Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 259 of 284
Found at i:87344801 original size:29 final size:30
Alignment explanation
Indices: 87344746--87344806 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
87344736 ATCAAATAAA
*
87344746 TTCCATGTACAAATATCATCATCTCAT-AT
1 TTCCATGTACAAATATCATCATATCATCAT
* *
87344775 TTCCATGTATAAATTTTCA-CATATCATCAT
1 TTCCATGTACAAA-TATCATCATATCATCAT
87344805 TT
1 TT
87344807 TTATGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (30 bp):
TTCCATGTACAAATATCATCATATCATCAT
Found at i:87357030 original size:27 final size:27
Alignment explanation
Indices: 87357000--87357177 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
87356990 ATATTGAGTC
* * * *
87357000 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
87357027 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87357054 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
87357082 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
87357109 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
87357136 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87357163 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87357178 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:87357139 original size:82 final size:81
Alignment explanation
Indices: 87357021--87357176 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
87357011 TGCTATATAA
* *
87357021 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87357086 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87357103 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87357167 CACTTAGTGC
65 CACTTAGTGC
87357177 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87368078 original size:231 final size:231
Alignment explanation
Indices: 87367675--87368136 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 231
87367665 CCTGGAATTC
87367675 TGCAATACTTTTAAAATTAATGGAGTTTCTGATGATGCCATTCGTCTTCGGTTATTCCCTTTTTC
1 TGCAATACTTTTAAAATTAATGGAGTTTCTGATGATGCCATTCGTCTTCGGTTATTCCCTTTTTC
87367740 ATTGAGGAACAAAGCTAAACAATGGTTGAACTCGTTACAACGAGGTTCAATTACTACTTGGGAAC
66 ATTGAGGAACAAAGCTAAACAATGGTTGAACTCGTTACAACGAGGTTCAATTACTACTTGGGAAC
87367805 AAATGACCGAAAATTTTTATTAAGATATTTTTCGCCGGCTAAAACAACCAAATTACGTAATGATA
131 AAATGACCGAAAATTTTTATTAAGATATTTTTCGCCGGCTAAAACAACCAAATTACGTAATGATA
87367870 TCTCTTCATTTGTGCAGATGGACTTAGAAACTCTTT
196 TCTCTTCATTTGTGCAGATGGACTTAGAAACTCTTT
87367906 TGCAATACTTTTAAAATTAATGGAGTTTCTGATGATGCCATTCGTCTTCGGTTATTCCCTTTTTC
1 TGCAATACTTTTAAAATTAATGGAGTTTCTGATGATGCCATTCGTCTTCGGTTATTCCCTTTTTC
87367971 ATTGAGGAACAAAGCTAAACAATGGTTGAACTCGTTACAACGAGGTTCAATTACTACTTGGGAAC
66 ATTGAGGAACAAAGCTAAACAATGGTTGAACTCGTTACAACGAGGTTCAATTACTACTTGGGAAC
87368036 AAATGACCGAAAATTTTTATTAAGATATTTTTCGCCGGCTAAAACAACCAAATTACGTAATGATA
131 AAATGACCGAAAATTTTTATTAAGATATTTTTCGCCGGCTAAAACAACCAAATTACGTAATGATA
87368101 TCTCTTCATTTGTGCAGATGGACTTAGAAACTCTTT
196 TCTCTTCATTTGTGCAGATGGACTTAGAAACTCTTT
87368137 ACGATGCATG
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 231 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (231 bp):
TGCAATACTTTTAAAATTAATGGAGTTTCTGATGATGCCATTCGTCTTCGGTTATTCCCTTTTTC
ATTGAGGAACAAAGCTAAACAATGGTTGAACTCGTTACAACGAGGTTCAATTACTACTTGGGAAC
AAATGACCGAAAATTTTTATTAAGATATTTTTCGCCGGCTAAAACAACCAAATTACGTAATGATA
TCTCTTCATTTGTGCAGATGGACTTAGAAACTCTTT
Found at i:87376606 original size:20 final size:20
Alignment explanation
Indices: 87376581--87376706 Score: 108
Period size: 20 Copynumber: 6.3 Consensus size: 20
87376571 TAAATGCGTT
87376581 CAGGGGTACCTAAGTACAAA
1 CAGGGGTACCTAAGTACAAA
* * * * *
87376601 CAGGGGCACATATGTGCAAT
1 CAGGGGTACCTAAGTACAAA
* *
87376621 CAGGGGTATCGAAGTACAAA
1 CAGGGGTACCTAAGTACAAA
* * *
87376641 TAGGGATACCAAAGTACAAA
1 CAGGGGTACCTAAGTACAAA
* * * * *
87376661 CAGGGGCACATATGTGCAAT
1 CAGGGGTACCTAAGTACAAA
*
87376681 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCTAAGTACAAA
87376701 CAGGGG
1 CAGGGG
87376707 CATGTATGTG
Statistics
Matches: 76, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.15
Consensus pattern (20 bp):
CAGGGGTACCTAAGTACAAA
Found at i:87376685 original size:60 final size:60
Alignment explanation
Indices: 87376581--87376705 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
87376571 TAAATGCGTT
* * *
87376581 CAGGGGTACCTAAGTACAAACAGGGGCACATATGTGCAATCAGGGGTATCGAAGTACAAA
1 CAGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTACAAA
*
87376641 TAGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTACAAA
1 CAGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTACAAA
87376701 CAGGG
1 CAGGG
87376706 GCATGTATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (60 bp):
CAGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTACAAA
Found at i:87376696 original size:40 final size:40
Alignment explanation
Indices: 87376642--87376722 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
87376632 AAGTACAAAT
87376642 AGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATC
1 AGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATC
* * **
87376682 AGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCAATC
1 AGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATC
87376722 A
1 A
87376723 TTCAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (40 bp):
AGGGATACCAAAGTACAAACAGGGGCACATATGTGCAATC
Found at i:87378186 original size:21 final size:21
Alignment explanation
Indices: 87378162--87378211 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
87378152 AAGCTTACAC
87378162 ATTCAAGCCAATTACACTGAT
1 ATTCAAGCCAATTACACTGAT
*
87378183 ATTCAAGCCATTTACACTGAT
1 ATTCAAGCCAATTACACTGAT
87378204 ATTCAAGC
1 ATTCAAGC
87378212 ATCCAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (21 bp):
ATTCAAGCCAATTACACTGAT
Found at i:87379251 original size:58 final size:58
Alignment explanation
Indices: 87379039--87379277 Score: 255
Period size: 58 Copynumber: 4.1 Consensus size: 58
87379029 AATGTGCTAA
* * *
87379039 CGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGT
1 CGATGGTCAAAACCATCCCTTTTCA-TAGTCGATGGTCGTCACCATCCCTTTTCATAGT
* * ** * * * * *
87379098 CGATAGTCGAAAGTATCCTTTTTTATATTCGATGGTCATCA-CATCACTTTTCATAGT
1 CGATGGTCAAAACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGT
* ** *
87379155 TGATGGTTGTCACTACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGT
1 CGAT-G--GTCAAAACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGT
* * * *
87379216 CGATGGTCAAAACTATCCCCTTTCATAGTCAATGGTCGTTACCATCCCTTTTCATAGT
1 CGATGGTCAAAACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGT
87379274 CGAT
1 CGAT
87379278 AGTCGTTGAT
Statistics
Matches: 146, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
57 18 0.12
58 63 0.43
59 20 0.14
60 27 0.18
61 18 0.12
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (58 bp):
CGATGGTCAAAACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGT
Found at i:87379284 original size:29 final size:29
Alignment explanation
Indices: 87379039--87379283 Score: 222
Period size: 29 Copynumber: 8.3 Consensus size: 29
87379029 AATGTGCTAA
** *
87379039 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGTCACCATCCCTTTTCA-TAGT
*
87379069 CGATGGTTGTCACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
* ** ** * * *
87379098 CGATAGTCGAAAGTATCCTTTTTTATATT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
* *
87379127 CGATGGTCATCA-CATCACTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
* *
87379155 TGATGGTTGTCACTACCATCCCTTTTCATAGT
1 CGATGGTCGT--C-ACCATCCCTTTTCATAGT
*
87379187 TGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
*** * *
87379216 CGATGGTCAAAACTATCCCCTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
* *
87379245 CAATGGTCGTTACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATAGT
*
87379274 CGATAGTCGT
1 CGATGGTCGT
87379284 TGATGCGTCA
Statistics
Matches: 170, Mismatches: 41, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
28 18 0.11
29 103 0.61
30 24 0.14
31 1 0.01
32 24 0.14
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATAGT
Found at i:87380938 original size:42 final size:42
Alignment explanation
Indices: 87380873--87381005 Score: 194
Period size: 42 Copynumber: 3.2 Consensus size: 42
87380863 CATTTAGGGG
* ** * *
87380873 CACATGGCCAAGGCACACGCCCGTACGCTAGGCCGTGTCATC
1 CACACGGCCAAGGCGTACACCCGTGCGCTAGGCCGTGTCATC
87380915 CACACGGCCAAGGCGTACACCCGTGCGCTAGGCCGTGTCATC
1 CACACGGCCAAGGCGTACACCCGTGCGCTAGGCCGTGTCATC
* *
87380957 CACACGGCCAAGGCGTACACCCGTGTGCTAGGCCGTGTCCTC
1 CACACGGCCAAGGCGTACACCCGTGCGCTAGGCCGTGTCATC
*
87380999 TACACGG
1 CACACGG
87381006 TTGAGACACA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (42 bp):
CACACGGCCAAGGCGTACACCCGTGCGCTAGGCCGTGTCATC
Found at i:87382258 original size:51 final size:51
Alignment explanation
Indices: 87382195--87382294 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
87382185 CTACCACATA
87382195 ACATGTAACACATCC-CTAATGAACTCGAACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACATCCAC-AATGAACTCGAACCTCTCAACGAGCTCGGATGTT
* * *
87382246 ACATG-AATCACATCCACCATGAACTTGGACCTCTCAACGAGCTCGGATG
1 ACATGTAA-CACATCCACAATGAACTCGAACCTCTCAACGAGCTCGGATG
87382295 CCACATATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.05
51 41 0.93
52 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCACAATGAACTCGAACCTCTCAACGAGCTCGGATGTT
Found at i:87382501 original size:22 final size:22
Alignment explanation
Indices: 87382456--87382501 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
87382446 ATAATTCATA
**
87382456 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
87382478 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
87382500 AT
1 AT
87382502 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:87385771 original size:29 final size:28
Alignment explanation
Indices: 87385725--87385820 Score: 104
Period size: 29 Copynumber: 3.4 Consensus size: 28
87385715 GTGAGCATGA
*
87385725 ATATGCATGTGATGTGGGCCTAATGGGCC
1 ATATGAATGTGAT-TGGGCCTAATGGGCC
*
87385754 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTG-ATTGGGCCTAATGGGCC
* * *
87385783 ATATAAATGAGATTAGGCC-AAGTGGGCC
1 ATATGAATGTGATTGGGCCTAA-TGGGCC
*
87385811 ATATGCATGT
1 ATATGAATGT
87385821 ATGTATGGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 20 0.36
29 33 0.59
30 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:87397795 original size:44 final size:43
Alignment explanation
Indices: 87397738--87397894 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
87397728 GATTCCGAGG
* *
87397738 TGTGATATCGTGTAAGACCATATCTGGGACGTTGGCATCGACT-
1 TGTGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGA-TA
*
87397781 TGTGATTTCCGTGTAAGACCATATCTGGGACATAGGCATCG-TA
1 TGTGATTT-CGTGTAAGACCATATCTGGGACATTGGCATCGATA
* * *
87397824 TATGATTTCGTGTAAGACCATCTCTGGGA-TTGTGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGACAT-TGGCATCGATA
* * * *
87397867 TTTGATTACATGTAAGACCACATCTGGG
1 TGTGATTTCGTGTAAGACCATATCTGGG
87397895 TTGTAACACC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 39 0.40
44 30 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGATA
Found at i:87397850 original size:42 final size:42
Alignment explanation
Indices: 87397740--87397852 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 42
87397730 TTCCGAGGTG
* * * *
87397740 TGATATCGTGTAAGACCATATCTGGGACGTTGGCATCGACTTG
1 TGATTTCGTGTAAGACCATATCTGGGACATAGGCATCGAC-TA
87397783 TGATTTCCGTGTAAGACCATATCTGGGACATAGGCATCGTA-TA
1 TGATTT-CGTGTAAGACCATATCTGGGACATAGGCATCG-ACTA
*
87397826 TGATTTCGTGTAAGACCATCTCTGGGA
1 TGATTTCGTGTAAGACCATATCTGGGA
87397853 TTGTGGCATC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 20 0.32
43 12 0.19
44 30 0.48
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATATCTGGGACATAGGCATCGACTA
Found at i:87402806 original size:15 final size:15
Alignment explanation
Indices: 87402788--87402831 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
87402778 GAAGCCCAGA
87402788 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
87402803 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
87402818 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
87402832 ATTACACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87409458 original size:39 final size:40
Alignment explanation
Indices: 87409363--87409585 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
87409353 TTGAATGATG
*
87409363 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
87409401 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
87409442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
87409481 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
87409520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
87409559 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
87409586 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:87409549 original size:79 final size:81
Alignment explanation
Indices: 87409363--87409585 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
87409353 TTGAATGATG
* * *
87409363 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
87409425 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
87409442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
87409503 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
87409520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
87409584 TG
66 TG
87409586 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:87409607 original size:79 final size:79
Alignment explanation
Indices: 87409363--87409618 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
87409353 TTGAATGATG
* * * *
87409363 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
87409424 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
87409442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
87409506 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
87409520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
87409583 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
87409600 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
87409619 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:87417001 original size:43 final size:44
Alignment explanation
Indices: 87416953--87417037 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
87416943 GAATGGTACA
*
87416953 ATGCCAAC-GTCCCAGAC-GTGG-TCTTACAT-GTAACCACATATTG
1 ATGCC-ACTGTCCCAGACAG-GGCTCTTAC-TCGTAAACACATATTG
87416996 ATGCCACTGTCCCAGACAGGGCTCTTACTCGTAAACACATAT
1 ATGCCACTGTCCCAGACAGGGCTCTTACTCGTAAACACATAT
87417038 CGGAATCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
42 2 0.05
43 17 0.46
44 18 0.49
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACAGGGCTCTTACTCGTAAACACATATTG
Found at i:87420392 original size:253 final size:253
Alignment explanation
Indices: 87419938--87420448 Score: 995
Period size: 253 Copynumber: 2.0 Consensus size: 253
87419928 ACTTCTCAAC
87419938 ACTTCCCAGGACACTTAACCACTGAAGGAGACATGCATTTTTGTACTACATCAAACGAAAATAAA
1 ACTTCCCAGGACACTTAACCACTGAAGGAGACATGCATTTTTGTACTACATCAAACGAAAATAAA
87420003 TACTTAGGATTTTTGGGGCGTTACATTGATGTTGTTGTCATTCGACAAATTTGATATAATTCTGG
66 TACTTAGGATTTTTGGGGCGTTACATTGATGTTGTTGTCATTCGACAAATTTGATATAATTCTGG
* *
87420068 GTATGGATTGGTTAACATTGCACGATGCTATTGTAAATTGCAAATGAAATACGATTAATCTGAGG
131 GTATGGATTGGTTAACATTGCACGATGCTATTGTAAATTGCAAATGAAATACGATTAATCTAAGA
87420133 TGTCAAAATAATGAGAGTCTGGATTGAGTCAAACGATTTGAATGGTTTGCTATTAGTA
196 TGTCAAAATAATGAGAGTCTGGATTGAGTCAAACGATTTGAATGGTTTGCTATTAGTA
87420191 ACTTCCCAGGACACTTAACCACTGAAGGAGACATGCATTTTTGTACTACATCAAACGAAAATAAA
1 ACTTCCCAGGACACTTAACCACTGAAGGAGACATGCATTTTTGTACTACATCAAACGAAAATAAA
87420256 TACTTAGGATTTTTGGGGCGTTACATTGATGTTGTTGTCATTCGACAAATTTGATATAATTCTGG
66 TACTTAGGATTTTTGGGGCGTTACATTGATGTTGTTGTCATTCGACAAATTTGATATAATTCTGG
87420321 GTATGGATTGGTTAACATTGCACGATGCTATTGTAAATTGCAAATGAAATACGATTAATCTAAGA
131 GTATGGATTGGTTAACATTGCACGATGCTATTGTAAATTGCAAATGAAATACGATTAATCTAAGA
*
87420386 TGTCAAAATAATGAGAGTCTGGATTGAGTCAAACGATTTGAATGGTTTGCTGTTAGTA
196 TGTCAAAATAATGAGAGTCTGGATTGAGTCAAACGATTTGAATGGTTTGCTATTAGTA
87420444 ACTTC
1 ACTTC
87420449 TTTGATGTTA
Statistics
Matches: 255, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 255 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (253 bp):
ACTTCCCAGGACACTTAACCACTGAAGGAGACATGCATTTTTGTACTACATCAAACGAAAATAAA
TACTTAGGATTTTTGGGGCGTTACATTGATGTTGTTGTCATTCGACAAATTTGATATAATTCTGG
GTATGGATTGGTTAACATTGCACGATGCTATTGTAAATTGCAAATGAAATACGATTAATCTAAGA
TGTCAAAATAATGAGAGTCTGGATTGAGTCAAACGATTTGAATGGTTTGCTATTAGTA
Found at i:87427329 original size:27 final size:27
Alignment explanation
Indices: 87427290--87427363 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
87427280 CAATATCGCA
**
87427290 GCAAAGCTGCCAGTAACAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* **
87427317 GCAAAGCCACCAGTAACAATAGTTGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
87427344 GCAAAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
87427364 CTTCCTCCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:87429973 original size:41 final size:43
Alignment explanation
Indices: 87429866--87430124 Score: 204
Period size: 45 Copynumber: 6.0 Consensus size: 43
87429856 ATATCAAACA
* * **
87429866 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCAAATATCG
* * * *
87429909 ATGCCACTATCCTAGACAG-GGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGCAATCAAATATCG
* * *
87429950 ATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCA-A-ATATCG
* *
87429995 ATGCCAACGTCCCAGATGTGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCAAATATCG
** * * ** *
87430036 ATGCTGATGTCCCGGACATGGTCTTACACAAAACCACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCA-A-ATATCG
* * * * * *
87430081 ATGCCAACGTCCCAGATGCGGTCTTACACGAAAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCAAATATCG
87430124 A
1 A
87430125 AATCCTATGG
Statistics
Matches: 172, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.01
41 50 0.29
42 17 0.10
43 35 0.20
44 11 0.06
45 58 0.34
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGCAATCAAATATCG
Found at i:87429990 original size:84 final size:84
Alignment explanation
Indices: 87429866--87430112 Score: 266
Period size: 86 Copynumber: 2.9 Consensus size: 84
87429856 ATATCAAACA
* * * * *
87429866 ATGCCAATGTCCCAGACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCACTATCCTAGACAG-
1 ATGCCGATGTCCCAGACGTGGTCTTACACG-TAACCACAATATCGATGCCAC-ATCCCAGA-AGT
*
87429928 GGTCTTACATGAATCAAATACG
63 GGTCTTACACGAATCAAATACG
* *
87429950 ATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACATATATCGATGCCAACGTCCCAGATGTG
1 ATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACA-ATATCGATGCC-ACATCCCAGAAGTG
87430015 GTCTTACACGAATCAAATACG
64 GTCTTACACGAATCAAATACG
* * * ** * * *
87430036 ATGCTGATGTCCCGGACATGGTCTTACACAAAACCACATATATCGATGCCAACGTCCCAGATGCG
1 ATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACA-ATATCGATGCC-ACATCCCAGAAGTG
87430101 GTCTTACACGAA
64 GTCTTACACGAA
87430113 AACACATATC
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
83 1 0.01
84 31 0.22
85 1 0.01
86 109 0.76
87 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (84 bp):
ATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACAATATCGATGCCACATCCCAGAAGTGGT
CTTACACGAATCAAATACG
Found at i:87430034 original size:86 final size:86
Alignment explanation
Indices: 87429928--87430112 Score: 307
Period size: 86 Copynumber: 2.2 Consensus size: 86
87429918 TCCTAGACAG
* * **
87429928 GGTCTTACATGAATCAAATACGATGCCGATGTCCCAGACGTGGTCTTACACGTAACCACATATAT
1 GGTCTTACACGAATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACAAAACCACATATAT
*
87429993 CGATGCCAACGTCCCAGATGT
66 CGATGCCAACGTCCCAGATGC
* *
87430014 GGTCTTACACGAATCAAATACGATGCTGATGTCCCGGACATGGTCTTACACAAAACCACATATAT
1 GGTCTTACACGAATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACAAAACCACATATAT
87430079 CGATGCCAACGTCCCAGATGC
66 CGATGCCAACGTCCCAGATGC
87430100 GGTCTTACACGAA
1 GGTCTTACACGAA
87430113 AACACATATC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (86 bp):
GGTCTTACACGAATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACAAAACCACATATAT
CGATGCCAACGTCCCAGATGC
Found at i:87431239 original size:14 final size:15
Alignment explanation
Indices: 87431222--87431250 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87431212 GCACGAAAAT
87431222 TTCACACA-AATAAA
1 TTCACACATAATAAA
87431236 TTCACACATAATAAA
1 TTCACACATAATAAA
87431251 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:87433118 original size:95 final size:96
Alignment explanation
Indices: 87432954--87433143 Score: 328
Period size: 95 Copynumber: 2.0 Consensus size: 96
87432944 GCACGCCTAG
* *
87432954 ATATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCCATAGATCGAGTT
1 ATATAGGGTGACAAGATTTTACCAGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTT
87433019 AATGCAACCCTAGGCTGTTAATTAGAGAAAA
66 AATGCAACCCTAGGCTGTTAATTAGAGAAAA
**
87433050 ATATAGGGTGACAAGATTTTACTGGATTAGGGTG-AACCTAATAAGGGGATCCACAGATCGAGTT
1 ATATAGGGTGACAAGATTTTACCAGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTT
*
87433114 AATGCAACCCTAGGGTGTTAATTAGAGAAA
66 AATGCAACCCTAGGCTGTTAATTAGAGAAA
87433144 GGTCTCAATT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 58 0.65
96 31 0.35
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (96 bp):
ATATAGGGTGACAAGATTTTACCAGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTT
AATGCAACCCTAGGCTGTTAATTAGAGAAAA
Found at i:87435573 original size:28 final size:28
Alignment explanation
Indices: 87435505--87435686 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
87435495 CATGAGATTG
* * * *
87435505 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
87435534 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87435562 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87435590 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87435618 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87435646 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87435673 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
87435687 GACTTAATAT
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 106 0.72
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87443551 original size:45 final size:43
Alignment explanation
Indices: 87443446--87443655 Score: 232
Period size: 41 Copynumber: 4.9 Consensus size: 43
87443436 ATGCTATCTC
* * * * *
87443446 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAATCA-A
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACT
87443488 ATA-CGATG-CATATGTCCCAGACATGGTCTTACACGTAACCATCT
1 ATATCGATGCCA-ATGTCCCAGACATGGTCTTACACG-AACCA-CT
* * *
87443532 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAATCAAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACT
*
87443575 -TA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AACCAC-T
** *
87443618 ATATCGATGCCAACATCCCAGACGTGGTCTTACACGAA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
87443656 AAAACATATC
Statistics
Matches: 142, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
40 2 0.01
41 56 0.39
42 13 0.09
43 2 0.01
44 11 0.08
45 56 0.39
46 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACT
Found at i:87443561 original size:86 final size:86
Alignment explanation
Indices: 87443441--87443655 Score: 326
Period size: 86 Copynumber: 2.5 Consensus size: 86
87443431 CTTACATGCT
* * *
87443441 ATCTCATATCGATGCCACTGTCCCAGACAG-GGTCTTACATGAATCAAATACGATGCATATGTCC
1 ATCT-ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACGAATCAAATACGATGCAGATGTCC
87443505 CAGACATGGTCTTACACGTAACC
64 CAGACATGGTCTTACACGTAACC
* *
87443528 ATCTATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAATCAATTACGATGCCGATGTCCCA
1 ATCTATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAATCAAATACGATGCAGATGTCCCA
87443593 GACATGGTCTTACACGTAACC
66 GACATGGTCTTACACGTAACC
**
87443614 A-CATATATCGATGCCAACATCCCAGACGTGGTCTTACACGAA
1 ATC-TATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAA
87443656 AAAACATATC
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
85 2 0.02
86 113 0.95
87 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (86 bp):
ATCTATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAATCAAATACGATGCAGATGTCCCA
GACATGGTCTTACACGTAACC
Found at i:87443663 original size:45 final size:45
Alignment explanation
Indices: 87443446--87443664 Score: 215
Period size: 45 Copynumber: 5.0 Consensus size: 45
87443436 ATGCTATCTC
* * * *
87443446 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAATC-A-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAACAACAT
* *
87443488 ATA-CGATG-CATATGTCCCAGACATGGTCTTACACGTAACCATC-T
1 ATATCGATGCCA-ATGTCCCAGACATGGTCTTACACG-AAACAACAT
* *
87443532 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAATC-A-AT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAACAACAT
* * *
87443575 -TA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAACAACAT
** * *
87443618 ATATCGATGCCAACATCCCAGACGTGGTCTTACACGAAAAAACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAACAACAT
87443663 AT
1 AT
87443665 CAAAATCCTA
Statistics
Matches: 146, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
40 2 0.01
41 58 0.40
42 9 0.06
43 3 0.02
44 8 0.05
45 64 0.44
46 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAACAACAT
Found at i:87447494 original size:27 final size:27
Alignment explanation
Indices: 87447454--87447565 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
87447444 AGGAAGCGTC
*
87447454 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
87447481 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
87447508 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
87447536 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
87447562 CTGG
1 CTGG
87447566 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:87447560 original size:54 final size:54
Alignment explanation
Indices: 87447454--87447565 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
87447444 AGGAAGCGTC
* *
87447454 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
87447508 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
87447562 CTGG
1 CTGG
87447566 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:87451469 original size:43 final size:41
Alignment explanation
Indices: 87451422--87451567 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 41
87451412 TGCCAACGTT
* *
87451422 CCAGACGTGGTCTTACATGTAGTCACATGTCGATGCCACTGTC
1 CCAGACATGGTCTTACATG-AATCACAT-TCGATGCCACTGTC
* * * *
87451465 CCAGACAGGGTTTTACACGAATCACAATTACGATGCCAATGTC
1 CCAGACATGGTCTTACATGAATCAC-ATT-CGATGCCACTGTC
*
87451508 CCAGACATGGTCTTACTTGAAATCACATATCGATGCCAAC-GTC
1 CCAGACATGGTCTTACATG-AATCACAT-TCGATGCC-ACTGTC
*
87451551 CTAGACATGGTCTTACA
1 CCAGACATGGTCTTACA
87451568 CCAGAACACA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 6 0.07
43 71 0.84
44 8 0.09
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (41 bp):
CCAGACATGGTCTTACATGAATCACATTCGATGCCACTGTC
Found at i:87451557 original size:86 final size:86
Alignment explanation
Indices: 87451411--87451568 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
87451401 ATACCGTACA
* * * * *
87451411 ATGCCAACGTTCCAGACGTGGTCTTACATGTAGTCACATGTCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAGGGT
*
87451476 TTTACACGAATCACAATTACG
66 CTTACACGAATCACAATTACG
* * * *
87451497 ATGCCAATGTCCCAGACATGGTCTTACTTGAAATCACATATCGATGCCAAC-GTCCTAGACATGG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCC-ACTGTCCCAGACAGGG
87451561 TCTTACAC
65 TCTTACAC
87451569 CAGAACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 59 0.97
87 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAATCACAATTACG
Found at i:87451578 original size:43 final size:43
Alignment explanation
Indices: 87451411--87451580 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
87451401 ATACCGTACA
* * * * *
87451411 ATGCCAACGTTCCAGACGTGGTCTTACA-TGTAGTCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACAG-AATCACATATCG
* *
87451454 ATGCC-ACTGTCCCAGACAGGGTTTTACAC-GAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACAGAATCACATA-T-CG
* **
87451497 ATGCCAATGTCCCAGACATGGTCTTAC-TTGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACAG-AATCACATATCG
*
87451540 ATGCCAACGTCCTAGACATGGTCTTACACCAGAA-CACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACA-CAGAATCACATAT
87451581 TGGAAACCCT
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 9 0.09
43 81 0.79
44 11 0.11
45 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACAGAATCACATATCG
Found at i:87452400 original size:13 final size:13
Alignment explanation
Indices: 87452382--87452411 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87452372 ATACATAAAG
*
87452382 CTTTATTTTCTTT
1 CTTTATTTTCTTA
87452395 CTTTATTTTCTTA
1 CTTTATTTTCTTA
87452408 CTTT
1 CTTT
87452412 CAGTCAAAAG
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:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTATTTTCTTA
Found at i:87452722 original size:14 final size:15
Alignment explanation
Indices: 87452705--87452733 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87452695 GCACGGAAAT
87452705 TTCACACAT-ATAAA
1 TTCACACATAATAAA
87452719 TTCACACATAATAAA
1 TTCACACATAATAAA
87452734 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:87453113 original size:26 final size:25
Alignment explanation
Indices: 87453068--87453121 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
87453058 CATAACCTAC
*
87453068 TTTTCATATTATTTATAAATTAGTTT
1 TTTTCATATTATTTATAAA-TAATTT
*
87453094 TTTTCTATTTTATTTA-AAATAATTT
1 TTTTC-ATATTATTTATAAATAATTT
87453119 TTT
1 TTT
87453122 ATTGTAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 8 0.32
27 9 0.36
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTCATATTATTTATAAATAATTT
Found at i:87458009 original size:39 final size:39
Alignment explanation
Indices: 87457954--87458173 Score: 161
Period size: 39 Copynumber: 5.6 Consensus size: 39
87457944 CAATACGCCG
*
87457954 ACACACAACCTGCTAGGCACATAGCCCGATTAATCACCA
1 ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
* * * * *
87457993 ACACACATCCTACTAGGCACAAAGCCTGAATAATCACTA
1 ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
* * * **
87458032 GCACACAACCTGCTAGGCAAATAGCCCAAATAATCACTG
1 ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
* * * * * * * ***
87458071 GCACATAGCTTTCTAGGCATATAGCCTGAATAATCATTG
1 ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
* * * * * *
87458110 GCACACAGCCTGCTAGGCACATAGCTCAAATAATTACCT
1 ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
* * * *
87458149 CCATACAGCCTGCTAGGCACGTAGC
1 ACACACAACCTGCTAGGCACATAGC
87458174 TTAAATAATC
Statistics
Matches: 145, Mismatches: 36, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 145 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (39 bp):
ACACACAACCTGCTAGGCACATAGCCCGAATAATCACCA
Found at i:87458044 original size:78 final size:78
Alignment explanation
Indices: 87457955--87458186 Score: 239
Period size: 78 Copynumber: 3.0 Consensus size: 78
87457945 AATACGCCGA
* * *
87457955 CACACAACCTGCTAGGCACATAGCCCGATTAATCACCAACACACATCCTACTAGGCACAAAGCCT
1 CACACAACCTGCTAGGCACATAGCCCAAATAATCACCAACACACAGCCTACTAGGCACAAAGCCT
87458020 GAATAATCACTAG
66 GAATAATCACTAG
* *** * * * * *
87458033 CACACAACCTGCTAGGCAAATAGCCCAAATAATCACTGGCACATAGCTTTCTAGGCATATAGCCT
1 CACACAACCTGCTAGGCACATAGCCCAAATAATCACCAACACACAGCCTACTAGGCACAAAGCCT
* *
87458098 GAATAATCATTGG
66 GAATAATCACTAG
* * * ** * * ** *
87458111 CACACAGCCTGCTAGGCACATAGCTCAAATAATTACCTCCATACAGCCTGCTAGGCACGTAGCTT
1 CACACAACCTGCTAGGCACATAGCCCAAATAATCACCAACACACAGCCTACTAGGCACAAAGCCT
*
87458176 AAATAATCACT
66 GAATAATCACT
87458187 GTATTTCTAT
Statistics
Matches: 124, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
78 124 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.21
Consensus pattern (78 bp):
CACACAACCTGCTAGGCACATAGCCCAAATAATCACCAACACACAGCCTACTAGGCACAAAGCCT
GAATAATCACTAG
Found at i:87458548 original size:17 final size:18
Alignment explanation
Indices: 87458518--87458559 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
87458508 TCGAAATTCA
*
87458518 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
87458536 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
87458554 -CAAATA
1 TCAAATA
87458560 TTCTAGGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:87460071 original size:40 final size:39
Alignment explanation
Indices: 87460027--87460165 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 39
87460017 GTATAAACAA
* * *
87460027 GGGCACGTAAGTACATTCAGGGGTACCGAAGTACAAATAG
1 GGGCACGTATGTGCAATCAGGGGTACC-AAGTACAAATAG
* * *
87460067 GGGCACATATGTGCAATAAGGGGTACCAACATACAAATAG
1 GGGCACGTATGTGCAATCAGGGGTACCAA-GTACAAATAG
* *
87460107 GAGCACGTATGTGCAATCAAGGGTACCAAAGTACAAATAG
1 GGGCACGTATGTGCAATCAGGGGTACC-AAGTACAAATAG
* * *
87460147 GGCCACCTATTTGCAATCA
1 GGGCACGTATGTGCAATCA
87460166 TCAATAATTA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 78 0.95
41 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (39 bp):
GGGCACGTATGTGCAATCAGGGGTACCAAGTACAAATAG
Found at i:87462883 original size:16 final size:16
Alignment explanation
Indices: 87462864--87462903 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
87462854 ATGTTAAATT
*
87462864 AATAAAATTAAAACAA
1 AATAAAATTAAAAAAA
87462880 AATAAAATTAAAAAAA
1 AATAAAATTAAAAAAA
87462896 AACTAAAA
1 AA-TAAAA
87462904 GATGATACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAAAATTAAAAAAA
Found at i:87464214 original size:27 final size:27
Alignment explanation
Indices: 87464164--87464270 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
87464154 TGGCTGCCAA
* * *
87464164 AACAGATAA-TGTGACAGTGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
87464190 AACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
87464217 AACAGAT-ATATGTGGCAGTGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
87464244 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
87464271 GACACTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 58 0.82
28 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:87464242 original size:54 final size:53
Alignment explanation
Indices: 87464164--87464270 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
87464154 TGGCTGCCAA
*
87464164 AACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
* * *
87464217 AACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
87464271 GACACTTCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACCAG
Found at i:87464697 original size:16 final size:15
Alignment explanation
Indices: 87464676--87464705 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
87464666 AAAATACTGA
87464676 CTTTTCGGCATTTCGG
1 CTTTTCGGC-TTTCGG
87464692 CTTTTCGGCTTTCG
1 CTTTTCGGCTTTCG
87464706 TCGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.27, G:0.23, T:0.47
Consensus pattern (15 bp):
CTTTTCGGCTTTCGG
Found at i:87465552 original size:26 final size:26
Alignment explanation
Indices: 87465501--87465553 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87465491 TGTAGAGAAA
**
87465501 AGAAGAAAAAGAGAAAGTTGATGGAG
1 AGAAGAAAAAGAGAAAGAAGATGGAG
*
87465527 AGAAGAGAAAGAGAAAAGAAGA-GGAG
1 AGAAGAAAAAGAG-AAAGAAGATGGAG
87465553 A
1 A
87465554 ATAGTCAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (26 bp):
AGAAGAAAAAGAGAAAGAAGATGGAG
Found at i:87465727 original size:24 final size:24
Alignment explanation
Indices: 87465692--87465792 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
87465682 CCAACACCAT
*
87465692 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
87465716 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
87465740 TCTCCCTTATCAGCTCCTAAATCA
1 TCTCCCTTATCAGCTCCTAAATCC
*
87465764 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
87465788 TCTCC
1 TCTCC
87465793 TGACAGCCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:87468609 original size:29 final size:29
Alignment explanation
Indices: 87468558--87468613 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
87468548 ATAGTCGACA
87468558 CCACATGGCCATATGCCAAGCTGTGTGAG
1 CCACATGGCCATATGCCAAGCTGTGTGAG
* * *
87468587 CCACATGGCCATGTTCCAGGCTGTGTG
1 CCACATGGCCATATGCCAAGCTGTGTG
87468614 CCAGGCTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (29 bp):
CCACATGGCCATATGCCAAGCTGTGTGAG
Found at i:87468771 original size:11 final size:11
Alignment explanation
Indices: 87468755--87468787 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
87468745 AGCACACGGG
87468755 CGTGTACCAAA
1 CGTGTACCAAA
87468766 CGTGTACCAAA
1 CGTGTACCAAA
87468777 CGTGTACCAAA
1 CGTGTACCAAA
87468788 TGTGAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (11 bp):
CGTGTACCAAA
Found at i:87469666 original size:15 final size:15
Alignment explanation
Indices: 87469646--87469678 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
87469636 TCTGTTTAGT
87469646 TCTATTCAGTTCTGC
1 TCTATTCAGTTCTGC
*
87469661 TCTATTCTGTTCTGC
1 TCTATTCAGTTCTGC
87469676 TCT
1 TCT
87469679 GCTCTGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.27, G:0.12, T:0.52
Consensus pattern (15 bp):
TCTATTCAGTTCTGC
Found at i:87469684 original size:15 final size:15
Alignment explanation
Indices: 87469654--87469694 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
87469644 GTTCTATTCA
**
87469654 GTTCTGCTCTATTCT
1 GTTCTGCTCTGCTCT
87469669 GTTCTGCTCTGCTCT
1 GTTCTGCTCTGCTCT
*
87469684 GTTCTACTCTG
1 GTTCTGCTCTG
87469695 TCCTATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.29, G:0.17, T:0.49
Consensus pattern (15 bp):
GTTCTGCTCTGCTCT
Found at i:87474662 original size:43 final size:43
Alignment explanation
Indices: 87474504--87474665 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
87474494 ATATGTGTTA
*
87474504 ACGTGTAAGACCACGTCTGGGACGTTGGCATTGACT-TATGATCT
1 ACGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TATTTGAT-T
* * *
87474548 ATGTGTAAGACCATGTCTGGGACATTGGCATTG-TATTTGATT
1 ACGTGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATT
* * * * * *
87474590 TCGTATAAGACC-CTTTTTAGGACAG-TGGCATCGATATTTGATT
1 ACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTGATATTTGATT
* *
87474633 ACATGTAAGTCCACGTCTGGGACGTTGGCATTG
1 ACGTGTAAGACCACGTCTGGGACGTTGGCATTG
87474666 TACGAGCTTT
Statistics
Matches: 91, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
42 25 0.27
43 35 0.38
44 31 0.34
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
ACGTGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATT
Found at i:87475434 original size:22 final size:22
Alignment explanation
Indices: 87475390--87475436 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
87475380 AGGATATGCT
*
87475390 TTGGTATGATTTTGCTTTAGAA
1 TTGGTATGATTTTGCTTGAGAA
*
87475412 TTGGTATGA-TTTGGTTGATGAA
1 TTGGTATGATTTTGCTTGA-GAA
87475434 TTG
1 TTG
87475437 AAAATGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (22 bp):
TTGGTATGATTTTGCTTGAGAA
Found at i:87478468 original size:26 final size:26
Alignment explanation
Indices: 87478438--87478493 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
87478428 TGAAATTCCC
87478438 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87478464 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87478490 ATCA
1 ATCA
87478494 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87479361 original size:27 final size:27
Alignment explanation
Indices: 87479261--87479353 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
87479251 ATTAAAATGG
*
87479261 CGATTTTCCCCTCATGTGATAAAATAA
1 CGATTTTTCCCTCATGTGATAAAATAA
**
87479288 CGATTTTTCCCTCATGTGATAAAACGA
1 CGATTTTTCCCTCATGTGATAAAATAA
*
87479315 CAATTTTTCCCTCATGTGATAAAATAA
1 CGATTTTTCCCTCATGTGATAAAATAA
* *
87479342 TGATTTTGCCCT
1 CGATTTTTCCCT
87479354 TTTGTGATGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (27 bp):
CGATTTTTCCCTCATGTGATAAAATAA
Found at i:87479393 original size:27 final size:27
Alignment explanation
Indices: 87479363--87479475 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
87479353 TTTTGTGATG
87479363 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
* *
87479390 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
* * * *
87479417 GAACGACCGAAATACCC-CTGTATGGTA
1 AAATGACCGAAATACCCTC-ATAGGGTA
** *
87479444 AAATGACTAAAATA-CCT-AGTAAGGTA
1 AAATGACCGAAATACCCTCA-TAGGGTA
87479470 AAATGA
1 AAATGA
87479476 TAGATTTGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.21
27 55 0.79
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAGGGTA
Found at i:87479843 original size:18 final size:18
Alignment explanation
Indices: 87479820--87479877 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
87479810 ATGCTTGCAA
*
87479820 ACTGCACCGATTACTGTT
1 ACTGCACTGATTACTGTT
* * *
87479838 ACTGCATTGCTTATTGTT
1 ACTGCACTGATTACTGTT
* *
87479856 ACTGCACTAATTACTATT
1 ACTGCACTGATTACTGTT
87479874 ACTG
1 ACTG
87479878 AAATGGGCTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (18 bp):
ACTGCACTGATTACTGTT
Found at i:87479911 original size:34 final size:34
Alignment explanation
Indices: 87479867--87479949 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
87479857 CTGCACTAAT
* *
87479867 TACTATTACTGAAATGGGCTAAACCCCAGACTCC
1 TACTGTTACTGAAATGGGCTAAACCCCAAACTCC
** *
87479901 TACTGTTACTGAAATGGGCTAATGCCCAAACTGC
1 TACTGTTACTGAAATGGGCTAAACCCCAAACTCC
87479935 TACTGTTACT-AAATG
1 TACTGTTACTGAAATG
87479950 TATTCACTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 5 0.11
34 39 0.89
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTAAACCCCAAACTCC
Found at i:87484029 original size:37 final size:37
Alignment explanation
Indices: 87483971--87484068 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 37
87483961 CATATTGAAA
* * * *
87483971 TGATTGATATGCGAGACTGTTTGTTATCATG-TTAAAT
1 TGATTGATATGAGAAATTGTTTGTCAT-ATGATTAAAT
* * *
87484008 TGATTGATATGTGAAATTGTTTGTCATTTGTATTGAAT
1 TGATTGATATGAGAAATTGTTTGTCATATG-ATTAAAT
*
87484046 TGATTGATATCAGAAATTGTTTG
1 TGATTGATATGAGAAATTGTTTG
87484069 ATATTATTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 2 0.04
37 23 0.45
38 26 0.51
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (37 bp):
TGATTGATATGAGAAATTGTTTGTCATATGATTAAAT
Found at i:87489521 original size:26 final size:26
Alignment explanation
Indices: 87489437--87489564 Score: 156
Period size: 26 Copynumber: 5.0 Consensus size: 26
87489427 CTGAAGGCCT
*
87489437 AGCCTCTTTT-AAT-AATTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
87489461 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
87489486 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
87489512 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
87489538 AGCTCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
87489564 A
1 A
87489565 ATCCTTTTGC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 31 0.35
26 48 0.54
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:87489572 original size:52 final size:51
Alignment explanation
Indices: 87489440--87489564 Score: 193
Period size: 52 Copynumber: 2.5 Consensus size: 51
87489430 AAGGCCTAGC
*
87489440 CTCTTTT-AAT-AATTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAG
1 CTCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAG
* *
87489488 CCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAG
1 CTCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAG
87489540 CTCTTTTCAATAAACTGGGGCATAA
1 CTCTTTTCAATAAACTGGGGCATAA
87489565 ATCCTTTTGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
48 6 0.09
49 3 0.04
50 8 0.12
51 25 0.37
52 26 0.38
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
CTCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAG
Found at i:87489647 original size:20 final size:20
Alignment explanation
Indices: 87489622--87489688 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
87489612 TTATGAATAC
87489622 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
87489642 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
87489662 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
87489682 ATCATGT
1 ATCATGT
87489689 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:87490426 original size:27 final size:27
Alignment explanation
Indices: 87490396--87490460 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
87490386 GGGCATATTC
87490396 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
87490423 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
87490450 GTCTTTTTACC
1 GTCATTTTACC
87490461 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:87490544 original size:27 final size:27
Alignment explanation
Indices: 87490514--87490742 Score: 198
Period size: 27 Copynumber: 8.4 Consensus size: 27
87490504 GTAAATCTAC
*
87490514 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
87490541 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
*
87490567 AGAAAGTCAAGGGTATTTCT-GTAATTTTGT
1 --AAA-CCAAGGGTATTT-TAGTAATTTTGT
* * *
87490597 AAACCAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * **
87490624 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * *
87490651 AGACC-AGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTT-GT
* * * *
87490678 -GATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
87490704 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
87490731 AAATCGAGGGTA
1 AAACCAAGGGTA
87490743 AAACAGTAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
26 22 0.13
27 119 0.71
28 7 0.04
29 19 0.11
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:87490688 original size:53 final size:53
Alignment explanation
Indices: 87490597--87490733 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 53
87490587 GTAATTTTGT
87490597 AAACCAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCA-GGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGCAATTTTAC
* * * * * * **
87490651 AGACCAGGGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGT
1 AAACCAGGGTATTTTGGTAATTTTA-TAAACCAGGGGTATTTTAGCAATTTTAC
* *
87490704 AAACCAAGGGTATTTTAGTAATTTTGTAAA
1 AAACC-AGGGTATTTTGGTAATTTTATAAA
87490734 TCGAGGGTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
53 41 0.60
54 27 0.40
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (53 bp):
AAACCAGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGCAATTTTAC
Found at i:87490750 original size:27 final size:27
Alignment explanation
Indices: 87490721--87490931 Score: 359
Period size: 27 Copynumber: 7.8 Consensus size: 27
87490711 GGGTATTTTA
* * *
87490721 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87490748 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
87490775 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87490802 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87490829 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87490856 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
87490883 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
87490910 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
87490932 CTTTGGTAAT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 175 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:87490795 original size:81 final size:81
Alignment explanation
Indices: 87490720--87490985 Score: 352
Period size: 81 Copynumber: 3.3 Consensus size: 81
87490710 AGGGTATTTT
* * *
87490720 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
87490785 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
87490801 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
*
87490866 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAAAC
* *** * *
87490882 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
* ***
87490947 AAGTCGAGGGTATTTC
66 AAATCGAGGGTAAAAC
* *
87490963 AGTAATTTTACAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
87490986 TTTCAGTATT
Statistics
Matches: 163, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 163 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (81 bp):
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:87490939 original size:27 final size:27
Alignment explanation
Indices: 87490721--87490958 Score: 332
Period size: 27 Copynumber: 8.8 Consensus size: 27
87490711 GGGTATTTTA
* * **
87490721 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
87490748 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
87490775 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
87490802 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
87490829 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
87490856 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
87490883 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
***
87490910 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
87490937 GTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
87490959 TTTCAGTAAT
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:87490967 original size:27 final size:26
Alignment explanation
Indices: 87490921--87491026 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 26
87490911 TAATTCTATA
*
87490921 AATCGAGGGTACTTT-GGTAATTTTAC
1 AATCGAGGGTA-TTTCAGTAATTTTAC
87490947 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTCAGTAATTTTAC
*
87490974 AAATCGAGGGTATTTCAGTATTTTTAC
1 -AATCGAGGGTATTTCAGTAATTTTAC
* * *
87491001 AAACTAAGGGTATTTCGGTAATTTTA
1 AATC-GAGGGTATTTCAGTAATTTTA
87491027 GTAAACTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 60 0.86
28 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
AATCGAGGGTATTTCAGTAATTTTAC
Found at i:87490968 original size:54 final size:54
Alignment explanation
Indices: 87490656--87491003 Score: 311
Period size: 54 Copynumber: 6.4 Consensus size: 54
87490646 TTTACAGACC
* ** **** * * * *
87490656 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
* * ** *
87490710 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
** * * *
87490764 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
*** * **
87490818 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
** * *
87490872 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
* * *** * * *
87490926 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
* *
87490980 AGGGT-ATTTCAGTATTTTTACAAA
1 AGGGTAATTT-GGTAATTTTACAAA
87491004 CTAAGGGTAT
Statistics
Matches: 250, Mismatches: 43, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
53 3 0.01
54 247 0.99
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.33
Consensus pattern (54 bp):
AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCG
Found at i:87491011 original size:54 final size:54
Alignment explanation
Indices: 87490910--87491026 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
87490900 GGGTAAAACG
* * * * *
87490910 GTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAACTCAAGGGTATTTCA
* *
87490964 GTAATTTTACAAATCGAGGGTA-TTTCAGTATTTTTACAAACT-AAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTACTTT-AGTAATTTTAC-AACTCAAGGGTATTTCA
87491018 GTAATTTTA
1 GTAATTTTA
87491027 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.06
54 48 0.89
55 3 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAACTCAAGGGTATTTCA
Found at i:87491033 original size:28 final size:27
Alignment explanation
Indices: 87490953--87491035 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
87490943 TTACAAGTCG
*
87490953 AGGGTATTTCAGTAATTTTACAAA-TCG
1 AGGGTATTTCAGTAATTTTACAAACT-A
*
87490980 AGGGTATTTCAGTATTTTTACAAACTA
1 AGGGTATTTCAGTAATTTTACAAACTA
* *
87491007 AGGGTATTTCGGTAATTTTAGTAAACTA
1 AGGGTATTTCAGTAATTTTA-CAAACTA
87491035 A
1 A
87491036 AGTATTCTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 41 0.84
28 8 0.16
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAACTA
Found at i:87493677 original size:29 final size:29
Alignment explanation
Indices: 87493644--87493704 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
87493634 TTCATATGGA
*
87493644 CCAAATCACCTGTATATGGCCCATTAGGC
1 CCAAATCACATGTATATGGCCCATTAGGC
* *
87493673 CCAAATCACATTTATATGGCCCGTTAGGC
1 CCAAATCACATGTATATGGCCCATTAGGC
87493702 CCA
1 CCA
87493705 GTCACATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
CCAAATCACATGTATATGGCCCATTAGGC
Found at i:87493798 original size:17 final size:18
Alignment explanation
Indices: 87493776--87493809 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87493766 TGCCTATTAT
87493776 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
87493793 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
87493810 TCCGGTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:87500451 original size:21 final size:21
Alignment explanation
Indices: 87500439--87500487 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
87500429 TATAATGAGT
87500439 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
87500460 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
87500481 ATATCAT
1 ATATCAT
87500488 GTATAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:87500461 original size:11 final size:11
Alignment explanation
Indices: 87500425--87500489 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
87500415 ACCCAACCCA
*
87500425 TGCATATAATG
1 TGCATATCATG
* *
87500436 AGTATATCAT-
1 TGCATATCATG
*
87500446 AGCATATCATG
1 TGCATATCATG
87500457 TGCATATCAT-
1 TGCATATCATG
**
87500467 AACATATCATG
1 TGCATATCATG
87500478 TGCATATCATG
1 TGCATATCATG
87500489 T
1 T
87500490 ATAACAATAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
10 17 0.40
11 26 0.60
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (11 bp):
TGCATATCATG
Found at i:87500631 original size:27 final size:26
Alignment explanation
Indices: 87500601--87500779 Score: 178
Period size: 27 Copynumber: 6.7 Consensus size: 26
87500591 GGGGCAAAAT
* * **
87500601 GGTAATTTTACCCCACAAGGTTATCAC
1 GGTAATTCTACCCTACAAGG-TATTTC
87500628 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACA-AGGTATTTC
*
87500655 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAA-GGTATTTC
*
87500682 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-AGGTATTTC
* * *
87500709 AGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-AGGTATTTC
* * * *
87500736 AGTAACTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-AGGTATTTC
*
87500763 AGTAATTCTACCCTACA
1 GGTAATTCTACCCTACA
87500780 GGGGCATTTT
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.97
28 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (26 bp):
GGTAATTCTACCCTACAAGGTATTTC
Found at i:87500667 original size:54 final size:54
Alignment explanation
Indices: 87500602--87500796 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
87500592 GGGCAAAATG
* * * ** * *
87500602 GTAATTTTACCCCACAAGGTTATCACGGTAATTCTACCCTACAGAGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
87500656 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
87500710 GTAATTCTACTCTACAGGGGTATTTCAGTAACTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
87500764 GTAATTCTACCCTACAGGGGCATTTTGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
87500797 TTACAAACCA
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:87500794 original size:27 final size:27
Alignment explanation
Indices: 87500627--87500823 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
87500617 AAGGTTATCA
*
87500627 CGGTAATTCTACCCTACAGAGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
87500654 CGGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
87500681 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
87500708 CAGTAATTCTACTCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
87500735 CAGTAACTCTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
87500762 CAGTAATTCTACCCTACAGGGGCATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * **
87500789 TGGTAATTTTA-CAAACCAGGGGTATTT
1 CGGTAATTCTACCCTA-CAGGGGTATTT
*
87500816 TGGTAATT
1 CGGTAATT
87500824 TTGTAAACCA
Statistics
Matches: 150, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 2 0.01
27 148 0.99
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTT
Found at i:87500824 original size:27 final size:27
Alignment explanation
Indices: 87500778--87500905 Score: 150
Period size: 27 Copynumber: 4.7 Consensus size: 27
87500768 TTCTACCCTA
*
87500778 CAGGGGCATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
87500805 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
87500832 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * *
87500859 C-GAGGGTATTTCAGTAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
87500886 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
87500906 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:87500839 original size:81 final size:81
Alignment explanation
Indices: 87500754--87500912 Score: 187
Period size: 81 Copynumber: 2.0 Consensus size: 81
87500744 TACCCTATAG
* ** *
87500754 GGGTATTTCAGTAATTCTAC-CCTAC-AGGGGCATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGGTATTTCAGTAATTCTACAACT-CGA-GGGCATTTCAGTAATTTCACAAACCAGGGGTATTTT
*
87500817 GGTAATTTTGTAAACCAA
64 GGTAATTTGGTAAACCAA
** * * * *
87500835 GGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTCAGTAATTCTACAACTCGAGGGCATTTCAGTAATTTCACAAACCAGGGGTATTTTGG
87500900 TAATTTGGTAAAC
66 TAATTTGGTAAAC
87500913 TAAAGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 63 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACAACTCGAGGGCATTTCAGTAATTTCACAAACCAGGGGTATTTTGG
TAATTTGGTAAACCAA
Found at i:87503164 original size:17 final size:18
Alignment explanation
Indices: 87503125--87503171 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
87503115 GGCCCATTGT
87503125 AGTAACAGTAAATAGTGC
1 AGTAACAGTAAATAGTGC
*
87503143 GGTAACAGTAAA-AGTGC
1 AGTAACAGTAAATAGTGC
*
87503160 AGTAACAATAAA
1 AGTAACAGTAAA
87503172 CAATATGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (18 bp):
AGTAACAGTAAATAGTGC
Found at i:87503507 original size:27 final size:27
Alignment explanation
Indices: 87503468--87503814 Score: 457
Period size: 27 Copynumber: 12.9 Consensus size: 27
87503458 ACATACATCA
* * *
87503468 CATAGGGGTAAAACAGTCATCTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
* ** *
87503496 -AAAAGGGCAAAACAGTTGTTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
87503522 CAT-AGGGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
87503548 CATAAGGGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
87503575 CATAAGGGCAAAAGAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* * *
87503602 CATAAGGGAAAAAGAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
87503629 CATAAGGGAAAAAGAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
87503656 CATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* * *
87503683 TATAAGGGCAAAATAGTCATTTTACTT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
87503710 CATAAGGGCAAAACAGACATTTTACC-
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
87503736 CTATAAGGGCAAAATAGTTATTTTACCT
1 C-ATAAGGGCAAAACAGTCATTTTACCT
87503764 CATAAGGGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
87503791 CATAAGGGCAAAATAATCATTTTA
1 CATAAGGGCAAAACAGTCATTTTA
87503815 TCGATTAAGG
Statistics
Matches: 282, Mismatches: 33, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.09
27 257 0.91
28 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCT
Found at i:87503937 original size:18 final size:17
Alignment explanation
Indices: 87503911--87503944 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87503901 GTGAAAATGG
87503911 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
87503929 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
87503945 TAGCCCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:87508543 original size:23 final size:23
Alignment explanation
Indices: 87508513--87508571 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
87508503 AATAAGTTCT
87508513 CTGAAATTGTTATGTGTTTCAAA
1 CTGAAATTGTTATGTGTTTCAAA
87508536 CTGAAATTGTTATGTGTTTCAAA
1 CTGAAATTGTTATGTGTTTCAAA
*
87508559 CTGAAACTGTTAT
1 CTGAAATTGTTAT
87508572 AGGTAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (23 bp):
CTGAAATTGTTATGTGTTTCAAA
Found at i:87510792 original size:16 final size:17
Alignment explanation
Indices: 87510771--87510804 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
87510761 CATTGACTAC
87510771 TGACAATT-GAATAAAT
1 TGACAATTAGAATAAAT
87510787 TGACAATTAAGAATAAAT
1 TGACAATT-AGAATAAAT
87510805 ACCCCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
TGACAATTAGAATAAAT
Found at i:87514116 original size:24 final size:24
Alignment explanation
Indices: 87514089--87514138 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
87514079 TTTTGAAATG
87514089 TCTGAGTATGTGTCCAGTAATGCC
1 TCTGAGTATGTGTCCAGTAATGCC
*
87514113 TCTGAGTATGTGTCCGGTAATGCC
1 TCTGAGTATGTGTCCAGTAATGCC
87514137 TC
1 TC
87514139 GTACTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (24 bp):
TCTGAGTATGTGTCCAGTAATGCC
Found at i:87525635 original size:40 final size:39
Alignment explanation
Indices: 87525604--87525813 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
87525594 GGACTAAGAT
* *
87525604 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
87525644 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
87525684 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
87525724 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
87525764 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
87525803 CCGAAGGCATT
1 CCGAAGGCATT
87525814 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:87525767 original size:120 final size:120
Alignment explanation
Indices: 87525551--87525813 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
87525541 TTGAATGCTG
* *
87525551 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
87525615 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
87525671 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
87525734 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
87525790 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
87525814 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:87525833 original size:79 final size:80
Alignment explanation
Indices: 87525552--87525848 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
87525542 TGAATGCTGT
* ** * * * **
87525552 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
87525615 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
87525632 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
87525696 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
87525712 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
87525776 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
87525791 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
87525849 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:87537824 original size:17 final size:18
Alignment explanation
Indices: 87537796--87537841 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
87537786 CTAAATAACT
* * *
87537796 TAAAATATTTAATAATTA
1 TAAAATAATTAAGAATAA
87537814 TAAAA-AATTAAGAATAA
1 TAAAATAATTAAGAATAA
87537831 TAAAATAATTA
1 TAAAATAATTA
87537842 TAGATGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAATAATTAAGAATAA
Found at i:87543924 original size:47 final size:48
Alignment explanation
Indices: 87543854--87544074 Score: 228
Period size: 47 Copynumber: 4.7 Consensus size: 48
87543844 TTTGTGTGCC
* * *
87543854 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAAAGCT
* *
87543902 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATG--TG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGAAAGCT
* *
87543945 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-TGAAAATGTGAAAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGA--TGAAAGCT
* *
87543996 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ATT-TGATGGATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-GA-AAGCT
87544043 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
87544075 TATTATACCC
Statistics
Matches: 146, Mismatches: 12, Indels: 30
0.78 0.06 0.16
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 16 0.11
46 24 0.16
47 49 0.34
48 13 0.09
49 2 0.01
50 30 0.21
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAAAGCT
Found at i:87546803 original size:16 final size:16
Alignment explanation
Indices: 87546782--87546862 Score: 71
Period size: 16 Copynumber: 5.0 Consensus size: 16
87546772 CTAAATTTTG
87546782 AATATTATTAAAATAT
1 AATATTATTAAAATAT
*
87546798 AATA-T-TTATAAATTT
1 AATATTATTA-AAATAT
*
87546813 AAATATATATTTGAAATA-
1 -AATAT-TA-TTAAAATAT
87546831 AATATTATATAAAATAT
1 AATATTAT-TAAAATAT
87546848 AAT-TTATTAAAATAT
1 AATATTATTAAAATAT
87546863 GTTATTTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
14 3 0.06
15 15 0.28
16 20 0.38
17 8 0.15
18 1 0.02
19 4 0.08
20 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (16 bp):
AATATTATTAAAATAT
Found at i:87549791 original size:23 final size:22
Alignment explanation
Indices: 87549747--87549794 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
87549737 GTTGCTTTAA
*
87549747 TCTTTTTTCTTTCTTTTCATTT
1 TCTTGTTTCTTTCTTTTCATTT
*
87549769 TCTTGTTTCTTTTTGTTTCATTT
1 TCTTGTTTCTTTCT-TTTCATTT
87549792 TCT
1 TCT
87549795 ACAAATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (22 bp):
TCTTGTTTCTTTCTTTTCATTT
Found at i:87550749 original size:27 final size:27
Alignment explanation
Indices: 87550719--87550775 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
87550709 GTTTATTAAC
87550719 TTTTATAAATCATTTATCTTAGA-TATT
1 TTTTATAAATCATTTATCTTA-ACTATT
* *
87550746 TTTTATAAATTATTTATTTTAACTATT
1 TTTTATAAATCATTTATCTTAACTATT
87550773 TTT
1 TTT
87550776 CATATTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATAAATCATTTATCTTAACTATT
Found at i:87550836 original size:26 final size:26
Alignment explanation
Indices: 87550807--87550938 Score: 75
Period size: 25 Copynumber: 5.2 Consensus size: 26
87550797 TCACGTGTAA
87550807 TATTTAATTTAAATTATTTTATATAT
1 TATTTAATTTAAATTATTTTATATAT
*
87550833 TA-TTCATCTTAAA--ATTCTTATAT-T
1 TATTTAAT-TTAAATTATT-TTATATAT
* *
87550857 TGTTT-ATTT-CATGCTATTTTAT-TAT
1 TATTTAATTTAAAT--TATTTTATATAT
* *
87550882 TATTTATTTTAAGTT-TTTTATATAT
1 TATTTAATTTAAATTATTTTATATAT
* * * *
87550907 TAATT-ATTTGAAACTGTTTTTTATAT
1 TATTTAATTT-AAATTATTTTATATAT
87550933 TATTTA
1 TATTTA
87550939 CCTTAAGTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 27
0.66 0.11 0.23
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 17 0.22
25 32 0.41
26 26 0.33
27 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTTAATTTAAATTATTTTATATAT
Found at i:87559278 original size:79 final size:81
Alignment explanation
Indices: 87559142--87559326 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
87559132 TTGAATGATG
* *
87559142 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
87559206 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
87559221 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
87559283 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
87559301 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87559327 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:87559340 original size:40 final size:40
Alignment explanation
Indices: 87559143--87559326 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
87559133 TGAATGATGT
* * * *
87559143 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
87559183 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
87559223 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
87559261 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87559302 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
87559327 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:87559348 original size:79 final size:79
Alignment explanation
Indices: 87559195--87559359 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
87559185 GGACTAAGAT
* * **
87559195 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
87559260 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
87559274 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
87559337 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
87559353 CCGAAGG
1 CCGAAGG
87559360 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:87566705 original size:40 final size:39
Alignment explanation
Indices: 87566661--87566765 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
87566651 AGTGACCATA
*
87566661 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
87566701 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
87566739 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
87566766 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:87566722 original size:39 final size:40
Alignment explanation
Indices: 87566621--87566784 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
87566611 TTGAATGATG
* *
87566621 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
87566661 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
87566700 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
87566740 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
87566780 TCCGG
1 TCCGG
87566785 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:87566784 original size:79 final size:80
Alignment explanation
Indices: 87566621--87566771 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
87566611 TTGAATGATG
*
87566621 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
87566686 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
87566701 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
87566763 TTGAACGAG
64 TTGAACGAG
87566772 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:87571609 original size:22 final size:23
Alignment explanation
Indices: 87571539--87571651 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
87571529 GATATATCAA
*
87571539 CTCGTA-AGAGCTTACTATTTTTAG
1 CTCGTATAGAGCTTAC--TGTTTAG
* * *
87571563 CTCAT-TGGAGCTTACCGATTTAG
1 CTCGTATAGAGCTTACTG-TTTAG
87571586 CTCGTAT-GAGCTTACTGTTTAG
1 CTCGTATAGAGCTTACTGTTTAG
**
87571608 CTCG-ATAGAGCTTACAATTTGAG
1 CTCGTATAGAGCTTACTGTTT-AG
*
87571631 CTC-AATAGAGCTTACTGTTTA
1 CTCGTATAGAGCTTACTGTTTA
87571652 TCAGCTCAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
21 2 0.03
22 21 0.29
23 37 0.51
24 13 0.18
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (23 bp):
CTCGTATAGAGCTTACTGTTTAG
Found at i:87571621 original size:45 final size:46
Alignment explanation
Indices: 87571520--87571651 Score: 119
Period size: 45 Copynumber: 2.8 Consensus size: 46
87571510 CAACTCGTAT
* * * *
87571520 GAGCTTACCGATATATCAACTCGTAAGAGCTTACTATTTTTAGCTCATTG
1 GAGCTTACCGAT-T-TCAGCTCGTATGAGCTTAC--TGTTTAGCTCATTA
87571570 GAGCTTACCGATTT-AGCTCGTATGAGCTTACTGTTTAGCTCGA-TA
1 GAGCTTACCGATTTCAGCTCGTATGAGCTTACTGTTTAGCTC-ATTA
* * *
87571615 GAGCTTA-CAATTTGAGCTC-AATAGAGCTTACTGTTTA
1 GAGCTTACCGATTTCAGCTCGTAT-GAGCTTACTGTTTA
87571652 TCAGCTCAGG
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
44 7 0.10
45 36 0.49
46 1 0.01
47 15 0.21
48 1 0.01
49 1 0.01
50 12 0.16
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (46 bp):
GAGCTTACCGATTTCAGCTCGTATGAGCTTACTGTTTAGCTCATTA
Found at i:87571885 original size:20 final size:19
Alignment explanation
Indices: 87571803--87571910 Score: 92
Period size: 20 Copynumber: 5.5 Consensus size: 19
87571793 TACCGATTAT
*
87571803 ATGAATTACTGTTGAAATGA
1 ATGAATTACTGTT-ATATGA
* *
87571823 ATGAATTACTGTTGATACGG
1 ATGAATTACTGTT-ATATGA
* *
87571843 ATAAATTACTGATATATTG-
1 ATGAATTACTGTTATA-TGA
*
87571862 ATGAATTACTGGTTATACGA
1 ATGAATTACT-GTTATATGA
* *
87571882 ATGAACTACTAGTTATATAA
1 ATGAATTACT-GTTATATGA
87571902 ATGAATTAC
1 ATGAATTAC
87571911 AGTTTATTCG
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 13 0.18
20 58 0.82
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (19 bp):
ATGAATTACTGTTATATGA
Found at i:87578217 original size:26 final size:25
Alignment explanation
Indices: 87578187--87578277 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 25
87578177 AGACTCACCA
87578187 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGATAT-T
* * *
87578213 CAGCTCGTAAGAGCTTACTG-TTTT
1 CAGCTCGTATGAGCTTACCGATATT
*
87578237 CAGCTCAT-TGGAGCTTACC-A-ATT
1 CAGCTCGTAT-GAGCTTACCGATATT
87578260 CAGCTCGTATGAGCTTAC
1 CAGCTCGTATGAGCTTAC
87578278 TGTTCAGCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 17 0.31
24 17 0.31
25 2 0.04
26 18 0.33
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATATT
Found at i:87578295 original size:22 final size:22
Alignment explanation
Indices: 87578222--87578326 Score: 68
Period size: 23 Copynumber: 4.6 Consensus size: 22
87578212 TCAGCTCGTA
*
87578222 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG--TTCAGCTCAAT
* ** *
87578246 GGAGCTTACCAATTCAGCTC-GT
1 AGAGCTTA-CTGTTCAGCTCAAT
87578268 ATGAGCTTACTGTTCAGCTCAAT
1 A-GAGCTTACTGTTCAGCTCAAT
* * * *
87578291 AGAGCTTACCGTTTGAGATTAAT
1 AGAGCTTACTG-TTCAGCTCAAT
*
87578314 AGATCTTACTGTT
1 AGAGCTTACTGTT
87578327 TATCAGCTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
22 21 0.33
23 34 0.54
24 7 0.11
25 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:87578299 original size:45 final size:49
Alignment explanation
Indices: 87578197--87578301 Score: 146
Period size: 47 Copynumber: 2.2 Consensus size: 49
87578187 CAGCTCGTAT
* *
87578197 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTG-TTTCAGCTCAATA
*
87578247 GAGCTTACC-A-AT-TCAGCTCGTATGAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTCAGCTCAATA
87578292 GAGCTTACCG
1 GAGCTTACCG
87578302 TTTGAGATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 19 0.37
47 20 0.39
48 2 0.04
49 1 0.02
50 9 0.18
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (49 bp):
GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTCAGCTCAATA
Found at i:87578528 original size:40 final size:39
Alignment explanation
Indices: 87578483--87578587 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 39
87578473 TGATTATATG
87578483 AATTACTGTTGAAATGAATGAATTACT-GTTGATACAGATA
1 AATTACTGTT-AAATGAATGAATTACTGGTT-ATACAGATA
* * * *
87578523 AATTACTGATATAGTG-ATGAATTACTGGTTATACGGATG
1 AATTACTGTTA-AATGAATGAATTACTGGTTATACAGATA
* *
87578562 AACTACTAGTTATATGAATGAATTAC
1 AATTACT-GTTAAATGAATGAATTAC
87578588 AGTTTATAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
39 26 0.49
40 27 0.51
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (39 bp):
AATTACTGTTAAATGAATGAATTACTGGTTATACAGATA
Found at i:87578561 original size:20 final size:19
Alignment explanation
Indices: 87578480--87578587 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 19
87578470 TACTGATTAT
* * *
87578480 ATGAATTACTGTTGAAATGA
1 ATGAATTACTGTT-ATACGG
*
87578500 ATGAATTACTGTTGATACAG
1 ATGAATTACTGTT-ATACGG
* *
87578520 ATAAATTACTGATATA-GTG
1 ATGAATTACTGTTATACG-G
87578539 ATGAATTACTGGTTATACGG
1 ATGAATTACT-GTTATACGG
* * *
87578559 ATGAACTACTAGTTATATGA
1 ATGAATTACT-GTTATACGG
87578579 ATGAATTAC
1 ATGAATTAC
87578588 AGTTTATAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 13 0.18
20 57 0.80
21 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (19 bp):
ATGAATTACTGTTATACGG
Found at i:87578595 original size:40 final size:39
Alignment explanation
Indices: 87578496--87578595 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 39
87578486 TACTGTTGAA
* *
87578496 ATGAATGAATTACTGTTGATACAGATAAATTACTGATAT
1 ATGAATGAATTACTGTTTATACAGATAAACTACTGATAT
* * * *
87578535 AGTG-ATGAATTACTGGTTATACGGATGAACTACTAGTTAT
1 A-TGAATGAATTACTGTTTATACAGATAAACTACT-GATAT
*
87578575 ATGAATGAATTACAGTTTATA
1 ATGAATGAATTACTGTTTATA
87578596 GAAATAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
39 28 0.56
40 22 0.44
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (39 bp):
ATGAATGAATTACTGTTTATACAGATAAACTACTGATAT
Found at i:87587224 original size:27 final size:27
Alignment explanation
Indices: 87587207--87587384 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
87587197 ATATTAAGTC
87587207 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
87587234 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87587261 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
87587289 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
87587316 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
87587343 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
87587370 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
87587385 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:87587346 original size:82 final size:81
Alignment explanation
Indices: 87587228--87587383 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
87587218 TGCTATATAA
* *
87587228 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87587293 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87587310 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87587374 CACTTAGTGC
65 CACTTAGTGC
87587384 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87587367 original size:54 final size:54
Alignment explanation
Indices: 87587207--87587383 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
87587197 ATATTAAGTC
* * * *
87587207 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
87587261 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
87587316 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
87587370 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87587384 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:87589738 original size:21 final size:21
Alignment explanation
Indices: 87589704--87589748 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
87589694 AAAAAATAAT
87589704 AATAATAATAATAGATAAACA
1 AATAATAATAATAGATAAACA
*
87589725 AATAATAATAATAGGTAAACA
1 AATAATAATAATAGATAAACA
87589746 AAT
1 AAT
87589749 TCGAAGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAATAATAATAGATAAACA
Found at i:87590102 original size:102 final size:102
Alignment explanation
Indices: 87589926--87590131 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
87589916 ATGCAAATTA
87589926 AACGATAGACATTCGCATGGTAATAGCATGAGGATAAGCATAGTAATGTCATGACTAACCTAAGA
1 AACGATAGACATTCGCATGGTAATAGCATGAGGATAAGCATAGTAATGTCATGACTAACCTAAGA
87589991 ATGCAAATTAAATGATAGAATAATGAGAAAAATGAAG
66 ATGCAAATTAAATGATAGAATAATGAGAAAAATGAAG
87590028 AACGATAGACATTCGCATGGTAATAGCATGAGGATAAGCATAGTAATGTCATGACTAACCTAAGA
1 AACGATAGACATTCGCATGGTAATAGCATGAGGATAAGCATAGTAATGTCATGACTAACCTAAGA
87590093 ATGCAAATTAAATGATAGAATAATGAGAAAAATGAAG
66 ATGCAAATTAAATGATAGAATAATGAGAAAAATGAAG
87590130 AA
1 AA
87590132 TAGTTCAAAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (102 bp):
AACGATAGACATTCGCATGGTAATAGCATGAGGATAAGCATAGTAATGTCATGACTAACCTAAGA
ATGCAAATTAAATGATAGAATAATGAGAAAAATGAAG
Found at i:87593354 original size:27 final size:27
Alignment explanation
Indices: 87593337--87593816 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
87593327 ATATTAAGTC
87593337 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
87593364 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593392 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593419 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593446 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593474 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593502 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593530 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593558 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593585 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
87593612 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
87593640 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593667 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593694 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593721 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
87593748 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
87593775 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
87593802 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
87593817 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Done.