Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 150 of 322
Found at i:49235639 original size:79 final size:79
Alignment explanation
Indices: 49235486--49235650 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
49235476 GGACTAAGAT
* * ***
49235486 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTAAACGAGTTACTAA
*
49235551 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
49235565 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTAAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTAAACGAGTTA-C
* *
49235628 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
49235644 CCGAAGG
1 CCGAAGG
49235651 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTAAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:49235746 original size:168 final size:168
Alignment explanation
Indices: 49235553--49235887 Score: 643
Period size: 168 Copynumber: 2.0 Consensus size: 168
49235543 GTTACTAAAT
49235553 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTA
* *
49235618 AACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATTATCTTGCTGTA
66 AACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAAAGAATGATCTTGCTGTA
49235683 AAAATTTCAGTTAATACGCTTGAAACATCCCAACATTG
131 AAAATTTCAGTTAATACGCTTGAAACATCCCAACATTG
49235721 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTA
49235786 AACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAAAGAATGATCTTGCTGTA
66 AACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAAAGAATGATCTTGCTGTA
*
49235851 AAAATTTTAGTTAATACGCTTGAAACATCCCAACATT
131 AAAATTTCAGTTAATACGCTTGAAACATCCCAACATT
49235888 AAGGTATGTT
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 164 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (168 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTA
AACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAAAGAATGATCTTGCTGTA
AAAATTTCAGTTAATACGCTTGAAACATCCCAACATTG
Found at i:49240149 original size:18 final size:18
Alignment explanation
Indices: 49240122--49240162 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
49240112 GTTCTGGACG
49240122 CGGGCCTGTCCCAGCACA
1 CGGGCCTGTCCCAGCACA
*
49240140 CGGGCGTGTCCCAGCACA
1 CGGGCCTGTCCCAGCACA
49240158 CGGGC
1 CGGGC
49240163 ATGTGCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.41, G:0.34, T:0.10
Consensus pattern (18 bp):
CGGGCCTGTCCCAGCACA
Found at i:49241152 original size:46 final size:47
Alignment explanation
Indices: 49241081--49241340 Score: 215
Period size: 46 Copynumber: 5.6 Consensus size: 47
49241071 GTGCGCCAGA
* *
49241081 GTAAGACATGTCTGGGACATGCATCGGCCACATTGCGA-A-AGCAAGT
1 GTAAGACATGTCTGGGACATGCATCGGCC-CATTGAGATAGAGCTAGT
* *
49241127 GTAGGACATGTCTGGGACATGCATCGG--CTTTGAGATGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCCATTGAGAT-AGAGCTAGT
* * *
49241173 GTAAGACATGTCTGGAACATGCATTGG-CC-TTGAGATATGTGTTCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCCATTGAGATA-GAG--CTAGT
* *
49241221 GTAAGACATGTCTGGGACATGCATCAGCCACA-TCATGA-A-AGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCC-CATTGA-GATAGAGCTAGT
* *
49241267 GTAAGACCATGTCTGGGACATGGCATCGG--C-TTGATAT-GTG-TCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTGAGATAGAGCT-AGT
*
49241312 GTAAGACATGTCTAGGACATGGCATCGGC
1 GTAAGACATGTCTGGGACAT-GCATCGGC
49241341 TTGATATGTG
Statistics
Matches: 178, Mismatches: 18, Indels: 37
0.76 0.08 0.16
Matches are distributed among these distances:
43 6 0.03
44 23 0.13
45 15 0.08
46 76 0.43
47 15 0.08
48 36 0.20
49 1 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCGGCCCATTGAGATAGAGCTAGT
Found at i:49241241 original size:94 final size:92
Alignment explanation
Indices: 49241124--49241342 Score: 266
Period size: 94 Copynumber: 2.4 Consensus size: 92
49241114 TGCGAAAGCA
* ** * *
49241124 AGTGTAGGACATGTCTGGGACATGCATCGGCTTTGA-GATGAGAGCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTACATCATGAAAGCTAGTGTAAGACCATGTCTG
*
49241187 GAACAT-GCATTGGCCTTGAGATATGTGTTC
66 GAACATGGCATCGG-CTT--GATATGTG-TC
* *
49241217 TAGTGTAAGACATGTCTGGGACATGCATCAGC-CACATCATGAAAGCTAGTGTAAGACCATGTCT
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTTACATCATGAAAGCTAGTGTAAGACCATGTCT
*
49241281 GGGACATGGCATCGGCTTGATATGTGTC
65 GGAACATGGCATCGGCTTGATATGTGTC
*
49241309 AGTGTAAGACATGTCTAGGACATGGCATCGGCTT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTT
49241343 GATATGTGTC
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
91 22 0.20
92 9 0.08
93 9 0.08
94 46 0.43
95 16 0.15
96 6 0.06
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTACATCATGAAAGCTAGTGTAAGACCATGTCTG
GAACATGGCATCGGCTTGATATGTGTC
Found at i:49241333 original size:44 final size:44
Alignment explanation
Indices: 49241124--49241374 Score: 256
Period size: 44 Copynumber: 5.5 Consensus size: 44
49241114 TGCGAAAGCA
* * * *
49241124 AGTGTAGGACATGTCTGGGACATGCATCGGCTTTGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TTGATATGTG-TCT
* *
49241170 AGTGTAAGACATGTCTGGAACATGCATTGGCCTTGAGATATGTGTTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTT--GATATGTG-TCT
* *** *
49241218 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATCATGAAAG-CT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTGAT-ATG--TGTCT
49241264 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTGATATGTGTCT
*
49241309 AGTGTAAGACATGTCTAGGACATGGCATCGGCTTGATATGTGTC-
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTTGATATGTGTCT
*
49241353 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
49241375 CGACATGGAC
Statistics
Matches: 174, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
44 54 0.31
45 12 0.07
46 44 0.25
47 19 0.11
48 45 0.26
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTGATATGTGTCT
Found at i:49241381 original size:140 final size:139
Alignment explanation
Indices: 49241081--49241374 Score: 388
Period size: 140 Copynumber: 2.1 Consensus size: 139
49241071 GTGCGCCAGA
* ** *
49241081 GTAAGACATGTCTGGGACATGCATCGGCCACATTGCGAAAGCAAGTGTAGGACATGTCTGGGACA
1 GTAAGACATGTCTGGGACATGCATCAGCCACATCACGAAAGCAAGTGTAAGACATGTCTGGGACA
*
49241146 TGCATCGGCTTTGAGATGAGAGCTAGTGTAAGACATGTCTGGAACATGCATTGGCCTTGAGATAT
66 TGCATCGGCTTTGAGATGAGAGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCTT-AGATAT
49241211 GTGTTCTAGT
130 GTGTTCTAGT
* *
49241221 GTAAGACATGTCTGGGACATGCATCAGCCACATCATGAAAGCTAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCAGCCACATCACGAAAGCAAGTGTAAGA-CATGTCTGGGAC
* * *
49241286 ATGGCATCGGC-TTGATATGTG-TC-AGTGTAAGACATGTCTAGG-ACATGGCATCGG-CTT-GA
65 AT-GCATCGGCTTTGAGATGAGAGCTAGTGTAAGACATGTCT-GGAACAT-GCATCGGCCTTAGA
49241345 TATGTG-TC-AGT
127 TATGTGTTCTAGT
*
49241356 GTAAGACCTGTCTGGGACA
1 GTAAGACATGTCTGGGACA
49241375 CGACATGGAC
Statistics
Matches: 139, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
135 21 0.15
136 2 0.01
137 8 0.06
139 23 0.17
140 55 0.40
141 22 0.16
142 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (139 bp):
GTAAGACATGTCTGGGACATGCATCAGCCACATCACGAAAGCAAGTGTAAGACATGTCTGGGACA
TGCATCGGCTTTGAGATGAGAGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCTTAGATATG
TGTTCTAGT
Found at i:49252241 original size:52 final size:51
Alignment explanation
Indices: 49252131--49252300 Score: 247
Period size: 52 Copynumber: 3.4 Consensus size: 51
49252121 CGATGACTTG
* * * *
49252131 CACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTTACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAGTGGCCTT
49252182 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGTGGCCTT
* *
49252234 CACATAGTACCACACTTGTGTCC-AAGCTATC-TCTTCTCAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
49252283 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
49252301 AGTCACTAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 35 0.32
51 35 0.32
52 41 0.37
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (51 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
Found at i:49255781 original size:45 final size:45
Alignment explanation
Indices: 49255674--49255774 Score: 143
Period size: 45 Copynumber: 2.2 Consensus size: 45
49255664 TCTGAGCTCG
* *
49255674 TTGAGTTGGTCCAAGTTCGTGATATATGTGAGAAGTCTGAAGTTG
1 TTGAGTTGGTCCAAGTTCGTGATATATGTGAGAAGTCCGAAGTTA
*
49255719 TTGAGTTGGTCCAAGTTCGTGATATATGTGAAGCA-TCCG-AGCTTA
1 TTGAGTTGGTCCAAGTTCGTGATATATGTG-AGAAGTCCGAAG-TTA
49255764 TTGAGTTGGTC
1 TTGAGTTGGTC
49255775 TGAGTTCATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 2 0.04
45 46 0.90
46 3 0.06
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.36
Consensus pattern (45 bp):
TTGAGTTGGTCCAAGTTCGTGATATATGTGAGAAGTCCGAAGTTA
Found at i:49255812 original size:44 final size:44
Alignment explanation
Indices: 49255750--49255886 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
49255740 ATATATGTGA
* **
49255750 AGCATCCGAGCTTATTGAGTTGGTCTGAGTTCATTATGGATACG
1 AGCATCTGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATACG
* * *
49255794 AGCATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGATGCG
1 AGCATCTGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATACG
49255838 ATGCATGTGACATCCGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGAT
1 A-GCA--T--C-T--GAGCTCGTTGAGTTGGTCTGAGTTCATTATGGAT
49255887 GTATACATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
44 39 0.51
45 3 0.04
47 1 0.01
49 1 0.01
50 1 0.01
52 32 0.42
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.34
Consensus pattern (44 bp):
AGCATCTGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATACG
Found at i:49259702 original size:19 final size:18
Alignment explanation
Indices: 49259674--49259710 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
49259664 GGCTAGACAT
49259674 AAAAAGATCATTGTAATC
1 AAAAAGATCATTGTAATC
49259692 AAAATAGATCATTGTAATC
1 AAAA-AGATCATTGTAATC
49259711 TATTCCACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AAAAAGATCATTGTAATC
Found at i:49261995 original size:55 final size:53
Alignment explanation
Indices: 49261934--49262142 Score: 215
Period size: 55 Copynumber: 3.9 Consensus size: 53
49261924 ATTAGGGTTT
* *
49261934 AAGGATACCATGTAGGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-GTTTCTAAGGC
* * * * * **
49261989 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATTAGTTACTATAACGTA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT--TCTAA-GGC
* *
49262045 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTC-TAAGGC
* * * *
49262097 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTT
49262143 GAAAAGGATA
Statistics
Matches: 125, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 38 0.30
54 9 0.07
55 67 0.54
56 5 0.04
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTCTAAGGC
Found at i:49268380 original size:21 final size:21
Alignment explanation
Indices: 49268354--49268401 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
49268344 GGGGTAGACT
*
49268354 AGGCTACATGGGAGCCCGAAG
1 AGGCTACATGAGAGCCCGAAG
49268375 AGGCTACATGAGAGCCCGAAG
1 AGGCTACATGAGAGCCCGAAG
49268396 AGGCTA
1 AGGCTA
49268402 TGCGAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.10
Consensus pattern (21 bp):
AGGCTACATGAGAGCCCGAAG
Found at i:49269787 original size:55 final size:54
Alignment explanation
Indices: 49269678--49269886 Score: 217
Period size: 55 Copynumber: 3.9 Consensus size: 54
49269668 CATTAGGGTT
* ** * *
49269678 TAAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTT-TCTAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATG-GCATTGGTAA-GTTCTATAAGG
* *
49269733 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG
* * * *
49269788 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG
1 -TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
* * * * *
49269841 CAATGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
49269887 TGAAAAGGAT
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 3 0.02
53 43 0.33
54 8 0.06
55 72 0.55
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
Found at i:49269885 original size:108 final size:110
Alignment explanation
Indices: 49269686--49269886 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
49269676 TTTAAGGATA
*
49269686 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGTAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
49269751 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
** * * *
49269796 CCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAATGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
49269858 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
49269887 TGAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 6 0.07
110 25 0.31
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:49270900 original size:27 final size:27
Alignment explanation
Indices: 49270852--49271010 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
49270842 GCGAGGCTGC
* *
49270852 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
49270879 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
49270905 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
49270932 CAGATAATTGTGGCATAGCTACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
49270959 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
49270986 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
49271011 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:49271011 original size:54 final size:54
Alignment explanation
Indices: 49270870--49271013 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
49270860 GTGACGAAGT
* *
49270870 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
49270924 CACCAGATCAGATAATTGTGGCATAGCTACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
49270978 CACCAGATCAGATAATTATGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
49271014 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:49272641 original size:26 final size:26
Alignment explanation
Indices: 49272608--49272715 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
49272598 TGAAATGCCC
* *
49272608 ATCATGGAAGATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49272634 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
49272660 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
49272686 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49272712 ATCA
1 ATCA
49272716 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49276004 original size:51 final size:50
Alignment explanation
Indices: 49275928--49276109 Score: 195
Period size: 51 Copynumber: 3.6 Consensus size: 50
49275918 GGATACCCGA
* * *
49275928 TGACCTGCACGTAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAAG
1 TGACCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAAAG
* *
49275979 TGACCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGACCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAAAG
** * * * **
49276031 TGGTCTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTTAAAG
1 TGACCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAAG
* * *
49276080 TGACTTTCACATAGTACCACATTTGAGTCA
1 TGACCTTCACATAGTACCACACTTGTGTCA
49276110 CTAGTGACTT
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 32 0.29
50 1 0.01
51 38 0.35
52 38 0.35
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (50 bp):
TGACCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAAG
Found at i:49276042 original size:52 final size:52
Alignment explanation
Indices: 49275939--49276100 Score: 196
Period size: 52 Copynumber: 3.2 Consensus size: 52
49275929 GACCTGCACG
* * *
49275939 TAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTTCACAAAGT-GACCTTCACA
1 TAGTACCACACTTGTGA-CCAAAGCTATCTTTCTTCACAAAGTGGA-CTTCACA
*
49275990 TAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGTCTTCACA
1 TAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGACTTCACA
49276042 TAGTACCACACTTGTGACC-AAGCTATCTCTTCTT---AAAGT-GACTTTCACA
1 TAGTACCACACTTGTGACCAAAGCTATCT-TTCTTCACAAAGTGGAC-TTCACA
49276091 TAGTACCACA
1 TAGTACCACA
49276101 TTTGAGTCAC
Statistics
Matches: 101, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
48 2 0.02
49 21 0.21
51 31 0.31
52 46 0.46
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (52 bp):
TAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGACTTCACA
Found at i:49276121 original size:34 final size:34
Alignment explanation
Indices: 49276078--49276151 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
49276068 CTCTTCTTAA
*
49276078 AGTGACTTTCACATAGTACCACATTTGAGTCACT
1 AGTGACTTTCACATAGTACCACACTTGAGTCACT
49276112 AGTGACTTTCACATAGTACCACACTTGAGTCACT
1 AGTGACTTTCACATAGTACCACACTTGAGTCACT
49276146 AGTGAC
1 AGTGAC
49276152 ATGTCACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (34 bp):
AGTGACTTTCACATAGTACCACACTTGAGTCACT
Found at i:49283478 original size:15 final size:17
Alignment explanation
Indices: 49283442--49283480 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
49283432 ACAAGGAATC
49283442 CAAATTAAACAATAGAA
1 CAAATTAAACAATAGAA
*
49283459 AAAATTAAAC-A-AGAA
1 CAAATTAAACAATAGAA
49283474 CAAATTA
1 CAAATTA
49283481 GAATAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (17 bp):
CAAATTAAACAATAGAA
Found at i:49286223 original size:21 final size:21
Alignment explanation
Indices: 49286192--49286270 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
49286182 TGGAAACCCG
*
49286192 TAAGGGTTGAACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
** * * *
49286213 TAAGAACTGAACGGAAACCCA
1 TAAGAGTTGAACTGAAGCTCA
* *
49286234 TAAGGGTTAAACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
*
49286255 AAAGAGTTGAACTGAA
1 TAAGAGTTGAACTGAA
49286271 ACCTAGAAAG
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (21 bp):
TAAGAGTTGAACTGAAGCTCA
Found at i:49286229 original size:42 final size:42
Alignment explanation
Indices: 49286183--49286291 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
49286173 AGTGCTAAAT
* * *
49286183 GGAAACCCGTAAGGGTTGAACTGAAGCTCATAAGAACTGAAC
1 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
**
49286225 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGTTGAAC
1 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
* * * * *
49286267 TGAAACCTAGAAAGGTTAATCTGAA
1 GGAAACCCATAAGGGTTAAACTGAA
49286292 ACTCTTATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (42 bp):
GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
Found at i:49288996 original size:22 final size:22
Alignment explanation
Indices: 49288971--49289024 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
49288961 AACAAAAGAG
* *
49288971 TAACTTATAAAATATACTAATT
1 TAACTTATAAAATATAATAATA
*
49288993 TAACTTATAGAATATAATAATA
1 TAACTTATAAAATATAATAATA
*
49289015 AAACTTATAA
1 TAACTTATAA
49289025 TTAAGTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
TAACTTATAAAATATAATAATA
Found at i:49292341 original size:38 final size:38
Alignment explanation
Indices: 49292299--49292380 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
49292289 GACATGTCGA
* *
49292299 CCACACGGGCATGTAGATTTTAGGCCAGGTCATGTGGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
** * * *
49292337 CCACACGGGTGTGTGGATTTTGGGTCAGGCCATGTAGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
49292375 CCACAC
1 CCACAC
49292381 CGACAAGGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (38 bp):
CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
Found at i:49312651 original size:16 final size:16
Alignment explanation
Indices: 49312630--49312661 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49312620 GAGAACCAAA
49312630 CAGAGAACTGAGAAAC
1 CAGAGAACTGAGAAAC
49312646 CAGAGAACTGAGAAAC
1 CAGAGAACTGAGAAAC
49312662 ATAAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
CAGAGAACTGAGAAAC
Found at i:49316583 original size:34 final size:35
Alignment explanation
Indices: 49316543--49316608 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
49316533 CTTGTCAAAT
* * *
49316543 TAAAAATG-TTTTATTTTAAAAATAAGTTTTTTAA
1 TAAAAATGCTTTAAATTCAAAAATAAGTTTTTTAA
*
49316577 TAAAAATGCTTTAAATTCACAAATAAGTTTTT
1 TAAAAATGCTTTAAATTCAAAAATAAGTTTTT
49316609 GTTGTGCAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 8 0.30
35 19 0.70
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (35 bp):
TAAAAATGCTTTAAATTCAAAAATAAGTTTTTTAA
Found at i:49322713 original size:20 final size:20
Alignment explanation
Indices: 49322654--49322743 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
49322644 GGAGCAATTC
*
49322654 TAACTTGTTTGAAAATCATTT
1 TAACTTGATT-AAAATCATTT
* *
49322675 TGA-TGTG-TTAAAATAATTT
1 TAACT-TGATTAAAATCATTT
*
49322694 TAACTTGATTGAAATCATTT
1 TAACTTGATTAAAATCATTT
*
49322714 TGAA-TTGGTTAAAATCATTT
1 T-AACTTGATTAAAATCATTT
*
49322734 TCACTTGATT
1 TAACTTGATT
49322744 TTAAAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.25
20 35 0.64
21 6 0.11
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (20 bp):
TAACTTGATTAAAATCATTT
Found at i:49322725 original size:40 final size:40
Alignment explanation
Indices: 49322649--49322743 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
49322639 GGCTTGGAGC
* *
49322649 AATTCTAACTTGTTTGAAAATCATTTTGATGTGTTAAAAT
1 AATTTTAACTTGATTGAAAATCATTTTGATGTGTTAAAAT
49322689 AATTTTAACTTGATTG-AAATCATTTTGAAT-TGGTTAAAAT
1 AATTTTAACTTGATTGAAAATCATTTTG-ATGT-GTTAAAAT
* *
49322729 CATTTTCACTTGATT
1 AATTTTAACTTGATT
49322744 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.24
40 37 0.76
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (40 bp):
AATTTTAACTTGATTGAAAATCATTTTGATGTGTTAAAAT
Found at i:49325574 original size:46 final size:47
Alignment explanation
Indices: 49325514--49325756 Score: 352
Period size: 46 Copynumber: 5.3 Consensus size: 47
49325504 TTCGACATGA
* * * * * *
49325514 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
49325560 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
49325606 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
** *
49325652 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
49325698 TGCCATGGTATCTCTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
49325744 TGCCATGGTATCT
1 TGCCATGGTATCT
49325757 GTCGAAACCA
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 5 0.03
46 174 0.97
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
Found at i:49328994 original size:44 final size:44
Alignment explanation
Indices: 49328934--49329214 Score: 209
Period size: 44 Copynumber: 6.4 Consensus size: 44
49328924 TGTTTTTATC
* * *
49328934 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* * *
49328978 CTGTTCCACTGTAACTTCAGGGAGATAA-GATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGA-CTG-TGACTTCGA-T
* * *
49329023 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* *
49329067 CTGCTCCACTGCAACTTCA---AGGTAA-GATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGA-CTG-TGACTTCGA-T
* * * * * **
49329109 CTGCTCCAATTCAACTTTAGGGAGATAA-GACTTGGGTAATTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGAC-TGTG-ACTTCGAT
* * * *
49329154 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* *
49329199 CTGTTCCATTGCAACT
1 CTGCTCCACTGCAACT
49329215 CCAGCAAGAC
Statistics
Matches: 183, Mismatches: 38, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.01
41 8 0.04
42 23 0.13
43 2 0.01
44 66 0.36
45 53 0.29
46 28 0.15
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
Found at i:49329085 original size:89 final size:88
Alignment explanation
Indices: 49328934--49329183 Score: 297
Period size: 89 Copynumber: 2.8 Consensus size: 88
49328924 TGTTTTTATC
* * * * * * *
49328934 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGTAACTTCAGG
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-G
49328999 GAGATAAGATCTGCTAACTTCAGT
65 GAGATAAGATCTGCTAACTTCAGT
*
49329023 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA--
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
*
49329086 AGGTAAGATCTGCTAACTTCAGT
66 AGATAAGATCTGCTAACTTCAGT
* * * * * ** *
49329109 CTGCTCCAATTCAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTG-ACTTCGAT-CTGCTCCACTGCAACTTCA
49329174 GAGAGATAAG
64 G-GAGATAAG
49329184 GATTGCGACT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
86 53 0.39
87 5 0.04
88 18 0.13
89 55 0.40
91 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (88 bp):
CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
AGATAAGATCTGCTAACTTCAGT
Found at i:49329131 original size:86 final size:87
Alignment explanation
Indices: 49328945--49329138 Score: 282
Period size: 86 Copynumber: 2.2 Consensus size: 87
49328935 TGCTCTACTG
* * * *
49328945 CAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGTAACTTCAGGGAGATAAGATC
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCA--GAGATAAGATC
*
49329010 TGCTAACTTCAGTCTGCTCCACTA
64 TGCTAACTTCAGTCTGCTCCAATA
* * *
49329034 CAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-AGGTAAGATCTG
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
*
49329098 CTAACTTCAGTCTGCTCCAATT
66 CTAACTTCAGTCTGCTCCAATA
49329120 CAACTTTAGGGAGATAAGA
1 CAACTTTAGGGAGATAAGA
49329139 CTTGGGTAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 49 0.52
89 46 0.48
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (87 bp):
CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
CTAACTTCAGTCTGCTCCAATA
Found at i:49329182 original size:132 final size:133
Alignment explanation
Indices: 49329023--49329264 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 133
49329013 TAACTTCAGT
* * *
49329023 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACT-TCAA
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCGCAA
**
49329087 GGTAAGATCTGCTAACTTCAGTCTGCTCCAAT-TCAACTTTAGGGAGATAAGACTTGGGTAATTT
66 GACAAGATCTGCTAACTTCAGTCTGCTCCAATGT-AACTTTAGGGAGATAAGACTTGGGTAATTT
49329151 TATC
130 TATC
* * * * *
49329155 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGATCTGTTCCATTGCAACTCCAGC
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACT-C-GC
* *
49329220 AAGACAAGATCTGCTATCTTCAGTTTGCTCCAATGTAACTTTAGG
64 AAGACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGG
49329265 AATATGAGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
132 53 0.56
135 40 0.43
136 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCGCAA
GACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGGGAGATAAGACTTGGGTAATTTT
ATC
Found at i:49341015 original size:27 final size:27
Alignment explanation
Indices: 49340983--49341188 Score: 263
Period size: 27 Copynumber: 7.6 Consensus size: 27
49340973 AAATATTTCA
**
49340983 GGGTATTTCAGTAATTTTACAAATC-AG
1 GGGTATTTTGGTAATTTTACAAA-CAAG
*
49341010 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
49341037 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
*
49341064 GGGTATTTTGGTAAGTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* * *
49341091 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
49341118 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
**
49341145 GGGTATTTTGGTAATTTTGTAAACCAA-
1 GGGTATTTTGGTAATTTTACAAA-CAAG
49341172 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49341189 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACAAG
Found at i:49341203 original size:26 final size:27
Alignment explanation
Indices: 49341093--49341204 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 27
49341083 CAAACAAGTG
** * *
49341093 GTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *** * *
49341120 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *
49341147 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
*
49341174 GTATTTTGGTAATTTGGTAAACTAA-A
1 GTATTTTGGTAATTTGGTAAACCAAGA
49341200 GTATT
1 GTATT
49341205 CTAAATAGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.07
27 69 0.93
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTGGTAAACCAAGA
Found at i:49344705 original size:11 final size:11
Alignment explanation
Indices: 49344689--49344720 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
49344679 CTTTATATAC
49344689 TAATAAAATAA
1 TAATAAAATAA
49344700 TAATAAAATAA
1 TAATAAAATAA
49344711 TAATAAAATA
1 TAATAAAATA
49344721 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:49344737 original size:11 final size:11
Alignment explanation
Indices: 49344692--49344749 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
49344682 TATATACTAA
*
49344692 TAAAATAATAA
1 TAAAATAATAT
*
49344703 TAAAATAATAA
1 TAAAATAATAT
*
49344714 TAAAATATTTTAT
1 TAAAATA--ATAT
*
49344727 TAAAATATTAT
1 TAAAATAATAT
49344738 TAAAATAATAT
1 TAAAATAATAT
49344749 T
1 T
49344750 TAACTAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:49344773 original size:11 final size:11
Alignment explanation
Indices: 49344691--49344774 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
49344681 TTATATACTA
*
49344691 ATAAAATAATA
1 ATAAAATAATT
*
49344702 ATAAAATAATA
1 ATAAAATAATT
*
49344713 ATAAAATATTTT
1 ATAAAATA-ATT
49344725 ATTAAAAT-ATT
1 A-TAAAATAATT
49344736 ATTAAAATAA-T
1 A-TAAAATAATT
* *
49344747 ATTTAACTAA-T
1 A-TAAAATAATT
49344758 -T-AAATAATT
1 ATAAAATAATT
49344767 ATAAAATA
1 ATAAAATA
49344775 TCAAAATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.08
9 2 0.03
10 1 0.02
11 44 0.72
12 3 0.05
13 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAAAATAATT
Found at i:49349650 original size:40 final size:40
Alignment explanation
Indices: 49349486--49349669 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
49349476 TGAATGATGC
** * * * *
49349486 CCGGGCTAAGTTTCGAAGGC-TTTGTGCTAGGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAAT
* * *
49349526 CCAGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
49349566 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
49349606 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
49349646 CCGGGCTATGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
49349670 AAACGAGTAG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.91
41 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:49349677 original size:80 final size:79
Alignment explanation
Indices: 49349538--49349703 Score: 176
Period size: 80 Copynumber: 2.1 Consensus size: 79
49349528 AGACTAAGAT
* * ***
49349538 CCGAAGGCATTTGTACGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTAAACGAG-TAGCT
*
49349602 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
49349618 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCAAAGGCATTTAAACGAGTAGC
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCAAAGGCATTTAAACGAGTAGC
* *
49349681 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
49349697 CCGAAGG
1 CCGAAGG
49349704 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
79 17 0.24
80 53 0.74
81 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTAAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:49353110 original size:30 final size:30
Alignment explanation
Indices: 49353074--49353132 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
49353064 CTACGCTGAT
*
49353074 TTCGATAGCTCCGTATTGTATGGCACCAAC
1 TTCGATAGCTCCGTATTGTAGGGCACCAAC
49353104 TTCGATAGCTCCGTATTGTAGGGCACCAA
1 TTCGATAGCTCCGTATTGTAGGGCACCAA
49353133 TCGAGTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (30 bp):
TTCGATAGCTCCGTATTGTAGGGCACCAAC
Found at i:49361731 original size:11 final size:11
Alignment explanation
Indices: 49361715--49361743 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
49361705 ATGCTAGTGC
49361715 ATTATAATTTT
1 ATTATAATTTT
49361726 ATTATAATTTT
1 ATTATAATTTT
49361737 ATTATAA
1 ATTATAA
49361744 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:49365315 original size:19 final size:20
Alignment explanation
Indices: 49365277--49365315 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
49365267 AATAAATAGT
* *
49365277 TAATAATATATATTTTTAAA
1 TAATAATATAAATTTATAAA
49365297 TAATAA-ATAAATTTATAAA
1 TAATAATATAAATTTATAAA
49365316 AAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAATATAAATTTATAAA
Found at i:49368934 original size:18 final size:18
Alignment explanation
Indices: 49368911--49368948 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49368901 AATATATATT
49368911 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
49368929 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
49368947 AA
1 AA
49368949 TCATAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:49368941 original size:13 final size:13
Alignment explanation
Indices: 49368925--49368949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49368915 CAAGTACCCA
49368925 ACCCAACCCAATT
1 ACCCAACCCAATT
49368938 ACCCAACCCAAT
1 ACCCAACCCAAT
49368950 CATAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:49369021 original size:7 final size:6
Alignment explanation
Indices: 49368974--49369020 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
49368964 ATCATTTAAC
* *
49368974 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
49369021 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:49376774 original size:28 final size:28
Alignment explanation
Indices: 49376738--49376794 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
49376728 TACGGGTAGA
*
49376738 CACACGGGCGTGT-GTCTTGGCCGTGTGT
1 CACACGGGCATGTGGT-TTGGCCGTGTGT
* *
49376766 CACATGGGCATGTGGTTTGGTCGTGTGT
1 CACACGGGCATGTGGTTTGGCCGTGTGT
49376794 C
1 C
49376795 CCCTGCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.09, C:0.21, G:0.39, T:0.32
Consensus pattern (28 bp):
CACACGGGCATGTGGTTTGGCCGTGTGT
Found at i:49380542 original size:101 final size:101
Alignment explanation
Indices: 49380411--49380624 Score: 331
Period size: 101 Copynumber: 2.1 Consensus size: 101
49380401 CCATAGCCTT
* * *
49380411 ACCATGGTCTTACAATCGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCC
1 ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
**
49380476 TGCTATGATCTTACATATAAACACTGCCATGGTCCA
66 AACTATGATCTTACATATAAACACTGCCATGGTCCA
* * *
49380512 ACCATGGTCTTAC-GTCCATAGTGCTATAACCCAATTATGATCTTATCATCAAAATGTCATAGCC
1 ACCATGGTCTTACAAT-CATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCC
*
49380576 CAACTATGGTCTTACATATAAACACTGCCATGGTCCA
65 CAACTATGATCTTACATATAAACACTGCCATGGTCCA
49380613 ACCATGGTCTTA
1 ACCATGGTCTTA
49380625 TGTTTGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 102 0.99
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (101 bp):
ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
AACTATGATCTTACATATAAACACTGCCATGGTCCA
Found at i:49381742 original size:139 final size:139
Alignment explanation
Indices: 49381580--49382191 Score: 854
Period size: 139 Copynumber: 4.4 Consensus size: 139
49381570 ACAGTCCTTA
* *
49381580 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTAAAACAACATATTTTTCT
1 AAACAACA-ATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCT
* *
49381645 GCTGCATTAATACACCAAACATCAGTCCTTAAAACACCATAAATATAGTCACTTAGACAACATTA
65 GCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTA
49381710 ATTGACATCT
130 ATTGACATCT
* *
49381720 AAACAACAATTTTTCTGCTGCATTAATACACTAAACAACAGTCCTTAAAACAACATATTTTTTTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * *
49381785 CTGCATTAATACACCAAATAACAGTCCTTAAAATAGCATAAATATAGTCACTTAGGCAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
*** *
49381850 TTGATGCCA
131 TTGACATCT
* * * * *
49381859 AAACAACAATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTTAAAACAACATATTTTTCTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * *
49381924 CTACATTAATACACCAAACAGCAGTCCTTCAAAA-AAAATAAATACAGTCACTTAGACAACATTA
66 CTGCATTAATACACCAAACAACAGTCCTT-AAAACAACATAAATATAGTCACTTAGACAACATTA
49381988 ATTGACATCT
130 ATTGACATCT
** * * * * * * **
49381998 AAACAATGATTTTTCTACTGCATTAATACATCAAAGAGCAGTCCTTAAAATAATATATTTTTCCA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
*
49382063 CTGCATTAATACACCAAACAACAATCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
49382128 TTGACGA-CT
131 TTGAC-ATCT
*
49382137 AAAAAACAATTTTTCTGCTGCATTAATACACCAAA-AA-AGTCCTTAAAACAACATA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATA
49382192 AATACACCAC
Statistics
Matches: 413, Mismatches: 56, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
137 16 0.04
138 5 0.01
139 379 0.92
140 13 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (139 bp):
AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
TTGACATCT
Found at i:49381756 original size:91 final size:92
Alignment explanation
Indices: 49381505--49381777 Score: 297
Period size: 91 Copynumber: 2.9 Consensus size: 92
49381495 ATAAATTTAC
* ** * *
49381505 AGTCACTTAGATAACATTAATTGATGTCTAAACAAC-ATTTTTTTGCTGCATTAAAACACCAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
** *
49381569 AACAGTCCTTAAAACAACATATTTTTT
66 AACAGTCCTTAAAACAACATATAATAT
* * * *
49381596 TGCTGCA-TTAATACACCA--AA-TAACAGTCCTTAAAACAACATATTTTTCTGCTGCATTAATA
1 AG-T-CACTT-AGACAACATTAATTGACA-T-C-T-AAACAACA-ATTTTTCTGCTGCATTAATA
* *
49381657 CACCAAACATCAGTCCTTAAAACACCATA-AATAT
58 CACCAAACAACAGTCCTTAAAACAACATATAATAT
*
49381691 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACTAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
49381756 AACAGTCCTTAAAACAACATAT
66 AACAGTCCTTAAAACAACATAT
49381778 TTTTTTGCTG
Statistics
Matches: 147, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
90 2 0.01
91 50 0.34
92 12 0.08
93 17 0.12
94 11 0.07
95 6 0.04
96 49 0.33
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (92 bp):
AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
AACAGTCCTTAAAACAACATATAATAT
Found at i:49381817 original size:48 final size:48
Alignment explanation
Indices: 49381534--49381685 Score: 245
Period size: 48 Copynumber: 3.2 Consensus size: 48
49381524 ATTGATGTCT
*
49381534 AAACAAC--ATTTTTTTGCTGCATTAAAACACCAAACAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
49381580 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
* *
49381628 AAACAACATATTTTTCTGCTGCATTAATACACCAAACATCAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
49381676 AAACACCATA
1 AAACAACATA
49381686 AATATAGTCA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 7 0.07
48 91 0.93
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (48 bp):
AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
Found at i:49381934 original size:48 final size:47
Alignment explanation
Indices: 49381858--49381957 Score: 103
Period size: 48 Copynumber: 2.1 Consensus size: 47
49381848 AATTGATGCC
* * * * *
49381858 AAAACAACA-ATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTT
1 AAAACAACATATTTTT-TGCTGCATTAATACACCAAACAACAGTCCTT
* *
49381905 AAAACAACATATTTTTCTGCTACATTAATACACCAAACAGCAGTCCTT
1 AAAACAACATATTTTT-TGCTGCATTAATACACCAAACAACAGTCCTT
49381953 CAAAA
1 -AAAA
49381958 AAAATAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 9 0.20
48 33 0.72
49 4 0.09
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (47 bp):
AAAACAACATATTTTTTGCTGCATTAATACACCAAACAACAGTCCTT
Found at i:49390045 original size:14 final size:13
Alignment explanation
Indices: 49390019--49390103 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
49390009 TATCTGATGT
49390019 TCTATTTCATATA
1 TCTATTTCATATA
49390032 TCTATTTCCATATA
1 TCTATTT-CATATA
* * *
49390046 ACCAATTCATATA
1 TCTATTTCATATA
* *
49390059 -CCATTTTCGTATA
1 TCTA-TTTCATATA
*
49390072 ACTGA-TTCATATAA
1 TCT-ATTTCATAT-A
49390086 TC-ATTTCATATA
1 TCTATTTCATATA
49390098 T-TATTT
1 TCTATTT
49390104 TTCATATAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
12 10 0.18
13 33 0.58
14 13 0.23
15 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:49390071 original size:26 final size:27
Alignment explanation
Indices: 49390024--49390097 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
49390014 GATGTTCTAT
*
49390024 TTCATATATCTATTTCCATATAACCAA
1 TTCATATATCCATTTCCATATAACCAA
* * **
49390051 TTCATATA-CCATTTTCGTATAACTGA
1 TTCATATATCCATTTCCATATAACCAA
49390077 TTCATATAAT-CATTT-CATATA
1 TTCATAT-ATCCATTTCCATATA
49390098 TTATTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (27 bp):
TTCATATATCCATTTCCATATAACCAA
Found at i:49390124 original size:40 final size:39
Alignment explanation
Indices: 49390023--49390149 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
49390013 TGATGTTCTA
* * **
49390023 TTTCATATATCTATTTCCATATAACCAATTCATATACCA-T
1 TTTCATATAACTATTT--ATATAACCATTTCATATATTATT
* * *
49390063 TTTCGTATAACTGATTCATATAATCATTTCATATATTATT
1 TTTCATATAACT-ATTTATATAACCATTTCATATATTATT
* *
49390103 TTTCATATAACCTATTTATATAACCATTACCTATATTATT
1 TTTCATATAA-CTATTTATATAACCATTTCATATATTATT
49390143 TTTCATA
1 TTTCATA
49390150 AACATTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 17 0.24
40 50 0.69
41 5 0.07
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (39 bp):
TTTCATATAACTATTTATATAACCATTTCATATATTATT
Found at i:49390310 original size:40 final size:40
Alignment explanation
Indices: 49390245--49390349 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
49390235 CCAATGTTCT
* * *
49390245 ATTTCATTTATCTATTTTCCATATAATTGATTCATATAACC
1 ATTTCATATATC-ATTTTTCATATAACTGATTCATATAACC
*
49390286 ATTTCATATATCATTTTTCATATAACTGATTCATATAACG
1 ATTTCATATATCATTTTTCATATAACTGATTCATATAACC
* * *
49390326 ACTACCTATATCATTTTTCATATA
1 ATTTCATATATCATTTTTCATATA
49390350 CATATTTATC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 46 0.81
41 11 0.19
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (40 bp):
ATTTCATATATCATTTTTCATATAACTGATTCATATAACC
Found at i:49390324 original size:13 final size:13
Alignment explanation
Indices: 49390264--49390324 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
49390254 ATCTATTTTC
*
49390264 CATATAATTGATT
1 CATATAACTGATT
*
49390277 CATATAAC-CATTT
1 CATATAACTGA-TT
* **
49390290 CATATATCATTTTT
1 CATATAAC-TGATT
49390304 CATATAACTGATT
1 CATATAACTGATT
49390317 CATATAAC
1 CATATAAC
49390325 GACTACCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
12 1 0.03
13 27 0.73
14 9 0.24
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (13 bp):
CATATAACTGATT
Found at i:49396922 original size:8 final size:8
Alignment explanation
Indices: 49396906--49396961 Score: 76
Period size: 8 Copynumber: 7.0 Consensus size: 8
49396896 AACTGCAAAG
49396906 GCTGAAAA
1 GCTGAAAA
*
49396914 GCCGAAAA
1 GCTGAAAA
*
49396922 GCTGAAAG
1 GCTGAAAA
49396930 GCTGAAAA
1 GCTGAAAA
* *
49396938 GCCGAAAG
1 GCTGAAAA
49396946 GCTGAAAA
1 GCTGAAAA
49396954 GCTGAAAA
1 GCTGAAAA
49396962 AGTGGGTTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.29, T:0.09
Consensus pattern (8 bp):
GCTGAAAA
Found at i:49396929 original size:24 final size:24
Alignment explanation
Indices: 49396902--49396961 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
49396892 GTGAAACTGC
49396902 AAAGGCTGAAAAGCCGAAAAGCTG
1 AAAGGCTGAAAAGCCGAAAAGCTG
*
49396926 AAAGGCTGAAAAGCCGAAAGGCTG
1 AAAGGCTGAAAAGCCGAAAAGCTG
*
49396950 AAAAGCTGAAAA
1 AAAGGCTGAAAA
49396962 AGTGGGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.08
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGCTG
Found at i:49405178 original size:26 final size:26
Alignment explanation
Indices: 49405149--49405204 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
49405139 TGATACAAAT
49405149 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49405175 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49405201 TGAT
1 TGAT
49405205 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49406832 original size:27 final size:27
Alignment explanation
Indices: 49406792--49406986 Score: 231
Period size: 27 Copynumber: 7.2 Consensus size: 27
49406782 AGGAAGCGTC
*
49406792 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
49406819 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
49406845 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
49406873 CTGATGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
49406899 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
49406927 CTGATGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
49406954 CTGGTGCCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
49406981 CTGGTG
1 CTGGTG
49406987 ACTTCGTCAC
Statistics
Matches: 145, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
26 14 0.10
27 124 0.86
28 7 0.05
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49406871 original size:54 final size:54
Alignment explanation
Indices: 49406789--49406983 Score: 338
Period size: 54 Copynumber: 3.6 Consensus size: 54
49406779 TGGAGGAAGC
*
49406789 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
49406843 GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
49406897 GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
* * *
49406951 GTTCTGGTGCCTCTGCCACAA-TATCTGTATCTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTG
49406984 GTGACTTCGT
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
53 6 0.04
54 130 0.96
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCT
Found at i:49411570 original size:26 final size:26
Alignment explanation
Indices: 49411541--49411648 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49411531 TGGTACAAAT
49411541 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49411567 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49411593 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49411619 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49411645 TGAT
1 TGAT
49411649 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49412840 original size:8 final size:8
Alignment explanation
Indices: 49412827--49412856 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
49412817 AGATCGGCAC
49412827 AAGCCGAA
1 AAGCCGAA
49412835 AAGCCGAA
1 AAGCCGAA
*
49412843 ATGCCGAA
1 AAGCCGAA
49412851 AAGCCG
1 AAGCCG
49412857 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:49413285 original size:27 final size:27
Alignment explanation
Indices: 49413246--49413332 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
49413236 AGGAAGCGTC
*
49413246 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCCATGCCACAATTATCTGAT
*
49413273 CTGGTGGCCATGCCAC-ATATATCTGTT
1 CTGGTGGCCATGCCACAAT-TATCTGAT
49413300 CTGGTGGCTC-TGCCACAA-TATCTGTAT
1 CTGGTGGC-CATGCCACAATTATCTG-AT
49413327 CTGGTG
1 CTGGTG
49413333 ACACCGTCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 8 0.15
27 43 0.81
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCATGCCACAATTATCTGAT
Found at i:49413343 original size:27 final size:26
Alignment explanation
Indices: 49413257--49413350 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 26
49413247 TGGTGGCTAT
* * *
49413257 GCCACAATTATCTGATCTGGTGGC-CAT
1 GCCACAA-TATCTGTTCTGGTGACAC-C
* * *
49413284 GCCACATATATCTGTTCTGGTGGCTCT
1 GCCACA-ATATCTGTTCTGGTGACACC
49413311 GCCACAATATCTGTATCTGGTGACACC
1 GCCACAATATCTGT-TCTGGTGACACC
*
49413338 GTCACAATATCTG
1 GCCACAATATCTG
49413351 GCAGCCTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.14
27 49 0.83
28 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGTGACACC
Found at i:49414400 original size:14 final size:14
Alignment explanation
Indices: 49414381--49414410 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49414371 AACTCTTAAT
*
49414381 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
49414395 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
49414409 CT
1 CT
49414411 TCAGGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:49414542 original size:45 final size:45
Alignment explanation
Indices: 49414484--49414706 Score: 226
Period size: 45 Copynumber: 5.0 Consensus size: 45
49414474 GTGACTTCGA
49414484 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
* * *
49414529 TCTGCTCCACTGCAAATTTAGGGAGATAAGA-CTTGGGTAAT-TTTA-
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATC-T-GCT-ATCTTCAG
* * ** *
49414574 TCCTGCTCTACTGCAACTTTAGAGAGATAAGGAT-TG-TGGCTTCAA
1 T-CTGCTCCACTGCAACTTTAGGGAGATAA-GATCTGCTATCTTCAG
* * *
49414619 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTATGCTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
* *
49414664 TTTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGCTA-CTTCA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATC-TGCTATCTTCA
49414707 ACCCGCTCTG
Statistics
Matches: 148, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 37 0.25
45 74 0.50
46 31 0.21
47 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
Found at i:49414595 original size:46 final size:44
Alignment explanation
Indices: 49414395--49414694 Score: 173
Period size: 45 Copynumber: 6.7 Consensus size: 44
49414385 TCTACTGCAA
* * * *
49414395 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTAT
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGGGTAATTTTAT
* * * * ** * * * **
49414440 CCTACTCTATTGCAACTTCATAGAGATACGGATTGTG-ACTTCGAT
1 -CTGCTCCACTGCAACTTTAGGGAGATA-AGATTGGGTAATTTTAT
* *
49414485 CTGCTCCACTGCAACTTTAGGGAGATAAGATCT-GCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGGGTAAT-TTTA-T
*
49414530 CTGCTCCACTGCAAATTTAGGGAGATAAGACTTGGGTAATTTTAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGGGTAATTTTAT
* * * **
49414575 CCTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGG--CTTCAAT
1 -CTGCTCCACTGCAACTTTAGGGAGATAA-GATTG-GGTAATTTTAT
* * * *
49414620 CTGCTCCACTGCAACTTCAGGGAGATAAGGTAT-GCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGGGTAAT-TTTA-T
* *
49414665 TTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA
49414695 CTTGCTACTT
Statistics
Matches: 197, Mismatches: 42, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 52 0.26
45 70 0.36
46 61 0.31
47 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATTGGGTAATTTTAT
Found at i:49414622 original size:135 final size:135
Alignment explanation
Indices: 49414395--49414738 Score: 458
Period size: 135 Copynumber: 2.6 Consensus size: 135
49414385 TCTACTGCAA
** * *
49414395 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTACTCTATTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
* * * * *
49414460 TAGAGATACGGATTGTGACTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCT
66 GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
49414525 TCAGT
131 TCAGT
* * * * *
49414530 CTGCTCCACTGCAAATTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTTA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
* *
49414595 GAGAGATAAGGATTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTATGCTATCT
66 GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
49414660 TCAGT
131 TCAGT
* * * * ** **
49414665 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGC-T-ACTTCAACCCGCTCTGTTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
49414728 GAGAGATAAGG
66 GAGAGATAAGG
49414739 TTTGCTATGA
Statistics
Matches: 182, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
133 31 0.17
134 1 0.01
135 150 0.82
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (135 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
TCAGT
Found at i:49414707 original size:89 final size:86
Alignment explanation
Indices: 49414395--49414746 Score: 253
Period size: 89 Copynumber: 3.9 Consensus size: 86
49414385 TCTACTGCAA
* * * ** * * *
49414395 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTACTCTATTGCAACTTCA
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGC-TACTTCAAT-CTGCTCCACTGCAACTTCA
** * *
49414460 TAGAGATACGGATTG-TGACTTCGAT-
63 GGGAGATAAGG-TTGCT-ATTTC-ATC
* * *
49414485 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAATTTAG
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGCTA-CTTCAATCTGCTCCACTGCAACTTCAG
* * *
49414550 GGAGATAAGACTTGGGTAATTTTATC
64 GGAGATAAG-GTT-GCT-ATTTCATC
* * *
49414576 CTGCTCTACTGCAACTTTAGAGAGATAAGGATTG-TGGCTTCAATCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGCT-ACTTCAATCTGCTCCACTGCAACTTCAG
49414640 GGAGATAAGGTATGCTATCTTCAGT-
64 GGAGATAAGGT-TGCTAT-TTCA-TC
* * * * *** *
49414665 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCCGCTCTGTTGCAACTTCAGA
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGCTACTTCAATCTGCTCCACTGCAACTTCAGG
49414730 GAGATAAGGTTTGCTAT
65 GAGATAAGG-TTGCTAT
49414747 GATGACTTAA
Statistics
Matches: 210, Mismatches: 38, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
88 4 0.02
89 97 0.46
90 74 0.35
91 32 0.15
92 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (86 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATTGCTACTTCAATCTGCTCCACTGCAACTTCAGGG
AGATAAGGTTGCTATTTCATC
Found at i:49414744 original size:44 final size:44
Alignment explanation
Indices: 49414386--49414745 Score: 249
Period size: 44 Copynumber: 8.1 Consensus size: 44
49414376 TTAATCTGCT
* *
49414386 CTACTGCAA-CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
1 CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* ** * * * * * *
49414429 CGTATTTTTATCCTACTCTATTGCAACTTCATAGAGATACGGATTG
1 C-TACTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * * *
49414475 -TGACTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTG
1 CT-ACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * * * *
49414519 CTATCTTCAGTCTGCTCCACTGCAAATTTAGGGAGATAAGACTTGG
1 CTA-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG-GTTTG
* * ** * * *
49414565 GTAATTTTATCCTGCTCTACTGCAACTTTAGAGAGATAAGGATTG
1 CTACTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * *
49414610 -TGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTATG
1 CT-ACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * **
49414654 CTATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
1 CTA-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * ***
49414699 CTACTTCAACCCGCTCTGTTGCAACTTCAGAGAGATAAGGTTTG
1 CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
49414743 CTA
1 CTA
49414746 TGATGACTTA
Statistics
Matches: 240, Mismatches: 66, Indels: 21
0.73 0.20 0.06
Matches are distributed among these distances:
43 1 0.00
44 94 0.39
45 88 0.37
46 57 0.24
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
Found at i:49417174 original size:20 final size:21
Alignment explanation
Indices: 49417151--49417192 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
49417141 GTTACATACG
*
49417151 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
49417171 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
49417192 T
1 T
49417193 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:49417271 original size:21 final size:21
Alignment explanation
Indices: 49417242--49417281 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49417232 ATTCATGTAT
*
49417242 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
49417263 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
49417282 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:49417381 original size:24 final size:25
Alignment explanation
Indices: 49417354--49417404 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
49417344 ATGTGTGTAC
49417354 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
49417378 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
49417403 AT
1 AT
49417405 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:49421313 original size:4 final size:4
Alignment explanation
Indices: 49421306--49421333 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
49421296 GACATTTATG
49421306 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
49421334 GCATATCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:49428398 original size:40 final size:39
Alignment explanation
Indices: 49428354--49428473 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 39
49428344 AAATATTATG
49428354 CTTAAAAAAGGAA-ATCAAGATGAAAACCCGAAAAGGGCAT
1 CTTAAAAAA--AAGATCAAGATGAAAACCCGAAAAGGGCAT
* *
49428394 CTTAAAAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGT
1 CTTAAAAAAAAGATCAAGATGAAAACCCGAAAAGGGCAT
* *
49428433 CTTGATTAACACAAAAGATTAGGATGAAAACCCG-AAAGGGC
1 CTT-A--AA-A-AAAAGATCAAGATGAAAACCCGAAAAGGGC
49428474 GTTCTAATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
38 2 0.03
39 28 0.41
40 10 0.14
42 2 0.03
43 8 0.12
44 19 0.28
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (39 bp):
CTTAAAAAAAAGATCAAGATGAAAACCCGAAAAGGGCAT
Found at i:49429637 original size:178 final size:179
Alignment explanation
Indices: 49429427--49430198 Score: 803
Period size: 178 Copynumber: 4.2 Consensus size: 179
49429417 TATGTTTCAA
* * *
49429427 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
49429492 -AATTTC-TGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTG
66 TAATTTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
49429555 AGGTATTTTCAATTTCTATTCTTTCAATTTCTGTTTTAATTCATGTTTTC
131 AGGTATTTTCAATTTCT-TTCTTTCAATTTCTGTTTTAATTCATGTTTTC
*
49429605 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** *
49429670 T-ATTTC-TGCTTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGAAACGCTG
66 TAATTTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * * * * ** * * ** * *
49429733 AGGGA-GTTGAGCCTTGGCTCGCATGTCGAGGTAT-TTTCAATTTC-TGTTTTTC
131 AGGTATTTTCA--ATT-TCTTTC-TTTCAATTTCTGTTTTAA-TTCATG-TTTTC
* * * * * *
49429785 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTC-GGCTCACATGATGGGGT-ATTTCCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTT-CAA
49429848 TTTCTGTTTTAA-TTCATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
62 TTTC-----TAATTTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
49429911 GACACGCTGAGGTATTTTCAATTTCTGTTCTTGCAATTTCTATTTTAATTCATGTTTTC
122 GACACGCTGAGGTATTTTCAATTTCT-TTCTTTCAATTTCTGTTTTAATTCATGTTTTC
*
49429970 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
49430035 TGTTATTTTCCAAT-CTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 ---TAATTT-C-ATGC-----TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * * ** ** *
49430099 GGCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTACTTTTC
121 GG-ACACGCTGAGGTATTTTCAATTTCTTTCTTTCAATTTCTG-TTTTAATTCAT-GTTTTC
*
49430161 AAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
49430199 TGGCTCGCAT
Statistics
Matches: 492, Mismatches: 65, Indels: 60
0.80 0.11 0.10
Matches are distributed among these distances:
177 3 0.01
178 125 0.25
179 12 0.02
180 50 0.10
181 8 0.02
182 18 0.04
183 17 0.03
184 5 0.01
185 50 0.10
186 12 0.02
187 59 0.12
188 6 0.01
189 55 0.11
190 31 0.06
191 10 0.02
192 31 0.06
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (179 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TAATTTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTTTCAATTTCTTTCTTTCAATTTCTGTTTTAATTCATGTTTTC
Found at i:49430016 original size:99 final size:97
Alignment explanation
Indices: 49429845--49430198 Score: 452
Period size: 99 Copynumber: 3.6 Consensus size: 97
49429835 GGGGTATTTC
*
49429845 CAATTTCTGTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 CAATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
49429910 GGACACGCTGAGGTATTTTCAATTTCTGTTCTT
66 GGACACGCTGAGGTATTTTCAATTTCTG-TCTT
49429943 GCAATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 -CAATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
49430008 AGGACACGCTGAGGTATTTTCAATTTCTG--TT
65 AGGACACGCTGAGGTATTTTCAATTTCTGTCTT
* * * * *
49430039 -ATTTTCCAATCT-A-T-AT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 CAATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
49430099 GGCACATGCCGAGGTATTTTCAAATTCTGTCTTT
66 GG-ACACGCTGAGGTATTTTCAATTTCTGTC-TT
** * ** * *
49430133 CAAACTCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 CAATTTCT-ATTTTAATTCAT-GTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCC
49430198 T
63 T
49430199 TGGCTCGCAT
Statistics
Matches: 225, Mismatches: 18, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
90 45 0.20
91 25 0.11
92 1 0.00
93 1 0.00
94 10 0.04
95 3 0.01
96 4 0.02
97 1 0.00
98 1 0.00
99 93 0.41
101 10 0.04
102 31 0.14
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (97 bp):
CAATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACGCTGAGGTATTTTCAATTTCTGTCTT
Found at i:49430279 original size:75 final size:75
Alignment explanation
Indices: 49430156--49430395 Score: 302
Period size: 86 Copynumber: 3.0 Consensus size: 75
49430146 TAATTTTTAC
* * * * *
49430156 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATG-TCGAGGTATT
1 TTTTCAAAAA-TCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGAT-GGGGTATT
*
49430220 TTCAATTTCTGT
64 TCCAATTTCTGT
49430232 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
49430297 CAATTTCTGTTTTAATTCAT
66 CAATTTCTG----------T
49430317 GTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTT
1 -TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTT
49430382 CCAATTTCTGT
65 CCAATTTCTGT
49430393 TTT
1 TTT
49430396 AATTCATGTT
Statistics
Matches: 146, Mismatches: 6, Indels: 25
0.82 0.03 0.14
Matches are distributed among these distances:
75 59 0.40
76 12 0.08
85 1 0.01
86 74 0.51
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (75 bp):
TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
CAATTTCTGT
Found at i:49430377 original size:86 final size:86
Alignment explanation
Indices: 49430232--49430427 Score: 392
Period size: 86 Copynumber: 2.3 Consensus size: 86
49430222 CAATTTCTGT
49430232 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
49430297 CAATTTCTGTTTTAATTCATG
66 CAATTTCTGTTTTAATTCATG
49430318 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
49430383 CAATTTCTGTTTTAATTCATG
66 CAATTTCTGTTTTAATTCATG
49430404 TTTTCAAAAATCAACTCATATTGC
1 TTTTCAAAAATCAACTCATATTGC
49430428 GAGAGGATCA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 110 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
CAATTTCTGTTTTAATTCATG
Found at i:49431119 original size:97 final size:98
Alignment explanation
Indices: 49431017--49431211 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 98
49431007 ACCACTACCC
* *
49431017 AACATCTCCAACAACCCATCAACTAAACTAAACCTACCCAAACCCATTTACAGCCAGACTCATAC
1 AACATCTCCAACAACCCATCAACTAAACTAAACCTACCCAAACCCATTTACAACCAGACCCATAC
49431082 CCGGAA-CCATTTACAAATCAAACCCCAATTAT
66 CCGGAACCCATTTACAAATCAAACCCCAATTAT
*
49431114 AACATCTCCAACAACCCATCAACTAAACTGAACCTACCCAAACCCATTTACAACCAGACCCATAC
1 AACATCTCCAACAACCCATCAACTAAACTAAACCTACCCAAACCCATTTACAACCAGACCCATAC
49431179 CCGGAACCCATTTACAAATCAAACCCCAATTAT
66 CCGGAACCCATTTACAAATCAAACCCCAATTAT
49431212 TTATAACCCA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 68 0.72
98 26 0.28
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.18
Consensus pattern (98 bp):
AACATCTCCAACAACCCATCAACTAAACTAAACCTACCCAAACCCATTTACAACCAGACCCATAC
CCGGAACCCATTTACAAATCAAACCCCAATTAT
Found at i:49432366 original size:20 final size:21
Alignment explanation
Indices: 49432343--49432384 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
49432333 GTTATATACG
*
49432343 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
49432363 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
49432384 T
1 T
49432385 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:49432463 original size:21 final size:21
Alignment explanation
Indices: 49432434--49432473 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49432424 ATTCATGTAT
*
49432434 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
49432455 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
49432474 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:49432573 original size:24 final size:25
Alignment explanation
Indices: 49432546--49432596 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
49432536 ATGTGTGTAC
49432546 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
49432570 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
49432595 AT
1 AT
49432597 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:49440557 original size:34 final size:33
Alignment explanation
Indices: 49440509--49440588 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
49440499 GTGTTTGCAT
* *
49440509 ACTGTACTGAAATGGGCT-AAGGTCCAGACTGCC
1 ACTGTACTGTAATGGGATCAA-GTCCAGACTGCC
**
49440542 ACTGATACTGTAATGGGATCAAGTCCAGACTGTT
1 ACTG-TACTGTAATGGGATCAAGTCCAGACTGCC
49440576 ACTGCTACTGTAA
1 ACTG-TACTGTAA
49440589 GAGGGGCTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 4 0.10
34 34 0.85
35 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTGTACTGTAATGGGATCAAGTCCAGACTGCC
Found at i:49441486 original size:28 final size:28
Alignment explanation
Indices: 49441417--49441472 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
49441407 TTAATGTTTT
*
49441417 AAATCTTTTAATATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
49441445 AAATCTTTTAAAATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
49441473 TATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATCTTTTAAAATAATTTAATATAAAA
Found at i:49441553 original size:23 final size:25
Alignment explanation
Indices: 49441501--49441559 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
49441491 GAAAATATGA
*
49441501 AATAAAATATTCTAATATAATTTAT
1 AATAAAATATTCAAATATAATTTAT
49441526 AATAAAATATT-AAAT-TAATTTGAT
1 AATAAAATATTCAAATATAATTT-AT
49441550 -ATAAAATATT
1 AATAAAATATT
49441560 TGATATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.50
24 5 0.16
25 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AATAAAATATTCAAATATAATTTAT
Found at i:49441580 original size:21 final size:21
Alignment explanation
Indices: 49441556--49441611 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
49441546 TGATATAAAA
*
49441556 TATTTGATATTTAAATATTAT
1 TATTTGATATTAAAATATTAT
**
49441577 TATTTTGATAGAAAAATATTAT
1 TA-TTTGATATTAAAATATTAT
* *
49441599 TCTTTAATATTAA
1 TATTTGATATTAA
49441612 CTTGACGTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTTGATATTAAAATATTAT
Found at i:49445030 original size:29 final size:27
Alignment explanation
Indices: 49444994--49445052 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
49444984 GCTCTTTTTT
*
49444994 ATTTTTTTGAATTTTTATAATTTTATAA
1 ATTTTTTTGAATTTTTATAAATTT-TAA
*
49445022 ATTTCTTTTGTATTTTTATAAATTTTAA
1 ATTT-TTTTGAATTTTTATAAATTTTAA
49445050 ATT
1 ATT
49445053 ATTTATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
ATTTTTTTGAATTTTTATAAATTTTAA
Found at i:49445509 original size:31 final size:34
Alignment explanation
Indices: 49445474--49445537 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 34
49445464 TAACATTATA
*
49445474 AAAATATAGAGA-TAAAT-TTATA-TTAAAAATT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAATT
49445505 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
49445538 AATAGAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 12 0.41
32 5 0.17
33 4 0.14
34 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (34 bp):
AAAATATAGAGATTAAATCTTAAATTTAAAAATT
Found at i:49458159 original size:12 final size:11
Alignment explanation
Indices: 49458138--49458164 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49458128 AAAAATATCA
49458138 AAAATATTTTT
1 AAAATATTTTT
49458149 AAAATATTTTT
1 AAAATATTTTT
49458160 AAAAT
1 AAAAT
49458165 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:49458195 original size:19 final size:19
Alignment explanation
Indices: 49458149--49458197 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
49458139 AAATATTTTT
* * *
49458149 AAAATATTTTTAAAATTTA
1 AAAATAATTATAAAAATTA
49458168 AAAATAATTATAAAAATTA
1 AAAATAATTATAAAAATTA
49458187 TAAAA-AATTAT
1 -AAAATAATTAT
49458198 TTTAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTATAAAAATTA
Found at i:49463398 original size:26 final size:26
Alignment explanation
Indices: 49463369--49463476 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49463359 TGGTACAAAT
49463369 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49463395 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49463421 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49463447 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49463473 TGAT
1 TGAT
49463477 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49472244 original size:46 final size:47
Alignment explanation
Indices: 49472095--49472306 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 47
49472085 TTATTTGTGT
*
49472095 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCACATA-ATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCA-AGATGTAGA
* * * ** **
49472141 GCCAGTGTAAGACTATGTCTTGGACATGGCATCGACATTGAGA-CAAGA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAACCTCAAGATGTAGA
* **
49472189 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATGTAGA
* *
49472235 GCCAGTGTAAGACATGTCTGGGACATGCAT-TAGCTACAAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCT-CAAGATGTAGA
*
49472279 GTCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
49472307 GCATTGACAC
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 62 0.45
47 26 0.19
48 23 0.17
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATGTAGA
Found at i:49472402 original size:50 final size:51
Alignment explanation
Indices: 49472098--49472600 Score: 262
Period size: 48 Copynumber: 10.5 Consensus size: 51
49472088 TTTGTGTGCC
* * * *
49472098 AGTGTAAGA-CATGTCTGGGACATG-CATCAACCAC--ATA-ATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTGAGAGCT
* * * *
49472144 AGTGTAAGACTATGTCTTGGACATGGCATC-G--AC--AT-TGAGACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTG---AGAGCT
* * * *
49472192 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCT-C-AAGATGT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCAG-CTACGGATATGTGAGAGCT
* * * *
49472238 AGTGTAAGA-CATGTCTGGGACATG-CATTAGCTAC-AAGATGT--G-TC-
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTGAGAGCT
* * * ** *
49472282 AGTGTAAGACCATGTCTGGGACATGGCAT-TGAC-ACGTATA-AAG-GTGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAG-CTACGGATATGTGAGAGCT
*
49472330 AATGTAAGACCATGTCTGGGACATGACATCAG-TACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTGAGAGCT
* * * * *
49472380 AGTGTAAGACCATGTCTGGGACATGTCGTTAGCCT-C-GAT-T-TCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGACATCAG-CTACGGATATGT-GAGAGCT
* * * ** *
49472429 AGTGTAAGACCATGTCTGGGACATGGCAT-TGAC-ACGTATA-AAG-GTGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAG-CTACGGATATGTGAGAGCT
*
49472477 AATGTAAGACCATGTCTGGGACATGACATCAG-TACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTGAGAGCT
* * * * *
49472527 AGTGTAAGACCATGTCTGGGACATGTCGTTAGCCT-C-GAT-T-TCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGACATCAG-CTACGGATATGT-GAGAGCT
49472576 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
49472601 GCATTGACTT
Statistics
Matches: 363, Mismatches: 55, Indels: 75
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.02
45 26 0.07
46 59 0.16
47 29 0.08
48 91 0.25
49 72 0.20
50 71 0.20
51 4 0.01
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (51 bp):
AGTGTAAGACCATGTCTGGGACATGACATCAGCTACGGATATGTGAGAGCT
Found at i:49472450 original size:49 final size:49
Alignment explanation
Indices: 49472188--49472605 Score: 252
Period size: 49 Copynumber: 8.7 Consensus size: 49
49472178 TTGAGACAAG
** *
49472188 AGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCAAGATGT--A-
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTC--GATTTCGAT
* *
49472234 AGCCAGTGTAAGA-CATGTCTGGGACATG-CATTAG-CTACAAGATGT-G-T
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCT-C--GATTTCGAT
* * * *** *
49472281 --C-AGTGTAAGACCATGTCTGGGACATGGCATT-GACACGTATAAAGGT
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTCG-ATTTCGAT
* * * *
49472327 -GCTAATGTAAGACCATGTCTGGGACATGACATCAG--TACGGATATGT-GAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCT-C-GAT-T-TCGAT
*
49472376 AGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAGCCTCGATTTCGAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTCGATTTCGAT
* * * * *** *
49472425 AGTTAGTGTAAGACCATGTCTGGGACATGGCATT-GACACGTATAAAGGT
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTCG-ATTTCGAT
* * * *
49472474 -GCTAATGTAAGACCATGTCTGGGACATGACATCAG--TACGGATATGT-GAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCT-C-GAT-T-TCGAT
*
49472523 AGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAGCCTCGATTTCGAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTCGATTTCGAT
* *
49472572 AGTTAGTGTAAGACCATGTCTGGGACATGGCATT
1 AGCTAGTGTAAGACCATGTCTGGGACATGTCATT
49472606 GACTTGATGG
Statistics
Matches: 297, Mismatches: 45, Indels: 57
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 21 0.07
46 45 0.15
47 1 0.00
48 68 0.23
49 78 0.26
50 68 0.23
51 2 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (49 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGTCATTAGCCTCGATTTCGAT
Found at i:49472460 original size:147 final size:147
Alignment explanation
Indices: 49472282--49472608 Score: 654
Period size: 147 Copynumber: 2.2 Consensus size: 147
49472272 AAGATGTGTC
49472282 AGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAAAGGTGCTAATGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAAAGGTGCTAATGTAAGACCATGTCT
49472347 GGGACATGACATCAGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAG
66 GGGACATGACATCAGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAG
49472412 CCTCGATTTCGATAGTT
131 CCTCGATTTCGATAGTT
49472429 AGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAAAGGTGCTAATGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAAAGGTGCTAATGTAAGACCATGTCT
49472494 GGGACATGACATCAGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAG
66 GGGACATGACATCAGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAG
49472559 CCTCGATTTCGATAGTT
131 CCTCGATTTCGATAGTT
49472576 AGTGTAAGACCATGTCTGGGACATGGCATTGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGAC
49472609 TTGATGGATG
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 180 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (147 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAAAGGTGCTAATGTAAGACCATGTCT
GGGACATGACATCAGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGTCGTTAG
CCTCGATTTCGATAGTT
Found at i:49494428 original size:30 final size:32
Alignment explanation
Indices: 49494394--49494466 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 32
49494384 TATTAAACTA
*
49494394 ATATAATATAATATAATAA-TA-ATATTTTAT
1 ATATAATATAATATAATAAGTATATATTTAAT
* *
49494424 ATATACT-TAA-ATATTAAGTATATATTTAAT
1 ATATAATATAATATAATAAGTATATATTTAAT
49494454 ATA-AATA-AATATA
1 ATATAATATAATATA
49494467 TATATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
28 6 0.17
29 9 0.26
30 20 0.57
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATAATATAATATAATAAGTATATATTTAAT
Found at i:49494603 original size:23 final size:23
Alignment explanation
Indices: 49494576--49494622 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
49494566 AACTTTCATC
49494576 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
49494599 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
49494622 C
1 C
49494623 CTAATTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (23 bp):
CTTTATTCGATTTAATCCTTATA
Found at i:49495154 original size:58 final size:58
Alignment explanation
Indices: 49495090--49495218 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 58
49495080 CTTCACGAAT
* * * **
49495090 CCTTTGGGCTCTTAACAAAGTTGAGGTATATCTTCATTATTCAAGCCCCTCTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
* ** * ** *
49495148 CTTTTGGGCTCTCAGTAGAGATGAGGCATATCTTCAACATTGGAGCCCCTTTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
49495206 CCTTTGGGCTCTC
1 CCTTTGGGCTCTC
49495219 GGTAGAGGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (58 bp):
CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
Found at i:49497345 original size:59 final size:59
Alignment explanation
Indices: 49497274--49497455 Score: 188
Period size: 67 Copynumber: 2.9 Consensus size: 59
49497264 GTTGCAACTA
*
49497274 TATTCTGAAATTAAAAAAAAATTGATAATTAAACTAAATTTAAGAAATAATTAGGCCGC
1 TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
* * *
49497333 TATTCTGAAATTAAAAAATATATATTGTATTGATAACTAAATTAAATTTAATAAATAATTAGGCG
1 TATTCTGAAATT-AAAAA-A-A-A----ATTGATAATTAAATTAAATTTAAGAAATAATTAGGCC
49497398 GC
58 GC
* * * *
49497400 TATTCTAAAACT-AAAAAAAGTTGTCATAATTAAATTAAATTTAAG-AATAACTAGGC
1 TATTCTGAAATTAAAAAAAAATTG--ATAATTAAATTAAATTTAAGAAATAATTAGGC
49497456 GGGATTTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
58 3 0.03
59 22 0.21
60 23 0.22
61 1 0.01
62 2 0.02
63 2 0.02
64 1 0.01
65 4 0.04
67 45 0.44
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (59 bp):
TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
Found at i:49498883 original size:103 final size:104
Alignment explanation
Indices: 49498761--49498965 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 104
49498751 ATTTTGGCCT
49498761 TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAA-TAATTTAAACTCAATGGTCT
1 TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAATTAATTT-AACTCAATGGTCT
* *
49498825 C-TCTTTGCTTTTGGCAACA-CATAGTGATAGCTTTAGCCA
65 CTTCTTTGCTTTTGGCAA-AGCATAATGATAACTTTAGCCA
** *
49498864 TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAATTGCTTTAACTTAATGGTCTC
1 TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAATTAATTTAACTCAATGGTCTC
49498929 TTATCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
66 -T-TCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
49498966 ACTGAGGCCA
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
103 57 0.62
104 4 0.04
105 1 0.01
106 30 0.33
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (104 bp):
TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAATTAATTTAACTCAATGGTCTC
TTCTTTGCTTTTGGCAAAGCATAATGATAACTTTAGCCA
Found at i:49501603 original size:22 final size:22
Alignment explanation
Indices: 49501578--49501621 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49501568 TAGTCATATA
49501578 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
49501600 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
49501622 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:49501657 original size:13 final size:14
Alignment explanation
Indices: 49501641--49501682 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
49501631 TTTCAATTTT
49501641 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
49501654 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
49501669 ATTTTAAATAATAT
1 ATTTT-AATAATAT
49501683 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:49501667 original size:16 final size:16
Alignment explanation
Indices: 49501645--49501681 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
49501635 AATTTTATTT
49501645 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
49501662 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
49501677 TAATA
1 TAATA
49501682 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:49502269 original size:14 final size:14
Alignment explanation
Indices: 49502231--49502269 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
49502221 CCAGAAAAAT
*
49502231 AAATCATTTTCCAG
1 AAATCATTTTTCAG
49502245 AAATCATTTTTC-G
1 AAATCATTTTTCAG
49502258 AAAGTCATTTTT
1 AAA-TCATTTTT
49502270 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:49502619 original size:59 final size:59
Alignment explanation
Indices: 49502504--49502621 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 59
49502494 TTTTAATAGG
* ****
49502504 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATTTAATAATATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
*
49502563 ATTATTATTAAAATATGAA-TTAATAAAAAT-AAAAAT-ATATAATATTAGAAAATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAAAAATAATATAATAATA-AAAATAATATA
49502622 TAACCTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
58 9 0.18
59 22 0.44
60 17 0.34
61 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
Found at i:49511029 original size:46 final size:46
Alignment explanation
Indices: 49510919--49511089 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
49510909 ACATTATGAG
* * *
49510919 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTAAGACGA
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCAACGGCATGAAGACGA
* * *
49510966 AGGCTAGTGTAAGACATGTCTGGGACAT-TCAACGGCCTCGAA-ACGTA
1 A-GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCAT-GAAGACG-A
* * *
49511013 AGCCAGTGTAAGACATGTCTAGGA-AT-GCATCGG-AT-ACGAGATGA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCAACGGCATGA--AGACGA
* *
49511057 TTGTCAGTGTAAGACCATGTCTGGGACATGGCA
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCA
49511090 TCGACTTGAG
Statistics
Matches: 99, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
44 3 0.03
45 20 0.20
46 41 0.41
47 20 0.20
48 14 0.14
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCAACGGCATGAAGACGA
Found at i:49515722 original size:14 final size:14
Alignment explanation
Indices: 49515705--49515733 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49515695 CGAATCAATT
49515705 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
49515719 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
49515733 G
1 G
49515734 AATCTAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (14 bp):
GTTTAGAATAGGAA
Found at i:49517284 original size:20 final size:21
Alignment explanation
Indices: 49517251--49517289 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49517241 GAAGAACCAA
49517251 AAAAAAAAGGAAAA-AAAACC
1 AAAAAAAAGGAAAAGAAAACC
* *
49517271 AAAAAATAGTAAAAGAAAA
1 AAAAAAAAGGAAAAGAAAA
49517290 TTAAATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGGAAAAGAAAACC
Found at i:49520563 original size:24 final size:24
Alignment explanation
Indices: 49520532--49520580 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49520522 AAATATTGAT
49520532 TTTACTAGATTATCAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
*
49520556 TTTACTAGATTATTAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
49520580 T
1 T
49520581 GTGATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTACTAGATTATCAACTCTATAA
Found at i:49528537 original size:13 final size:13
Alignment explanation
Indices: 49528515--49528548 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49528505 CTACATTAAA
*
49528515 AGTTTTATGCATC
1 AGTTTCATGCATC
*
49528528 AGTTTCATGCATT
1 AGTTTCATGCATC
49528541 AGTTTCAT
1 AGTTTCAT
49528549 ATTTATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (13 bp):
AGTTTCATGCATC
Found at i:49531523 original size:35 final size:34
Alignment explanation
Indices: 49531484--49531549 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
49531474 TATTGTTTGT
*
49531484 ATGATATTTTATAATAGTTTT-TTATATTTAAAAAA
1 ATGATATTTTAT-ATA-TTTTATTAGATTTAAAAAA
*
49531519 ATGATTTTTTATATATTTTATTAGATTTAAA
1 ATGATATTTTATATATTTTATTAGATTTAAA
49531550 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 13 0.46
35 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (34 bp):
ATGATATTTTATATATTTTATTAGATTTAAAAAA
Found at i:49531708 original size:113 final size:113
Alignment explanation
Indices: 49531591--49531800 Score: 271
Period size: 113 Copynumber: 1.9 Consensus size: 113
49531581 TATATCAATT
* * * * *
49531591 TTTTTCGTATTTAAGGGGAAGGATA-TTTTT-TTGTTGTGTTTTTTTAGTTTTAGGTTTGTATTG
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATT-
49531654 AAAGTATAATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
65 AAAGTATAATTAATTT-TTTTATTAATGTTTTTGTGGTATCTTATATTAG
*** * * *
49531704 TTTTTCGTATTTACTTGAAATGTTATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTT
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
* *
49531769 AGGTTTAATTAATTTTTTTATTAATGTTTTTG
66 AAGTATAATTAATTTTTTTATTAATGTTTTTG
49531801 AAGAATGTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
113 36 0.44
114 18 0.22
115 28 0.34
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (113 bp):
TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
AAGTATAATTAATTTTTTTATTAATGTTTTTGTGGTATCTTATATTAG
Found at i:49532069 original size:137 final size:137
Alignment explanation
Indices: 49531822--49532260 Score: 652
Period size: 137 Copynumber: 3.2 Consensus size: 137
49531812 ATTCCACAAT
*
49531822 ATTTTTTGTATTTAAGGTATGAACATATTTTTTTATAATTGGTTATTTGAGTTTATTTAATATTT
1 ATTTTTTGTATTTAAGGTATGAACATA-TTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
* *
49531887 G-GGAAACTT-TGTTTATTAATATAATTGATATGTTCTATTAATTTATTTATTATTTCGTATTCA
65 GAGG-AA-TTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTA
49531950 AGTTATATTG
128 AGTTATATTG
* * *
49531960 ATTTTTCT-TATTTAAGATATGAGCGTATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
1 ATTTTT-TGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
* *
49532024 GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAATTTATTTATTATTTCGTATTTAAG
65 GAGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAG
*
49532089 TTATATCG
130 TTATATTG
* *
49532097 ATTTTTTGTATTTAAGGTATGAACATATATTTTATAATTGGTTATTTGAGTTTTTTTAATGTTT-
1 ATTTTTTGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
49532161 AGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTAATTTATTATTTCGTATT
66 A-GGAATTGTGTTTATTAATATAATTGATATGTTATATTAA--T-TT-ATTTATTATTTCGTATT
49532226 TAAGTTATATTAG
126 TAAGTTATATT-G
*
49532239 TTTTTTTGTATTTAAGGTATGA
1 ATTTTTTGTATTTAAGGTATGA
49532261 GTACACTTAT
Statistics
Matches: 273, Mismatches: 18, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
136 4 0.01
137 192 0.70
138 24 0.09
139 2 0.01
140 2 0.01
141 27 0.10
142 22 0.08
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (137 bp):
ATTTTTTGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
AGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAGT
TATATTG
Found at i:49532207 original size:65 final size:65
Alignment explanation
Indices: 49532001--49532207 Score: 140
Period size: 65 Copynumber: 3.1 Consensus size: 65
49531991 TTATAATTGG
* *
49532001 TTATTTGAGTTTATTTAATGTTT-GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAA
1 TTATTTGAGTTTTTTTAATGTTTAG-GGAATTGTATTTATTAATATAATTGATATGTTATATTAA
49532065 T
65 T
* ** * *
49532066 TTATTT-ATTATTTCGTATTTAA-GTTATATCG-ATT-TTTTGTATTTAAGGTATGAACAT-ATA
1 TTATTTGA--GTTT--T-TTTAATGTT-TAGGGAATTGTATT-TA-TTAA--TAT-AA-TTGATA
* **
49532126 TTTTATAATT-GG
54 TGTTAT-ATTAAT
*
49532138 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAAT
1 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
49532203 TTATT
1 TTATT
49532208 AATTTATTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
64 5 0.05
65 21 0.20
66 6 0.06
67 3 0.03
68 20 0.19
69 20 0.19
70 3 0.03
71 6 0.06
72 16 0.15
73 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (65 bp):
TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
Found at i:49535544 original size:42 final size:42
Alignment explanation
Indices: 49535481--49535607 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
49535471 CTTCGTTTTC
** * * *
49535481 TCGATGCCATAGTTCAACTATGGTCTTACATATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
49535524 T-GATGCCATAGCCCAGCTATGGTCATACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
49535565 TCGATACCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
49535606 TC
1 TC
49535608 TCACTGATGC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 10 0.14
42 59 0.83
43 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Done.