCTCCGAAGG
1 GTAAAATTACCGAAATACCCT-CGATGG
37957894 GTAAAATTA
1 GTAAAATTA
37957903 TTAAAATACC
Statistics
Matches: 163, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 3 0.02
27 160 0.98
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGATGG
Found at i:37957920 original size:81 final size:80
Alignment explanation
Indices: 37957671--37957932 Score: 269
Period size: 81 Copynumber: 3.2 Consensus size: 80
37957661 AGACCTTTGA
* * * *
37957671 GAAGGTTGTAAAATTACTGAAATACCCTCGATGGATAAAATTACCAAAATACCCTAGATGTGTAA
1 GAAGGTTG--AAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAA
*
37957736 AATTATCGAAATACCTT
64 AATTATCAAAATACCTT
* * * *
37957753 CAATTGG-TAAAATTA-TCGAAATACCCTCGATGGGTAAAATTATCGAAGTACCCTCGATGGGTA
1 GAA--GGTTGAAATTACT-GAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATGGGTA
* *
37957816 AAATTACCAAAATAACCTC
63 AAATTATCAAAAT-ACCTT
* * * *
37957835 GAAGGTTGAAATTACTGAAGTACCCTCGAAGGGTAAAATTGCCGAAATA-CCTCCGAAGGGTAAA
1 GAAGGTTGAAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCT-CGATGGGTAAA
*
37957899 ATTATTAAAATACCCTT
65 ATTATCAAAATA-CCTT
* *
37957916 GAAGGGTGAAATGACTG
1 GAAGGTTGAAATTACTG
37957933 TTATACCCCT
Statistics
Matches: 148, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
80 7 0.05
81 129 0.87
82 9 0.06
83 1 0.01
84 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (80 bp):
GAAGGTTGAAATTACTGAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAA
TTATCAAAATACCTT
Found at i:37961568 original size:105 final size:104
Alignment explanation
Indices: 37961382--37961605 Score: 353
Period size: 105 Copynumber: 2.1 Consensus size: 104
37961372 TGTATATAAA
** *
37961382 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
37961447 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
37961486 AGGGGTTGCTAAGTGCTGATTCCCTGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTT-ATGGGTGGTGCTAAGTGCG-TGATCCACCATATC
37961550 TTTGAAATG-AAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGTAAAA-GGGGGTTGCTATGTGCTGATTCCCCCG
37961591 AGGGGTTGCTAAGTG
1 AGGGGTTGCTAAGTG
37961606 TNNNNNNNNN
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
104 30 0.27
105 80 0.72
106 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:37966917 original size:43 final size:41
Alignment explanation
Indices: 37966859--37966939 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 41
37966849 TATTTGATCG
*
37966859 TGTAAGATCCTATCTGGGACAGAGGCATTGATATGTGATAACA
1 TGTAAGATCCTATCTGAGACA-AGGCATTG-TATGTGATAACA
* *
37966902 TGTAAGA-CCATATCTGAGATATGGCATTGTATGTGATA
1 TGTAAGATCC-TATCTGAGACAAGGCATTGTATGTGATA
37966940 TATGTGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 9 0.26
42 9 0.26
43 16 0.47
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAAGATCCTATCTGAGACAAGGCATTGTATGTGATAACA
Found at i:37980895 original size:22 final size:22
Alignment explanation
Indices: 37980867--37980935 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
37980857 ACATGTTGAC
37980867 TTTTAACTGCATTGTACCTGGA
1 TTTTAACTGCATTGTACCTGGA
**
37980889 TTTTAACAACA-TGT---T-GA
1 TTTTAACTGCATTGTACCTGGA
37980906 CTTTTAACTGCATTGTACCTGGA
1 -TTTTAACTGCATTGTACCTGGA
37980929 TTTTAAC
1 TTTTAAC
37980936 CTTCAAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
17 2 0.05
18 10 0.27
19 3 0.08
21 3 0.08
22 17 0.46
23 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (22 bp):
TTTTAACTGCATTGTACCTGGA
Found at i:37980898 original size:40 final size:40
Alignment explanation
Indices: 37980854--37980935 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
37980844 ACCCTATTAC
37980854 ACAACATGTTGACTTTTAACTGCATTGTACCTGGATTTTA
1 ACAACATGTTGACTTTTAACTGCATTGTACCTGGATTTTA
37980894 ACAACATGTTGACTTTTAACTGCATTGTACCTGGATTTTA
1 ACAACATGTTGACTTTTAACTGCATTGTACCTGGATTTTA
37980934 AC
1 AC
37980936 CTTCAAAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (40 bp):
ACAACATGTTGACTTTTAACTGCATTGTACCTGGATTTTA
Found at i:37982898 original size:21 final size:21
Alignment explanation
Indices: 37982859--37982898 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37982849 AATTGGTTTC
*
37982859 AATTTTTATTTTATTTCATTT
1 AATTTTTATTTTATATCATTT
37982880 AATTTTTATTGTTA-ATCAT
1 AATTTTTATT-TTATATCAT
37982899 GTGCTTGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
AATTTTTATTTTATATCATTT
Found at i:37991235 original size:6 final size:6
Alignment explanation
Indices: 37991224--37991253 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
37991214 TTTCTTTTGA
*
37991224 TAATTT TAATTT CAATTT TAATTT TAATTT
1 TAATTT TAATTT TAATTT TAATTT TAATTT
37991254 AAATCTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
TAATTT
Found at i:38003954 original size:3 final size:3
Alignment explanation
Indices: 38003946--38003989 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
38003936 ATCAAATATT
38003946 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
38003990 GAAATTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:38005700 original size:9 final size:9
Alignment explanation
Indices: 38005686--38005770 Score: 86
Period size: 9 Copynumber: 9.4 Consensus size: 9
38005676 TTTGGTTAAA
38005686 AATTAACCG
1 AATTAACCG
38005695 AATTAACCG
1 AATTAACCG
38005704 AATT-ACTCG
1 AATTAAC-CG
* *
38005713 TATTAACTG
1 AATTAACCG
38005722 AATTAACCTG
1 AATTAACC-G
**
38005732 -ATTCCCCG
1 AATTAACCG
38005740 AATTAACCG
1 AATTAACCG
38005749 AATT-ACCTG
1 AATTAACC-G
38005758 AATTAACCG
1 AATTAACCG
38005767 AATT
1 AATT
38005771 GAATCACTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
8 6 0.10
9 50 0.81
10 6 0.10
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:38009582 original size:18 final size:17
Alignment explanation
Indices: 38009551--38009587 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
38009541 ATGATTTAAA
*
38009551 CAAATAAATTTATATAT
1 CAAATAAATATATATAT
38009568 CAAATTAAATATATATAT
1 CAAA-TAAATATATATAT
38009586 CA
1 CA
38009588 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
CAAATAAATATATATAT
Found at i:38009978 original size:4 final size:4
Alignment explanation
Indices: 38009959--38009996 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
38009949 ATCCGTGCAT
*
38009959 TTTC TTTC TATC -TTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
38009997 TATACCAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:38016984 original size:36 final size:36
Alignment explanation
Indices: 38016944--38017016 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
38016934 TGAAATAGGA
38016944 AAACTACTCCTGA-TCACCCTCTACTTCCTATAATAT
1 AAACTACTCCT-ATTCACCCTCTACTTCCTATAATAT
*
38016980 AAACTACTCCTATTCACCCTTTACTTCCTATAATAT
1 AAACTACTCCTATTCACCCTCTACTTCCTATAATAT
38017016 A
1 A
38017017 GAAAGCTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.32, C:0.32, G:0.01, T:0.36
Consensus pattern (36 bp):
AAACTACTCCTATTCACCCTCTACTTCCTATAATAT
Found at i:38018900 original size:17 final size:17
Alignment explanation
Indices: 38018874--38018925 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
38018864 AAAACTATAT
* *
38018874 TTTAATTTAATTCTTAA
1 TTTAAATTAATTCCTAA
*
38018891 TTTAAATTAA-CCCTAA
1 TTTAAATTAATTCCTAA
*
38018907 TTCTAAATTAATTTCTAA
1 TT-TAAATTAATTCCTAA
38018925 T
1 T
38018926 CTTATTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 17 0.61
18 5 0.18
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAATTAATTCCTAA
Found at i:38019356 original size:24 final size:22
Alignment explanation
Indices: 38019322--38019545 Score: 142
Period size: 24 Copynumber: 9.5 Consensus size: 22
38019312 GCGAACCTAC
* *
38019322 ATGCAAACCCTTATGGATTTGGT
1 ATGCGAACCCTTAT-GATTTAGT
* *
38019345 ATGCGAACCCCTATATGTTTTAAT
1 ATGCGAA-CCCT-TATGATTTAGT
*
38019369 ATGCGAACTCTAATATGATTTAGT
1 ATGCGAACCCT--TATGATTTAGT
* * * *
38019393 ATGCAAACCTCCATATGTTTTATT
1 ATGCGAA-C-CCTTATGATTTAGT
*
38019417 ATGCGAACCTTTATGAATTTAGT
1 ATGCGAACCCTTATG-ATTTAGT
* * *
38019440 ATGTGAACCCCCTATATGTTTTATT
1 ATGCGAA--CCCT-TATGATTTAGT
*
38019465 ATGCGAACCCTTATGGATTTAGC
1 ATGCGAACCCTTAT-GATTTAGT
* * *
38019488 ATGCGAACCCCATATGTTTTAAT
1 ATGCGAA-CCCTTATGATTTAGT
*
38019511 ATGCGAACCCTTATGTGATTTATT
1 ATGCGAACCCTTA--TGATTTAGT
*
38019535 ATTCGAACCCT
1 ATGCGAACCCT
38019546 ACATGTGAAC
Statistics
Matches: 155, Mismatches: 33, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
22 13 0.08
23 49 0.32
24 70 0.45
25 18 0.12
26 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGCGAACCCTTATGATTTAGT
Found at i:38019395 original size:48 final size:46
Alignment explanation
Indices: 38019322--38019544 Score: 236
Period size: 48 Copynumber: 4.7 Consensus size: 46
38019312 GCGAACCTAC
* *
38019322 ATGCAAACCCT-TATGGATTTGGTATGCGAACCCCTATATGTTTTAAT
1 ATGCGAACCCTATAT-GATTTAGTATGCGAACCCC-ATATGTTTTAAT
* * *
38019369 ATGCGAACTCTAATATGATTTAGTATGCAAACCTCCATATGTTTTATT
1 ATGCGAACCCT-ATATGATTTAGTATGCGAACC-CCATATGTTTTAAT
* * *
38019417 ATGCGAA-CCTTTATGAATTTAGTATGTGAACCCCCTATATGTTTTATT
1 ATGCGAACCCTATATG-ATTTAGTATGCGAA-CCCC-ATATGTTTTAAT
*
38019465 ATGCGAACCCT-TATGGATTTAGCATGCGAACCCCATATGTTTTAAT
1 ATGCGAACCCTATAT-GATTTAGTATGCGAACCCCATATGTTTTAAT
* * *
38019511 ATGCGAACCCTTATGTGATTTATTATTCGAACCC
1 ATGCGAACCC-TATATGATTTAGTATGCGAACCC
38019545 TACATGTGAA
Statistics
Matches: 150, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
46 25 0.17
47 45 0.30
48 71 0.47
49 9 0.06
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGCGAACCCTATATGATTTAGTATGCGAACCCCATATGTTTTAAT
Found at i:38019497 original size:23 final size:23
Alignment explanation
Indices: 38019465--38019532 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
38019455 ATGTTTTATT
*
38019465 ATGCGAACCCTTATGGATTTAGC
1 ATGCGAACCCTTATGGATTTAAC
* * *
38019488 ATGCGAACCCCATAT-GTTTTAAT
1 ATGCGAA-CCCTTATGGATTTAAC
38019511 ATGCGAACCCTTATGTGATTTA
1 ATGCGAACCCTTATG-GATTTA
38019533 TTATTCGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 6 0.17
23 19 0.53
24 11 0.31
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (23 bp):
ATGCGAACCCTTATGGATTTAAC
Found at i:38019586 original size:30 final size:30
Alignment explanation
Indices: 38019552--38019633 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
38019542 CCCTACATGT
*
38019552 GAACCCTGTATGTGCGAATCCTGAATATGC
1 GAACCCTGTATGTGCGAACCCTGAATATGC
* *
38019582 GAACCCTGTATGTGTGAACCCTGTATATGC
1 GAACCCTGTATGTGCGAACCCTGAATATGC
* * *
38019612 AAACCTTGTATGTGCAAACCCT
1 GAACCCTGTATGTGCGAACCCT
38019634 ATATACGAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (30 bp):
GAACCCTGTATGTGCGAACCCTGAATATGC
Found at i:38019600 original size:15 final size:15
Alignment explanation
Indices: 38019552--38019633 Score: 92
Period size: 15 Copynumber: 5.5 Consensus size: 15
38019542 CCCTACATGT
38019552 GAACCCTGTATGTGC
1 GAACCCTGTATGTGC
* * *
38019567 GAATCCTGAATATGC
1 GAACCCTGTATGTGC
*
38019582 GAACCCTGTATGTGT
1 GAACCCTGTATGTGC
*
38019597 GAACCCTGTATATGC
1 GAACCCTGTATGTGC
* *
38019612 AAACCTTGTATGTGC
1 GAACCCTGTATGTGC
*
38019627 AAACCCT
1 GAACCCT
38019634 ATATACGAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (15 bp):
GAACCCTGTATGTGC
Found at i:38021203 original size:2 final size:2
Alignment explanation
Indices: 38021196--38021222 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38021186 CATAGAGTAA
38021196 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
38021223 AAGAGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38032817 original size:16 final size:16
Alignment explanation
Indices: 38032796--38032826 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38032786 TATACTATGA
*
38032796 AACTCTAGATTCTGAG
1 AACTCTAGATACTGAG
38032812 AACTCTAGATACTGA
1 AACTCTAGATACTGA
38032827 TACTATAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (16 bp):
AACTCTAGATACTGAG
Found at i:38041527 original size:27 final size:27
Alignment explanation
Indices: 38041493--38041563 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
38041483 TGGATCAAAA
*
38041493 TGCTCACATGAGCTGTGAATATG-GGCT
1 TGCTCACATGAGCTGTGAATA-GAAGCT
* *
38041520 TGCTCACACGATCTGTGAATAGAAGCT
1 TGCTCACATGAGCTGTGAATAGAAGCT
38041547 TGCTCAC-TCGAGCTGTG
1 TGCTCACAT-GAGCTGTG
38041564 GGTCGAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (27 bp):
TGCTCACATGAGCTGTGAATAGAAGCT
Found at i:38045844 original size:25 final size:25
Alignment explanation
Indices: 38045816--38045885 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
38045806 TCTTGTACAT
38045816 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTGAATCG
* * * *
38045841 GTATGCTC-TCTCGAGTTGTAAATTG
1 GTATGCTCAT-ACGAGCTGTGAATCG
*
38045866 GTAAGCTCATACGAGCTGTG
1 GTATGCTCATACGAGCTGTG
38045886 GTGTGTCCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTGAATCG
Found at i:38053081 original size:25 final size:25
Alignment explanation
Indices: 38053027--38053108 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
38053017 GCTCATTCGT
* * * *
38053027 GCTGTGAATCGTTATACTCTCTCGA
1 GCTGTAAATCGGTATGCTCTCACGA
* * * *
38053052 CCTGTAAATCGGTATTCTTTCATGA
1 GCTGTAAATCGGTATGCTCTCACGA
*
38053077 GCTGTAAATTGGTATGCTCTCACGA
1 GCTGTAAATCGGTATGCTCTCACGA
38053102 GCTGTAA
1 GCTGTAA
38053109 GTCAGCAAGC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTGTAAATCGGTATGCTCTCACGA
Found at i:38054724 original size:40 final size:40
Alignment explanation
Indices: 38054680--38054918 Score: 282
Period size: 40 Copynumber: 6.0 Consensus size: 40
38054670 GTGCATTTAG
* * * * *
38054680 GGGTACCTAAGTATAAATAGGGGCACGCATTTACAATCAA
1 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
* * * **
38054720 GGGTACTGAAGTAAAAACAGGGGCACACATGTGCAAT-AA
1 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
* * *
38054759 GGGGTACCGAAGTGCAAATAGGGGCACGTATCTGCAATCAG
1 -GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
* *
38054800 GGGTACCGAAGTACAAATAGGGGCACGTATGTACAACCAA
1 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
* * *
38054840 GGGTACCGAAGTACAAACAGGGGTACGTATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
* *
38054880 GGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATCA
1 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCA
38054919 TCAATAATTA
Statistics
Matches: 168, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 165 0.98
41 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (40 bp):
GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATCAA
Found at i:38054872 original size:120 final size:120
Alignment explanation
Indices: 38054678--38054918 Score: 349
Period size: 120 Copynumber: 2.0 Consensus size: 120
38054668 AAGTGCATTT
* * * * *
38054678 AGGGGTACCTAAGTATAAATAGGGGCACGCATTTACAATCAAGGGTACTGAAGTAAAAACAGGGG
1 AGGGGTACCGAAGTACAAATAGGGGCACGCATGTACAACCAAGGGTACCGAAGTAAAAACAGGGG
*
38054743 CACACATGTGCAATAAGGGGTACCGAAGT-GCAAATAGGGGCACGTATCTGCAATC
66 CACACATGTGCAATAAGGGGTACCGAAGTAG-AAATAGGGGCACATATCTGCAATC
* *
38054798 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTACAACCAAGGGTACCGAAGTACAAACAGGGG
1 AGGGGTACCGAAGTACAAATAGGGGCACGCATGTACAACCAAGGGTACCGAAGTAAAAACAGGGG
* ** * *
38054863 TACGTATGTGCAATCAGGGGTACCGAAGTAGAAATAGGGGCACATATGTGCAATC
66 CACACATGTGCAATAAGGGGTACCGAAGTAGAAATAGGGGCACATATCTGCAATC
38054918 A
1 A
38054919 TCAATAATTA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
120 106 0.99
121 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.17
Consensus pattern (120 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGCATGTACAACCAAGGGTACCGAAGTAAAAACAGGGG
CACACATGTGCAATAAGGGGTACCGAAGTAGAAATAGGGGCACATATCTGCAATC
Found at i:38054901 original size:20 final size:20
Alignment explanation
Indices: 38054758--38054902 Score: 84
Period size: 20 Copynumber: 7.2 Consensus size: 20
38054748 ATGTGCAATA
*
38054758 AGGGGTACCGAAGTGCAAAT
1 AGGGGTACCGAAGTACAAAT
* ** *
38054778 AGGGGCA-CGTATCTGC-AAT
1 AGGGGTACCG-AAGTACAAAT
38054797 CAGGGGTACCGAAGTACAAAT
1 -AGGGGTACCGAAGTACAAAT
* * **
38054818 AGGGGCA-CGTATGTACAACC
1 AGGGGTACCG-AAGTACAAAT
* *
38054838 AAGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAT
* *
38054858 AGGGGTA-CGTATGTGC-AAT
1 AGGGGTACCG-AAGTACAAAT
*
38054877 CAGGGGTACCGAAGTAGAAAT
1 -AGGGGTACCGAAGTACAAAT
38054898 AGGGG
1 AGGGG
38054903 CACATATGTG
Statistics
Matches: 93, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
19 11 0.12
20 70 0.75
21 12 0.13
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:38067356 original size:27 final size:27
Alignment explanation
Indices: 38067317--38067510 Score: 232
Period size: 27 Copynumber: 7.2 Consensus size: 27
38067307 CTTGGGCCTG
38067317 AAAATT-TCTGAAATACCCTCAAAGGGT
1 AAAATTATC-GAAATACCCTCAAAGGGT
*
38067344 AAAATTA-CAGAAATACTCC-CATAGGGT
1 AAAATTATC-GAAATAC-CCTCAAAGGGT
* * * *
38067371 AAAATTACCGGAATACCCTCGAATGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
*
38067398 AAAATTATCGAAATGCCCTCAAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
*
38067425 AAAATTATCGAAATACCCCCAAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
*
38067452 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* * **
38067479 AAAATTATCAAAATACCCCCGTAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
38067506 AAAAT
1 AAAAT
38067511 GACTGTTATA
Statistics
Matches: 145, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 140 0.97
28 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCAAAGGGT
Found at i:38067452 original size:81 final size:81
Alignment explanation
Indices: 38067317--38067510 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 81
38067307 CTTGGGCCTG
* *
38067317 AAAATT-TCTGAAATACCCTCAAAGGGTAAAATTACAGAAATACTCCCATAGGGTAAAATTACCG
1 AAAATTATC-GAAATACCCTCAAAGGGTAAAATTACAGAAATACCCCCAAAGGGTAAAATTACCG
* *
38067381 GAATACCCTCGAATGGT
65 AAATACCCTCGAAGGGT
* *
38067398 AAAATTATCGAAATGCCCTCAAAGGGTAAAATTATC-GAAATACCCCCAAAGGGTAAAATTATCG
1 AAAATTATCGAAATACCCTCAAAGGGTAAAATTA-CAGAAATACCCCCAAAGGGTAAAATTACCG
38067462 AAATACCCTCGAAGGGT
65 AAATACCCTCGAAGGGT
* * **
38067479 AAAATTATCAAAATACCCCCGTAGGGTAAAAT
1 AAAATTATCGAAATACCCTCAAAGGGTAAAAT
38067511 GACTGTTATA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 97 0.97
82 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (81 bp):
AAAATTATCGAAATACCCTCAAAGGGTAAAATTACAGAAATACCCCCAAAGGGTAAAATTACCGA
AATACCCTCGAAGGGT
Found at i:38082382 original size:31 final size:31
Alignment explanation
Indices: 38082344--38082406 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
38082334 GTGATTTATC
38082344 ACCTTTTTACTTAAATCCGTTGTTAAAACTA
1 ACCTTTTTACTTAAATCCGTTGTTAAAACTA
38082375 ACCTTTTTACTTAAATCCGTTGTTAAAACTA
1 ACCTTTTTACTTAAATCCGTTGTTAAAACTA
38082406 A
1 A
38082407 GTAATTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.41
Consensus pattern (31 bp):
ACCTTTTTACTTAAATCCGTTGTTAAAACTA
Found at i:38085063 original size:27 final size:28
Alignment explanation
Indices: 38085011--38085063 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
38085001 AAAATAATTA
*
38085011 AAATTAAATATGTTAATAATTCAAGTGT
1 AAATTAAATATGTTAATAATTAAAGTGT
* *
38085039 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATGTTAATAATTAAAGT
38085064 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGT
Found at i:38085070 original size:27 final size:28
Alignment explanation
Indices: 38085011--38085070 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
38085001 AAAATAATTA
* *
38085011 AAATTAAATATGTTAATAATTCAAGTGT
1 AAATTAAATATGTTAATAATTAAAGTAT
* *
38085039 AAATTAATTAT-TTTATAATTAAAGTAT
1 AAATTAAATATGTTAATAATTAAAGTAT
*
38085066 GAATT
1 AAATT
38085071 TTGACAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTAT
Found at i:38087211 original size:10 final size:10
Alignment explanation
Indices: 38087184--38087212 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
38087174 GTTAAAATTG
38087184 AATAGAAAAA
1 AATAGAAAAA
38087194 AATA-AAAAA
1 AATAGAAAAA
38087203 AATAGAAAAA
1 AATAGAAAAA
38087213 CCAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (10 bp):
AATAGAAAAA
Found at i:38091104 original size:26 final size:25
Alignment explanation
Indices: 38091035--38091104 Score: 58
Period size: 26 Copynumber: 2.8 Consensus size: 25
38091025 TATCAAAACT
*
38091035 TGTGATTAT-TTTGGTGATTAATATGA
1 TGTGATTATATTT-GTG-TTGATATGA
* *
38091061 TGAGACTA-ATTT-TG-TGATATGTA
1 TGTGATTATATTTGTGTTGATATG-A
38091084 TGTGATTATATTTGTGTTGAT
1 TGTGATTATATTTGTGTTGAT
38091105 CTTACATTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 6 0.18
25 2 0.06
26 13 0.38
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (25 bp):
TGTGATTATATTTGTGTTGATATGA
Found at i:38095562 original size:27 final size:27
Alignment explanation
Indices: 38095521--38095745 Score: 166
Period size: 27 Copynumber: 8.4 Consensus size: 27
38095511 CCATAAAATA
* *
38095521 GGTATAATGATCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
*
38095548 GGTAAAATAACCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
*
38095575 GGTAAAATGACCGTAATACCCTCATAG
1 GGTAAAATGACCGTAATACCCCCATAG
* * * *
38095602 GGTAAAATGATCGTAATGCCCCTATTG
1 GGTAAAATGACCGTAATACCCCCATAG
*** * ** *
38095629 GGTAAAATGGTTGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATACCCCCATAG
* * **
38095656 GGTAAAATGATCGTAATTCCCTTATAG
1 GGTAAAATGACCGTAATACCCCCATAG
* * ** * **
38095683 GGTACAATAACTATAAT-GCCCTGTAG
1 GGTAAAATGACCGTAATACCCCCATAG
* * * *
38095709 GGTAAAATGACTGTAATGCCCCTAGAG
1 GGTAAAATGACCGTAATACCCCCATAG
38095736 GGT-AAATGAC
1 GGTAAAATGAC
38095746 TATTTTTCCC
Statistics
Matches: 162, Mismatches: 35, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
26 27 0.17
27 135 0.83
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCCATAG
Found at i:38095645 original size:54 final size:54
Alignment explanation
Indices: 38095533--38095746 Score: 202
Period size: 54 Copynumber: 4.0 Consensus size: 54
38095523 TATAATGATC
* * * * * *
38095533 GTAATACCCCCATAGGGTAAAATAACCGTAATACCCCCATAGGGTAAAATGACC
1 GTAATACCCTCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACT
* **
38095587 GTAATACCCTCATAGGGTAAAATGATCGTAATGCCCCTATTGGGTAAAATGGTT
1 GTAATACCCTCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACT
* * * * * * *
38095641 GTAATGCCC-CTGTAAGGTAAAATGATCGTAATTCCCTTATAGGGTACAATAACT
1 GTAATACCCTC-ATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACT
* * * *
38095695 ATAATGCCCT-GTAGGGTAAAATGA-CTGTAATGCCCCTAGAGGGT-AAATGACT
1 GTAATACCCTCATAGGGTAAAATGATC-GTAATGCCCCTATAGGGTAAAATGACT
38095747 ATTTTTCCCC
Statistics
Matches: 131, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
52 7 0.05
53 29 0.22
54 95 0.73
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAATACCCTCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACT
Found at i:38095661 original size:81 final size:81
Alignment explanation
Indices: 38095521--38095745 Score: 231
Period size: 81 Copynumber: 2.8 Consensus size: 81
38095511 CCATAAAATA
* * * * * * * *
38095521 GGTATAATGATCGTAATACCCCCATAGGGTAAAATAACCGTAATACCCCCATAGGGTAAAATGAC
1 GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
38095586 CGTAATACCCTCATAG
66 CGTAATACCCTCATAG
* ** * *
38095602 GGTAAAATGATCGTAATGCCCCTATTGGGTAAAATGGTTGTAATGCCCCTGTAAGGTAAAATGAT
1 GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
* *
38095667 CGTAATTCCCTTATAG
66 CGTAATACCCTCATAG
* * * * * *
38095683 GGTACAAT-AACTATAATG-CCCTGTAGGGTAAAATGACTGTAATGCCCCTAGAGGGT-AAATGA
1 GGTAAAATGATC-GTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGA
38095745 C
65 C
38095746 TATTTTTCCC
Statistics
Matches: 117, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
79 6 0.05
80 33 0.28
81 78 0.67
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (81 bp):
GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAAGGTAAAATGAC
CGTAATACCCTCATAG
Done.