Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 21
Found at i:4094158 original size:59 final size:59
Alignment explanation
Indices: 4094093--4094488 Score: 621
Period size: 59 Copynumber: 6.7 Consensus size: 59
4094083 TGGCACTAAC
* * *
4094093 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGTCACTTTG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* *
4094152 TGTGCTAAAATTTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* * * *
4094211 TGTACTAAAATGTTAAGAAATTCATACAAAGTGTATGAATTTTCGTATAGGGCACTTTG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* *
4094270 TGTGCTAAAATGTTAAAAAAATCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* * *
4094329 TGTGCTAAAATATTAAAAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* * *
4094388 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTG
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
* *
4094447 TGTGCTAAAATGTTAAAAAATTCATTCTAAGTGTATGAATTT
1 TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
4094489 ATGTATTGGG
Statistics
Matches: 313, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 313 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (59 bp):
TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
Found at i:4095099 original size:45 final size:45
Alignment explanation
Indices: 4095007--4095100 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
4094997 GATGTATAAC
* *
4095007 AATGTATAATAATGTATAAAAGGCATGAATGAATGTCATAAATGA
1 AATGTATAATAATGTATAAAAGGCATGAAAGAATGTCAAAAATGA
* *
4095052 AATGTATAATAGTGTATAAAAGGCATGAAAGGATG-CAAAAATGGA
1 AATGTATAATAATGTATAAAAGGCATGAAAGAATGTCAAAAAT-GA
4095097 AATG
1 AATG
4095101 GCATAATGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 6 0.14
45 38 0.86
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (45 bp):
AATGTATAATAATGTATAAAAGGCATGAAAGAATGTCAAAAATGA
Found at i:4099213 original size:18 final size:19
Alignment explanation
Indices: 4099180--4099217 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4099170 ATACTCAAAG
4099180 TTAAATATTATTTTAAGTAA
1 TTAAATATTATTTTAA-TAA
4099200 TTAAAT-TT-TTTTAATAA
1 TTAAATATTATTTTAATAA
4099217 T
1 T
4099218 ATCATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 2 0.11
20 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAATATTATTTTAATAA
Found at i:4105157 original size:19 final size:20
Alignment explanation
Indices: 4105121--4105159 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4105111 AATAAAGACA
*
4105121 TATAAAATTAATAACTAATT
1 TATAAAAATAATAACTAATT
4105141 TATAAAAATAA-AACTAATT
1 TATAAAAATAATAACTAATT
4105160 ACTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAAATAATAACTAATT
Found at i:4106460 original size:3 final size:3
Alignment explanation
Indices: 4106452--4106556 Score: 122
Period size: 3 Copynumber: 35.0 Consensus size: 3
4106442 TTAATATATT
* *
4106452 TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * *
4106498 TAA AAA TAA TAA TGA TAA TAA TAT TAA TAA TGA TAA TAA -AA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4106545 TAA TGA TAA TAA
1 TAA TAA TAA TAA
4106557 AATGGATTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.02
3 79 0.94
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4107052 original size:118 final size:119
Alignment explanation
Indices: 4106808--4107256 Score: 727
Period size: 118 Copynumber: 3.8 Consensus size: 119
4106798 TCTTGATGAG
* *
4106808 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* * * *
4106869 C-CTGGTAATG-TTGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAA
66 CTCTGGAAAAGAATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
4106921 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* *
4106986 CTCTGGAAATG-ATGATCCATCAATTTGATGAATTCAAGC-AAAGGTTGAACAAG
66 CTCTGGAAAAGAATGATCCATCAA-TTGATGAATTCAAGCAAAAGGTTGAACAAA
4107039 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
*
4107104 CTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
66 CTCTGGAAAAGAATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
*
4107158 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTT-
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
4107222 CTCTGGAAAAGAATGATCCATCAAATTGATGAATT
66 CTCTGGAAAAGAATGATCCATC-AATTGATGAATT
4107257 TGAATCTTTG
Statistics
Matches: 316, Mismatches: 11, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
113 36 0.11
116 21 0.07
117 3 0.01
118 143 0.45
119 113 0.36
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (119 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
CTCTGGAAAAGAATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:4107157 original size:237 final size:231
Alignment explanation
Indices: 4106806--4107256 Score: 751
Period size: 237 Copynumber: 1.9 Consensus size: 231
4106796 GCTCTTGATG
*
4106806 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
* * *
4106871 TGGTAATGTTGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
*
4106936 ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATG-ATG
131 ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTT-CTCTGGAAAAGAATG
*
4107000 ATCCATCAATTTGATGAATTCAAGCAAAGGTTGAACA
195 ATCCATCAAATTGATGAATTCAAGCAAAGGTTGAACA
4107037 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T
* *
4107102 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCA
62 TAC-CTGGAAAAG-ATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCA
*
4107167 TTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAA
125 TTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAA
4107232 GAATGATCCATCAAATTGATGAATT
190 GAATGATCCATCAAATTGATGAATT
4107257 TGAATCTTTG
Statistics
Matches: 204, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
231 38 0.19
234 21 0.10
235 3 0.01
236 17 0.08
237 125 0.61
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (231 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
TGGAAAAGATGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCTCTGGAAAAGAATGA
TCCATCAAATTGATGAATTCAAGCAAAGGTTGAACA
Found at i:4108011 original size:52 final size:52
Alignment explanation
Indices: 4107877--4108027 Score: 259
Period size: 51 Copynumber: 2.9 Consensus size: 52
4107867 TGCTTGATTA
* * *
4107877 TGTCCAATCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
*
4107929 T-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
4107980 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
4108028 TGGCAAATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 47 0.51
52 46 0.49
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (52 bp):
TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTC
Found at i:4108124 original size:186 final size:186
Alignment explanation
Indices: 4107804--4108215 Score: 788
Period size: 186 Copynumber: 2.2 Consensus size: 186
4107794 CACTTCTTCG
*
4107804 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATTTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATTTTCTAAATTCAATG
4107869 CTTGATTATGTCCAATCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTTCTA
66 CTTGATTATGTCCAATCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTTCTA
4107934 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
131 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
4107990 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATTTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATTTTCTAAATTCAATG
*
4108055 CTTGATTATGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTTCTA
66 CTTGATTATGTCCAATCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTTCTA
* *
4108120 ACCAGATCAGATACCTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
131 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
4108176 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
4108216 AGCACATATA
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 222 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (186 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATTTTCTAAATTCAATG
CTTGATTATGTCCAATCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTTCTA
ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:4108128 original size:51 final size:52
Alignment explanation
Indices: 4108071--4108213 Score: 261
Period size: 52 Copynumber: 2.8 Consensus size: 52
4108061 TATGTCCAAT
*
4108071 CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCT-TCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
*
4108122 CAGATCAGATACCTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
4108174 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
4108214 TGAGCACATA
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 43 0.49
52 45 0.51
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (52 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAAC
Found at i:4108808 original size:16 final size:17
Alignment explanation
Indices: 4108767--4108809 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4108757 AATAGAAAAG
*
4108767 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
*
4108785 AATGAATTGAATCTC-A
1 AATAAATTGAATCTCAA
4108801 AATAAATTG
1 AATAAATTG
4108810 CACTTGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:4109156 original size:9 final size:8
Alignment explanation
Indices: 4109138--4109194 Score: 80
Period size: 8 Copynumber: 7.1 Consensus size: 8
4109128 TTGACCCCTC
4109138 TTTTTTCT
1 TTTTTTCT
*
4109146 TTTTTTCC
1 TTTTTTCT
4109154 TTTTTT-T
1 TTTTTTCT
4109161 TTTTTTCT
1 TTTTTTCT
*
4109169 TTTTCTCT
1 TTTTTTCT
4109177 TTTTTCTCT
1 TTTTT-TCT
4109186 TTTTTTCT
1 TTTTTTCT
4109194 T
1 T
4109195 CTTCAAGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 6 0.14
8 29 0.67
9 8 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4116339 original size:24 final size:26
Alignment explanation
Indices: 4116288--4116339 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
4116278 ACTTCATCGG
4116288 CATACAAAAGTTCTTTATAAATATTT
1 CATACAAAAGTTCTTTATAAATATTT
4116314 CATAC-AAAGTTCTTTAT-AATATTT
1 CATACAAAAGTTCTTTATAAATATTT
4116338 CA
1 CA
4116340 GAACTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.35
25 12 0.46
26 5 0.19
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (26 bp):
CATACAAAAGTTCTTTATAAATATTT
Found at i:4119107 original size:188 final size:188
Alignment explanation
Indices: 4118791--4119167 Score: 738
Period size: 188 Copynumber: 2.0 Consensus size: 188
4118781 TTTTATCCTG
4118791 TATGATGCTATGCAAACAGAAAAATAAAGAACACACAAAAGAAAATAAGTTAGTTTAAAGGATAA
1 TATGATGCTATGCAAACAGAAAAATAAAGAACACACAAAAGAAAATAAGTTAGTTTAAAGGATAA
4118856 TAACATTTATTTAATTTAAACATGCTTTTCTAAATAATTTAAATAAACATGTAAAATAAATTAAC
66 TAACATTTATTTAATTTAAACATGCTTTTCTAAATAATTTAAATAAACATGTAAAATAAATTAAC
4118921 AGGAAAGACATAATTCATTTCTCCTGTGTGTACACCTA-TTTGGACAAAATTTCGGCA
131 AGGAAAGACATAATTCATTTCTCCTGTGTGTACACCTATTTTGGACAAAATTTCGGCA
4118978 TATGATGCTATGCAAACAGAAAAATAAAGAACACACAAAAAGAAAATAAGTTAGTTTAAAGGATA
1 TATGATGCTATGCAAACAGAAAAATAAAGAACACAC-AAAAGAAAATAAGTTAGTTTAAAGGATA
4119043 ATAACATTTATTTAATTTAAACATGCTTTTCTAAATAATTTAAATAAACATGTAAAATAAATTAA
65 ATAACATTTATTTAATTTAAACATGCTTTTCTAAATAATTTAAATAAACATGTAAAATAAATTAA
4119108 CAGGAAAGACATAATTCATTTCTCCTGTGTGTACACCTATTTTGGACAAAATTTCGGCA
130 CAGGAAAGACATAATTCATTTCTCCTGTGTGTACACCTATTTTGGACAAAATTTCGGCA
4119167 T
1 T
4119168 GACTTCTGAT
Statistics
Matches: 188, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
187 36 0.19
188 132 0.70
189 20 0.11
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (188 bp):
TATGATGCTATGCAAACAGAAAAATAAAGAACACACAAAAGAAAATAAGTTAGTTTAAAGGATAA
TAACATTTATTTAATTTAAACATGCTTTTCTAAATAATTTAAATAAACATGTAAAATAAATTAAC
AGGAAAGACATAATTCATTTCTCCTGTGTGTACACCTATTTTGGACAAAATTTCGGCA
Found at i:4119592 original size:18 final size:18
Alignment explanation
Indices: 4119569--4119603 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4119559 ATACTTGCAA
4119569 ATAAAACAT-ATAAATATT
1 ATAAAA-ATAATAAATATT
4119587 ATAAAAATAATAAATAT
1 ATAAAAATAATAAATAT
4119604 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAATAATAAATATT
Found at i:4120404 original size:18 final size:20
Alignment explanation
Indices: 4120369--4120406 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
4120359 AATAAAGACA
4120369 TATAAAATTAATAACTAATT
1 TATAAAATTAATAACTAATT
4120389 TATAAAA-TAA-AACTAATT
1 TATAAAATTAATAACTAATT
4120407 ACTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATTAATAACTAATT
Found at i:4121718 original size:3 final size:3
Alignment explanation
Indices: 4121710--4121838 Score: 186
Period size: 3 Copynumber: 43.0 Consensus size: 3
4121700 TTAATATATT
*
4121710 TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
4121758 TAA TAA TAA TAA AAA TAA TAA AAA TAA TAA TGA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4121806 TGA TAA TAA TAA TAT TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4121839 AATGGATAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 110 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4121846 original size:12 final size:11
Alignment explanation
Indices: 4121715--4121853 Score: 77
Period size: 12 Copynumber: 11.9 Consensus size: 11
4121705 ATATTTAATA
*
4121715 ATAATAATAATA
1 ATAATAA-AATG
*
4121727 ATAATAAAAATA
1 ATAAT-AAAATG
*
4121739 ATAATAATAATA
1 ATAATAA-AATG
*
4121751 ATAATAATAATA
1 ATAATAA-AATG
4121763 ATAATAAAA--
1 ATAATAAAATG
*
4121772 ATAATAAAAATA
1 ATAAT-AAAATG
* *
4121784 ATAATGATAATA
1 ATAAT-AAAATG
*
4121796 ATATTAATAATG
1 ATAATAA-AATG
4121808 ATAATAATAAT-
1 ATAATAA-AATG
4121819 ATTAATAATAATG
1 A-TAATAA-AATG
4121832 ATAATAAAATGG
1 ATAATAAAAT-G
*
4121844 ATAAAAAAAT
1 ATAATAAAAT
4121854 AGTATCTTCA
Statistics
Matches: 111, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
9 5 0.05
10 4 0.04
11 9 0.08
12 90 0.81
13 3 0.03
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (11 bp):
ATAATAAAATG
Found at i:4122849 original size:249 final size:249
Alignment explanation
Indices: 4122405--4122897 Score: 756
Period size: 249 Copynumber: 2.0 Consensus size: 249
4122395 TAAAATGTGT
* * * *
4122405 CAAAATTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAATGGGGATCTACTAAAATGGAACGA
1 CAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAATGGGGAGCTACTAAAATAGAACAA
* * * * * *
4122470 AAACTAAATATTAGGTTTGATTTTGAAAAAAATGAAAGTTTAGATTCTACAATGGATCAAAACAT
66 AAACTAAACATTAGATATGATTTTGAAAAAAATGAAAGTTTAGATACTACAATGAATCAAAACAG
* *
4122535 ATAGTTTAGGTACTAAACGCGTAGTTCACACTAAATTATATTTAAATCAAATTCTTTTTATATTA
131 ATAGTTTAGGTACTAAACGCATAGCTCACACTAAATTATATTTAAATCAAATTCTTTTTATATTA
* *
4122600 ATTAAAAAATAAAGGATAATCTACACTAGATACCTCTTAACTTTGTCTAGTGAC
196 ATTAAAAAATAAAGGATAATCTACACCAGATACCTCTGAACTTTGTCTAGTGAC
* ** *
4122654 CAAAACTGATAGTTTAGGTATTAAATGCGTTAAGTTTTTAATGGGGAGGTACTAAAATAGAACAA
1 CAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAATGGGGAGCTACTAAAATAGAACAA
4122719 AAACTAAACATTAGATATGATTTTGAAAAAAATGAAAGTTTA-AGTACTACAATGAATCAAAACA
66 AAACTAAACATTAGATATGATTTTGAAAAAAATGAAAGTTTAGA-TACTACAATGAATCAAAACA
* * *
4122783 GATAGTTTAGGTATTAAACGTATAGCTCACAGTAAA-TATATTTAAATCAAATTCTTTTTTATAT
130 GATAGTTTAGGTACTAAACGCATAGCTCACACTAAATTATATTTAAATCAAATTC-TTTTTATAT
*
4122847 TAATTAAAAATTAAAGGATAATCTACACCAGATACCTCTGAACTTTGTCTA
194 TAATTAAAAAATAAAGGATAATCTACACCAGATACCTCTGAACTTTGTCTA
4122898 CATACTTGTT
Statistics
Matches: 220, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
248 19 0.09
249 201 0.91
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (249 bp):
CAAAACTGATAGTTTAGGTACTAAACACGTTAAGTTTTTAATGGGGAGCTACTAAAATAGAACAA
AAACTAAACATTAGATATGATTTTGAAAAAAATGAAAGTTTAGATACTACAATGAATCAAAACAG
ATAGTTTAGGTACTAAACGCATAGCTCACACTAAATTATATTTAAATCAAATTCTTTTTATATTA
ATTAAAAAATAAAGGATAATCTACACCAGATACCTCTGAACTTTGTCTAGTGAC
Found at i:4135608 original size:33 final size:33
Alignment explanation
Indices: 4135526--4135605 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
4135516 GGATAAATTA
*
4135526 AAAATTTAGTGATATAAATGATATATATTGTCT
1 AAAATTCAGTGATATAAATGATATATATTGTCT
* *
4135559 AAAATTTAGTGATATAAATGATA-A-ATTTTC-
1 AAAATTCAGTGATATAAATGATATATATTGTCT
*
4135589 AAAAGTTCAGTGGTATA
1 AAAA-TTCAGTGATATA
4135606 TAAGGATGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 4 0.09
31 15 0.35
32 1 0.02
33 23 0.53
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.39
Consensus pattern (33 bp):
AAAATTCAGTGATATAAATGATATATATTGTCT
Found at i:4138469 original size:57 final size:57
Alignment explanation
Indices: 4138380--4138497 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
4138370 CAACAACAAC
* * **
4138380 AATACTCAATCATGCAATCATCATTTCAACCACTAGTAGCAGCTGAAGAAGAAGAAG
1 AATACTCAAGCATGCAATCATCATTTCAACCACCACCAGCAGCTGAAGAAGAAGAAG
* * *
4138437 AATACTCAAGCATGCAATTATCATTTCCACCACCACCAGCAGTTGAAGAAGAAGAAG
1 AATACTCAAGCATGCAATCATCATTTCAACCACCACCAGCAGCTGAAGAAGAAGAAG
4138494 AATA
1 AATA
4138498 TTCACAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (57 bp):
AATACTCAAGCATGCAATCATCATTTCAACCACCACCAGCAGCTGAAGAAGAAGAAG
Found at i:4140452 original size:35 final size:35
Alignment explanation
Indices: 4140413--4140489 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
4140403 GCTTTTAATA
*
4140413 TTTAAGTTTTATATTT-AGATTATATAATTTA-AATT
1 TTTAAGTTTTATATTTGA-ATTATATAATTCAGAA-T
* * *
4140448 TTTAACTTTTATGTTTGAATTATGTAATTCAGAAT
1 TTTAAGTTTTATATTTGAATTATATAATTCAGAAT
4140483 TTTAAGT
1 TTTAAGT
4140490 GTCCAAAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.55
Consensus pattern (35 bp):
TTTAAGTTTTATATTTGAATTATATAATTCAGAAT
Found at i:4147663 original size:32 final size:33
Alignment explanation
Indices: 4147606--4147667 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
4147596 GCCATTTTCA
*
4147606 ACAAAAAATAGTTTGAATTCGGTGCAATTATCG
1 ACAAAAAATAGCTTGAATTCGGTGCAATTATCG
4147639 ACAAAAAATAGCTTGAATTC-GTGCAATTA
1 ACAAAAAATAGCTTGAATTCGGTGCAATTA
4147668 AATGCACCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (33 bp):
ACAAAAAATAGCTTGAATTCGGTGCAATTATCG
Found at i:4148462 original size:21 final size:21
Alignment explanation
Indices: 4148433--4148479 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4148423 AGCCCAAGTT
*
4148433 GAAGCGAGAGAAGTAGA-ACGA
1 GAAGCGAGAGAAATAGAGA-GA
*
4148454 GAAGTGAGAGAAATAGAGAGA
1 GAAGCGAGAGAAATAGAGAGA
4148475 GAAGC
1 GAAGC
4148480 ATCATATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.06, G:0.38, T:0.06
Consensus pattern (21 bp):
GAAGCGAGAGAAATAGAGAGA
Found at i:4148926 original size:41 final size:41
Alignment explanation
Indices: 4148850--4148959 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
4148840 TTTTTACTTT
*
4148850 AAAATGCCGCT-AATGTCCGAACCTATTGTGGCGTTTGTAA
1 AAAATGCCGCTAAATGTCCGAACCTATTGTGACGTTTGTAA
* *
4148890 AAAATGCCGCTAAACGTCTGAACCTATTGTGACGTTTGTAA
1 AAAATGCCGCTAAATGTCCGAACCTATTGTGACGTTTGTAA
* * *
4148931 AAAACGTCGCTAAATGTCCGATCCTATTG
1 AAAATGCCGCTAAATGTCCGAACCTATTG
4148960 CGCCAGTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 11 0.18
41 50 0.82
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (41 bp):
AAAATGCCGCTAAATGTCCGAACCTATTGTGACGTTTGTAA
Found at i:4149494 original size:23 final size:24
Alignment explanation
Indices: 4149468--4149514 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4149458 TTGATTCTTT
**
4149468 TCATTATTAATGAAAT-ATAATTG
1 TCATTATTAAAAAAATCATAATTG
4149491 TCATTATTAAAAAAATCATAATTG
1 TCATTATTAAAAAAATCATAATTG
4149515 ATTGTAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
TCATTATTAAAAAAATCATAATTG
Found at i:4149843 original size:2 final size:2
Alignment explanation
Indices: 4149836--4149887 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4149826 TACCACATGC
4149836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4149878 AT AT AT AT AT
1 AT AT AT AT AT
4149888 TTTGCTAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4155311 original size:24 final size:25
Alignment explanation
Indices: 4155249--4155311 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
4155239 TCGGGCCGGG
4155249 TATATA-TATATATATTTAAATTAAA
1 TATATATTATAT-TATTTAAATTAAA
*
4155274 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
4155298 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
4155312 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 19 0.58
25 8 0.24
26 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:4155372 original size:13 final size:12
Alignment explanation
Indices: 4155341--4155377 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
4155331 TTTTAATATT
*
4155341 TATCGGGTCGGG
1 TATCGGGGCGGG
4155353 TATCGGGGCGGG
1 TATCGGGGCGGG
4155365 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
4155378 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:4155470 original size:25 final size:24
Alignment explanation
Indices: 4155432--4155479 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4155422 GGGTTTTCCC
** *
4155432 CATCCCCGTCCCCGTCCCAGTTTAT
1 CATCCCCGAACCCGACCC-GTTTAT
4155457 CATCCCCGAACCCGACCCGTTTA
1 CATCCCCGAACCCGACCCGTTTA
4155480 ATTCGGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.17, C:0.48, G:0.12, T:0.23
Consensus pattern (24 bp):
CATCCCCGAACCCGACCCGTTTAT
Found at i:4159658 original size:25 final size:26
Alignment explanation
Indices: 4159628--4159708 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
4159618 TATTCCACGC
*
4159628 ATTTTG-TAATGT-AAATTATTTGTGT
1 ATTTTGAT-ATGTCAAATTAATTGTGT
* *
4159653 ATTTTGATGTGTCACATTAATTGTGT
1 ATTTTGATATGTCAAATTAATTGTGT
* * * * *
4159679 ATTTTGGTGTGTCACATCAATAGTGT
1 ATTTTGATATGTCAAATTAATTGTGT
4159705 ATTT
1 ATTT
4159709 CATTGTACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 9 0.19
26 39 0.81
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.51
Consensus pattern (26 bp):
ATTTTGATATGTCAAATTAATTGTGT
Found at i:4159671 original size:26 final size:26
Alignment explanation
Indices: 4159642--4159708 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
4159632 TGTAATGTAA
*
4159642 ATTATTTGTGTATTTTGATGTGTCAC
1 ATTAATTGTGTATTTTGATGTGTCAC
*
4159668 ATTAATTGTGTATTTTGGTGTGTCAC
1 ATTAATTGTGTATTTTGATGTGTCAC
* *
4159694 ATCAATAGTGTATTT
1 ATTAATTGTGTATTT
4159709 CATTGTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.51
Consensus pattern (26 bp):
ATTAATTGTGTATTTTGATGTGTCAC
Found at i:4166507 original size:3 final size:3
Alignment explanation
Indices: 4166494--4166523 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4166484 GTGAGGTGAA
*
4166494 GCT GGT GCT GCT GCT GCT GCT GCT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
4166524 TTTGGAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.37, T:0.33
Consensus pattern (3 bp):
GCT
Found at i:4167616 original size:18 final size:18
Alignment explanation
Indices: 4167591--4167632 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
4167581 TAATATATCT
*
4167591 TTTATTTATATTAT-AT-
1 TTTATTTTTATTATAATA
*
4167607 TTAATTTTTATTATAATA
1 TTTATTTTTATTATAATA
4167625 TTTATTTT
1 TTTATTTT
4167633 ACATTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTTTATTATAATA
Found at i:4167627 original size:30 final size:31
Alignment explanation
Indices: 4167593--4167652 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
4167583 ATATATCTTT
*
4167593 TATTTATATTATATTTAATTT-TTAT-TATAA
1 TATTTATATTACATTT-ATTTATTATATATAA
*
4167623 TATTTATTTTACATTTATTTATTATATATA
1 TATTTATATTACATTTATTTATTATATATA
4167653 TAAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTTATATTACATTTATTTATTATATATAA
Found at i:4167633 original size:24 final size:27
Alignment explanation
Indices: 4167590--4167653 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
4167580 ATAATATATC
4167590 TTTTATT-T-ATA-TTATATTTA-A-T
1 TTTTATTATAATATTTATATTTACATT
4167612 TTTTATTATAATATTTAT-TTTACATT
1 TTTTATTATAATATTTATATTTACATT
4167638 TATTTATTATATATAT
1 T-TTTATTATA-ATAT
4167654 AAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.20
23 1 0.03
24 7 0.20
25 5 0.14
26 2 0.06
27 9 0.26
28 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTATTATAATATTTATATTTACATT
Found at i:4178418 original size:15 final size:16
Alignment explanation
Indices: 4178384--4178426 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 16
4178374 GGTATTTTAT
4178384 TTTTATATTTTCGAAACA
1 TTTTA-ATTTTC-AAACA
4178402 TTTTAATTTTC-AACA
1 TTTTAATTTTCAAACA
4178417 TTTTAATTTT
1 TTTTAATTTT
4178427 TGATCAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.56
17 6 0.24
18 5 0.20
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTAATTTTCAAACA
Found at i:4179949 original size:16 final size:15
Alignment explanation
Indices: 4179921--4179979 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
4179911 GCTTCCAAAT
*
4179921 ATTTTATAAATATTA
1 ATTTAATAAATATTA
*
4179936 ATTTAATGAAATATATG
1 ATTTAAT-AAATAT-TA
*
4179953 ATTTTATAAATATTA
1 ATTTAATAAATATTA
* *
4179968 AGTTAAAAAATA
1 ATTTAATAAATA
4179980 AATGTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 16 0.46
16 12 0.34
17 7 0.20
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTTAATAAATATTA
Found at i:4180996 original size:37 final size:38
Alignment explanation
Indices: 4180906--4180996 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 38
4180896 ATCACTCTAA
*
4180906 TTTATTTTATTAATAATATTTTGTGGCATGATATTTTT
1 TTTATTTTATTAATAATATTTTGTGACATGATATTTTT
*
4180944 TATTATTTTATTAATAATATTTTGTGACATTATA-TTTT
1 T-TTATTTTATTAATAATATTTTGTGACATGATATTTTT
4180982 TTTATTTTATTAATA
1 TTTATTTTATTAATA
4180997 TATAATTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
37 14 0.28
38 6 0.12
39 30 0.60
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (38 bp):
TTTATTTTATTAATAATATTTTGTGACATGATATTTTT
Found at i:4181068 original size:16 final size:17
Alignment explanation
Indices: 4181018--4181069 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
4181008 TAAAAAATTA
4181018 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
4181035 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
4181050 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
4181066 AATT
1 AATT
4181070 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:4182149 original size:2 final size:2
Alignment explanation
Indices: 4182142--4182192 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
4182132 CTACATAAAG
* *
4182142 AT AT AT AT AT AT AT AT AT TT AT AT A- AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4182183 AT AT AT AT AT
1 AT AT AT AT AT
4182193 GAAATGCCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4185712 original size:24 final size:24
Alignment explanation
Indices: 4185680--4185732 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
4185670 CTGGGGTCGA
4185680 TGAAGGAGATATCGGGAGCAAGCT
1 TGAAGGAGATATCGGGAGCAAGCT
4185704 TGAAGGAGATATCGGGAGCAAGCT
1 TGAAGGAGATATCGGGAGCAAGCT
4185728 TGAAG
1 TGAAG
4185733 CAGCGATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.38, T:0.17
Consensus pattern (24 bp):
TGAAGGAGATATCGGGAGCAAGCT
Found at i:4186859 original size:29 final size:29
Alignment explanation
Indices: 4186826--4186907 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
4186816 CCCCAACACC
*
4186826 CCTACAAGGTCGCCAAGTACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
* *
4186855 CCTACAAGGTCGCCATGCACTCTCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*** *
4186884 CCTTGTAGGTCGCCAAGCAATCCC
1 CCTACAAGGTCGCCAAGCACTCCC
4186908 GGTGACCAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.17
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCAGCGA
Found at i:4186975 original size:32 final size:32
Alignment explanation
Indices: 4186934--4186998 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4186924 CCTTAACCCT
4186934 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
4186966 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
4186998 G
1 G
4186999 GAGATTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.28
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
Found at i:4187014 original size:23 final size:23
Alignment explanation
Indices: 4186984--4187027 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
4186974 GTGCATGGGT
4186984 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
4187007 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
4187028 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:4187846 original size:20 final size:21
Alignment explanation
Indices: 4187802--4187846 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4187792 AAATATTGTG
**
4187802 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
4187823 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
4187843 TTTA
1 TTTA
4187847 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:4189571 original size:32 final size:31
Alignment explanation
Indices: 4189485--4189609 Score: 99
Period size: 31 Copynumber: 4.0 Consensus size: 31
4189475 ACCCTAAGGG
* *
4189485 AACATCTTAGGGCCTG-AGAGCCTACCCAAGA
1 AACATCTCAGGGCC-GCAGAGCCTACCTAAGA
* * * * ** *
4189516 TAGATTTCGGGGCCGTGGGGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGAGCCTACCTAAGA
* **
4189547 ACACATCTTAGGGCCGCAGAGCCTACCCGAGA
1 A-ACATCTCAGGGCCGCAGAGCCTACCTAAGA
**
4189579 ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGAGCCTACCTAAGA
4189610 GTCACATTAG
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
30 1 0.01
31 46 0.67
32 22 0.32
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (31 bp):
AACATCTCAGGGCCGCAGAGCCTACCTAAGA
Found at i:4189592 original size:63 final size:63
Alignment explanation
Indices: 4189486--4189609 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
4189476 CCCTAAGGGA
* * ** *
4189486 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
*
4189549 ACATCTTAGGGCC-GCAGAGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
4189610 GTCACATTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 2 0.04
63 51 0.96
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:4190513 original size:17 final size:17
Alignment explanation
Indices: 4190491--4190548 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
4190481 CAACGGTCAC
4190491 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
4190508 GGTCAACGGTCGGGTTG
1 GGTCAACGGTCGGGTCG
*
4190525 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4190542 GGTCAAC
1 GGTCAAC
4190549 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.22, G:0.43, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:4190566 original size:19 final size:18
Alignment explanation
Indices: 4190542--4190601 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
4190532 AGTCGGGTCG
* *
4190542 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGG-TCAAACC
4190561 GGTCAAACCGGTCAAACC
1 GGTCAAACCGGTCAAACC
*
4190579 GGTTCAAAACTGGTCAAACC
1 GG-TC-AAACCGGTCAAACC
4190599 GGT
1 GGT
4190602 TTTCCAGCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 8 0.22
19 13 0.36
20 15 0.42
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (18 bp):
GGTCAAACCGGTCAAACC
Found at i:4190588 original size:20 final size:20
Alignment explanation
Indices: 4190565--4190602 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4190555 CAGACCGGTC
4190565 AAACCGGTCAAACCGGTTCA
1 AAACCGGTCAAACCGGTTCA
*
4190585 AAACTGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
4190603 TTCCAGCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:4190594 original size:29 final size:28
Alignment explanation
Indices: 4190542--4190601 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
4190532 AGTCGGGTCG
* *
4190542 GGTCAACCCGGTTCAGACCGGTCAAACC
1 GGTCAAACCGGTTCAAACCGGTCAAACC
*
4190570 GGTCAAACCGGTTCAAAACTGGTCAAACC
1 GGTCAAACCGGTTC-AAACCGGTCAAACC
4190599 GGT
1 GGT
4190602 TTTCCAGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (28 bp):
GGTCAAACCGGTTCAAACCGGTCAAACC
Found at i:4190595 original size:10 final size:9
Alignment explanation
Indices: 4190542--4190601 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 9
4190532 AGTCGGGTCG
*
4190542 GGTCAACCC
1 GGTCAAACC
*
4190551 GGTTCAGACC
1 GG-TCAAACC
4190561 GGTCAAACC
1 GGTCAAACC
4190570 GGTCAAACC
1 GGTCAAACC
*
4190579 GGTTCAAAACT
1 GG-TC-AAACC
4190590 GGTCAAACC
1 GGTCAAACC
4190599 GGT
1 GGT
4190602 TTTCCAGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 26 0.60
10 11 0.26
11 6 0.14
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4196896 original size:63 final size:63
Alignment explanation
Indices: 4196780--4196903 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
4196770 CGCTAAGGGA
* * ** * *
4196780 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTATCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
4196843 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
4196904 GTCACATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:4197799 original size:20 final size:21
Alignment explanation
Indices: 4197774--4197817 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
4197764 GTCAAAGAAA
4197774 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTCAACGGTCAACG
4197794 GTCAACGGTCAACGGTCAACG
1 GTCAACGGTCAACGGTCAACG
4197815 GTC
1 GTC
4197818 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (21 bp):
GTCAACGGTCAACGGTCAACG
Found at i:4197829 original size:17 final size:17
Alignment explanation
Indices: 4197807--4197864 Score: 116
Period size: 17 Copynumber: 3.4 Consensus size: 17
4197797 AACGGTCAAC
4197807 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4197824 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4197841 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4197858 GGTCAAC
1 GGTCAAC
4197865 CCGGTTCAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:4197834 original size:7 final size:7
Alignment explanation
Indices: 4197774--4197817 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
4197764 GTCAAAGAAA
4197774 GTCAACG
1 GTCAACG
4197781 GTCAACG
1 GTCAACG
4197788 GTC-ACG
1 GTCAACG
4197794 GTCAACG
1 GTCAACG
4197801 GTCAACG
1 GTCAACG
4197808 GTCAACG
1 GTCAACG
4197815 GTC
1 GTC
4197818 GGGTCGGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:4197880 original size:19 final size:19
Alignment explanation
Indices: 4197858--4197947 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
4197848 GGTCGGGTCG
*
4197858 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
4197877 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
4197896 GGTCAAACCGGTTC-GAGCC
1 GGTCAAACCGGTTCAGA-CC
* *
4197915 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
4197935 GGTCAAACCGGTT
1 GGTCAAACCGGTT
4197948 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.03
19 48 0.74
20 14 0.22
21 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.27, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:4197930 original size:10 final size:10
Alignment explanation
Indices: 4197860--4197947 Score: 85
Period size: 9 Copynumber: 9.1 Consensus size: 10
4197850 TCGGGTCGGG
*
4197860 TCAACCCGGT
1 TCAAACCGGT
*
4197870 TCAGACCGG-
1 TCAAACCGGT
4197879 TCAAACCGGT
1 TCAAACCGGT
*
4197889 TCAGACCGG-
1 TCAAACCGGT
4197898 TCAAACCGGT
1 TCAAACCGGT
* *
4197908 TCGAGCCGG-
1 TCAAACCGGT
4197917 TCAAACCGGT
1 TCAAACCGGT
*
4197927 TCAAAACTGG-
1 TC-AAACCGGT
4197937 TCAAACCGGT
1 TCAAACCGGT
4197947 T
1 T
4197948 TTCCAGCAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
9 29 0.47
10 27 0.44
11 6 0.10
ACGTcount: A:0.26, C:0.31, G:0.25, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:4200810 original size:49 final size:49
Alignment explanation
Indices: 4200747--4201555 Score: 612
Period size: 49 Copynumber: 15.4 Consensus size: 49
4200737 TTATAAGATT
*
4200747 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
4200796 TAGT-ATGATCTAGTAATGATTAGTAAATAATGAAATTTATTAATATTTAATGATTTGA
1 TAGTAATGAT-TAGTAATGA-T-G-AAAT--T---A-TTATTAATTTTTAATGATTTGA
* *
4200854 TATTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
* *
4200903 TAGTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
4200952 TAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
* *
4201011 TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAA
1 TAGTAATGA-TTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
* *
4201071 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGA-TTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
* * * *
4201119 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTAATGGTTTAA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
4201167 TAGTAATGATTAGTAATGATTAGTAATAATTAAATTATTATTAATTTTAATGATTTG-
1 TAGTAATGATTAGTAATGA-T-G--A-AATT--ATTATTA--ATTTTTAATGATTTGA
*
4201224 -AGTAATGATTAGTAATAATG-AATTATTA-TAA-TTTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
4201269 TAGTAATGATTAGTAATGATTAGTAAATGAAATATTATT-ATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATGA-T-G-AAAT----TATTATTAATTTTTAATGATTTGA
* *
4201324 TAGTAATGA-T--TAAT-AAGAAATTATTATTAATTTTTAATAATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
* * *
4201369 TAGTAATGATTTGATAGTAATGATAGTAATGATTAGTAATAATGAAATTATTAATATTTAATTTG
1 TAGTAATGA--T--TAGTAATGAT-G-AA--ATTA-T--T-AT-TAATT-TT--TA-ATGATTTG
4201434 A
49 A
*
4201435 TATTAATGATTAGTAATTTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAA--T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
*
4201492 TAGTAATGATTAG-AAT-A--AAA-T-TTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
4201535 TATTAATGATTTAGTAATGAT
1 TAGTAATGA-TTAGTAATGAT
4201556 TGATAGTAAT
Statistics
Matches: 646, Mismatches: 35, Indels: 160
0.77 0.04 0.19
Matches are distributed among these distances:
43 29 0.04
44 25 0.04
45 31 0.05
46 18 0.03
47 11 0.02
48 71 0.11
49 120 0.19
50 12 0.02
51 2 0.00
52 14 0.02
53 7 0.01
54 11 0.02
55 39 0.06
56 21 0.03
57 26 0.04
58 47 0.07
59 50 0.08
60 60 0.09
61 6 0.01
62 12 0.02
63 3 0.00
64 2 0.00
65 4 0.01
66 20 0.03
68 2 0.00
69 1 0.00
70 2 0.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:4200965 original size:10 final size:10
Alignment explanation
Indices: 4200952--4200978 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4200942 AATGATTTGA
4200952 TAGTAATGAT
1 TAGTAATGAT
4200962 TAGTAATGAT
1 TAGTAATGAT
4200972 TAGTAAT
1 TAGTAAT
4200979 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:4201005 original size:35 final size:35
Alignment explanation
Indices: 4200965--4201067 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
4200955 TAATGATTAG
4200965 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
* * * *
4201000 TAATGATT--TGAT-A-GTAATGA-T-TT-A---G
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
*
4201025 TAATGATTAGTAATAATGAAATTATTACTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
4201060 TAATGATT
1 TAATGATT
4201068 TAATAGTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 20
0.63 0.12 0.26
Matches are distributed among these distances:
25 8 0.16
27 3 0.06
28 2 0.04
29 7 0.14
30 2 0.04
31 6 0.12
32 2 0.04
33 3 0.06
35 16 0.33
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATTTT
Found at i:4201039 original size:119 final size:107
Alignment explanation
Indices: 4200747--4201552 Score: 575
Period size: 109 Copynumber: 7.6 Consensus size: 107
4200737 TTATAAGATT
* * *
4200747 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGT-ATGATCTAGTA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGA-TTGATAGTAATGAT-TAGTA
* * * *
4200811 ATGATTAGTAAATAATGAAA-T-TTATTAATATTTAATGATTTGA
64 ATAATTAGT-AATAATGAAATTATTACTAATTTTTAATGATTTAA
* *
4200854 TATTAATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A-TGAT--T--TGA-TAGTAAT
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTGATAGTAATGATTAGTAAT
*
4200910 AATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
66 AATTAGTAATAATGAAATTATTACTAATTTTTAATGA--T--T--T-A--A
*
4200961 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGT
1 -TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGA-TTGATAGTAATGA-TTAGT
*
4201026 AATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAA
63 AATAATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAA
4201071 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTGATAGTAATGATTAGTAAT
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTGATAGTAATGATTAGTAAT
* * * * * * * * *
4201136 AA-T-GAAATTAT--TATTAATATTAATGGTTTAATAGTAATGAT
66 AATTAGTAATAATGAAATTATTACTAAT-TTTTAAT-G-ATTTAA
*
4201177 TAGTAATGATTAGTAATAATTAAATTATTATTAA-TTTTAATGATT--TGAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTGAT-AGTAATGATTAGTAA
* * * * * * * * *
4201239 TAA-T-G-AATTATTATAATT-TTAATGATTTGATAGT-AATGAT
65 TAATTAGTAATAATGA-AATTATTACTAATTT-TTAATGATTTAA
* *
4201279 TAGTAATGATTAGT-A-AATGAAA-TATTATT-ATTTTTAATGATTTGATAGTAATGATTAATAA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGA-TTGATAGTAATGATTAGTAA
* * * * *
4201340 GAAATTA-T--T-AT-TAATTTTTAATAATTTGATAGTAATGATTTGA
65 -TAATTAGTAATAATGAAATTATTACTAATTT--T--TAATGATTTAA
* * *
4201383 TAGTAATGA-TAGTAATGATTAGTAATAATGAAATTATTAATATTTAAT--TTGATATTAATGAT
1 TAGTAATGATTAGTAAT-A--A-TAA-AAT--TATTATTAATTTTTAATGATTGATAGTAATGAT
* *
4201445 TAGTAAT--TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
59 TAGTAATAATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAA
* *
4201492 TAGTAATGATTAG----AATAAAA-T-TTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGA-TTGATAGTAATGA-TTAGTA
4201551 AT
64 AT
4201553 GATTGATAGT
Statistics
Matches: 584, Mismatches: 50, Indels: 136
0.76 0.06 0.18
Matches are distributed among these distances:
96 10 0.02
97 29 0.05
98 17 0.03
99 23 0.04
100 32 0.05
101 27 0.05
102 32 0.05
103 26 0.04
104 41 0.07
105 27 0.05
106 42 0.07
107 46 0.08
108 55 0.09
109 67 0.11
110 6 0.01
111 21 0.04
112 3 0.01
113 24 0.04
114 8 0.01
115 2 0.00
117 4 0.01
119 42 0.07
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (107 bp):
TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTGATAGTAATGATTAGTAAT
AATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAA
Found at i:4201039 original size:168 final size:164
Alignment explanation
Indices: 4200857--4201504 Score: 788
Period size: 168 Copynumber: 4.0 Consensus size: 164
4200847 GATTTGATAT
*
4200857 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATAATTAGTAATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAA
*
4200922 TGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAAT
66 TAAAATTATTATTAATTTTT-A--ATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAAT
4200987 TATTATTAATTTTTAATGATTTGATAGTAATGATTTAG
128 TATTATTAATTTTTAATGATTTGATAGTAATGA-TTAG
* *
4201025 TAATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAATAGTAATGATTAGTAATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAA
4201090 TAAAATTATTATTAATTTTTAA--TG--A-T--TGA-TAGTAATGATTAGTAATAATGAAATTAT
66 TAAAATTATTATTAATTTTTAATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTAT
* * *
4201147 TATTAA-TATTAATGGTTTAATAGTAATGATTAG
131 TATTAATTTTTAATGATTTGATAGTAATGATTAG
*
4201180 TAATGATTAGTAATAATTAAATTATTATTAA-TTTTAATGATTTG--AGTAATGATTAGTAATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAA
* *
4201242 T-GAATTATTA-TAATTTTAATGATTTGATAGTAATGATTAGTAATGATTAGT-A-AATGAAA-T
66 TAAAATTATTATTAATTTT--TAATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATT
*
4201302 ATTATT-ATTTTTAATGATTTGATAGTAATGATTAA
129 ATTATTAATTTTTAATGATTTGATAGTAATGATTAG
* * * * * *
4201337 TAA-GA--AATTATTAT-TAATTTTTAATAATTTGATAGTAATGATTTGATAGTAATGA-TAGTA
1 TAATGATTAGTAATAATGAAATTATTATTAATTT--T--TAATGATTTGATAGTAATGATTAGTA
* * *
4201397 ATGATTAGTAATAATGAAATTATTAATATTTAATTTGATATTAATGATTAGTAAT--TTAGTAAT
62 AT-A--A-TAA-AAT--TATTATTAATTTTTAATTTGATAGTAATGATTAGTAATGATTAGTAAT
4201460 AATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
120 AATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG
4201505 AATAAAATTT
Statistics
Matches: 421, Mismatches: 28, Indels: 62
0.82 0.05 0.12
Matches are distributed among these distances:
150 7 0.02
151 8 0.02
152 21 0.05
153 10 0.02
154 22 0.05
155 33 0.08
156 25 0.06
157 68 0.16
158 20 0.05
159 11 0.03
160 24 0.06
161 1 0.00
162 1 0.00
163 3 0.01
164 5 0.01
165 5 0.01
166 30 0.07
167 12 0.03
168 115 0.27
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (164 bp):
TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAA
TAAAATTATTATTAATTTTTAATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTAT
TATTAATTTTTAATGATTTGATAGTAATGATTAG
Found at i:4201172 original size:215 final size:213
Alignment explanation
Indices: 4200746--4201552 Score: 965
Period size: 215 Copynumber: 3.8 Consensus size: 213
4200736 TTTATAAGAT
*
4200746 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTATGATCTAGTA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--ATTTGATAGTATGAT-TAGTA
* *
4200811 ATGATTAGTAAATAATGAAA-T-TTATTAATATTTAATGATTTGATATTAATGATTAGTAATAAT
62 ATGATTAGT-AATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAAT
* *
4200874 GAAATTATTATTAATTTTTAATGATTTGATAGTAAT-AATTAGTAATAATGAAATTATTATTAAT
126 AAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAAT
*
4200938 TTTTAATGATTTGATAGTAATGA
191 TATTAATGATTTGATAGTAATGA
*
4200961 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--ATTTGATAGT-ATGA-TTAGT
* *
4201026 AATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTAATAGTAATGATTAGTAATAAT
61 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAAT
4201091 AAAATTATTATTAATTTTTAATGA-TTGATAGTAATGA-TTAGTAATAATGAAATTATTATTAA-
126 AAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAAT
* *
4201153 TATTAATGGTTTAATAGTAATGA
191 TATTAATGATTTGATAGTAATGA
*
4201176 TTAGTAATGATTAGTAATAATTAAATTATTATTAAT-TTTAA--TGAT--T-TG---AGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATTTGATAGTATGATTAGTAATGA
4201232 TTAGTAATAATG-AATTATTA-TAA-TTTTAATGATTTGATAGTAATGATTAGTAATGATTAGTA
66 TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAAT-A--A-T-
* * * * *
4201294 AATGAAATATTATT-ATTTTTAATGATTTGATAGTAATGATTAATAAGAAATTATTATTAATTTT
126 AA--AATTATTATTAATTTTTAATGATTTGATAGTAATGATT--T-AGTAATAATGA--AATTAT
*
4201358 TAATAATTTGATAGTAATGATTTGATAGTAATGA
184 TATTAA-TT-AT--TAATGATTTGATAGTAATGA
*
4201392 -TAGTAATGATTAGTAATAATG-AA--ATTATTAATATTTAATTTGATATTAATGATTAGTAAT-
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATTTGATAGT-ATGATTAGTAATG
4201452 -TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG----AATAAAA
65 ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAAAA
* *
4201512 -T-TTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
130 TTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
4201553 GATTGATAGT
Statistics
Matches: 530, Mismatches: 24, Indels: 83
0.83 0.04 0.13
Matches are distributed among these distances:
198 30 0.06
199 4 0.01
200 8 0.02
201 21 0.04
202 1 0.00
203 2 0.00
204 11 0.02
205 24 0.05
206 1 0.00
207 1 0.00
208 6 0.01
209 13 0.02
210 5 0.01
211 37 0.07
212 11 0.02
213 7 0.01
214 9 0.02
215 142 0.27
216 74 0.14
217 64 0.12
218 1 0.00
219 2 0.00
220 12 0.02
221 8 0.02
222 9 0.02
223 27 0.05
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (213 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATTTGATAGTATGATTAGTAATGA
TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAAAAT
TATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAATTATTA
ATGATTTGATAGTAATGA
Found at i:4201182 original size:10 final size:10
Alignment explanation
Indices: 4201167--4201294 Score: 64
Period size: 10 Copynumber: 13.6 Consensus size: 10
4201157 AATGGTTTAA
4201167 TAGTAATGAT
1 TAGTAATGAT
4201177 TAGTAATGAT
1 TAGTAATGAT
*
4201187 TAGTAATAAT
1 TAGTAATGAT
*
4201197 TA--AATTAT
1 TAGTAATGAT
*
4201205 TATTAAT--T
1 TAGTAATGAT
4201213 T--TAATGATT
1 TAGTAATGA-T
4201222 TGAGTAATGAT
1 T-AGTAATGAT
*
4201233 TAGTAAT-AA
1 TAGTAATGAT
*
4201242 T-G-AATTAT
1 TAGTAATGAT
*
4201250 TA-TAAT-TT
1 TAGTAATGAT
* *
4201258 TAATGATTTGA-
1 TAGT-A-ATGAT
4201269 TAGTAATGAT
1 TAGTAATGAT
4201279 TAGTAATGAT
1 TAGTAATGAT
4201289 TAGTAA
1 TAGTAA
4201295 ATGAAATATT
Statistics
Matches: 93, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.04
7 3 0.03
8 15 0.16
9 11 0.12
10 48 0.52
11 6 0.06
12 6 0.06
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:4201236 original size:46 final size:46
Alignment explanation
Indices: 4201178--4201379 Score: 216
Period size: 46 Copynumber: 4.2 Consensus size: 46
4201168 AGTAATGATT
4201178 AGTAATGATTAGTAATAATTAAATTATTATTAATTTTAATGATTTG-
1 AGTAATGATTAGTAATAA-TAAATTATTATTAATTTTAATGATTTGA
*
4201224 AGTAATGATTAGTAATAATGAATTATTA-TAATTTTAATGATTTGA
1 AGTAATGATTAGTAATAATAAATTATTATTAATTTTAATGATTTGA
*
4201269 TAGTAATGATTAGTAATGATTAGTAAATGAAATATTATTATTTTTAATGATTTGA
1 -AGTAATGATTAGTAAT-A--A-TAAAT----TATTATTAATTTTAATGATTTGA
* *
4201324 TAGTAATGA-T--TAATAAGAAATTATTATTAATTTTTAATAATTTGA
1 -AGTAATGATTAGTAATAATAAATTATTATTAA-TTTTAATGATTTGA
4201369 TAGTAATGATT
1 -AGTAATGATT
4201380 TGATAGTAAT
Statistics
Matches: 137, Mismatches: 6, Indels: 26
0.81 0.04 0.15
Matches are distributed among these distances:
44 24 0.18
45 31 0.23
46 35 0.26
47 1 0.01
48 4 0.03
49 2 0.01
50 4 0.03
51 1 0.01
52 4 0.03
54 6 0.04
55 25 0.18
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (46 bp):
AGTAATGATTAGTAATAATAAATTATTATTAATTTTAATGATTTGA
Found at i:4201332 original size:45 final size:45
Alignment explanation
Indices: 4201279--4201379 Score: 152
Period size: 45 Copynumber: 2.2 Consensus size: 45
4201269 TAGTAATGAT
* *
4201279 TAGTAATGATTAGTAAATGAAA-TATTATT-ATTTTTAATGATTTGA
1 TAGTAATGATTAAT-AA-GAAATTATTATTAATTTTTAATAATTTGA
4201324 TAGTAATGATTAATAAGAAATTATTATTAATTTTTAATAATTTGA
1 TAGTAATGATTAATAAGAAATTATTATTAATTTTTAATAATTTGA
4201369 TAGTAATGATT
1 TAGTAATGATT
4201380 TGATAGTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
43 4 0.08
44 9 0.17
45 39 0.75
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (45 bp):
TAGTAATGATTAATAAGAAATTATTATTAATTTTTAATAATTTGA
Found at i:4201380 original size:14 final size:14
Alignment explanation
Indices: 4201358--4201392 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4201348 TATTAATTTT
*
4201358 TAATAATTTGATAG
1 TAATGATTTGATAG
4201372 TAATGATTTGATAG
1 TAATGATTTGATAG
4201386 TAATGAT
1 TAATGAT
4201393 AGTAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:4201397 original size:123 final size:121
Alignment explanation
Indices: 4201258--4201502 Score: 321
Period size: 123 Copynumber: 2.1 Consensus size: 121
4201248 ATTATAATTT
*
4201258 TAATGATTTGATAGTAATGATTAGTAATGATTAGT-A-AATGAAAT-AT--TA-TTATTTTTAAT
1 TAATGATTTGATAGTAATGA-TAGTAATGATTAGTAATAATGAAATGATAATATTTA-ATTTAAT
*
4201317 GATT-TGA-TAGTAA-TGATTAATAA-GAAATTATTATTAATTTTTAATAATTTGATAG
64 -ATTATGATTAGTAATTGAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAG
* *
4201372 TAATGATTTGATAGTAATGATAGTAATGATTAGTAATAATGAAATTATTAATATTTAATTTGATA
1 TAATGATTTGATAGTAATGATAGTAATGATTAGTAATAATGAAATGA-TAATATTTAATTTAATA
* *
4201437 TTAATGATTAGTAATTTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
65 TT-ATGATTAGTAATTGAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAG
4201495 TAATGATT
1 TAATGATT
4201503 AGAATAAAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
113 14 0.12
114 21 0.18
115 8 0.07
116 1 0.01
117 1 0.01
118 3 0.03
119 7 0.06
120 6 0.05
121 6 0.05
122 8 0.07
123 39 0.34
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (121 bp):
TAATGATTTGATAGTAATGATAGTAATGATTAGTAATAATGAAATGATAATATTTAATTTAATAT
TATGATTAGTAATTGAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAG
Found at i:4201466 original size:166 final size:168
Alignment explanation
Indices: 4201224--4201569 Score: 467
Period size: 166 Copynumber: 2.1 Consensus size: 168
4201214 TAATGATTTG
4201224 AGTAATGATTAGTAATAATGAATTATTATAATTTTAATGATTTGATAGTAATGATTAGTAATGAT
1 AGTAATGATTAGTAATAATGAATTATTATAATTTTAA-GATTTGATAGTAATGATTAGTAAT-AT
* *
4201289 TAGTAAATGAAA-TATTATT-ATTTTTAATGATTTGATAGTAATGATTAATAAGAAATTATTATT
64 TAGTAAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATT-AGAAGAAAAT-TTATT
* *
4201352 AATTTTTAATAATTTGATAGTAATGATTT-GATAGT-AATGAT
127 AATATTTAATAATTTGATAGTAATGATTTAG-TAATGAATGAT
*
4201393 AGTAATGATTAGTAATAATGAA--ATTATTAATATTT-A-ATTTGATATTAATGATTAGTAAT-T
1 AGTAATGATTAGTAATAATGAATTATTA-TAAT-TTTAAGATTTGATAGTAATGATTAGTAATAT
*
4201453 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGAATAAAATTTATT
64 TAGT-A-AATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGAAGAAAATTTATT
* * *
4201518 AATATTTAATGATTTGATATTAATGATTTAGTAATGATTGAT
127 AATATTTAATAATTTGATAGTAATGATTTAGTAATGAATGAT
4201560 AGTAATGATT
1 AGTAATGATT
4201570 TACGACTGAA
Statistics
Matches: 160, Mismatches: 9, Indels: 18
0.86 0.05 0.10
Matches are distributed among these distances:
164 5 0.03
165 1 0.01
166 63 0.39
167 34 0.21
168 32 0.20
169 25 0.16
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (168 bp):
AGTAATGATTAGTAATAATGAATTATTATAATTTTAAGATTTGATAGTAATGATTAGTAATATTA
GTAAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGAAGAAAATTTATTAATA
TTTAATAATTTGATAGTAATGATTTAGTAATGAATGAT
Found at i:4201500 original size:14 final size:14
Alignment explanation
Indices: 4201481--4201570 Score: 57
Period size: 14 Copynumber: 6.6 Consensus size: 14
4201471 TATTAATTTT
4201481 TAATGATTTGATAG
1 TAATGATTTGATAG
*
4201495 TAATGATTAGAATA-
1 TAATGATTTG-ATAG
* * * *
4201509 AAAT-TTATTAATAT
1 TAATGAT-TTGATAG
*
4201523 TTAATGATTTGATAT
1 T-AATGATTTGATAG
4201538 TAATGA-TT--TAG
1 TAATGATTTGATAG
4201549 TAATGA-TTGATAG
1 TAATGATTTGATAG
4201562 TAATGATTT
1 TAATGATTT
4201571 ACGACTGAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
11 10 0.17
13 15 0.25
14 20 0.34
15 13 0.22
16 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:4201564 original size:13 final size:13
Alignment explanation
Indices: 4201524--4201569 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
4201514 TATTAATATT
*
4201524 TAATGATTTGATAT
1 TAATGA-TTGATAG
4201538 TAATGATT--TAG
1 TAATGATTGATAG
4201549 TAATGATTGATAG
1 TAATGATTGATAG
4201562 TAATGATT
1 TAATGATT
4201570 TACGACTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 10 0.34
13 13 0.45
14 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (13 bp):
TAATGATTGATAG
Found at i:4201565 original size:24 final size:25
Alignment explanation
Indices: 4201524--4201571 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4201514 TATTAATATT
*
4201524 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
4201549 TAATGA-TTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
4201572 CGACTGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:4204274 original size:13 final size:13
Alignment explanation
Indices: 4204235--4204281 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
4204225 CTCACAAGAG
4204235 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
4204249 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
4204263 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
4204276 -CTTTCT
1 CCTTTCT
4204282 TTCTCGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:4204323 original size:26 final size:26
Alignment explanation
Indices: 4204280--4204363 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
4204270 CCCTTTCTTT
*
4204280 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCTGCTGCAATTTCTTCTCC
4204305 CTTTCTTCTGCTGCAATTTCTTCTCC
1 CTTTCTTCTGCTGCAATTTCTTCTCC
*
4204331 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCTGCTGCAATTTCTTCTCC
4204357 CTTTCTT
1 CTTTCTT
4204364 TCTTTTATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 5 0.09
26 51 0.91
ACGTcount: A:0.07, C:0.36, G:0.08, T:0.49
Consensus pattern (26 bp):
CTTTCTTCTGCTGCAATTTCTTCTCC
Found at i:4204326 original size:15 final size:15
Alignment explanation
Indices: 4204306--4204354 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
4204296 TTCTTCTCCC
4204306 TTTCTTCTGCTGCAA
1 TTTCTTCTGCTGCAA
*
4204321 TTTCTTCT-C--C-C
1 TTTCTTCTGCTGCAA
4204332 TTTCTTCTGCTGCAA
1 TTTCTTCTGCTGCAA
*
4204347 TCTCTTCT
1 TTTCTTCT
4204355 CCCTTTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
14 2 0.07
15 15 0.56
ACGTcount: A:0.08, C:0.33, G:0.08, T:0.51
Consensus pattern (15 bp):
TTTCTTCTGCTGCAA
Found at i:4204451 original size:33 final size:33
Alignment explanation
Indices: 4204409--4204475 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
4204399 ATAATTTAGG
* *
4204409 TGTCACCGGCTTCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACAAATAA
4204442 TGTCACCGGCTGCCTCAATTATTTCACAAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACAAATAA
4204475 T
1 T
4204476 ACGTTTGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (33 bp):
TGTCACCGGCTGCCTCAATTATTTCACAAATAA
Found at i:4204684 original size:29 final size:29
Alignment explanation
Indices: 4204652--4204731 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 29
4204642 GCGACCTACA
4204652 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
* *
4204681 AGGTCGCTGGGAGTGCTTAGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
*
4204710 AGG--G--GGGAATGCATGGCGACCT
1 AGGTCGCTGGGAGTGCATGGCGACCT
4204732 GTTGGGGACG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 15 0.33
27 1 0.02
29 30 0.65
ACGTcount: A:0.16, C:0.20, G:0.41, T:0.23
Consensus pattern (29 bp):
AGGTCGCTGGGAGTGCATGGCGACCTTGT
Found at i:4206273 original size:7 final size:7
Alignment explanation
Indices: 4206261--4206292 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4206251 TTAAACTATA
*
4206261 ATAAAAC
1 ATAAAAT
4206268 ATAAAAT
1 ATAAAAT
4206275 ATAAAAT
1 ATAAAAT
4206282 ATAAAAT
1 ATAAAAT
4206289 ATAA
1 ATAA
4206293 TTATAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAAAAT
Found at i:4206314 original size:18 final size:17
Alignment explanation
Indices: 4206257--4206319 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
4206247 CCATTTAAAC
*
4206257 TATAATAAAACATAAAAT
1 TATAATAAAA-ATATAAT
*
4206275 ATAAAATATAAAATATAAT
1 -TATAATA-AAAATATAAT
*
4206294 TATAATAAAAATATATTT
1 TATAATAAAAATATA-AT
4206312 TATAATAA
1 TATAATAA
4206320 CTCGCTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 8 0.21
18 15 0.39
19 12 0.32
20 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAATAAAAATATAAT
Found at i:4208141 original size:29 final size:29
Alignment explanation
Indices: 4208096--4208154 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4208086 ATTTTCACTT
4208096 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
4208125 AACTAAATTGATTTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
4208154 A
1 A
4208155 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:4213065 original size:64 final size:63
Alignment explanation
Indices: 4212985--4213205 Score: 248
Period size: 64 Copynumber: 3.5 Consensus size: 63
4212975 TTGAAGGTGT
** *
4212985 ATCGATGCATTGGTAGTGCATCGATGCACTCTTTTAA-AATAAAGACATCGAATGCAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCA-TCTATTAATAATAAA-ACATCGAATGCAATTCATGC
* * **
4213049 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCAT-CTATTAATAATAAAACATCGAATGCAATTCATGC
* ** * * * *
4213113 ATCGATGCATAAGGAGTGCATCGATGCATCTCAGCAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCT-ATTAATAATAAAACATCGAATGCAATTCATGC
*
4213177 A-CTGATGCATCAGTAGTGCATCGATGCAT
1 ATC-GATGCATAAGTAGTGCATCGATGCAT
4213206 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.02
64 126 0.94
65 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCTATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:4213897 original size:31 final size:31
Alignment explanation
Indices: 4213859--4214045 Score: 295
Period size: 31 Copynumber: 6.0 Consensus size: 31
4213849 AGGGTCGAGG
4213859 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4213890 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4213921 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4213952 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
4213983 ATTTACCTATGTTCTTCGGGACATATAGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
4214014 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4214045 G
1 G
4214046 GTCCTTCGGG
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
31 144 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4217382 original size:64 final size:63
Alignment explanation
Indices: 4217302--4217522 Score: 212
Period size: 64 Copynumber: 3.4 Consensus size: 63
4217292 TTGAAGGTGT
** **
4217302 ATCGATGCATTGGTAGTGCATCGATGCACTCTTTTAAAATAAAGACATCGAATGCAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCACTCAATTAAAATAAA-ACATCGAATGCAATTCATGC
* * * **
4217366 ATCGATGCATAAGTAGTGTATCGATGCA-TCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCACT-CAATTAA-AATAAAACATCGAATGCAATTCATGC
* * * * * * *
4217430 ATCGATGCATAAGGAGTGCATCGATGTATCTCAGCAAT-AAATACAACATCGAATACATTTTATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-CTCA--ATTAAAATAAAACATCGAATGCAATTCATG
4217494 C
63 C
* *
4217495 ACCGATGCATCAGTAGTGCATCGATGCA
1 ATCGATGCATAAGTAGTGCATCGATGCA
4217523 TACCTTCATT
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
63 1 0.01
64 73 0.57
65 50 0.39
66 2 0.02
67 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCACTCAATTAAAATAAAACATCGAATGCAATTCATGC
Found at i:4217513 original size:65 final size:64
Alignment explanation
Indices: 4217346--4217523 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
4217336 TAAAATAAAG
* **
4217346 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGTATCGATGCATCCCATTAATAATGAA
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
** * * *
4217410 ACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGTATCTCAGCAATAAAT-AC
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAAT-AATGA-
4217474 A
64 A
* * * * *
4217475 ACATCGAATACATTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCAT
4217524 ACCTTCATTA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 51 0.53
65 45 0.47
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:4218195 original size:31 final size:31
Alignment explanation
Indices: 4218157--4218281 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
4218147 AGGGTCCAGG
*
4218157 GTTTACCTATGTTCTTCGGGACATATGTACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
4218188 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4218219 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
4218250 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
4218281 G
1 G
4218282 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4219515 original size:29 final size:29
Alignment explanation
Indices: 4219473--4219531 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4219463 ATTTTCACCT
4219473 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
4219502 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
4219531 A
1 A
4219532 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:4221850 original size:13 final size:12
Alignment explanation
Indices: 4221814--4221847 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4221804 ATCATTATTA
4221814 TTTTTTAAACAT
1 TTTTTTAAACAT
*
4221826 TTTGTTCAAACAT
1 TTT-TTTAAACAT
4221839 TTTTTTAAA
1 TTTTTTAAA
4221848 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (12 bp):
TTTTTTAAACAT
Found at i:4223201 original size:25 final size:23
Alignment explanation
Indices: 4223173--4223222 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
4223163 TATTATCAAA
4223173 TTAAACATCGATTAAATATAATATT
1 TTAAA-AT-GATTAAATATAATATT
* *
4223198 TTAAAGTGTTTAAATATAATATT
1 TTAAAATGATTAAATATAATATT
4223221 TT
1 TT
4223223 GAATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 1 0.04
25 5 0.22
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (23 bp):
TTAAAATGATTAAATATAATATT
Found at i:4231028 original size:33 final size:31
Alignment explanation
Indices: 4230966--4231076 Score: 150
Period size: 33 Copynumber: 3.5 Consensus size: 31
4230956 TTTTAAACTT
4230966 TATTTCAATTATCGAACTTGAAGTTTTTAAG
1 TATTTCAATTATCGAACTTGAAGTTTTTAAG
*
4230997 TATTTGAATTTATCGAACTTGAAAGTTTTTAAG
1 TATTTCAA-TTATCGAACTTG-AAGTTTTTAAG
* * *
4231030 TATTTGAATTTATCAAACTTGGAAGTATTTAAG
1 TATTTCAA-TTATCGAACTT-GAAGTTTTTAAG
4231063 TATTTCAATTATCG
1 TATTTCAATTATCG
4231077 TAAACTTTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.10
32 17 0.24
33 47 0.65
34 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (31 bp):
TATTTCAATTATCGAACTTGAAGTTTTTAAG
Found at i:4231148 original size:14 final size:14
Alignment explanation
Indices: 4231129--4231172 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
4231119 TAAAATCAGT
*
4231129 TTTTTTATAACCGA
1 TTTTTTAAAACCGA
*
4231143 TTTTTTAAAAAACCGT
1 TTTTTT--AAAACCGA
4231159 TTTTTTAAAACCGA
1 TTTTTTAAAACCGA
4231173 AACCGGTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTTTAAAACCGA
Found at i:4231156 original size:16 final size:16
Alignment explanation
Indices: 4231137--4231168 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4231127 GTTTTTTTAT
4231137 AACCGATTTTTTAAAA
1 AACCGATTTTTTAAAA
*
4231153 AACCGTTTTTTTAAAA
1 AACCGATTTTTTAAAA
4231169 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
AACCGATTTTTTAAAA
Found at i:4231506 original size:2 final size:2
Alignment explanation
Indices: 4231499--4231523 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4231489 CGAAATTGAC
4231499 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4231524 GTTTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4234241 original size:11 final size:11
Alignment explanation
Indices: 4234225--4234249 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4234215 AAATCGATGC
4234225 AATAAAAATAT
1 AATAAAAATAT
4234236 AATAAAAATAT
1 AATAAAAATAT
4234247 AAT
1 AAT
4234250 GTTTTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:4238912 original size:27 final size:27
Alignment explanation
Indices: 4238869--4238987 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
4238859 AAAAGGAAGG
*
4238869 AGCAAGAGTCCTAAAAGGCGCAGTGTT
1 AGCAAGAGTCCTAAAAGACGCAGTGTT
** *
4238896 AGCGGGAGTCCTAAAAGACACAGTGTT
1 AGCAAGAGTCCTAAAAGACGCAGTGTT
*
4238923 AGCAAGAGTCCTAAAAGACGGAGTGTT
1 AGCAAGAGTCCTAAAAGACGCAGTGTT
*
4238950 AGCAAGAGTCCTAAAAGACGGAGTGTT
1 AGCAAGAGTCCTAAAAGACGCAGTGTT
*
4238977 AGCAGGAGTCC
1 AGCAAGAGTCC
4238988 AAGTGGGAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (27 bp):
AGCAAGAGTCCTAAAAGACGCAGTGTT
Found at i:4240176 original size:24 final size:24
Alignment explanation
Indices: 4240149--4240204 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4240139 CGTTCATTTA
*
4240149 CGTTTGTGAACGTTCGGTTATATT
1 CGTTTATGAACGTTCGGTTATATT
** *
4240173 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTTATGAACGTTCGGTTATATT
*
4240197 CGGTTATG
1 CGTTTATG
4240205 TTCGTTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (24 bp):
CGTTTATGAACGTTCGGTTATATT
Found at i:4240185 original size:10 final size:10
Alignment explanation
Indices: 4240160--4240217 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
4240150 GTTTGTGAAC
*
4240160 GTTCGGTTAT
1 GTTCGTTTAT
*
4240170 ATTCGTTTAT
1 GTTCGTTTAT
4240180 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
*
4240194 GTTCGGTTAT
1 GTTCGTTTAT
4240204 GTTCGTTTAT
1 GTTCGTTTAT
4240214 GTTC
1 GTTC
4240218 ATTCATTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 29 0.74
11 1 0.03
14 9 0.23
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.53
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:4240205 original size:24 final size:24
Alignment explanation
Indices: 4240159--4240210 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
4240149 CGTTTGTGAA
*
4240159 CGTTCGGTTATATTCGTTTATGTT
1 CGTTCGGTTATATTCGGTTATGTT
*
4240183 CGTTCGGTTATGTTCGGTTATGTT
1 CGTTCGGTTATATTCGGTTATGTT
4240207 CGTT
1 CGTT
4240211 TATGTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.10, C:0.13, G:0.25, T:0.52
Consensus pattern (24 bp):
CGTTCGGTTATATTCGGTTATGTT
Found at i:4240228 original size:34 final size:34
Alignment explanation
Indices: 4240160--4240230 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
4240150 GTTTGTGAAC
* *
4240160 GTTCGGTTATATTCGTTTATGTTCGTTCGGTTAT
1 GTTCGGTTATATTCGTTTATGTTCATTCAGTTAT
* *
4240194 GTTCGGTTATGTTCGTTTATGTTCATTCATTTAT
1 GTTCGGTTATATTCGTTTATGTTCATTCAGTTAT
4240228 GTT
1 GTT
4240231 TAACTCAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (34 bp):
GTTCGGTTATATTCGTTTATGTTCATTCAGTTAT
Found at i:4241331 original size:16 final size:16
Alignment explanation
Indices: 4241303--4241362 Score: 93
Period size: 16 Copynumber: 3.7 Consensus size: 16
4241293 CTAACGTTTA
4241303 TGTTCGTTTTATGTTCG
1 TGTTCG-TTTATGTTCG
* *
4241320 CGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
4241336 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4241352 TGTTCGTTTAT
1 TGTTCGTTTAT
4241363 TTATTAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
16 35 0.90
17 4 0.10
ACGTcount: A:0.08, C:0.13, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:4251645 original size:22 final size:21
Alignment explanation
Indices: 4251607--4251649 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
4251597 AATTCTGAAA
*
4251607 ATTATAAGATATTATTAAATT
1 ATTATAAAATATTATTAAATT
4251628 ATTATAAAATAATTATTAAATT
1 ATTATAAAAT-ATTATTAAATT
4251650 CATTGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTATAAAATATTATTAAATT
Found at i:4251671 original size:11 final size:11
Alignment explanation
Indices: 4251606--4251672 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
4251596 AAATTCTGAA
*
4251606 AATTATAAGAT
1 AATTATAAAAT
*
4251617 -ATTATTAAAT
1 AATTATAAAAT
*
4251627 TATTATAAAAT
1 AATTATAAAAT
*
4251638 AATTATTAAAT
1 AATTATAAAAT
* **
4251649 --TCATTGAAT
1 AATTATAAAAT
4251658 AATTATAAAAT
1 AATTATAAAAT
4251669 AATT
1 AATT
4251673 TTTAAACTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 7 0.16
10 8 0.19
11 28 0.65
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:4257437 original size:255 final size:253
Alignment explanation
Indices: 4256937--4257460 Score: 788
Period size: 255 Copynumber: 2.1 Consensus size: 253
4256927 ATAAAAATCA
*
4256937 ATTTTTATTCAATAAAAATATTGACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAAT
1 ATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAAT
* * *
4257002 TATTCCTAAATATATAAGATAAAATTATATATTTTTTCCGGGTCGGTCCGATTTTTTCACCCTAA
66 TATTCATAAATATATAAGATAAAATTATATATATTTTCCGGGTCGAT-C-ATTTTTTCACCCTAA
* *
4257067 ACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAACCCGACCTGACCTGAACAAAATAAAG
129 ACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCTGAACAAAATAAAG
* * *
4257132 TTTCAACCGACCCGACCCGAATATATGAATTAGAAATCCGACCTGAAATAATAAAAAATT
194 TTTCAACCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAAT
4257192 ATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAAT
1 ATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAAT
* *
4257257 TATTCATAAATATATAAGGTAAAATTATATATATTTTCC-GGTCGA--ATATTTTTCATCCTAAA
66 TATTCATAAATATATAAGATAAAATTATATATATTTTCCGGGTCGATCAT-TTTTTCACCCTAAA
* * *
4257319 CCTGAATTCGA-CCGACCCGAATATCACACTTAAAAAAACCGACCCGA-CTCGACCAAAATAAAG
130 CCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCT-GAACAAAATAAAG
* *
4257382 TTTCACCCGACCCGACCTGAATATATGAATTAGAAACCCGACCCCACCCGAAATAATAAAAAAAT
194 TTTCAACCGACCCGACCCGAATATATGAATTAGAAACCCG-----ACCCGAAATAATAAAAAAAT
4257447 ATTTTTATTCAATA
1 ATTTTTATTCAATA
4257461 TATAAATAAA
Statistics
Matches: 246, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
249 2 0.01
250 85 0.35
251 22 0.09
254 5 0.02
255 132 0.54
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (253 bp):
ATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAAT
TATTCATAAATATATAAGATAAAATTATATATATTTTCCGGGTCGATCATTTTTTCACCCTAAAC
CCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCTGAACAAAATAAAGTT
TCAACCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAAT
Found at i:4257600 original size:39 final size:39
Alignment explanation
Indices: 4257547--4257621 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
4257537 CATCCATTTT
*
4257547 TGGATGGAATTCACTTTTCCTTATTTGATGGAAAGTAAA
1 TGGATGAAATTCACTTTTCCTTATTTGATGGAAAGTAAA
4257586 TGGATGAAATTCACTTTTCCTTATTTGATGGAAAGT
1 TGGATGAAATTCACTTTTCCTTATTTGATGGAAAGT
4257622 TGAAGCAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (39 bp):
TGGATGAAATTCACTTTTCCTTATTTGATGGAAAGTAAA
Found at i:4263261 original size:134 final size:134
Alignment explanation
Indices: 4263021--4263288 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
4263011 AGGACAAAGA
4263021 GATAATCTTACAACTCCCTAGTTTTTTCGGGCTAAACTAGAACTTTTCCCTAGCTTTTACACGGG
1 GATAATCTTACAACTCCCTAGTTTTTTCGGGCTAAACTAGAACTTTTCCCTAGCTTTTACACGGG
4263086 ATAAGCTAGAACCTTTCCCCTTTACAAAAAGATAAGAAATGTAAACAAGAAAACCTCTCTAAGGT
66 ATAAGCTAGAACCTTTCCCCTTTACAAAAAGATAAGAAATGTAAACAAGAAAACCTCTCTAAGGT
4263151 AGGT
131 AGGT
4263155 GATAATCTTACAACTCCCTAGTTTTTTCGGGCTAAACTAGAACTTTTCCCTAGCTTTTACACGGG
1 GATAATCTTACAACTCCCTAGTTTTTTCGGGCTAAACTAGAACTTTTCCCTAGCTTTTACACGGG
4263220 ATAAGCTAGAACCTTTCCCCTTTACAAAAAGATAAGAAATGTAAACAAGAAAACCTCTCTAAGGT
66 ATAAGCTAGAACCTTTCCCCTTTACAAAAAGATAAGAAATGTAAACAAGAAAACCTCTCTAAGGT
4263285 AGGT
131 AGGT
4263289 AACCCCCCAG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (134 bp):
GATAATCTTACAACTCCCTAGTTTTTTCGGGCTAAACTAGAACTTTTCCCTAGCTTTTACACGGG
ATAAGCTAGAACCTTTCCCCTTTACAAAAAGATAAGAAATGTAAACAAGAAAACCTCTCTAAGGT
AGGT
Found at i:4264098 original size:24 final size:24
Alignment explanation
Indices: 4264071--4264145 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
4264061 CATAATTCAA
*
4264071 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
4264095 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
4264119 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
4264142 GTCA
1 GTCA
4264146 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:4264151 original size:23 final size:23
Alignment explanation
Indices: 4264075--4264151 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
4264065 ATTCAAGTCA
*
4264075 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
4264098 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
4264122 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
4264145 AGGATCA
1 AGTATCA
4264152 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:4264178 original size:47 final size:47
Alignment explanation
Indices: 4264054--4264167 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
4264044 TATATCAAAA
* * * * *
4264054 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
4264102 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
4264148 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
4264168 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:4265313 original size:18 final size:18
Alignment explanation
Indices: 4265292--4265327 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4265282 CTTCCATCCG
*
4265292 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
4265310 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
4265328 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:4266601 original size:10 final size:9
Alignment explanation
Indices: 4266588--4266635 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
4266578 GGTCAAGTTT
4266588 TGGTCAACAG
1 TGGTCAAC-G
4266598 TGGTCAACG
1 TGGTCAACG
4266607 TGGGTCAAC-
1 T-GGTCAACG
4266616 -GGTCAACG
1 TGGTCAACG
4266624 -GGTCAACG
1 TGGTCAACG
4266632 -GGTC
1 TGGTC
4266636 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:4266629 original size:8 final size:8
Alignment explanation
Indices: 4266589--4266660 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
4266579 GTCAAGTTTT
4266589 GGTCAACAG
1 GGTCAAC-G
4266598 TGGTCAACGTG
1 -GGTCAAC--G
4266609 GGTCAAC-
1 GGTCAACG
4266616 GGTCAACG
1 GGTCAACG
4266624 GGTCAACG
1 GGTCAACG
4266632 GGT---CG
1 GGTCAACG
4266637 GGTCAACG
1 GGTCAACG
4266645 GGT---CG
1 GGTCAACG
4266650 GGTCAACG
1 GGTCAACG
4266658 GGT
1 GGT
4266661 TGGGTCGGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
5 10 0.19
7 7 0.13
8 21 0.40
10 14 0.26
11 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.40, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:4266640 original size:13 final size:13
Alignment explanation
Indices: 4266622--4266709 Score: 99
Period size: 13 Copynumber: 6.5 Consensus size: 13
4266612 CAACGGTCAA
4266622 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4266635 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4266648 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
4266666 CGGGTCAAC-GGT
1 CGGGTCAACGGGT
*
4266678 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
4266691 CGGGTAAACGGGT
1 CGGGTCAACGGGT
4266704 -GGGTCA
1 CGGGTCA
4266710 TGACCGGTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
12 16 0.24
13 38 0.57
18 13 0.19
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:4266653 original size:18 final size:17
Alignment explanation
Indices: 4266643--4266682 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
4266633 GTCGGGTCAA
4266643 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
*
4266661 TGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
4266678 CGGGT
1 CGGGT
4266683 AAACGGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.20, G:0.50, T:0.20
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:4266688 original size:43 final size:43
Alignment explanation
Indices: 4266622--4266708 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
4266612 CAACGGTCAA
* *
4266622 CGGGTCAACGGGTCGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGG-TGGGT
4266666 CGGGTCAAC-GGTCGGGTAAACGGGTCGGGTAAACGGGTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTGGGT
4266708 C
1 C
4266709 ATGACCGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 6 0.15
43 26 0.63
44 9 0.22
ACGTcount: A:0.16, C:0.20, G:0.47, T:0.17
Consensus pattern (43 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTGGGT
Found at i:4267867 original size:55 final size:57
Alignment explanation
Indices: 4267779--4267889 Score: 208
Period size: 55 Copynumber: 2.0 Consensus size: 57
4267769 AGCAGATAGA
4267779 AAACTTTGGTTTACTCAATACAGATAGGGACTCAGCCCTGGAGTTCCGGC-CAGAGG
1 AAACTTTGGTTTACTCAATACAGATAGGGACTCAGCCCTGGAGTTCCGGCTCAGAGG
4267835 AAACTTTGGTTTACTC-ATACAGATAGGGACTCAGCCCTGGAGTTCCGGCTCAGAG
1 AAACTTTGGTTTACTCAATACAGATAGGGACTCAGCCCTGGAGTTCCGGCTCAGAG
4267890 AGGTACGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 33 0.61
56 21 0.39
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (57 bp):
AAACTTTGGTTTACTCAATACAGATAGGGACTCAGCCCTGGAGTTCCGGCTCAGAGG
Found at i:4268702 original size:36 final size:35
Alignment explanation
Indices: 4268628--4268703 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 35
4268618 CGTCACTAAC
**
4268628 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
4268663 AGTAAGGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAA-GGCCCTGAGCACACAGCCGAGGAACCGCCA
4268699 AGTAA
1 AGTAA
4268704 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.33, C:0.29, G:0.29, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:4268859 original size:23 final size:23
Alignment explanation
Indices: 4268791--4268859 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
4268781 GTCAAGTCAT
4268791 ATCAGAATCCAGGTCATGTATCAG
1 ATCAGAATCCAGGTCA-GTATCAG
* *
4268815 ATCAGAATCCATGTCAATATCAG
1 ATCAGAATCCAGGTCAGTATCAG
*
4268838 ATCAGAATCCAGGTCAGGATCA
1 ATCAGAATCCAGGTCAGTATCA
4268860 TAATAGAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (23 bp):
ATCAGAATCCAGGTCAGTATCAG
Found at i:4268884 original size:47 final size:46
Alignment explanation
Indices: 4268764--4268886 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 46
4268754 TATATCAAAA
* * * * *
4268764 ATCAAAACATAATTCAAGTCAAGTCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATTCAAGTCAAATCAGATCAGAATCCAGGTCATGG
* * *
4268810 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATTCAAGTCAA-ATCAGATCAGAATCCAGGTCATGG
4268856 ATCATAAT-AGAATTCAAGTCGGAAATCAGAT
1 ATCA-AATCAGAATTCAAGTC--AAATCAGAT
4268887 AAAATATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
46 32 0.52
47 28 0.45
48 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (46 bp):
ATCAAATCAGAATTCAAGTCAAATCAGATCAGAATCCAGGTCATGG
Found at i:4271328 original size:8 final size:8
Alignment explanation
Indices: 4271309--4271361 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
4271299 GTGGTCACGT
4271309 GGGTCAAC
1 GGGTCAAC
4271317 -GGTCAAC
1 GGGTCAAC
4271324 GGGTCAAC
1 GGGTCAAC
4271332 GGGT---C
1 GGGTCAAC
4271337 GGGTCAAC
1 GGGTCAAC
4271345 GGGT---C
1 GGGTCAAC
4271350 GGGTCAAC
1 GGGTCAAC
4271358 GGGT
1 GGGT
4271362 TGGGTCGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
5 10 0.26
7 7 0.18
8 21 0.55
ACGTcount: A:0.19, C:0.23, G:0.43, T:0.15
Consensus pattern (8 bp):
GGGTCAAC
Done.