Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 305 of 322
Found at i:101316306 original size:30 final size:30
Alignment explanation
Indices: 101316249--101316306 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
101316239 TTCTATTATC
**
101316249 AATTTTGTTATTATTTTAAAGCCATTTGTT
1 AATTTTGTTATTATTTTAAAGAAATTTGTT
* *
101316279 AATTTTGTTGTTATTTTAGAGAAATTTG
1 AATTTTGTTATTATTTTAAAGAAATTTG
101316307 CTTGTTAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGAAATTTGTT
Found at i:101321988 original size:12 final size:12
Alignment explanation
Indices: 101321971--101322018 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
101321961 TGGGAGTAAA
101321971 GTTTTATATTTG
1 GTTTTATATTTG
*
101321983 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
101321998 GTTTTATATTTG
1 GTTTTATATTTG
101322010 GTTTTATAT
1 GTTTTATAT
101322019 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:101322001 original size:27 final size:27
Alignment explanation
Indices: 101321967--101322023 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
101321957 TTAGTGGGAG
101321967 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
101321994 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
101322021 TAA
1 TAA
101322024 TGACACACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:101324757 original size:27 final size:26
Alignment explanation
Indices: 101324709--101324768 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
101324699 GCGAGGCTGC
*
101324709 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
101324736 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
101324762 CAGATAT
1 CAGATAT
101324769 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:101329128 original size:30 final size:30
Alignment explanation
Indices: 101329094--101329154 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
101329084 TCCTTAACTC
101329094 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
101329124 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
101329154 A
1 A
101329155 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:101333736 original size:3 final size:3
Alignment explanation
Indices: 101333728--101333800 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
101333718 TTTGATTTTA
*
101333728 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
101333776 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
101333801 ATAAGCCAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:101337840 original size:42 final size:43
Alignment explanation
Indices: 101337768--101337850 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
101337758 TGAGATTTAC
*
101337768 GTGTAAGACCATGTCTGGGACATCGACATCG-TAATTGATTTT
1 GTGTAAGACCATGTCTAGGACATCGACATCGATAATTGATTTT
* * *
101337810 GTGTAAGACCCTGTCTAGGACAAT-GGCATCGATATTTGATT
1 GTGTAAGACCATGTCTAGGAC-ATCGACATCGATAATTGATT
101337851 ACATGTAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACATCGACATCGATAATTGATTTT
Found at i:101337850 original size:43 final size:41
Alignment explanation
Indices: 101337711--101337850 Score: 106
Period size: 42 Copynumber: 3.3 Consensus size: 41
101337701 CATAGGATTC
* * **
101337711 CGATATGTGATTTTGTGTAAGACCAC-ATCTGGATGTTGGCAT
1 CGATATTTGATTTTGTGTAAGACC-CTGTCTGGA-CATGGCAT
* * * *
101337753 CGA-ATTGAGATTTACGTGTAAGACCATGTCTGGGACATCGACAT
1 CGATATT-TGATTT-TGTGTAAGACCCTGTCT-GGACAT-GGCAT
*
101337797 CG-TAATTGATTTTGTGTAAGACCCTGTCTAGGACAATGGCAT
1 CGATATTTGATTTTGTGTAAGACCCTGTCT-GGAC-ATGGCAT
101337839 CGATATTTGATT
1 CGATATTTGATT
101337851 ACATGTAAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
41 2 0.03
42 33 0.44
43 29 0.39
44 11 0.15
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (41 bp):
CGATATTTGATTTTGTGTAAGACCCTGTCTGGACATGGCAT
Found at i:101341096 original size:17 final size:16
Alignment explanation
Indices: 101341059--101341096 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
101341049 AAAAACCCGA
101341059 AAAAGAAAATATAAAT
1 AAAAGAAAATATAAAT
*
101341075 AAAAGCAAAATATATAT
1 AAAAG-AAAATATAAAT
101341092 AAAAG
1 AAAAG
101341097 GGGACAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (16 bp):
AAAAGAAAATATAAAT
Found at i:101352387 original size:13 final size:13
Alignment explanation
Indices: 101352369--101352393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101352359 TGTATTGGTT
101352369 TTAATATGATTTA
1 TTAATATGATTTA
101352382 TTAATATGATTT
1 TTAATATGATTT
101352394 GAAATGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAATATGATTTA
Found at i:101356384 original size:48 final size:48
Alignment explanation
Indices: 101356237--101356462 Score: 197
Period size: 48 Copynumber: 4.6 Consensus size: 48
101356227 GTAAGATGTG
* * * *
101356237 GATGCCATG-TCCTAGACACGGTCTTACAC-AGGCTCTTATATATTGGTGCC
1 GATGCCATGTTCC-AAACATGGTCTTACACTA-GCTCTCATATA--GATGCC
* * * * * * * *
101356287 AATGCCATGTTCCAAACATGGCCTTACATTAGCCCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAGATGCC
* *
101356335 GATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATAAATGCC
1 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATATAGATGCC
* * * *
101356383 GATGCCATGTTCCAAACATGGTCTTCCACTGGCTCTCATATATCGGTGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATA--GATGCC
*
101356433 GATGCCATGTTCCAAAAATGGTCTTACACT
1 GATGCCATGTTCCAAACATGGTCTTACACT
101356463 GTAACGCCCC
Statistics
Matches: 140, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
47 3 0.02
48 73 0.52
49 3 0.02
50 57 0.41
51 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAGATGCC
Found at i:101356437 original size:98 final size:98
Alignment explanation
Indices: 101356237--101356462 Score: 246
Period size: 98 Copynumber: 2.3 Consensus size: 98
101356227 GTAAGATGTG
* * **
101356237 GATGCCATGTCCTAGACACGGTCTTACAC-AGGCTCTTATATATTGGTGCCAATGCCATGTTCCA
1 GATGCCATGTCCTAGACATGGTCTTACACTAGGCTCTCATATA-TAATGCCAATGCCATGTTCCA
* *
101356301 AACATGGCCTTACATTAGCCCACATGTCGAGGCC
65 AACATGGCCTTACACTAGCCCACATATCGAGGCC
*
101356335 GATGCCATGTCCTAGACATGGTCTTACACTA-GCTCTCATATA-AATGCCGATGCCATGTTCCAA
1 GATGCCATGTCCTAGACATGGTCTTACACTAGGCTCTCATATATAATGCCAATGCCATGTTCCAA
* * * * *
101356398 ACATGGTCTTCCACTGGCTCTCATATATCG-GTGCT
66 ACATGGCCTTACACTAGC-C-CACATATCGAG-GCC
* *
101356433 GATGCCATGTTCC-AAAAATGGTCTTACACT
1 GATGCCATG-TCCTAGACATGGTCTTACACT
101356463 GTAACGCCCC
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
96 32 0.29
97 2 0.02
98 71 0.65
99 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (98 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGGCTCTCATATATAATGCCAATGCCATGTTCCAA
ACATGGCCTTACACTAGCCCACATATCGAGGCC
Found at i:101358745 original size:48 final size:47
Alignment explanation
Indices: 101358596--101358804 Score: 150
Period size: 48 Copynumber: 4.3 Consensus size: 47
101358586 GGGTGCTACA
** *
101358596 TACACTAGCCCACATGTCGAGGCCAATGCCATGTCCCATACATGGTCT
1 TACACTAGCCCACATGTCGAGG-TGATGCCATGTCCCAAACATGGTCT
* * * * * * *
101358644 TACACTGGCTTTCATATATCG-GTGTCGATGCCATGTTCCAAACATAGTTT
1 TACACTAGC--CCACATGTCGAG-GT-GATGCCATGTCCCAAACATGGTCT
*
101358694 TACACTAGCCCACATGTCGAGGATGATGCCATGTCCCAGACATGGTCT
1 TACACTAGCCCACATGTCGAGG-TGATGCCATGTCCCAAACATGGTCT
* * * ** ** * *
101358742 TACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAATATGGTCT
1 TACACTAGCCCACATGTCGA-GGTGATGCCATGTCCCAAACATGGTCT
* *
101358790 TACACTGGCTCACAT
1 TACACTAGCCCACAT
101358805 AACCCTAGTA
Statistics
Matches: 124, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
48 85 0.69
49 4 0.03
50 35 0.28
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
TACACTAGCCCACATGTCGAGGTGATGCCATGTCCCAAACATGGTCT
Found at i:101360133 original size:29 final size:28
Alignment explanation
Indices: 101360042--101360148 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 28
101360032 TACATACATG
101360042 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTC-TATT
* * *
101360070 CAAATGGCCCATCT-GGCCCAGTTCATACT
1 CATATGGCCCA-CTAGGCCCAATTC-TATT
* *
101360099 CTTATGGCCCACTAAGCCCAATTCTCATT
1 CATATGGCCCACTAGGCCCAATTCT-ATT
*
101360128 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
101360149 ATCATATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTCTATT
Found at i:101360154 original size:58 final size:57
Alignment explanation
Indices: 101360044--101360154 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 57
101360034 CATACATGCA
* * **
101360044 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATACTCT
1 TATGGCCCACTAAGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATACTCT
*
101360101 TATGGCCCACTAAGCCCAATTCTCATTCATATGGCCCAT-TAGGCCCAAATCATA
1 TATGGCCCACTAAGCCCAA-TCTCATTCAAATGGCCCATCT-GGCCCAAATCATA
101360155 TTATATTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.27
Consensus pattern (57 bp):
TATGGCCCACTAAGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATACTCT
Found at i:101377273 original size:96 final size:96
Alignment explanation
Indices: 101377111--101377297 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
101377101 GGTACAATGT
* * * * *** *
101377111 CGATGCCATTCCTAGACATGGTTTTACACTGGCTCTCACATATTGGTGTCGATGCCATGTTCCAA
1 CGATGCCATTCCCAGACATGGTCTCACACTAGCTCT-ACATATAAATGTCAATGCCATGTTCCAA
*
101377176 ACATGGAATTACATTAGCCCACATGTCGAGGC
65 ACATGGAATTACACTAGCCCACATGTCGAGGC
101377208 CGATGCCATGTCCCAGACATGGTCTCACACTAGCTCT-CATATAAATGTCAATGCCATGTTCCAA
1 CGATGCCAT-TCCCAGACATGGTCTCACACTAGCTCTACATATAAATGTCAATGCCATGTTCCAA
* ** *
101377272 ACTTGGTCTTACACTAGCCCATATGT
65 ACATGGAATTACACTAGCCCACATGT
101377298 TGAAGCTGCG
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
96 44 0.58
97 9 0.12
98 23 0.30
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
CGATGCCATTCCCAGACATGGTCTCACACTAGCTCTACATATAAATGTCAATGCCATGTTCCAAA
CATGGAATTACACTAGCCCACATGTCGAGGC
Found at i:101391378 original size:43 final size:43
Alignment explanation
Indices: 101391312--101391398 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
101391302 TGAATTTGAG
*
101391312 AATGTCGAGCATCTGAGAATAGTGTTACAGACTTTGCGTGATA
1 AATGCCGAGCATCTGAGAATAGTGTTACAGACTTTGCGTGATA
101391355 AATGCCGAGCATCTGAGAATAGTGTTACAGACTTTGCGTGATA
1 AATGCCGAGCATCTGAGAATAGTGTTACAGACTTTGCGTGATA
101391398 A
1 A
101391399 GCAGTTGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (43 bp):
AATGCCGAGCATCTGAGAATAGTGTTACAGACTTTGCGTGATA
Found at i:101394138 original size:18 final size:18
Alignment explanation
Indices: 101394115--101394167 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
101394105 TGTTTTGATC
101394115 CGTTTTTGATAATTTCTA
1 CGTTTTTGATAATTTCTA
101394133 CG-TTTTG---A-TTC--
1 CGTTTTTGATAATTTCTA
101394144 -GTTTTTGATAATTTCTA
1 CGTTTTTGATAATTTCTA
101394161 CGTTTTT
1 CGTTTTT
101394168 TGTGATTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 16
0.63 0.00 0.37
Matches are distributed among these distances:
10 1 0.04
11 5 0.19
13 3 0.11
14 2 0.07
15 3 0.11
17 5 0.19
18 8 0.30
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.58
Consensus pattern (18 bp):
CGTTTTTGATAATTTCTA
Found at i:101394138 original size:28 final size:28
Alignment explanation
Indices: 101394106--101394166 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
101394096 TAAGGTATGT
101394106 GTTTTGATCCGTTTTTGATAATTTCTAC
1 GTTTTGATCCGTTTTTGATAATTTCTAC
*
101394134 GTTTTGATTCGTTTTTGATAATTTCTAC
1 GTTTTGATCCGTTTTTGATAATTTCTAC
101394162 GTTTT
1 GTTTT
101394167 TTGTGATTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.57
Consensus pattern (28 bp):
GTTTTGATCCGTTTTTGATAATTTCTAC
Found at i:101394961 original size:43 final size:44
Alignment explanation
Indices: 101394913--101395025 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 44
101394903 GTCTAACTTA
*
101394913 TGATTTACATGTAAGACCATGTCTAGGACA-TCGGCAT-TATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGT-GGCATCGATATT
* *
101394956 TGATTT-CATGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
* * *
101394999 CGA-CTACATGTAAGACCACGTCTAGGA
1 TGATTTACATGTAAGACCATGTCTAGGA
101395026 TGTTGGCATT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
Found at i:101397820 original size:23 final size:23
Alignment explanation
Indices: 101397768--101397814 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
101397758 TCAACCATCC
*
101397768 AAAACTACCTGCTGTACCACACT
1 AAAACTACCTGCTGAACCACACT
*
101397791 AAAACTACCTGTTGAACCACACT
1 AAAACTACCTGCTGAACCACACT
101397814 A
1 A
101397815 GCACTAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.21
Consensus pattern (23 bp):
AAAACTACCTGCTGAACCACACT
Found at i:101401312 original size:47 final size:47
Alignment explanation
Indices: 101401261--101401446 Score: 300
Period size: 47 Copynumber: 4.0 Consensus size: 47
101401251 TTAGGATTTT
*
101401261 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
101401308 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
101401355 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
101401402 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
101401447 TAGTGTGAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:101401314 original size:22 final size:22
Alignment explanation
Indices: 101401286--101401361 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
101401276 ACATGCATAT
101401286 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
101401308 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
101401332 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
101401355 ATGTGAT
1 ATGTGAT
101401362 GAACGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:101401410 original size:25 final size:25
Alignment explanation
Indices: 101401335--101401410 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
101401325 ATGCATATAT
101401335 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
101401360 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
101401382 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
101401407 GTGA
1 GTGA
101401411 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:101401659 original size:37 final size:37
Alignment explanation
Indices: 101401609--101401750 Score: 221
Period size: 37 Copynumber: 3.8 Consensus size: 37
101401599 GGAAATATAT
*
101401609 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
101401646 TCCGGGTAAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
101401683 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
101401720 TCCGGGTAAGACCCGATAACTTCGTGTGGAG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAG
101401751 GTTTCGTCTG
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:101407467 original size:142 final size:142
Alignment explanation
Indices: 101407206--101407474 Score: 335
Period size: 142 Copynumber: 1.9 Consensus size: 142
101407196 TGTGCATGTC
* * * *
101407206 AGTGTAAGACCTGTCTGAGACACAGCATCGACACAGATAAGTGAAAGCCAGTGTAAGACCTCTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * * * * *
101407271 GGGACATGGCATTGGCCTTAAGATATGCAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGC
66 GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
101407336 TTGAGGTGTATT
131 TTGAGGTGTATT
* ** * * *
101407348 AGTGTAAGACCTATATGGGACATGGCATCAACATAGATAAGCGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * *
101407413 GGGACATGGAATCGACCTCAATG-TATGTAAG-TCAGTGTAAGAACTGTTTGGGACATCGCATC
66 GGGACATGGAATCGACCTCAA-GATATGCAAGCT-AGTGTAAGAACTGTCTAGGACATCGCATC
101407475 AACTTAAATG
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
141 1 0.01
142 104 0.98
143 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
TTGAGGTGTATT
Found at i:101416465 original size:142 final size:142
Alignment explanation
Indices: 101416204--101416472 Score: 335
Period size: 142 Copynumber: 1.9 Consensus size: 142
101416194 TGTGCATGTC
* * * *
101416204 AGTGTAAGACCTGTCTGAGACACAGCATCGACACAGATAAGTGAAAGCCAGTGTAAGACCTCTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * * * * *
101416269 GGGACATGGCATTGGCCTTAAGATATGCAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGC
66 GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
101416334 TTGAGGTGTATT
131 TTGAGGTGTATT
* ** * * *
101416346 AGTGTAAGACCTATATGGGACATGGCATCAACATAGATAAGCGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * *
101416411 GGGACATGGAATCGACCTCAATG-TATGTAAG-TCAGTGTAAGAACTGTTTGGGACATCGCATC
66 GGGACATGGAATCGACCTCAA-GATATGCAAGCT-AGTGTAAGAACTGTCTAGGACATCGCATC
101416473 AACTTAAATG
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
141 1 0.01
142 104 0.98
143 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
TTGAGGTGTATT
Found at i:101421985 original size:96 final size:96
Alignment explanation
Indices: 101421821--101422010 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 96
101421811 CATGGGCCTT
* *
101421821 TACTTGTGATGTATGAAATGCGGTGAAAATTATTTGTGATATGTATGTTAAAATTAGGTTAATAC
1 TACTTGTGATGTATGAAATGCGGTGAAAATGATTTGTGATATGTATGTTAAAATGAGGTTAATAC
101421886 AAAGAAAGTGTGAAAGAGTGAATTAGCAATA
66 AAAGAAAGTGTGAAAGAGTGAATTAGCAATA
*
101421917 TACTTGTGATGTATGAAATGTGGTGAAAATGATTTGTGATATGTATGTTAAAATGAGGTTAATAC
1 TACTTGTGATGTATGAAATGCGGTGAAAATGATTTGTGATATGTATGTTAAAATGAGGTTAATAC
101421982 AAAGAAAGTGTGAAAGAGTGAATTAGCAA
66 AAAGAAAGTGTGAAAGAGTGAATTAGCAA
101422011 GAAAACTGTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (96 bp):
TACTTGTGATGTATGAAATGCGGTGAAAATGATTTGTGATATGTATGTTAAAATGAGGTTAATAC
AAAGAAAGTGTGAAAGAGTGAATTAGCAATA
Found at i:101422118 original size:80 final size:81
Alignment explanation
Indices: 101422012--101422171 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 81
101422002 AATTAGCAAG
101422012 AAAACTGTTTTGGACAGTAGCAGTGACGTGATTTTGAAAAATCACCAAAAATAGTAGAAATTGAA
1 AAAACTGTTTTGGACAGTAGCAGTGACGTGATTTTGAAAAATCACCAAAAATAGTAGAAATTGAA
101422077 TCAGAGACTTAATGAT
66 TCAGAGACTTAATGAT
101422093 AAAACTGTTTTGG-CAGTAGCAGTGACGTGATTTTGAAAAATCACCAAAAATAGTAGAAATTGAA
1 AAAACTGTTTTGGACAGTAGCAGTGACGTGATTTTGAAAAATCACCAAAAATAGTAGAAATTGAA
101422157 TCAGAGACTTAATGA
66 TCAGAGACTTAATGA
101422172 GAGATGAAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 66 0.84
81 13 0.16
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (81 bp):
AAAACTGTTTTGGACAGTAGCAGTGACGTGATTTTGAAAAATCACCAAAAATAGTAGAAATTGAA
TCAGAGACTTAATGAT
Found at i:101424528 original size:79 final size:79
Alignment explanation
Indices: 101424457--101424641 Score: 361
Period size: 79 Copynumber: 2.3 Consensus size: 79
101424447 TTTTAGATAG
101424457 TAAAAATATAATTTTATTATTTTAATATTTTATTTATAATTTTTAAAGAGTTAAATTAAACTTTA
1 TAAAAATATAATTTTATTATTTTAATATTTTATTTATAATTTTTAAAGAGTTAAATTAAACTTTA
101424522 TCATTTTTAAAACA
66 TCATTTTTAAAACA
101424536 TAAAAATATAATTTTATTATTTTAATATTTTATTTATAATTTTTAAAGAGTTAAATTAAACTTTA
1 TAAAAATATAATTTTATTATTTTAATATTTTATTTATAATTTTTAAAGAGTTAAATTAAACTTTA
101424601 TCATTTTTAAAACA
66 TCATTTTTAAAACA
101424615 TAAAAATATAATTTTATTATTATTAAT
1 TAAAAATATAATTTTATTATT-TTAAT
101424642 TAAAAATTTA
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 100 0.95
80 5 0.05
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (79 bp):
TAAAAATATAATTTTATTATTTTAATATTTTATTTATAATTTTTAAAGAGTTAAATTAAACTTTA
TCATTTTTAAAACA
Found at i:101424680 original size:15 final size:16
Alignment explanation
Indices: 101424639--101424681 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
101424629 TATTATTATT
101424639 AATTAAAAAT-TTAAA
1 AATTAAAAATATTAAA
*
101424654 AATTATAAAATATT-TA
1 AATTA-AAAATATTAAA
101424670 AATTAAAAATAT
1 AATTAAAAATAT
101424682 ACCGATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTAAAAATATTAAA
Found at i:101425248 original size:26 final size:24
Alignment explanation
Indices: 101425219--101425270 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
101425209 AACAAAAGAG
*
101425219 AAAGAAAAATAAAGGAAAAAAAGTTA
1 AAAG-AAAATAAAAGAAAAAAA-TTA
*
101425245 AAAGAATATAAAAGAAAAAAATTA
1 AAAGAAAATAAAAGAAAAAAATTA
101425269 AA
1 AA
101425271 TTAGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 15 0.62
26 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (24 bp):
AAAGAAAATAAAAGAAAAAAATTA
Found at i:101426014 original size:23 final size:21
Alignment explanation
Indices: 101425975--101426020 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101425965 AACACCCTGC
* *
101425975 AAGCAATATCTTTTAAATTCT
1 AAGCAATATATTTTAAATACT
101425996 AAGCAATATATTATATAAATACT
1 AAGCAATATATT-T-TAAATACT
101426019 AA
1 AA
101426021 TCCAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 1 0.05
23 9 0.43
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
AAGCAATATATTTTAAATACT
Found at i:101427262 original size:21 final size:21
Alignment explanation
Indices: 101427238--101427282 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
101427228 TTTTGCTCTG
101427238 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
*
101427259 CTCTGCCTCCCTCGCTGCTGC
1 CTCTGCCTCCATCGCTGCTGC
101427280 CTC
1 CTC
101427283 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.02, C:0.49, G:0.20, T:0.29
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:101427721 original size:13 final size:14
Alignment explanation
Indices: 101427696--101427724 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101427686 TGATGAATTG
101427696 AATTAAACAATTAT
1 AATTAAACAATTAT
101427710 AATTAAAC-ATTAT
1 AATTAAACAATTAT
101427723 AA
1 AA
101427725 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:101431036 original size:12 final size:12
Alignment explanation
Indices: 101431021--101431046 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101431011 ATCATCCTCT
101431021 TCATCAGATTCA
1 TCATCAGATTCA
101431033 TCATCAGATTCA
1 TCATCAGATTCA
101431045 TC
1 TC
101431047 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:101432854 original size:9 final size:9
Alignment explanation
Indices: 101432833--101432999 Score: 80
Period size: 9 Copynumber: 19.0 Consensus size: 9
101432823 TATGTATTAC
*
101432833 GTAAGTTAA
1 GTAAGTTAT
101432842 GTAAGCTT-T
1 GTAAG-TTAT
101432851 GTAAGTTAT
1 GTAAGTTAT
101432860 GTAAGTTAT
1 GTAAGTTAT
* *
101432869 GTTA-TGAT
1 GTAAGTTAT
* *
101432877 ATACATTTAT
1 GTA-AGTTAT
*
101432887 GTAAGGTAT
1 GTAAGTTAT
101432896 GTAAGTTAT
1 GTAAGTTAT
* *
101432905 GATATGATAT
1 G-TAAGTTAT
* *
101432915 AT-ATTTAT
1 GTAAGTTAT
101432923 GT-A-TTAT
1 GTAAGTTAT
*
101432930 GTAAGTTGT
1 GTAAGTTAT
101432939 GTAAGTTAT
1 GTAAGTTAT
* *
101432948 GATATGATAT
1 G-TAAGTTAT
* *
101432958 AT-ATTTAT
1 GTAAGTTAT
*
101432966 GT-A-TTTT
1 GTAAGTTAT
*
101432973 GTAAGGTAT
1 GTAAGTTAT
*
101432982 ATAAGTTAT
1 GTAAGTTAT
101432991 GTAAGTTAT
1 GTAAGTTAT
101433000 TATATGATAT
Statistics
Matches: 116, Mismatches: 32, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
7 11 0.09
8 18 0.16
9 68 0.59
10 19 0.16
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:101432897 original size:36 final size:36
Alignment explanation
Indices: 101432850--101432968 Score: 130
Period size: 36 Copynumber: 3.1 Consensus size: 36
101432840 AAGTAAGCTT
* *
101432850 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
101432886 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
* *
101432922 TGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTA
1 TGTA--A-G---G-TATGTAAGTTATGATATGATATACATTTA
101432965 TGTA
1 TGTA
101432969 TTTTGTAAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
36 37 0.51
38 1 0.01
39 1 0.01
42 1 0.01
43 32 0.44
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:101432942 original size:43 final size:43
Alignment explanation
Indices: 101432883--101432991 Score: 182
Period size: 43 Copynumber: 2.5 Consensus size: 43
101432873 TGATATACAT
101432883 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
* *
101432926 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
* *
101432969 TTTTGTAAGGTATATAAGTTATG
1 TTATGTAAGGTATGTAAGTTATG
101432992 TAAGTTATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:101433004 original size:43 final size:43
Alignment explanation
Indices: 101432881--101433004 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
101432871 TATGATATAC
*
101432881 ATTTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
1 ATTT-TGTAAGGTATGTAAGTTATGATAAGATATATATTTATGT
* * * *
101432925 ATTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGT
1 ATTTTGTAAGGTATGTAAGTTATGATAAGATATATATTTATGT
* *
101432968 ATTTTGTAAGGTATATAAGTTATG-TAAGTTATTATAT
1 ATTTTGTAAGGTATGTAAGTTATGATAAGATA-TATAT
101433005 GATATATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 5 0.07
43 62 0.89
44 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (43 bp):
ATTTTGTAAGGTATGTAAGTTATGATAAGATATATATTTATGT
Found at i:101433020 original size:13 final size:13
Alignment explanation
Indices: 101432997--101433031 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
101432987 TTATGTAAGT
101432997 TATTATATGATATA
1 TATT-TATGATATA
101433011 TATTTATGATATA
1 TATTTATGATATA
101433024 TATTTATG
1 TATTTATG
101433032 TATTATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (13 bp):
TATTTATGATATA
Found at i:101437116 original size:16 final size:16
Alignment explanation
Indices: 101437074--101437120 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
101437064 ACCTCCATTT
101437074 TATATTCATTTTTTTTG
1 TATA-TCATTTTTTTTG
* *
101437091 TATTTAATTTTTATTTG
1 TATATCATTTTT-TTTG
101437108 T-TATCATTTTTTT
1 TATATCATTTTTTT
101437121 AAATCTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (16 bp):
TATATCATTTTTTTTG
Found at i:101437379 original size:27 final size:28
Alignment explanation
Indices: 101437324--101437379 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
101437314 CTCTAATCTC
* * * *
101437324 TAAACCCTAAAATCCTAAACCCTTCACA
1 TAAACCCTAAAACCCCAAACCCGTAACA
101437352 TAAACCCT-AAACCCCAAACCCGTAACA
1 TAAACCCTAAAACCCCAAACCCGTAACA
101437379 T
1 T
101437380 GTAACCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.18
Consensus pattern (28 bp):
TAAACCCTAAAACCCCAAACCCGTAACA
Found at i:101437440 original size:7 final size:7
Alignment explanation
Indices: 101437425--101437499 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
101437415 ATAATTTATT
*
101437425 AACCATA
1 AACCCTA
101437432 AACCCTA
1 AACCCTA
*
101437439 AACCATAA
1 AACCCT-A
*
101437447 AACCCAA
1 AACCCTA
101437454 AACCCTAA
1 AACCCT-A
*
101437462 AACCATA
1 AACCCTA
*
101437469 AACCTTA
1 AACCCTA
* *
101437476 CA-CATA
1 AACCCTA
*
101437482 AACACTA
1 AACCCTA
101437489 AACCCTA
1 AACCCTA
101437496 AACC
1 AACC
101437500 GGCCCCTAAC
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
6 4 0.08
7 37 0.71
8 11 0.21
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:101437442 original size:14 final size:14
Alignment explanation
Indices: 101437425--101437499 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
101437415 ATAATTTATT
101437425 AACCATAAACCCTA
1 AACCATAAACCCTA
*
101437439 AACCATAAAACCCAA
1 AACCAT-AAACCCTA
* *
101437454 AACCCTAAAACCATA
1 AACCAT-AAACCCTA
* * *
101437469 AACCTTACA-CATA
1 AACCATAAACCCTA
101437482 AA-CACTAAACCCTA
1 AACCA-TAAACCCTA
101437496 AACC
1 AACC
101437500 GGCCCCTAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.02
13 9 0.19
14 13 0.27
15 25 0.52
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCATAAACCCTA
Found at i:101437451 original size:15 final size:15
Alignment explanation
Indices: 101437425--101437472 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
101437415 ATAATTTATT
101437425 AACCAT-AAACCCTA
1 AACCATAAAACCCTA
*
101437439 AACCATAAAACCCAA
1 AACCATAAAACCCTA
* *
101437454 AACCCTAAAACCATA
1 AACCATAAAACCCTA
101437469 AACC
1 AACC
101437473 TTACACATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.54, C:0.35, G:0.00, T:0.10
Consensus pattern (15 bp):
AACCATAAAACCCTA
Found at i:101438073 original size:24 final size:22
Alignment explanation
Indices: 101438034--101438077 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
101438024 AATCTTTAAA
101438034 ATCATTTTAAATAATAGTATTTT
1 ATCATTTTAAATAATA-TATTTT
* *
101438057 ATCATTTTTAACAA-ATATTTT
1 ATCATTTTAAATAATATATTTT
101438078 TTATGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATCATTTTAAATAATATATTTT
Found at i:101438665 original size:41 final size:39
Alignment explanation
Indices: 101438573--101438669 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
101438563 GCCGCTTTTA
*
101438573 TAAAAAACGCCGCTAAAGATTGATCTTTAGCGGCGTTTC
1 TAAAAAACGCCGCTAAAGATCGATCTTTAGCGGCGTTTC
* * * * *
101438612 TAAAAAATGCCGCTAATGCTCGCTCTTTAGTGGCGTTTTTC
1 TAAAAAACGCCGCTAAAGATCGATCTTTAGCGGCG--TTTC
**
101438653 TTCAAAACGCCGCTAAA
1 TAAAAAACGCCGCTAAA
101438670 AACCTATTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
39 29 0.63
41 17 0.37
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAGATCGATCTTTAGCGGCGTTTC
Found at i:101439688 original size:22 final size:21
Alignment explanation
Indices: 101439639--101439689 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
101439629 AATTAATAAT
* *
101439639 TATTAAAGTTTATAAAATTTA
1 TATTAATGATTATAAAATTTA
*
101439660 AATTTAATGATTATAAAATTATA
1 TA-TTAATGATTATAAAATT-TA
101439683 TATTAAT
1 TATTAAT
101439690 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TATTAATGATTATAAAATTTA
Found at i:101460246 original size:6 final size:6
Alignment explanation
Indices: 101460237--101460284 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
101460227 TAAATTGAGC
*
101460237 TTAGGT TTAGGT TTAGGT TTAGGT TTGGGT TT-GG- TT-GGT ATTAGGT
1 TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT -TTAGGT
101460283 TT
1 TT
101460285 GAGTTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
4 4 0.11
5 2 0.05
6 29 0.76
7 3 0.08
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.52
Consensus pattern (6 bp):
TTAGGT
Found at i:101464897 original size:48 final size:48
Alignment explanation
Indices: 101464833--101464946 Score: 183
Period size: 48 Copynumber: 2.4 Consensus size: 48
101464823 ATACTAGGAT
* * *
101464833 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA
*
101464881 TATGTGATCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA
*
101464929 TATGTTAGCTAGTGTAAG
1 TATGTGAGCTAGTGTAAG
101464947 TGTAATGCCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA
Found at i:101466484 original size:46 final size:45
Alignment explanation
Indices: 101466395--101466603 Score: 152
Period size: 46 Copynumber: 4.5 Consensus size: 45
101466385 ATGCCAATGC
* * * *
101466395 CATGACCCAGACAGGGTCTTACACTGAC-ACATCTCGTA-GCCGATG
1 CATGTCCCAGACA-TGTCTTACACTGGCTTCATCTCG-AGGCCGATG
*
101466440 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
** * * * * * ** *
101466486 CACATCTCAAACATGTCTTACACTAGCACTCATCTCAATACTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
*** * **
101466532 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCAAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGAGGCCGATG
101466580 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
101466604 AGCTCAGACA
Statistics
Matches: 126, Mismatches: 31, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
44 12 0.10
45 13 0.10
46 56 0.44
47 25 0.20
48 20 0.16
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:101466581 original size:94 final size:92
Alignment explanation
Indices: 101466436--101466606 Score: 209
Period size: 94 Copynumber: 1.8 Consensus size: 92
101466426 TCTCGTAGCC
* ** ** *
101466436 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCACATCTCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAACGAGGCAAATGCACATCCCAAACATG
101466501 TCTTACACTAGCACTCATCTCAATACT
66 TCTTACACTAGCACTCATCTCAATACT
* * ** *
101466528 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAGGTGGCAAATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAACGAGGCAAATGCACATCCCAAAC
101466592 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
101466607 TCAGACAAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.22
94 46 0.71
95 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAACGAGGCAAATGCACATCCCAAACATG
TCTTACACTAGCACTCATCTCAATACT
Found at i:101469704 original size:10 final size:9
Alignment explanation
Indices: 101469658--101469698 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
101469648 AACCTGAGCA
*
101469658 CTCCACCTC
1 CTCCACCCC
101469667 CTCCACCCC
1 CTCCACCCC
101469676 CTCCACCCC
1 CTCCACCCC
101469685 CTCCACCCC
1 CTCCACCCC
101469694 CTCCA
1 CTCCA
101469699 ATCCCCCAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.12, C:0.73, G:0.00, T:0.15
Consensus pattern (9 bp):
CTCCACCCC
Found at i:101476788 original size:40 final size:40
Alignment explanation
Indices: 101476726--101476903 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
101476716 AAGCCAAGTA
* * * *
101476726 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
101476765 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
101476805 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
101476845 CCTTCGGGACTTAGCCCGGAGCTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
101476885 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
101476904 TTATCATCCA
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 12 0.10
40 110 0.90
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:101478136 original size:20 final size:21
Alignment explanation
Indices: 101478111--101478155 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
101478101 TTTCTCCAAG
101478111 CTCTTTCCC-TCCTTTCTTTC
1 CTCTTTCCCTTCCTTTCTTTC
101478131 CTCTTTCCCTTCCTTTCTTTC
1 CTCTTTCCCTTCCTTTCTTTC
101478152 CTCT
1 CTCT
101478156 GTTCGGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (21 bp):
CTCTTTCCCTTCCTTTCTTTC
Found at i:101485350 original size:46 final size:46
Alignment explanation
Indices: 101485283--101485454 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
101485273 AACCCGCCCC
*
101485283 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
101485329 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * ** *
101485377 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
101485422 TAGGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
101485455 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:101485395 original size:93 final size:93
Alignment explanation
Indices: 101485288--101485458 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
101485278 GCCCCTAAGT
** *
101485288 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101485353 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
101485381 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAGGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
101485446 CGAGTTCGGATGC
66 CGAGTTCGGATGC
101485459 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:101485912 original size:30 final size:30
Alignment explanation
Indices: 101485878--101485937 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
101485868 ATTTAATACG
101485878 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
101485908 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
101485938 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:101492944 original size:46 final size:46
Alignment explanation
Indices: 101492877--101493044 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
101492867 AACCCGCCCC
* *
101492877 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* * *
101492923 TAAGTGAACTCGGACTCAACTCAACAAGTTCAGATGCCTATT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GGC-ATTCGCATCCA
* * *
101492970 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
101493015 TAGGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
101493045 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 2 0.02
46 79 0.78
47 3 0.03
48 1 0.01
49 5 0.05
50 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:101493505 original size:30 final size:30
Alignment explanation
Indices: 101493471--101493530 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
101493461 ATTTAATACG
101493471 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
*** *
101493501 AACTTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
101493531 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:101501003 original size:39 final size:39
Alignment explanation
Indices: 101500949--101501088 Score: 201
Period size: 39 Copynumber: 3.5 Consensus size: 39
101500939 TAATGAAGAA
101500949 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
101500988 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
101501027 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
101501066 TTATATCTGGGCTTAATGTCCCG
1 TTATATCCGGGC-TAA-GTCCCG
101501089 CATGCTTTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 73 0.79
40 19 0.21
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:101513966 original size:28 final size:28
Alignment explanation
Indices: 101513934--101513993 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
101513924 AAGGTATGTG
101513934 TTTTGATCCGTTTTTGATAATTTCTACA
1 TTTTGATCCGTTTTTGATAATTTCTACA
* *
101513962 TTTTGATTCGTTTTTGATAATTTCTACG
1 TTTTGATCCGTTTTTGATAATTTCTACA
101513990 TTTT
1 TTTT
101513994 TTGTGATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (28 bp):
TTTTGATCCGTTTTTGATAATTTCTACA
Found at i:101514788 original size:43 final size:44
Alignment explanation
Indices: 101514740--101514852 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 44
101514730 GTCTAACTTA
*
101514740 TGATTTACATGTAAGACCATGTCTAGGACA-TCGGCAT-TATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGT-GGCATCGATATT
* *
101514783 TGATTT-CATGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
* * *
101514826 CGA-CTACATGTAAGACCACGTCTAGGA
1 TGATTTACATGTAAGACCATGTCTAGGA
101514853 TGTTGGCATT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
Found at i:101521118 original size:47 final size:47
Alignment explanation
Indices: 101521067--101521299 Score: 376
Period size: 47 Copynumber: 5.0 Consensus size: 47
101521057 TTAGGATTTT
*
101521067 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
101521114 ATGTGAAGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
101521161 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
101521208 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
101521255 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
101521300 TAGTGTGAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 172 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:101521263 original size:25 final size:25
Alignment explanation
Indices: 101521188--101521263 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
101521178 ATGCATATAT
101521188 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
101521213 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
101521235 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
101521260 GTGA
1 GTGA
101521264 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:101521512 original size:37 final size:37
Alignment explanation
Indices: 101521462--101521603 Score: 212
Period size: 37 Copynumber: 3.8 Consensus size: 37
101521452 GGAAATATAT
*
101521462 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
101521499 TCCGGGTAAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
101521536 TCCGGGTAAGACCCAATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
101521573 TCCGGGTAAGACCCGATAACTTCGTGTGGAG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAG
101521604 GTTTCGTCTG
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:101527411 original size:142 final size:142
Alignment explanation
Indices: 101527150--101527418 Score: 335
Period size: 142 Copynumber: 1.9 Consensus size: 142
101527140 TGTGCATGTC
* * * *
101527150 AGTGTAAGACCTGTCTGAGACACAGCATCGACACAGATAAGTGAAAGCCAGTGTAAGACCTCTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * * * * *
101527215 GGGACATGGCATTGGCCTTAAGATATGCAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGC
66 GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
101527280 TTGAGGTGTATT
131 TTGAGGTGTATT
* ** * * *
101527292 AGTGTAAGACCTATATGGGACATGGCATCAACATAGATAAGCGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
* * *
101527357 GGGACATGGAATCGACCTCAATG-TATGTAAG-TCAGTGTAAGAACTGTTTGGGACATCGCATC
66 GGGACATGGAATCGACCTCAA-GATATGCAAGCT-AGTGTAAGAACTGTCTAGGACATCGCATC
101527419 AACTTAAATG
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
141 1 0.01
142 104 0.98
143 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACCTATATGAGACACAGCATCAACACAGATAAGCGAAAGCCAGTGTAAGACCTCTCT
GGGACATGGAATCGACCTCAAGATATGCAAGCTAGTGTAAGAACTGTCTAGGACATCGCATCGGC
TTGAGGTGTATT
Found at i:101538446 original size:20 final size:19
Alignment explanation
Indices: 101538423--101538487 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
101538413 AAGCTCAAAC
101538423 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
101538443 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
101538463 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
101538483 GAGCT
1 GAGCT
101538488 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:101540353 original size:21 final size:21
Alignment explanation
Indices: 101540324--101540379 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
101540314 CAAGTTCTCT
*
101540324 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
101540345 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
101540366 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
101540380 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:101540372 original size:14 final size:14
Alignment explanation
Indices: 101540323--101540379 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
101540313 TCAAGTTCTC
101540323 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
101540336 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
101540350 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
101540364 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
101540378 TT
1 TT
101540380 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:101540373 original size:27 final size:26
Alignment explanation
Indices: 101540318--101540380 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
101540308 TCTTTTCAAG
* *
101540318 TTCTCTTTCAATTTCTTTTTTCGCTTT
1 TTCTTTTTCAATTTCTTTTTTC-CATT
101540345 TTCTTTTTCAATTTTCTTTTCTT-CATT
1 TTCTTTTTCAA-TTTCTTTT-TTCCATT
101540372 TTCTTTTTC
1 TTCTTTTTC
101540381 TCTCACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.69
28 8 0.25
29 2 0.06
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.70
Consensus pattern (26 bp):
TTCTTTTTCAATTTCTTTTTTCCATT
Found at i:101540439 original size:18 final size:18
Alignment explanation
Indices: 101540341--101540478 Score: 86
Period size: 18 Copynumber: 7.6 Consensus size: 18
101540331 TCTTTTTTCG
101540341 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
101540360 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
101540380 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
101540398 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
101540416 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
101540434 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCATTTT
** * *
101540449 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCATTTT
101540467 CTTTCTTCTTTT
1 CTTT-TTCTTTT
101540479 CTCGCTCAAT
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
15 7 0.08
16 5 0.06
17 6 0.07
18 46 0.51
19 10 0.11
20 8 0.09
21 8 0.09
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:101540461 original size:6 final size:6
Alignment explanation
Indices: 101540341--101540448 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
101540331 TCTTTTTTCG
* * * **
101540341 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
101540392 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
101540440 -GTTTT CTTT
1 CTTTTT CTTT
101540449 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:101540480 original size:81 final size:83
Alignment explanation
Indices: 101540318--101540470 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 83
101540308 TCTTTTCAAG
* * **
101540318 TTCTCTTTCAATTTCTTTTTTCGCTTTTTCTTTTTCAATTTTCTTTTCTTCATTTTCTTTTTCTC
1 TTCTCTTTCAATTTCTTTTTTC-CTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAA
101540383 TCACTTTTTCGATTTCTTT
65 TCACTTTTTCGATTTCTTT
* *
101540402 TTCT-TTTGCAATTTC-TTTTT-CTTTTTCGTTTTC-TTTTTGTTTTCTTTCAATTTCTTTTTCA
1 TTCTCTTT-CAATTTCTTTTTTCCTTTTTCGTTTTCAATTTTCTTTTC-TTCAATTTCTTTTTCA
*
101540463 ATCTCTTT
64 ATCACTTT
101540471 CTTCTTTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
80 9 0.15
81 32 0.53
83 8 0.13
84 11 0.18
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (83 bp):
TTCTCTTTCAATTTCTTTTTTCCTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAAT
CACTTTTTCGATTTCTTT
Found at i:101546493 original size:6 final size:6
Alignment explanation
Indices: 101546463--101546537 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
101546453 AAGAAACATT
* * *
101546463 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
101546512 ATCAGA ATTAGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
101546538 GAAGCCTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 2 0.04
6 49 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:101546763 original size:28 final size:28
Alignment explanation
Indices: 101546722--101546781 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
101546712 GTGACAGAGT
*
101546722 ACCAGATACAGATATTTGTGGCATAGCC
1 ACCAAATACAGATATTTGTGGCATAGCC
*
101546750 ACCAAATATAGATATTTGTGGCATAGCC
1 ACCAAATACAGATATTTGTGGCATAGCC
101546778 ACCA
1 ACCA
101546782 GAACACTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (28 bp):
ACCAAATACAGATATTTGTGGCATAGCC
Found at i:101547027 original size:54 final size:53
Alignment explanation
Indices: 101546969--101547082 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 53
101546959 TTAACACCCT
** *
101546969 AGGGGTAAAATGGTAATTT-TACTCC-ACAAGGGTATCTCGGTAATTCTACCCTAC
1 AGGGGTAAAATAAT-ATTTCTAC-CCTACAAGGGTATCTCGATAATTC-ACCCTAC
*** *
101547023 AGGGGTATTTTAATATTTCTACCCTACAAGGGTATTTCGATAATTCACCCTAC
1 AGGGGTAAAATAATATTTCTACCCTACAAGGGTATCTCGATAATTCACCCTAC
101547076 AGGGGTA
1 AGGGGTA
101547083 TTGATACGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
53 20 0.39
54 31 0.61
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (53 bp):
AGGGGTAAAATAATATTTCTACCCTACAAGGGTATCTCGATAATTCACCCTAC
Found at i:101547081 original size:26 final size:27
Alignment explanation
Indices: 101546998--101547084 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
101546988 TACTCCACAA
* *
101546998 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
** * *
101547025 GGGTATTTTAATATTTCTACCCTACAA
1 GGGTATTTCGATAATTCTACCCTACAG
101547052 GGGTATTTCGATAATTC-ACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
101547078 GGGTATT
1 GGGTATT
101547085 GATACGAACC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 15 0.30
27 35 0.70
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:101548523 original size:15 final size:15
Alignment explanation
Indices: 101548503--101548550 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
101548493 TCAAAGATGG
101548503 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
101548518 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
101548532 GTTTATGGATATAAA
1 GTTTATGGATATGAA
101548547 GTTT
1 GTTT
101548551 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:101548537 original size:14 final size:14
Alignment explanation
Indices: 101548497--101548540 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
101548487 AATGATTCAA
101548497 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
101548511 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
101548526 AGATGGGTTTATGG
1 AGATGGGTTTATGG
101548540 A
1 A
101548541 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:101549579 original size:14 final size:14
Alignment explanation
Indices: 101549537--101549581 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
101549527 TTAAAGAAGC
101549537 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
101549551 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
101549564 AACTCATTTAATTA
1 AACTCATTAAATTA
101549578 AACT
1 AACT
101549582 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:101549791 original size:20 final size:20
Alignment explanation
Indices: 101549766--101549803 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
101549756 TGTGGTTCAA
101549766 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
*
101549786 CTCATTCGTGCTCAAGTT
1 CTCATTCGAGCTCAAGTT
101549804 TAATGGCTTG
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:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:101551150 original size:13 final size:12
Alignment explanation
Indices: 101551132--101551177 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
101551122 TCGGTATTGT
101551132 AAAAAAATTCAA
1 AAAAAAATTCAA
*
101551144 AAAAAAATTTGAA
1 AAAAAAA-TTCAA
101551157 AAAAAAATTCAA
1 AAAAAAATTCAA
101551169 AAAAAAATT
1 AAAAAAATT
101551178 GTATTCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:101552198 original size:17 final size:15
Alignment explanation
Indices: 101552178--101552216 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
101552168 GCGAGCGAGA
101552178 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
101552195 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
101552210 AAGATGA
1 AA-ATGA
101552217 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:101553724 original size:20 final size:20
Alignment explanation
Indices: 101553699--101553736 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
101553689 TGTGGTTCAA
101553699 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
*
101553719 CTCATTCGTGCTCAAGTT
1 CTCATTCGAGCTCAAGTT
101553737 TAATGGCTTG
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:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:101555083 original size:13 final size:12
Alignment explanation
Indices: 101555065--101555110 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
101555055 TCGGTATTGT
101555065 AAAAAAATTCAA
1 AAAAAAATTCAA
*
101555077 AAAAAAATTTGAA
1 AAAAAAA-TTCAA
101555090 AAAAAAATTCAA
1 AAAAAAATTCAA
101555102 AAAAAAATT
1 AAAAAAATT
101555111 GTATTCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:101558705 original size:15 final size:15
Alignment explanation
Indices: 101558685--101558732 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
101558675 TCAAAGATGG
101558685 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
101558700 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
101558714 GTTTATGGATATAAA
1 GTTTATGGATATGAA
101558729 GTTT
1 GTTT
101558733 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:101558719 original size:14 final size:14
Alignment explanation
Indices: 101558679--101558722 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
101558669 AAGGATTCAA
101558679 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
101558693 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
101558708 AGATGGGTTTATGG
1 AGATGGGTTTATGG
101558722 A
1 A
101558723 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:101558748 original size:29 final size:29
Alignment explanation
Indices: 101558679--101558738 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
101558669 AAGGATTCAA
*
101558679 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
101558708 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
101558737 AG
1 AG
101558739 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:101559754 original size:14 final size:14
Alignment explanation
Indices: 101559712--101559756 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
101559702 TTAAAGAAGC
101559712 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
101559726 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
101559739 AACTCATTTAATTA
1 AACTCATTAAATTA
101559753 AACT
1 AACT
101559757 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:101566425 original size:30 final size:30
Alignment explanation
Indices: 101566391--101566487 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
101566381 AGCTCACTCC
101566391 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * *
101566421 TAGCTCAACTTCAGCTGAGGAGTTTAATCTCT
1 TAGCTCAACTTCAGCTCACGAG-CTAAAC-CT
* * *
101566453 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
101566483 TAGCT
1 TAGCT
101566488 TATTTTAGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 24 0.46
31 7 0.13
32 20 0.38
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:101570785 original size:20 final size:19
Alignment explanation
Indices: 101570737--101570787 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
101570727 CCAAGCTCCA
*
101570737 TTTAGCTCACTTGAGCTTGT
1 TTTAGCTC-GTTGAGCTTGT
*
101570757 TTCAGCTCGTTGAGCTTGAT
1 TTTAGCTCGTTGAGCTTG-T
101570777 TTTAGCTCGTT
1 TTTAGCTCGTT
101570788 TCAGCTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TTTAGCTCGTTGAGCTTGT
Found at i:101581985 original size:30 final size:31
Alignment explanation
Indices: 101581951--101582047 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 31
101581941 AGCTCACTCC
*
101581951 TAGCTC-ACTTTCAACTTACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* * * *
101581981 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* *
101582011 CAGCTCAACTTT-AGCTTACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
101582041 TAGCTCA
1 TAGCTCA
101582048 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 49 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTTACGAGCTAAACCT
Found at i:101584184 original size:13 final size:13
Alignment explanation
Indices: 101584168--101584215 Score: 78
Period size: 13 Copynumber: 3.6 Consensus size: 13
101584158 AAAAGAAATC
101584168 AAAAAAAAATTGA
1 AAAAAAAAATTGA
101584181 AAAAAAAAATTGA
1 AAAAAAAAATTGA
*
101584194 AAAAAAAATTTTGA
1 AAAAAAAA-ATTGA
101584208 AAAAAAAA
1 AAAAAAAA
101584216 TTGCATACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 21 0.64
14 12 0.36
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:101584185 original size:14 final size:14
Alignment explanation
Indices: 101584168--101584215 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
101584158 AAAAGAAATC
101584168 AAAAAAAAATTG-A
1 AAAAAAAAATTGAA
101584181 AAAAAAAAATTGAA
1 AAAAAAAAATTGAA
**
101584195 AAAAAAATTTTGAA
1 AAAAAAAAATTGAA
101584209 AAAAAAA
1 AAAAAAA
101584216 TTGCATACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 12 0.38
14 20 0.62
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAAAAAAATTGAA
Found at i:101585584 original size:30 final size:30
Alignment explanation
Indices: 101585548--101585609 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
101585538 AAAACAATTA
101585548 AAGAGAAAAGGTACGTTCCGTTCTTTCCCT
1 AAGAGAAAAGGTACGTTCCGTTCTTTCCCT
*
101585578 AAGAGAAAAGGTATGTTCCGTTCTTTCCCT
1 AAGAGAAAAGGTACGTTCCGTTCTTTCCCT
101585608 AA
1 AA
101585610 TACTTCTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
AAGAGAAAAGGTACGTTCCGTTCTTTCCCT
Found at i:101591876 original size:6 final size:5
Alignment explanation
Indices: 101591852--101591908 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
101591842 ATGAGAAAAC
*
101591852 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
101591899 AAAGA AAAGA
1 AAAGA AAAGA
101591909 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:101591883 original size:15 final size:14
Alignment explanation
Indices: 101591852--101591908 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
101591842 ATGAGAAAAC
101591852 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
101591868 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
101591883 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
101591899 AAAGAAAAGA
1 AAAGAAAAGA
101591909 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:101591995 original size:11 final size:12
Alignment explanation
Indices: 101591963--101591993 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
101591953 TTGAGAGAAC
101591963 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
101591975 TTGAAAAAGCTT
1 TTGAAAAAGCCT
101591987 TTGAAAA
1 TTGAAAA
101591994 GCAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:101592030 original size:30 final size:31
Alignment explanation
Indices: 101591996--101592077 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
101591986 TTTGAAAAGC
* *
101591996 AAAAATAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
101592026 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
101592056 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
101592078 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:101598017 original size:30 final size:30
Alignment explanation
Indices: 101597922--101598018 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
101597912 AGCTCACTCC
* * *
101597922 TAGCTC-ACTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
101597952 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
101597982 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
101598012 TAGCTCA
1 TAGCTCA
101598019 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.82
31 7 0.14
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:101599458 original size:11 final size:11
Alignment explanation
Indices: 101599442--101599479 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
101599432 TATACAAGTT
101599442 AAAAAAATTGA
1 AAAAAAATTGA
*
101599453 AAAAAAATCGA
1 AAAAAAATTGA
*
101599464 AAAAAAACTGA
1 AAAAAAATTGA
101599475 AAAAA
1 AAAAA
101599480 GGGTGTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:101600414 original size:12 final size:11
Alignment explanation
Indices: 101600383--101600446 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
101600373 TTGTATAGAG
* *
101600383 AAAATAAAAAA
1 AAAAGAAAAGA
101600394 AAAAGAAAAGA
1 AAAAGAAAAGA
101600405 AAAAGCAAAAG-
1 AAAAG-AAAAGA
*
101600416 AAGA-AAAAGA
1 AAAAGAAAAGA
*
101600426 AAAAG-AAATA
1 AAAAGAAAAGA
101600436 AAAAGAAAAGA
1 AAAAGAAAAGA
101600447 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 5 0.12
10 12 0.28
11 21 0.49
12 5 0.12
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:101600419 original size:15 final size:14
Alignment explanation
Indices: 101600401--101600446 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
101600391 AAAAAAAGAA
101600401 AAGAAAAAGCAAAAG
1 AAGAAAAAG-AAAAG
101600416 AAGAAAAAGAAAAAG
1 AAGAAAAAG-AAAAG
*
101600431 AAATAAAAAGAAAAG
1 -AAGAAAAAGAAAAG
101600446 A
1 A
101600447 GAGGCAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 1 0.04
15 19 0.68
16 8 0.29
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:101600444 original size:6 final size:6
Alignment explanation
Indices: 101600383--101600433 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
101600373 TTGTATAGAG
*
101600383 AAAATA AAAA-A AAAAG- AAAAGA AAAAGCAA AAGAAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAG--A AA-AAGA AAAAGA AAAAGA
101600432 AA
1 AA
101600434 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.25
6 21 0.52
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:101600526 original size:11 final size:12
Alignment explanation
Indices: 101600494--101600524 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
101600484 TTGAGAGAAC
101600494 TTGAAAAAGCCT
1 TTGAAAAAGCCT
101600506 TTGAAAAAGCCT
1 TTGAAAAAGCCT
101600518 TTGAAAA
1 TTGAAAA
101600525 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:101602739 original size:30 final size:30
Alignment explanation
Indices: 101602705--101602801 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
101602695 AGCTCACTCC
101602705 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
101602735 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
101602765 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
101602795 TAGCTCA
1 TAGCTCA
101602802 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:101608638 original size:28 final size:28
Alignment explanation
Indices: 101608606--101608662 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
101608596 ACGAAATAAG
*
101608606 AAAATTTCGTTAGTTAAACTGATGTGGC
1 AAAATTTCGTTAGTTAAACTAATGTGGC
101608634 AAAATTTCGTTAGTTAAACTAATGTGGC
1 AAAATTTCGTTAGTTAAACTAATGTGGC
101608662 A
1 A
101608663 TCGACATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (28 bp):
AAAATTTCGTTAGTTAAACTAATGTGGC
Found at i:101611325 original size:13 final size:13
Alignment explanation
Indices: 101611307--101611331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101611297 GTATTGATCA
101611307 TGTGTTCACACCT
1 TGTGTTCACACCT
101611320 TGTGTTCACACC
1 TGTGTTCACACC
101611332 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:101616882 original size:26 final size:24
Alignment explanation
Indices: 101616820--101616882 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
101616810 AGACATAATA
*
101616820 AAAACATGTAATGGACTAAGACATT
1 AAAACATGT-ATTGACTAAGACATT
**
101616845 AAAACAAATATTGACTAAGACTTATT
1 AAAACATGTATTGACTAAGAC--ATT
*
101616871 AAGACATGTATT
1 AAAACATGTATT
101616883 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 11 0.37
25 7 0.23
26 12 0.40
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.29
Consensus pattern (24 bp):
AAAACATGTATTGACTAAGACATT
Found at i:101618594 original size:30 final size:30
Alignment explanation
Indices: 101618560--101618656 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
101618550 TAAACTAAAA
101618560 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
101618590 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
101618620 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
101618650 TGAGCTA
1 TGAGCTA
101618657 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:101621928 original size:969 final size:969
Alignment explanation
Indices: 101620051--101621988 Score: 3876
Period size: 969 Copynumber: 2.0 Consensus size: 969
101620041 CCTAAAACAA
101620051 AGAAATGAATTACATATTTATAGTGTTGGATTTATGTTAGCCGAATAGCCATTTGAGTCTAGCTT
1 AGAAATGAATTACATATTTATAGTGTTGGATTTATGTTAGCCGAATAGCCATTTGAGTCTAGCTT
101620116 TAATGAGCTGGAACTTCTTGGAAGTTTCTTGGCAGCTTCCTTGAAACTTCCTTCAACCTTGGGGA
66 TAATGAGCTGGAACTTCTTGGAAGTTTCTTGGCAGCTTCCTTGAAACTTCCTTCAACCTTGGGGA
101620181 CGCCAATGGACAGCCCTTTGAAGCTTCTAGTAGCTGAATATTTATGGAAGTGAAAGAGGAGCTAA
131 CGCCAATGGACAGCCCTTTGAAGCTTCTAGTAGCTGAATATTTATGGAAGTGAAAGAGGAGCTAA
101620246 AATGAGCTGAAGGGACATGCTTGAATTCGGCCAAGGCGGTGCATTTGATTAATTGGATAGCCTTG
196 AATGAGCTGAAGGGACATGCTTGAATTCGGCCAAGGCGGTGCATTTGATTAATTGGATAGCCTTG
101620311 GTTAGCTAAAAAGTGTTGAGCTAATTAAAGGCAACTTGGGGCACTTCAATAGTCCTTTAAGTGTG
261 GTTAGCTAAAAAGTGTTGAGCTAATTAAAGGCAACTTGGGGCACTTCAATAGTCCTTTAAGTGTG
101620376 AAGCCGAATTGTGAACACATAAAACCAAACAACCTATACGTGTGAATAGAATGTTCAGCAAGTGT
326 AAGCCGAATTGTGAACACATAAAACCAAACAACCTATACGTGTGAATAGAATGTTCAGCAAGTGT
101620441 GAAAACATTCAAGTTGGTTTGGGGAGTGAATCGACCTTCTTGGAGATATGAGGGAGCAGCTGATC
391 GAAAACATTCAAGTTGGTTTGGGGAGTGAATCGACCTTCTTGGAGATATGAGGGAGCAGCTGATC
101620506 TTTAGCTGAATAGGTGCTTCAAAGAAATCAATCATCAGCACACCAAATCCTTTAAACTATCCATG
456 TTTAGCTGAATAGGTGCTTCAAAGAAATCAATCATCAGCACACCAAATCCTTTAAACTATCCATG
101620571 CACCTACTGCACAAATCAAATGAACACATTAAATCAATTTGAGACACAATAAATTCGACTATACT
521 CACCTACTGCACAAATCAAATGAACACATTAAATCAATTTGAGACACAATAAATTCGACTATACT
101620636 AGGACACATTAAACCTGCACATTAATTTGGCTCAAGAACACATTTAAATCATGCAAAAAACTAAG
586 AGGACACATTAAACCTGCACATTAATTTGGCTCAAGAACACATTTAAATCATGCAAAAAACTAAG
101620701 ACAAATTAACAACATGTATGAACTAAGACATATTAAAATTCGGCTGTAACTAGACATAATTAAGT
651 ACAAATTAACAACATGTATGAACTAAGACATATTAAAATTCGGCTGTAACTAGACATAATTAAGT
101620766 CATGTAATCGGCTGGACAAATTAAATAGCAACAGCTATTAAATTTGTTCTAAACCGAACACATTA
716 CATGTAATCGGCTGGACAAATTAAATAGCAACAGCTATTAAATTTGTTCTAAACCGAACACATTA
101620831 AAATTATGCACTAAATAAGACACATTTAAGCTTAAATTAAAAACATAATGAAAACATACTTAAGA
781 AAATTATGCACTAAATAAGACACATTTAAGCTTAAATTAAAAACATAATGAAAACATACTTAAGA
101620896 TGTCCAAATTTTAAACACAAAACAAACAATAATTATTTGAGCTGTATCAAATTAAATAAATTAAA
846 TGTCCAAATTTTAAACACAAAACAAACAATAATTATTTGAGCTGTATCAAATTAAATAAATTAAA
101620961 ACTAATACTGAATTTATTTGAATGATAAAGAAACGAGCTAGAAATGAATGGAATTGAGC
911 ACTAATACTGAATTTATTTGAATGATAAAGAAACGAGCTAGAAATGAATGGAATTGAGC
101621020 AGAAATGAATTACATATTTATAGTGTTGGATTTATGTTAGCCGAATAGCCATTTGAGTCTAGCTT
1 AGAAATGAATTACATATTTATAGTGTTGGATTTATGTTAGCCGAATAGCCATTTGAGTCTAGCTT
101621085 TAATGAGCTGGAACTTCTTGGAAGTTTCTTGGCAGCTTCCTTGAAACTTCCTTCAACCTTGGGGA
66 TAATGAGCTGGAACTTCTTGGAAGTTTCTTGGCAGCTTCCTTGAAACTTCCTTCAACCTTGGGGA
101621150 CGCCAATGGACAGCCCTTTGAAGCTTCTAGTAGCTGAATATTTATGGAAGTGAAAGAGGAGCTAA
131 CGCCAATGGACAGCCCTTTGAAGCTTCTAGTAGCTGAATATTTATGGAAGTGAAAGAGGAGCTAA
101621215 AATGAGCTGAAGGGACATGCTTGAATTCGGCCAAGGCGGTGCATTTGATTAATTGGATAGCCTTG
196 AATGAGCTGAAGGGACATGCTTGAATTCGGCCAAGGCGGTGCATTTGATTAATTGGATAGCCTTG
101621280 GTTAGCTAAAAAGTGTTGAGCTAATTAAAGGCAACTTGGGGCACTTCAATAGTCCTTTAAGTGTG
261 GTTAGCTAAAAAGTGTTGAGCTAATTAAAGGCAACTTGGGGCACTTCAATAGTCCTTTAAGTGTG
101621345 AAGCCGAATTGTGAACACATAAAACCAAACAACCTATACGTGTGAATAGAATGTTCAGCAAGTGT
326 AAGCCGAATTGTGAACACATAAAACCAAACAACCTATACGTGTGAATAGAATGTTCAGCAAGTGT
101621410 GAAAACATTCAAGTTGGTTTGGGGAGTGAATCGACCTTCTTGGAGATATGAGGGAGCAGCTGATC
391 GAAAACATTCAAGTTGGTTTGGGGAGTGAATCGACCTTCTTGGAGATATGAGGGAGCAGCTGATC
101621475 TTTAGCTGAATAGGTGCTTCAAAGAAATCAATCATCAGCACACCAAATCCTTTAAACTATCCATG
456 TTTAGCTGAATAGGTGCTTCAAAGAAATCAATCATCAGCACACCAAATCCTTTAAACTATCCATG
101621540 CACCTACTGCACAAATCAAATGAACACATTAAATCAATTTGAGACACAATAAATTCGACTATACT
521 CACCTACTGCACAAATCAAATGAACACATTAAATCAATTTGAGACACAATAAATTCGACTATACT
101621605 AGGACACATTAAACCTGCACATTAATTTGGCTCAAGAACACATTTAAATCATGCAAAAAACTAAG
586 AGGACACATTAAACCTGCACATTAATTTGGCTCAAGAACACATTTAAATCATGCAAAAAACTAAG
101621670 ACAAATTAACAACATGTATGAACTAAGACATATTAAAATTCGGCTGTAACTAGACATAATTAAGT
651 ACAAATTAACAACATGTATGAACTAAGACATATTAAAATTCGGCTGTAACTAGACATAATTAAGT
101621735 CATGTAATCGGCTGGACAAATTAAATAGCAACAGCTATTAAATTTGTTCTAAACCGAACACATTA
716 CATGTAATCGGCTGGACAAATTAAATAGCAACAGCTATTAAATTTGTTCTAAACCGAACACATTA
101621800 AAATTATGCACTAAATAAGACACATTTAAGCTTAAATTAAAAACATAATGAAAACATACTTAAGA
781 AAATTATGCACTAAATAAGACACATTTAAGCTTAAATTAAAAACATAATGAAAACATACTTAAGA
101621865 TGTCCAAATTTTAAACACAAAACAAACAATAATTATTTGAGCTGTATCAAATTAAATAAATTAAA
846 TGTCCAAATTTTAAACACAAAACAAACAATAATTATTTGAGCTGTATCAAATTAAATAAATTAAA
101621930 ACTAATACTGAATTTATTTGAATGATAAAGAAACGAGCTAGAAATGAATGGAATTGAGC
911 ACTAATACTGAATTTATTTGAATGATAAAGAAACGAGCTAGAAATGAATGGAATTGAGC
101621989 TTAAACGAGC
Statistics
Matches: 969, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
969 969 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (969 bp):
AGAAATGAATTACATATTTATAGTGTTGGATTTATGTTAGCCGAATAGCCATTTGAGTCTAGCTT
TAATGAGCTGGAACTTCTTGGAAGTTTCTTGGCAGCTTCCTTGAAACTTCCTTCAACCTTGGGGA
CGCCAATGGACAGCCCTTTGAAGCTTCTAGTAGCTGAATATTTATGGAAGTGAAAGAGGAGCTAA
AATGAGCTGAAGGGACATGCTTGAATTCGGCCAAGGCGGTGCATTTGATTAATTGGATAGCCTTG
GTTAGCTAAAAAGTGTTGAGCTAATTAAAGGCAACTTGGGGCACTTCAATAGTCCTTTAAGTGTG
AAGCCGAATTGTGAACACATAAAACCAAACAACCTATACGTGTGAATAGAATGTTCAGCAAGTGT
GAAAACATTCAAGTTGGTTTGGGGAGTGAATCGACCTTCTTGGAGATATGAGGGAGCAGCTGATC
TTTAGCTGAATAGGTGCTTCAAAGAAATCAATCATCAGCACACCAAATCCTTTAAACTATCCATG
CACCTACTGCACAAATCAAATGAACACATTAAATCAATTTGAGACACAATAAATTCGACTATACT
AGGACACATTAAACCTGCACATTAATTTGGCTCAAGAACACATTTAAATCATGCAAAAAACTAAG
ACAAATTAACAACATGTATGAACTAAGACATATTAAAATTCGGCTGTAACTAGACATAATTAAGT
CATGTAATCGGCTGGACAAATTAAATAGCAACAGCTATTAAATTTGTTCTAAACCGAACACATTA
AAATTATGCACTAAATAAGACACATTTAAGCTTAAATTAAAAACATAATGAAAACATACTTAAGA
TGTCCAAATTTTAAACACAAAACAAACAATAATTATTTGAGCTGTATCAAATTAAATAAATTAAA
ACTAATACTGAATTTATTTGAATGATAAAGAAACGAGCTAGAAATGAATGGAATTGAGC
Found at i:101625630 original size:28 final size:28
Alignment explanation
Indices: 101625591--101625647 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
101625581 TCATTTCAGT
101625591 TATATGATTCACTTCAAGCAAATTAACA
1 TATATGATTCACTTCAAGCAAATTAACA
101625619 TATATGATTCACTTCAAGCAAATTAACA
1 TATATGATTCACTTCAAGCAAATTAACA
101625647 T
1 T
101625648 GCATATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (28 bp):
TATATGATTCACTTCAAGCAAATTAACA
Found at i:101628779 original size:15 final size:15
Alignment explanation
Indices: 101628747--101628780 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
101628737 GTTCAACGAA
*
101628747 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
101628762 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
101628777 GAGG
1 GAGG
101628781 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:101642663 original size:10 final size:10
Alignment explanation
Indices: 101642648--101642709 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
101642638 TTTGAACCAT
*
101642648 TACCAATTCG
1 TACCAATTCA
*
101642658 TACCAAATACCA
1 TACC-AAT-TCA
*
101642670 TACCATTTCA
1 TACCAATTCA
101642680 TACCAATTCCA
1 TACCAATT-CA
* *
101642691 TACCATTTCG
1 TACCAATTCA
101642701 TACCAATTC
1 TACCAATTC
101642710 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:101642693 original size:21 final size:21
Alignment explanation
Indices: 101642648--101642710 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
101642638 TTTGAACCAT
* *
101642648 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
101642670 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
101642691 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
101642711 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:101644038 original size:31 final size:31
Alignment explanation
Indices: 101644002--101644064 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
101643992 AATTAAAGTA
101644002 AACTTTCAAATTGAGTAAAAACGCAGGATCG
1 AACTTTCAAATTGAGTAAAAACGCAGGATCG
* *
101644033 AACTTTCAAATTGAGTAAAAAGGTAGGATCG
1 AACTTTCAAATTGAGTAAAAACGCAGGATCG
101644064 A
1 A
101644065 TCACAATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.24
Consensus pattern (31 bp):
AACTTTCAAATTGAGTAAAAACGCAGGATCG
Found at i:101644249 original size:28 final size:27
Alignment explanation
Indices: 101644181--101644296 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
101644171 GATATGACAT
*
101644181 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
101644208 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
101644233 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
101644260 --T-CTACGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
101644284 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
101644297 GAAATTTCCC
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
24 43 0.55
25 3 0.04
27 3 0.04
28 29 0.37
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:101644250 original size:52 final size:52
Alignment explanation
Indices: 101644181--101644296 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
101644171 GATATGACAT
101644181 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* * *
101644233 TGTGCTAAGTGAAATAAGTCCATGGCATCTACGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
101644285 TGTGCTAAGTGA
1 TGTGCTAAGTGA
101644297 GAAATTTCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Done.