Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 115 of 343
Found at i:38698146 original size:14 final size:15
Alignment explanation
Indices: 38698127--38698156 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38698117 GTTTATTATA
38698127 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
38698141 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
38698156 T
1 T
38698157 ATAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:38699909 original size:43 final size:43
Alignment explanation
Indices: 38699857--38699985 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
38699847 GCTGGTGGAT
*
38699857 AATATTATCGGGCTTCGAGCCTAGCAGGCCATAATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCCATAATGCCGGTGA
* * *
38699900 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCCATAATGCCGGTGA
* * * *
38699943 AATGATATCGAGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCCATAATGCCGGTGA
38699985 A
1 A
38699986 TGAGTTCAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 12 0.16
43 64 0.84
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (43 bp):
AATAATATCGGGCTTCGAGCCTAGCAGGCCATAATGCCGGTGA
Found at i:38700008 original size:41 final size:43
Alignment explanation
Indices: 38699874--38700012 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
38699864 TCGGGCTTCG
* * * * **
38699874 AGCCTAGCAGGCCATAATGCCGGTGAGATAATATCGGGCTTCG
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCGAGCTTAA
* * *
38699917 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGAGCTTCA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCGAGCTTAA
38699960 AGCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TC-AGACTTAA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCGAG-CTTAA
*
38700001 AGTCTAGCAGGC
1 AGCCTAGCAGGC
38700013 TTTGTGCCGG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.02
41 22 0.26
42 11 0.13
43 49 0.58
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (43 bp):
AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCGAGCTTAA
Found at i:38706253 original size:43 final size:42
Alignment explanation
Indices: 38706200--38706316 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
38706190 TATTATCAGC
* * *
38706200 CTTCGGGCCTAACAGGCTATAATGCCGGTGAGATAATATCGGG
1 CTTCGAGCCTAGCAGGCTA-AATGCCGGTGAAATAATATCGGG
* * *
38706243 CTTCGTGCCTAGCAGGCTACAATGCCAGTGAAATGATATCGGG
1 CTTCGAGCCTAGCAGGCTA-AATGCCGGTGAAATAATATCGGG
* *
38706286 CTTCAAGCCTAGCAGGCGAAATGCCGGTGAA
1 CTTCGAGCCTAGCAGGCTAAATGCCGGTGAA
38706317 TGAGTTCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 11 0.17
43 53 0.83
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (42 bp):
CTTCGAGCCTAGCAGGCTAAATGCCGGTGAAATAATATCGGG
Found at i:38709284 original size:50 final size:50
Alignment explanation
Indices: 38709209--38709311 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
38709199 ATGGGATAGA
38709209 ACACGACCATGTGTCCATACTTCGAATGCTCACATGGTCT-AGGCTATGTC
1 ACACGACCATGTGTCCATACTTCGAATGCTCACATGGTCTGA-GCTATGTC
*
38709259 ACACGACCACT-TGTCCATACTTCGAATGTTCACATGGTCTGAGCTATGTC
1 ACACGACCA-TGTGTCCATACTTCGAATGCTCACATGGTCTGAGCTATGTC
38709309 ACA
1 ACA
38709312 GGGCCGCGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
ACACGACCATGTGTCCATACTTCGAATGCTCACATGGTCTGAGCTATGTC
Found at i:38714079 original size:43 final size:42
Alignment explanation
Indices: 38714024--38714153 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
38714014 ATATTAGGTT
* *
38714024 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATATCTGGGACA-TGGC
* * * * * *
38714067 ATC-ATATTGTGATTTCTTTTAAGACCCTATTTGTGACAGTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATATCTGGGACA-TGGC
** * *
38714110 ATCGATATGTGACAAAATGTAAGACCATATCTGGGATATGGC
1 ATCGATATGTGATTACATGTAAGACCATATCTGGGACATGGC
38714152 AT
1 AT
38714154 TTTATGAGCT
Statistics
Matches: 66, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
42 8 0.12
43 55 0.83
44 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
ATCGATATGTGATTACATGTAAGACCATATCTGGGACATGGC
Found at i:38717682 original size:34 final size:34
Alignment explanation
Indices: 38717644--38717709 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
38717634 TATTAAATTA
*
38717644 AGTTGTTAGAATCAATATTCAACTTAGTTAATGG
1 AGTTGTTAGAATAAATATTCAACTTAGTTAATGG
* * *
38717678 AGTTGTTAGAATAAATGTTTATCTTAGTTAAT
1 AGTTGTTAGAATAAATATTCAACTTAGTTAAT
38717710 TTCATTGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (34 bp):
AGTTGTTAGAATAAATATTCAACTTAGTTAATGG
Found at i:38717802 original size:9 final size:9
Alignment explanation
Indices: 38717770--38717838 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
38717760 AGTTAATTAA
*
38717770 GTTTCATGT
1 GTTTAATGT
*
38717779 GTTTAAAGT
1 GTTTAATGT
**
38717788 AATTAATGT
1 GTTTAATGT
38717797 GTTTAATGT
1 GTTTAATGT
* *
38717806 GTTTAGTAT
1 GTTTAATGT
38717815 GTTTAATGT
1 GTTTAATGT
38717824 GTTCTTAATGT
1 G-T-TTAATGT
38717835 GTTT
1 GTTT
38717839 GTTAAATGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
9 37 0.79
10 2 0.04
11 8 0.17
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.54
Consensus pattern (9 bp):
GTTTAATGT
Found at i:38722022 original size:9 final size:9
Alignment explanation
Indices: 38721990--38722058 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
38721980 TATTAATTAA
*
38721990 GTTTCATGT
1 GTTTAATGT
*
38721999 GTTTAAAGT
1 GTTTAATGT
**
38722008 AATTAATGT
1 GTTTAATGT
38722017 GTTTAATGT
1 GTTTAATGT
*
38722026 GTTTAGTGT
1 GTTTAATGT
*
38722035 GTTAAATGT
1 GTTTAATGT
38722044 GTTCTTAATGT
1 G-T-TTAATGT
38722055 GTTT
1 GTTT
38722059 GTTAAATGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
9 38 0.81
10 2 0.04
11 7 0.15
ACGTcount: A:0.23, C:0.03, G:0.22, T:0.52
Consensus pattern (9 bp):
GTTTAATGT
Found at i:38728682 original size:19 final size:20
Alignment explanation
Indices: 38728658--38728695 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38728648 TGGTACACCA
38728658 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
38728677 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
38728696 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:38729034 original size:93 final size:93
Alignment explanation
Indices: 38728924--38729094 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
38728914 GCCCCTAAGT
* *
38728924 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38728989 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
38729017 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38729082 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38729095 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38729091 original size:46 final size:46
Alignment explanation
Indices: 38728919--38729091 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
38728909 AACCCGCCCC
* * * *
38728919 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
38728965 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
38729013 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38729058 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38729092 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38732819 original size:19 final size:20
Alignment explanation
Indices: 38732795--38732832 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38732785 GGTACCACCA
38732795 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
38732814 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
38732833 ACCACATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:38733171 original size:93 final size:93
Alignment explanation
Indices: 38733061--38733231 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38733051 GCCCCTAAGT
* *
38733061 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCT-CATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-TGCATCCATAAATGAACTCGGACTCAACTCA
38733125 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
38733154 GAACTCGGACTCAACTCAAGGAGTTCGGACATTTGCATCGATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
38733219 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38733232 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38733228 original size:46 final size:44
Alignment explanation
Indices: 38733056--38733228 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
38733046 AACCCGCCCC
* * *
38733056 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-TCAT-CA
* *
38733102 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTTCATCA
* * *
38733150 TCA-CGAACTCGGACTCAACTCAAGGAGTTCGGACATTTGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTT-CATC-A
38733195 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38733229 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 59 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTCATCA
Found at i:38738879 original size:26 final size:26
Alignment explanation
Indices: 38738846--38738939 Score: 143
Period size: 26 Copynumber: 3.6 Consensus size: 26
38738836 TTAATAACTT
*
38738846 GGCAAAAGCCCTTTTTGATAAACTGG
1 GGCAAAAGCCCTTTTTGGTAAACTGG
* * *
38738872 GGCAAAAGCCCTTTTCGGTAATCTAG
1 GGCAAAAGCCCTTTTTGGTAAACTGG
*
38738898 GGCAAAAGCCCTTTTTGGTAAACTGA
1 GGCAAAAGCCCTTTTTGGTAAACTGG
38738924 GGCAAAAGCCCTTTTT
1 GGCAAAAGCCCTTTTT
38738940 CCACTTCCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
GGCAAAAGCCCTTTTTGGTAAACTGG
Found at i:38739005 original size:18 final size:18
Alignment explanation
Indices: 38738982--38739038 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
38738972 TGCATTATGA
*
38738982 ATACATCATGTGCCTATC
1 ATACATCATGTGCATATC
38739000 ATACATATCATGTGCATATC
1 ATAC--ATCATGTGCATATC
*
38739020 ATACAT-ATCATGCATATC
1 ATACATCAT-GTGCATATC
38739038 A
1 A
38739039 GAATCCCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.44
20 17 0.50
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:38739010 original size:9 final size:9
Alignment explanation
Indices: 38738996--38739038 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
38738986 ATCATGTGCC
38738996 TATCATACA
1 TATCATACA
*
38739005 TATCATGTGCA
1 TATCA--TACA
38739016 TATCATACA
1 TATCATACA
*
38739025 TATCATGCA
1 TATCATACA
38739034 TATCA
1 TATCA
38739039 GAATCCCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 21 0.72
11 8 0.28
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
TATCATACA
Found at i:38739011 original size:20 final size:20
Alignment explanation
Indices: 38738986--38739031 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
38738976 TTATGAATAC
*
38738986 ATCATGTGCCTATCATACAT
1 ATCATGTGCATATCATACAT
38739006 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38739026 ATCATG
1 ATCATG
38739032 CATATCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38743835 original size:22 final size:21
Alignment explanation
Indices: 38743792--38743834 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
38743782 GAACCACAAA
38743792 TCAAAGGTCGTAAAAATATTT
1 TCAAAGGTCGTAAAAATATTT
*
38743813 TCAAAGGTCTTAAAAATATTT
1 TCAAAGGTCGTAAAAATATTT
38743834 T
1 T
38743835 TATAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (21 bp):
TCAAAGGTCGTAAAAATATTT
Found at i:38745026 original size:42 final size:43
Alignment explanation
Indices: 38744972--38745084 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 43
38744962 ACATTAGGTT
* * *
38744972 ATCGAAATGTGATTACATGTAAGATCATGTC-CGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTCGGACAGTGGC
*** * *
38745014 ATC-ATATTGTGATTTGGTGTAAGACCCTGTCTGGGACAGTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTCGGACAGTGGC
* *
38745057 ATCGATATGTGATAACATGTAAAACCAT
1 ATCGATATGTGATTACATGTAAGACCAT
38745085 ATCTAGAATA
Statistics
Matches: 54, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.04
42 22 0.41
43 27 0.50
44 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTCGGACAGTGGC
Found at i:38763980 original size:35 final size:34
Alignment explanation
Indices: 38763913--38763980 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
38763903 AAAATTTAAT
* *
38763913 TCTTGTTGATAATTAATTTGTCTAGCTAAAATGG
1 TCTTGTTGATAATTAATTTGTCCAGCCAAAATGG
* *
38763947 TCTTGATTGCTAATTAATTTGTCCAGCCGAAATG
1 TCTTG-TTGATAATTAATTTGTCCAGCCAAAATG
38763981 AAACTCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (34 bp):
TCTTGTTGATAATTAATTTGTCCAGCCAAAATGG
Found at i:38770681 original size:392 final size:392
Alignment explanation
Indices: 38769957--38770727 Score: 1438
Period size: 392 Copynumber: 2.0 Consensus size: 392
38769947 ACCAATTATT
38769957 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
1 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
38770022 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
66 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
*
38770087 TGAACACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
131 TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
* *
38770152 TTCTAAAAACACTTTGATGTGACAGGTCAGATTCGGCCATAAGGTGTAGGCGGGGTTTAGAGTGT
196 TTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCGGGGTTTAGAGTGT
*
38770217 TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAATTTTGA
261 TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTGA
38770282 TTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCGGCACCAAATCTATAACTGAAAG
326 TTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCGGCACCAAATCTATAACTGAAAG
38770347 AG
391 AG
38770349 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
1 ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
*
38770414 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTTAGTGCACCACA-TTTAAAATTAAA
66 TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
*
38770478 TGAAAACAAGCTGAGACTTTATACAAGCTTTAAATAGTAAAAAAGGGTTTTGAATGAAAACACAA
131 TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGT-AAAAAGGGTTTTGAATGAAAACACAA
*
38770543 TTTCTAGAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGTC-GGGTTTAGAGT
195 TTTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGG-CGGGGTTTAGAGT
*
38770607 GTTGCATTTAGTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTT
259 GTTGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTT
38770672 GATTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCGGCACCAAATCT
324 GATTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCGGCACCAAATCT
38770728 GTAAGTTTTT
Statistics
Matches: 369, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
391 48 0.13
392 320 0.87
393 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (392 bp):
ATTTTCAAAAACATATGTTTTAAACTTTCTAAATTTAAATTAGCTTCCACAACTGAAAGAGATTT
TCAATGAAATTAAGGACATTTTTAGAAGTGACTAACTTTTCAGTGCACCACATTTTAAAATTAAA
TGAAAACAAACTGAGACTTTATACAAGCTTTAAATAGTAAAAAGGGTTTTGAATGAAAACACAAT
TTCTAAAAACACTTTGATGTGACACGTCAGATTCAGCCATAAGGTGTAGGCGGGGTTTAGAGTGT
TGCATTTACTGGTATTAGAGCCAGGTTGCAAAAGTCGGCTATGGAATGGGTTTTTGAAAATTTGA
TTTTTAAGCATTGTGATTGGAAATGTGGCACACGGAGTCTCCGGCACCAAATCTATAACTGAAAG
AG
Found at i:38777684 original size:39 final size:41
Alignment explanation
Indices: 38777580--38777763 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 41
38777570 TTGAATGATG
* *
38777580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
* *
38777620 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
38777660 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
38777699 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
38777738 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38777764 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
38 1 0.01
39 68 0.55
40 42 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:38777716 original size:79 final size:78
Alignment explanation
Indices: 38777580--38777798 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 78
38777570 TTGAATGATG
* * * **
38777580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGTA-T
38777644 TGTGCGAGATACTA-A
63 TGTGCGAGATACTATA
* *
38777659 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGTATT
*
38777723 GTGCGAGTTACTATA
64 GTGCGAGATACTATA
* * ** *
38777738 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGGTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGGTA
38777799 CGTGATTTGG
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
78 38 0.32
79 62 0.53
80 18 0.15
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGTATTGT
GCGAGATACTATA
Found at i:38777786 original size:78 final size:79
Alignment explanation
Indices: 38777633--38777796 Score: 192
Period size: 78 Copynumber: 2.1 Consensus size: 79
38777623 GGACTAAGAT
* * **
38777633 CCGAAGGTATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38777698 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38777712 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38777774 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38777790 CCGAAGG
1 CCGAAGG
38777797 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.52
79 33 0.45
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38784264 original size:10 final size:10
Alignment explanation
Indices: 38784249--38784275 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38784239 AGACAAGGAT
38784249 ACCATGTAAG
1 ACCATGTAAG
38784259 ACCATGTAAG
1 ACCATGTAAG
38784269 ACCATGT
1 ACCATGT
38784276 TTGGAACATG
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:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (10 bp):
ACCATGTAAG
Found at i:38784384 original size:101 final size:101
Alignment explanation
Indices: 38784259--38784794 Score: 614
Period size: 101 Copynumber: 5.2 Consensus size: 101
38784249 ACCATGTAAG
*
38784259 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATACC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
*
38784324 AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *
38784360 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATGTAAAACCATGCC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
*
38784425 AAGGCATGGCATTGATAAGTTCTATAAGACAAGGAT
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
*
38784461 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCGTGCC
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
* *
38784526 AAGGCATGTCATTGATAAGTTCTATAAGGCAAGGAA
66 AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *** ** * *
38784562 ATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTATTATAAGGCAAAGGTCCCATTTAA
1 ACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA--T--CATGTAA
* *
38784626 GACCATGCCAAGTCATGGCATTGGA-GAGTTC-ATAAGGCAAGGAT
57 GACCATGCCAAGGCATGGCATT-GATAAGTTCTATAAGGCAAGGAT
*** ** *
38784670 ACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACCATAAGGAAAATGTCCCATGTAA
1 ACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG---ATAT--CATGTAA
* *
38784734 GACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGAT
57 GACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
* *
38784778 ACCACGGAAGACCATGT
1 ACCATGTAAGACCATGT
38784795 CAAGACATGG
Statistics
Matches: 389, Mismatches: 33, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
100 10 0.03
101 210 0.54
102 2 0.01
103 1 0.00
104 8 0.02
105 2 0.01
107 2 0.01
108 121 0.31
109 30 0.08
110 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCC
AAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAT
Found at i:38784405 original size:47 final size:47
Alignment explanation
Indices: 38784259--38784520 Score: 177
Period size: 47 Copynumber: 5.3 Consensus size: 47
38784249 ACCATGTAAG
*
38784259 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGAT
* **** * * * *
38784306 ATCATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCT-ATAAGACAAGGAT
1 ACCATGTAAGACCAT-GTTTGG-A--ACA-TGA-CA-TT-TGGTAAGATAAGGAT
38784360 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGAT
* * *** * * * *
38784407 ATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCT-ATAAGACAAGGAT
1 ACCATGTAAGACCATG-TTTGG-A--ACA-TGA-CA-TT-TGGTAAGATAAGGAT
*
38784461 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGAT
*
38784508 ATCATGTAAGACC
1 ACCATGTAAGACC
38784521 GTGCCAAGGC
Statistics
Matches: 158, Mismatches: 39, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
46 2 0.01
47 66 0.42
48 6 0.04
49 7 0.04
50 4 0.03
51 4 0.03
52 7 0.04
53 6 0.04
54 54 0.34
55 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (47 bp):
ACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGAT
Found at i:38784628 original size:55 final size:53
Alignment explanation
Indices: 38784300--38784806 Score: 391
Period size: 55 Copynumber: 9.7 Consensus size: 53
38784290 TTGGTAAGAT
* ** * * *
38784300 AAGGATATCATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
*** * **
38784354 AAGGATACCATGTAAGACCATGTTTGGAACATGACATT--TG-G----TAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGC
* * * * * *
38784401 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
*** **
38784455 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G----TAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGC
* * * * * *
38784502 AAGGATATCATGTAAGACCGTGCCAAGGCATGTCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
* * *
38784556 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAG-T-TCATAAGGC
* * * *
38784611 AAAGG-TCCCATTTAAGACCATGCCAAGTCATGGCATTGGA-GAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GATGAGTTCATAAGGC
*
38784664 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT--CATAAGG-C
* * * * *
38784720 AATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
* *
38784772 AAGGATACCACGGAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
38784807 ATGGTAAGTT
Statistics
Matches: 354, Mismatches: 71, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
46 16 0.05
47 52 0.15
48 2 0.01
49 2 0.01
52 11 0.03
53 75 0.21
54 89 0.25
55 97 0.27
56 10 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
Found at i:38784685 original size:108 final size:108
Alignment explanation
Indices: 38784510--38784806 Score: 443
Period size: 108 Copynumber: 2.7 Consensus size: 108
38784500 ATAAGGATAT
* * * * *
38784510 CATGTAAGACCGTGCCAAGGCATGTCATT-GATAAGTTCTATAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGA-GAGTTC-ATAAGGCAAGGATACCATGTAAGAC
** *
38784574 CATGTCAAGACATGGCATTGATGAGTTATTATAAGGCAAAGGTCC
64 CATGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
* *
38784619 CATTTAAGACCATGCCAAGTCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
38784684 TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAATGTCC
66 TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
* * *
38784727 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGGAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
38784792 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
38784807 ATGGTAAGTT
Statistics
Matches: 171, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
108 139 0.81
109 30 0.18
110 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
Found at i:38788470 original size:17 final size:18
Alignment explanation
Indices: 38788439--38788472 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38788429 TTTCCCTGAT
38788439 TTTTTTAATATATTTTAA
1 TTTTTTAATATATTTTAA
38788457 TTTTTTAATA-ATTTTA
1 TTTTTTAATATATTTTA
38788473 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAATATATTTTAA
Found at i:38798690 original size:32 final size:32
Alignment explanation
Indices: 38798649--38798713 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
38798639 CAGAGAAAGC
38798649 ATGATTATACACTTGTAAATAATCTAAATGAA
1 ATGATTATACACTTGTAAATAATCTAAATGAA
38798681 ATGATTATACACTTGTAAATAATCTAAATGAA
1 ATGATTATACACTTGTAAATAATCTAAATGAA
38798713 A
1 A
38798714 ATAGTTGTAT
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:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (32 bp):
ATGATTATACACTTGTAAATAATCTAAATGAA
Found at i:38804546 original size:43 final size:43
Alignment explanation
Indices: 38804485--38804573 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
38804475 TTCGACTTTA
38804485 GAGCTAATTCCTCATCTTTTTCAGCTCGTTCTGGGCAGTCTCT
1 GAGCTAATTCCTCATCTTTTTCAGCTCGTTCTGGGCAGTCTCT
38804528 GAGCTAATTCCTCATCTTTTTCAGCTCGTTCTGGGCAGTCTCT
1 GAGCTAATTCCTCATCTTTTTCAGCTCGTTCTGGGCAGTCTCT
38804571 GAG
1 GAG
38804574 AAAATGATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (43 bp):
GAGCTAATTCCTCATCTTTTTCAGCTCGTTCTGGGCAGTCTCT
Found at i:38815672 original size:40 final size:39
Alignment explanation
Indices: 38815628--38815732 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
38815618 AGTGACCATA
*
38815628 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
38815668 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
38815706 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
38815733 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38815689 original size:39 final size:40
Alignment explanation
Indices: 38815591--38815732 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
38815581 AATGATGTCT
* * * *
38815591 GGGCTAAGTCCCGAAGG-TTTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
38815631 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
*
38815671 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
38815710 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
38815733 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
39 34 0.39
40 42 0.48
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:38815739 original size:40 final size:39
Alignment explanation
Indices: 38815641--38815732 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
38815631 GGACTAAGAT
* *
38815641 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGC
*
38815680 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-C
38815720 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38815733 AACGAGTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
38 2 0.04
39 32 0.67
40 14 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGC
Found at i:38816027 original size:47 final size:47
Alignment explanation
Indices: 38815957--38816218 Score: 416
Period size: 47 Copynumber: 5.6 Consensus size: 47
38815947 AAGGGTTGGT
38815957 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
38816004 AATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38816051 AATGTGAAAGTGTATGTACGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38816098 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
38816145 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38816192 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38816219 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 199 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38818324 original size:23 final size:22
Alignment explanation
Indices: 38818290--38818334 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
38818280 TTAATCCATA
38818290 CCAAAGCATACCAAAACATAAG
1 CCAAAGCATACCAAAACATAAG
38818312 CCAAAGTCATACCAAAACATAAG
1 CCAAAG-CATACCAAAACATAAG
38818335 GTTTATAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.53, C:0.27, G:0.09, T:0.11
Consensus pattern (22 bp):
CCAAAGCATACCAAAACATAAG
Found at i:38819122 original size:42 final size:42
Alignment explanation
Indices: 38819009--38819220 Score: 183
Period size: 42 Copynumber: 5.0 Consensus size: 42
38818999 CGAAAAGCTC
* * * * * * * *
38819009 ATACAATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
* * * * *
38819051 GTATCGATGCCATTGTCGCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
*
38819094 ATACGATGCCGATGTCCCAAACATGGTCTTACACGAAATCAA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
** * * *
38819136 ATACGATGCCAATGTCATATACATGGTATTATACGTAAATCTCAA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACG-AAA--TCAA
* * *
38819181 AT-CGATGCCAACGTCCTACACATGGTCTTACACGAAATCA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCA
38819221 CATATCGAAA
Statistics
Matches: 138, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.02
42 65 0.47
43 37 0.27
44 27 0.20
45 6 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
Found at i:38819209 original size:86 final size:85
Alignment explanation
Indices: 38819009--38819228 Score: 228
Period size: 85 Copynumber: 2.6 Consensus size: 85
38818999 CGAAAAGCTC
* * * * * * * * *
38819009 ATACAATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAGTATCGATGCCATTGTCGCAGAC
1 ATACGATGCCAACGTCCTAAACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCACAGAC
*
38819074 AGGGTCTTACACGAAATCAA
66 AGGGTATTACACGAAATCAA
* * * * *
38819094 ATACGATGCCGATGTCCCAAACATGGTCTTACACGAAATCAAATA-CGATGCCAATGTCATATAC
1 ATACGATGCCAACGTCCTAAACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCACAGAC
* *
38819158 ATGGTATTATACGTAAATCTCAA
66 AGGGTATTACACG-AAA--TCAA
* *
38819181 AT-CGATGCCAACGTCCTACACATGGTCTTACACGAAATCACATATCGA
1 ATACGATGCCAACGTCCTAAACATGGTCTTACACGAAATCAAATATCGA
38819229 AAATTCTATG
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
84 25 0.23
85 38 0.35
86 37 0.34
87 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (85 bp):
ATACGATGCCAACGTCCTAAACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCACAGAC
AGGGTATTACACGAAATCAA
Found at i:38824822 original size:46 final size:46
Alignment explanation
Indices: 38824754--38824890 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
38824744 TATATATACA
* * * * *
38824754 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
38824800 CATCTTATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
38824846 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
38824891 ATACACTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:38824938 original size:47 final size:47
Alignment explanation
Indices: 38824864--38825244 Score: 548
Period size: 47 Copynumber: 8.1 Consensus size: 47
38824854 ACACATTTCG
* * * * * *
38824864 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* * *
38824911 CATTGGCCATTCTGCCTTGTCGCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38824958 CATTGCCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** *
38825005 CATTGGCCATTCGGCCTTATCACACGTACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38825052 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38825099 CATTGGCCATTCGGCCTCATCACACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACATTCATCA
38825148 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
38825195 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
38825242 CAT
1 CAT
38825245 AAAATCCTAA
Statistics
Matches: 304, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 258 0.85
49 45 0.15
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:38825190 original size:190 final size:188
Alignment explanation
Indices: 38824864--38825215 Score: 553
Period size: 190 Copynumber: 1.9 Consensus size: 188
38824854 ACACATTTCG
* * * *
38824864 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
1 CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGGCCATTCGGCCTT
** *
38824929 GTCGCATATATGCATGTTCACATTCATCACATTGCCCATTCGGCCTTATCACATATATGCATGTT
66 CACACATATATGCATGTTCACATTCATCACATTGCCCATTCGGCCTTATCACATATATGCATGTT
38824994 CACATTCATCACATTGGCCATTCGGCCTTATCACACGTACGCATGTTCACATTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACGTACGCATGTTCACATTCATCA
* * * *
38825052 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTACCACACATATACACT-TCCACATTCATCACATTGGCCATTCGGCCT
*
38825116 CATCACACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
65 --TCACACATATATGCATGTTCACATTCATCACATTGCCCATTCGGCCTTATCACATATATGCAT
*
38825181 GTTCACATTCATCACATTTGCCATTCGGCCTTATC
128 GTTCACATTCATCACATTGGCCATTCGGCCTTATC
38825216 TCATATATAC
Statistics
Matches: 148, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
187 1 0.01
188 54 0.36
190 93 0.63
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (188 bp):
CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGGCCATTCGGCCTT
CACACATATATGCATGTTCACATTCATCACATTGCCCATTCGGCCTTATCACATATATGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACGTACGCATGTTCACATTCATCA
Found at i:38825245 original size:25 final size:25
Alignment explanation
Indices: 38825121--38825245 Score: 77
Period size: 25 Copynumber: 5.2 Consensus size: 25
38825111 GGCCTCATCA
**
38825121 CACATATATGCATGTTCACATTCAT
1 CACATATATGCACATTCACATTCAT
* * *
38825146 CACAT-T-GGC-CATTCGGCCTT-AT
1 CACATATATGCACATTC-ACATTCAT
**
38825168 CACATATATGCATGTTCACATTCAT
1 CACATATATGCACATTCACATTCAT
* *
38825193 CACAT-T-TGC-CATTCGGCCTT-AT
1 CACATATATGCACATTC-ACATTCAT
* *
38825215 CTCATATATACACATTCACATTCAT
1 CACATATATGCACATTCACATTCAT
38825240 CACATA
1 CACATA
38825246 AAATCCTAAA
Statistics
Matches: 71, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
22 19 0.27
23 13 0.18
24 12 0.17
25 27 0.38
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
CACATATATGCACATTCACATTCAT
Found at i:38825284 original size:143 final size:140
Alignment explanation
Indices: 38824904--38825265 Score: 394
Period size: 143 Copynumber: 2.6 Consensus size: 140
38824894 CACTTCCACG
* * * * * ** ** *
38824904 TTCATCACATTGGCCATTCTGCCTTGTCGCATATATGCATGTTCACATTCATCACATTGCCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTG-AAAAT
* *
38824969 CGGCCTTATCAC--ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACGT
65 --GCCTAATCACAAATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
38825032 ACGCATGTTCACA
128 ACGCATGTTCACA
* ** ** *
38825045 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * *
38825110 CGGCCTCATCACACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
65 --GCCTAATCACAAATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
*
38825175 ATGCATGTTCACA
128 ACGCATGTTCACA
* * *
38825188 TTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACA-T-AAAAT-
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
38825250 CCTAAATCA-AAATATA
66 CCT-AATCACAAATATA
38825266 AAATTTCATG
Statistics
Matches: 198, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
137 9 0.05
138 4 0.02
140 2 0.01
141 70 0.35
142 2 0.01
143 111 0.56
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (140 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
CCTAATCACAAATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
CATGTTCACA
Found at i:38829193 original size:40 final size:40
Alignment explanation
Indices: 38829138--38829330 Score: 341
Period size: 40 Copynumber: 4.8 Consensus size: 40
38829128 GAATACACAT
* *
38829138 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
38829178 CACCAGTACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
38829218 CACCAGCACGTATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
38829258 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
38829298 CTCCAGCACGTATGCTCTTCGGGACTTAGCCCG
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCG
38829331 AATCATATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:38830895 original size:46 final size:46
Alignment explanation
Indices: 38830826--38830958 Score: 185
Period size: 46 Copynumber: 2.9 Consensus size: 46
38830816 TATACACATG
* * * * *
38830826 TCATACATATCTCACATTAGCCATTTGGCTTTACCACATGTCCATC
1 TCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCCATC
* * * *
38830872 TTATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATCCATC
1 TCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCCATC
38830918 TCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 TCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
38830959 ATACACTTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (46 bp):
TCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCCATC
Found at i:38831007 original size:47 final size:47
Alignment explanation
Indices: 38830932--38831311 Score: 546
Period size: 47 Copynumber: 8.1 Consensus size: 47
38830922 ACACATTTCG
* * * * * *
38830932 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* * * *
38830979 CATTGACCATTCTGCCTTGTCGCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38831026 CATTGGCCATACGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* ** *
38831073 CATTGGCCATTCAGCCTTATCACACGTACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38831120 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38831167 CATTGGCCATTCGGCCTTCATCACATATATGCATGTTCACATTAATCA
1 CATTGGCCATTCGGCCTT-ATCACATATATGCATGTTCACATTCATCA
38831215 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
38831262 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
38831309 CAT
1 CAT
38831312 AAAATCCTTA
Statistics
Matches: 301, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 255 0.85
48 45 0.15
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:38831217 original size:189 final size:188
Alignment explanation
Indices: 38830932--38831282 Score: 551
Period size: 189 Copynumber: 1.9 Consensus size: 188
38830922 ACACATTTCG
* * * *
38830932 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCACATTGACCATTCTGCCTT
1 CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGACCATTCGGCCTT
* * *
38830997 GTCGCATATATGCATGTTCACATTCATCACATTGGCCATACGGCCTTATCACATATATGCATGTT
66 ATCACATATATGCATGTTCACATTAATCACATTGGCCATACGGCCTTATCACATATATGCATGTT
38831062 CACATTCATCACATTGGCCATTCAGCCTTATCACACGTACGCATGTTCACATTCATCA
131 CACATTCATCACATTGGCCATTCAGCCTTATCACACGTACGCATGTTCACATTCATCA
* * * * *
38831120 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTACCACACATATACACT-TCCACATTCATCACATTGACCATTCGGCCT
*
38831184 TCATCACATATATGCATGTTCACATTAATCACATTGGCCATTCGGCCTTATCACATATATGCATG
65 T-ATCACATATATGCATGTTCACATTAATCACATTGGCCATACGGCCTTATCACATATATGCATG
*
38831249 TTCACATTCATCACATTGGCCATTCGGCCTTATC
129 TTCACATTCATCACATTGGCCATTCAGCCTTATC
38831283 TCATATATAC
Statistics
Matches: 147, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
187 1 0.01
188 54 0.37
189 92 0.63
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (188 bp):
CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGACCATTCGGCCTT
ATCACATATATGCATGTTCACATTAATCACATTGGCCATACGGCCTTATCACATATATGCATGTT
CACATTCATCACATTGGCCATTCAGCCTTATCACACGTACGCATGTTCACATTCATCA
Found at i:38834591 original size:28 final size:29
Alignment explanation
Indices: 38834479--38834597 Score: 177
Period size: 29 Copynumber: 4.1 Consensus size: 29
38834469 GAAAGCATGT
*
38834479 ATATGAATGTTATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
38834508 ATTTGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
38834537 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
38834566 ATATGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
38834594 ATAT
1 ATAT
38834598 ACATGTATGT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 19 0.23
29 63 0.77
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:38836345 original size:40 final size:42
Alignment explanation
Indices: 38836290--38836384 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 42
38836280 CAACTATGAT
** *
38836290 TGGCACTAAGTGTGCGGTTTA-ATATAGCTTCAGCTATA-AA
1 TGGCACTAAGTGTGCGAATTAGACATAGCTTCAGCTATAGAA
* *
38836330 TGGCACTAAGTGTGCGAATTAGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAATTAGACATAGCTTCAGCTATAGAA
38836372 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
38836385 TGATACCGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 19 0.40
41 27 0.56
42 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
TGGCACTAAGTGTGCGAATTAGACATAGCTTCAGCTATAGAA
Found at i:38838366 original size:16 final size:17
Alignment explanation
Indices: 38838345--38838376 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38838335 TGTGTAACGC
38838345 CCCAAAAATCT-GAAAA
1 CCCAAAAATCTCGAAAA
38838361 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
38838377 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.28, G:0.06, T:0.12
Consensus pattern (17 bp):
CCCAAAAATCTCGAAAA
Found at i:38839921 original size:29 final size:28
Alignment explanation
Indices: 38839857--38839961 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
38839847 TGAGCATAAC
38839857 TATAAATGTGATTGGGCCTAAT-GGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
*
38839884 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* *
38839913 CATAAATGTGATGGGGCCTAATGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
*
38839941 TATGAAA-GAGATTGGGCCTAA
1 TAT-AAATGTGATTGGGCCTAA
38839962 AGGTCTATTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.15
28 41 0.60
29 17 0.25
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:38843479 original size:49 final size:48
Alignment explanation
Indices: 38843407--38843638 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 48
38843397 CTGGTACGCA
* *
38843407 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CAGTACACG
* ** *
38843456 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCAG-TACACG
* * * *
38843506 TAGTAGCCTGCACTTAGTACTACACACGTGATCAATGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAA--TTATCA-GTACACG
* *
38843557 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC-AGTACACG
*
38843606 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
38843639 TCACAATAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 75 0.48
50 42 0.27
51 39 0.25
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGTACACG
Found at i:38843625 original size:100 final size:99
Alignment explanation
Indices: 38843393--38843638 Score: 334
Period size: 100 Copynumber: 2.5 Consensus size: 99
38843383 GTAGCCGAAG
* * * ** *
38843393 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATA
*
38843458 GTAGCCTGCACTTAGTACTACACACGTGACCTAA
66 GTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
38843492 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAATGTTAT-CAGGTACGC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA--TTATCCA-GTACAC
*
38843556 ATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
63 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
*
38843592 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
38843639 TCACAATAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
99 41 0.32
100 47 0.37
101 40 0.31
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATA
GTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:38844318 original size:30 final size:30
Alignment explanation
Indices: 38844284--38844343 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38844274 CTTTAATACG
38844284 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
38844314 AACTTTTGCATAATTATACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
38844344 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:38854991 original size:29 final size:28
Alignment explanation
Indices: 38854928--38855028 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
38854918 TACCTGTATC
* *
38854928 TGGCCCATTAAGCCCAAAAT-A-TTCATA
1 TGGCCCATTAGGCCC-AAATCACTTTATA
*
38854955 TGACCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTT-TATA
38854984 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCAC-TTTATA
* *
38855013 TGGCTCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
38855029 GTCACAATCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.06
27 14 0.22
28 2 0.03
29 42 0.66
30 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACTTTATA
Found at i:38856594 original size:16 final size:17
Alignment explanation
Indices: 38856563--38856600 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
38856553 ACAAAGAAAG
38856563 TTTGGGATTTCAAGATT
1 TTTGGGATTTCAAGATT
*
38856580 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCAAGATT
38856596 TTTGG
1 TTTGG
38856601 CGCATTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.29, T:0.50
Consensus pattern (17 bp):
TTTGGGATTTCAAGATT
Found at i:38858279 original size:16 final size:16
Alignment explanation
Indices: 38858258--38858289 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38858248 GTTGTAACAC
38858258 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
38858274 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
38858290 TCTCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:38859797 original size:28 final size:27
Alignment explanation
Indices: 38859754--38859857 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 27
38859744 CATAACTGTA
*
38859754 AATGTGATTGGGCCTAATGGCCGTATG
1 AATGTGATTGGGCCTAATGGCCATATG
* *
38859781 AATGTGATTTGGGCCTAATGGACCACATA
1 AATGTGA-TTGGGCCTAATGG-CCATATG
38859810 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAAT-GGCCATATG
* * *
38859838 AAAGAGATTGGGTCTAATGG
1 AATGTGATTGGGCCTAATGG
38859858 GCTATATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.14
28 44 0.67
29 13 0.20
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (27 bp):
AATGTGATTGGGCCTAATGGCCATATG
Found at i:38859849 original size:56 final size:56
Alignment explanation
Indices: 38859752--38859857 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
38859742 AGCATAACTG
* * *
38859752 TAAATGTGATTGGGCCTAATGGCCGTATGAATGTGATTTGGGCCTAATGGACCACA
1 TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGACCACA
*
38859808 TAAATGTGATTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGTCTAATGG
1 TAAATGTGATTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGG
38859858 GCTATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 32 0.71
57 13 0.29
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGACCACA
Found at i:38863557 original size:40 final size:40
Alignment explanation
Indices: 38863495--38863636 Score: 162
Period size: 40 Copynumber: 3.6 Consensus size: 40
38863485 TATTCGGATG
**
38863495 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * * *
38863535 ATTTCCGGGCTAAGACCTGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
38863575 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* *
38863615 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
38863637 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 13 0.15
40 70 0.83
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:38864162 original size:31 final size:31
Alignment explanation
Indices: 38864127--38864193 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
38864117 TTTGGTAATG
38864127 TATATATTTGGATAGCCATGCGAAAATGGCT
1 TATATATTTGGATAGCCATGCGAAAATGGCT
38864158 TATATATTTGGATAGCCATGCGAAAATGGCT
1 TATATATTTGGATAGCCATGCGAAAATGGCT
38864189 TATAT
1 TATAT
38864194 CTAATTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (31 bp):
TATATATTTGGATAGCCATGCGAAAATGGCT
Found at i:38871504 original size:26 final size:27
Alignment explanation
Indices: 38871461--38871511 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
38871451 TAACGCCCCA
**
38871461 ATTTTTGAGTTTTCTGTGT-TTCTATG
1 ATTTTTGAAATTTCTGTGTGTTCTATG
*
38871487 ATTTTTGAAATTTGTGTGTGTTCTA
1 ATTTTTGAAATTTCTGTGTGTTCTA
38871512 GTTGGTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.59
Consensus pattern (27 bp):
ATTTTTGAAATTTCTGTGTGTTCTATG
Found at i:38872309 original size:27 final size:27
Alignment explanation
Indices: 38872275--38872445 Score: 216
Period size: 27 Copynumber: 6.3 Consensus size: 27
38872265 TGGATAAGTT
*
38872275 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38872302 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38872329 GTAGAATTACTGAAATACCCATTGTAGG
1 GTAGAATTACCGAAATACCC-CTGTAGG
* *
38872357 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38872384 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
38872411 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
38872438 GTAAAATT
1 GTAGAATT
38872446 CCTGTTTTAT
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:38872387 original size:82 final size:81
Alignment explanation
Indices: 38872276--38872434 Score: 237
Period size: 82 Copynumber: 2.0 Consensus size: 81
38872266 GGATAAGTTG
* ** *
38872276 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
38872341 AAATACCCATTGTAGGA
66 AAATACCC-TTGTAGGA
* * *
38872358 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
*
38872423 AGATACCCTTGT
66 AAATACCCTTGT
38872435 GGGGTAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
81 4 0.06
82 65 0.94
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
AAATACCCTTGTAGGA
Found at i:38879954 original size:22 final size:23
Alignment explanation
Indices: 38879911--38879959 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
38879901 TAATGACATT
**
38879911 TTATTTAATTAATTATTTAACC-
1 TTATTTAATTAATTATAAAACCA
38879933 TTATTT-ATTAAATTATAAAACCA
1 TTATTTAATT-AATTATAAAACCA
38879956 TTAT
1 TTAT
38879960 ACTATGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATTTAATTAATTATAAAACCA
Found at i:38881350 original size:43 final size:42
Alignment explanation
Indices: 38881303--38881526 Score: 231
Period size: 43 Copynumber: 5.2 Consensus size: 42
38881293 CATGTAACCT
* * *
38881303 CATATCGATGCCACTACCCTGGACAG-GGTCTTACTCGTAAACA
1 CATATCGATGCCAC-ACCCTAGAC-GTGGTCTTACACGTAATCA
* * *
38881346 CATATCGATGCAAACATCCTAGATGTGGTCTTACACGTAATCA
1 CATATCGATGC-CACACCCTAGACGTGGTCTTACACGTAATCA
*
38881389 CATATTGATGCCA-ACGTCCTAGACGTGGTCTTACACGTAATCA
1 CATATCGATGCCACAC--CCTAGACGTGGTCTTACACGTAATCA
* *
38881432 CATATCGATGCCA-ACGTCCCAGACGTAGTCTTACACGTAATCA
1 CATATCGATGCCACAC--CCTAGACGTGGTCTTACACGTAATCA
* * *
38881475 CATATCGATCCCA-ACGTCCCAGACGTGGTCTTACACATAATCA
1 CATATCGATGCCACAC--CCTAGACGTGGTCTTACACGTAATCA
38881518 CATATCGAT
1 CATATCGAT
38881527 ATCACATATA
Statistics
Matches: 161, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 156 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CATATCGATGCCACACCCTAGACGTGGTCTTACACGTAATCA
Found at i:38881428 original size:86 final size:86
Alignment explanation
Indices: 38881329--38881526 Score: 297
Period size: 86 Copynumber: 2.3 Consensus size: 86
38881319 CCCTGGACAG
* * * * *
38881329 GGTCTTACTCGTAAACACATATCGATGCAAACATCCTAGATGTGGTCTTACACGTAATCACATAT
1 GGTCTTACACGTAATCACATATCGATGCAAACATCCCAGACGTAGTCTTACACGTAATCACATAT
* * *
38881394 TGATGCCAACGTCCTAGACGT
66 CGATCCCAACGTCCCAGACGT
* *
38881415 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTAGTCTTACACGTAATCACATAT
1 GGTCTTACACGTAATCACATATCGATGCAAACATCCCAGACGTAGTCTTACACGTAATCACATAT
38881480 CGATCCCAACGTCCCAGACGT
66 CGATCCCAACGTCCCAGACGT
*
38881501 GGTCTTACACATAATCACATATCGAT
1 GGTCTTACACGTAATCACATATCGAT
38881527 ATCACATATA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 101 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (86 bp):
GGTCTTACACGTAATCACATATCGATGCAAACATCCCAGACGTAGTCTTACACGTAATCACATAT
CGATCCCAACGTCCCAGACGT
Found at i:38892600 original size:30 final size:30
Alignment explanation
Indices: 38892566--38892626 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
38892556 CCCCTCGTAC
38892566 AAACTTTGACAAAATTAC-CATTTTGCCCCT
1 AAACTTTGACAAAATTACAC-TTTTGCCCCT
* * *
38892596 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGACAAAATTACACTTTTGCCCCT
38892626 A
1 A
38892627 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTGCCCCT
Found at i:38899655 original size:46 final size:46
Alignment explanation
Indices: 38899491--38899660 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
38899481 AACCCGCCCC
* * * *
38899491 TAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTTGCATCCA
* * * *
38899537 TAAATGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
38899585 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38899630 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
38899661 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 55 0.54
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38899660 original size:93 final size:93
Alignment explanation
Indices: 38899496--38899666 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
38899486 GCCCCTAAGT
* * *
38899496 GAACTCGGACTCAACTCAACGATCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
38899561 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCAGATGCCTAGTTACATCTCAC
* *
38899589 GAACTCGGACTCAACTCAACGAGT-TCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-TCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
38899653 ACGAGTTCAGATGC
65 ACAAGTTCAGATGC
38899667 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCAGATGCCTAGTTACATCTCAC
Found at i:38901610 original size:29 final size:29
Alignment explanation
Indices: 38901571--38901658 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
38901561 CAAAGATAAC
*
38901571 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
38901600 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
38901629 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
38901659 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:38901629 original size:15 final size:15
Alignment explanation
Indices: 38901571--38901649 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
38901561 CAAAGATAAC
*
38901571 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38901585 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
38901600 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
38901614 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
38901629 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
38901644 AAGAAA
1 AAGAAA
38901650 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38901658 original size:15 final size:15
Alignment explanation
Indices: 38901582--38901658 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
38901572 AGAAAACCGA
38901582 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
38901597 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
38901611 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
38901625 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
38901641 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
38901656 ATA
1 ATA
38901659 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38908406 original size:15 final size:15
Alignment explanation
Indices: 38908386--38908428 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38908376 TATCGTATCT
38908386 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
38908401 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
* *
38908415 TTGGATTCTTTATT
1 TGGGTTTCTTTATT
38908429 TGATTTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.09, C:0.14, G:0.19, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:38912182 original size:28 final size:29
Alignment explanation
Indices: 38912154--38912264 Score: 120
Period size: 28 Copynumber: 3.9 Consensus size: 29
38912144 GCATGATTAT
*
38912154 AATGTGATTTGGGCCAGATGGGCCATATA
1 AATGTGATTTGGGCCAGATGGGCCATATG
* * *
38912183 AATGAGATTGGGGCTA-ATGGGCCATATG
1 AATGTGATTTGGGCCAGATGGGCCATATG
* *
38912211 AATGTGAATTGGGCC-GATAGGCCATATG
1 AATGTGATTTGGGCCAGATGGGCCATATG
* *
38912239 AACGTGAATTT-GGCCGGATGGGCCAT
1 AATGTG-ATTTGGGCCAGATGGGCCAT
38912265 CTAAATAAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 42 0.63
29 25 0.37
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.25
Consensus pattern (29 bp):
AATGTGATTTGGGCCAGATGGGCCATATG
Found at i:38917663 original size:16 final size:15
Alignment explanation
Indices: 38917638--38917668 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
38917628 CTAGATCGGC
38917638 AAAAGCCAAAAAGCT
1 AAAAGCCAAAAAGCT
38917653 AAAATGCCAAAAAGCT
1 AAAA-GCCAAAAAGCT
38917669 GGCATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAAGCCAAAAAGCT
Found at i:38918114 original size:27 final size:27
Alignment explanation
Indices: 38918076--38918188 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
38918066 GAGGAAGCGT
38918076 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
38918103 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
38918131 TCTGATGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
38918158 TCTGGCGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
38918184 TCTGG
1 TCTGG
38918189 CAGCAATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:38918182 original size:54 final size:55
Alignment explanation
Indices: 38918075--38918184 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
38918065 GGAGGAAGCG
* * *
38918075 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGATGGCTCTGCCACAAATATCTGATCTGGCGACTCTGCCACAAATATCTGT
*
38918130 TTCTGATGGCTCTGCCAC-AATATCTGTATCTGGCGACTCTGTCAC-AATATCTGT
1 TTCTGATGGCTCTGCCACAAATATCTG-ATCTGGCGACTCTGCCACAAATATCTGT
38918184 T
1 T
38918185 CTGGCAGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (55 bp):
TTCTGATGGCTCTGCCACAAATATCTGATCTGGCGACTCTGCCACAAATATCTGT
Found at i:38924793 original size:39 final size:40
Alignment explanation
Indices: 38924653--38924872 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
38924643 ATTCGGATTG
38924653 ATAACCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
38924691 ATAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
38924732 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
38924772 ATAACC-GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
38924811 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
38924851 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
38924873 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 4 0.02
39 64 0.38
40 74 0.44
41 27 0.16
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:38924795 original size:79 final size:79
Alignment explanation
Indices: 38924653--38924872 Score: 338
Period size: 79 Copynumber: 2.8 Consensus size: 79
38924643 ATTCGGATTG
38924653 ATAACCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGCTAAGTCCCGAAGGC
*
38924716 ATTTGTGCGAGTTACT
64 AATTGTGCGAGTTACT
*
38924732 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCAA
38924797 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * **
38924811 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGCTAAGTCCCGAAGG
38924873 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 2 0.02
79 99 0.76
80 2 0.02
81 28 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:38938209 original size:48 final size:46
Alignment explanation
Indices: 38938075--38939463 Score: 1076
Period size: 48 Copynumber: 28.5 Consensus size: 46
38938065 TTCGGGATTA
* * * * * * *
38938075 ATCACATTTATACACTTTCACATCCATC-CGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTT
* *
38938121 GTCACAT-TATACACGTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTT
*
38938167 ATCACATATATACCAATTTCACATTTCATCACATCGGCATTAGGCCTT
1 ATCACATATATA-CACTTTCACA-TTCATCACATCGGCATTAGGCCTT
38938215 ATCACATATATTACACTTTCACATTCATCACATCGGCATTA-GCCTT
1 ATCACATATA-TACACTTTCACATTCATCACATCGGCATTAGGCCTT
*
38938261 ATCACATATATACAC-TTCACATTCATTCACATCGGCCATGA-GCC-T
1 ATCACATATATACACTTTCACATTCA-TCACATCGG-CATTAGGCCTT
* *
38938306 ATCACATATATACCACTTTCACA-TCATC-CAATTGGCCATTCGGCCTTT
1 ATCACATATATA-CACTTTCACATTCATCAC-ATCGG-CATTAGGCC-TT
*
38938354 ATCACATATATACACTTTTCACATTCATCACATTGGCCATTA-G-CTT
1 ATCACATATATACAC-TTTCACATTCATCACATCGG-CATTAGGCCTT
* * *
38938400 AAATCAACATAATACACACTTTCCACATTCAATCACATTGGCCATTCGGCCTT
1 --ATC-ACAT-ATATACACTTT-CACATTC-ATCACATCGG-CATTAGGCCTT
* *
38938453 ATCACATATATCCACTTTCACATTCATCACATCGGTATTA-GCCATGT
1 ATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCC-T-T
38938500 ATCACCATATATACACTTTTCACATTCA-CACATCGGCCATTAGGCCTT
1 ATCA-CATATATACAC-TTTCACATTCATCACATCGG-CATTAGGCCTT
*
38938548 ATCAACA-ATATACACTTTCACATTCCATCACATCGCCATTAGGCC-T
1 ATC-ACATATATACACTTTCACATT-CATCACATCGGCATTAGGCCTT
38938594 ATCACATACATATACACTATTCACAGTGGTCATCACATC-GCATTTAGGCCTT
1 ATCACAT--ATATACACT-TTCACA-T--TCATCACATCGGCA-TTAGGCCTT
*
38938646 ATTCACATTATCATACAC-TTCACATTCATCACA-CGCCATTGAGGCCTT
1 A-TCACA-TAT-ATACACTTTCACATTCATCACATCGGCATT-AGGCCTT
*
38938694 ATTCACACTATATACAAC-TTC-CATTCATCACATGGGCATTCAGGCCTT
1 A-TCACA-TATATAC-ACTTTCACATTCATCACATCGGCATT-AGGCCTT
* *
38938742 ATACACATATATACAC-TTCACATT-ATCACATTGCCATATAGTTAGCCCTT
1 AT-CACATATATACACTTTCACATTCATCACATCGGCAT-TAG---G-CCTT
* * *
38938792 ATC-CATCATATTAACAC-TTCACATTCA-CAATGATTGCCATAGTTAGGCCTT
1 ATCACAT-ATA-T-ACACTTTCACATTCATC-A-CATCGGC--A-TTAGGCCTT
* *
38938843 ATC-CACTATATCACACTTTCACATTCATCACATTGGCCA-TCGGCCTT
1 ATCACA-TATAT-ACACTTTCACATTCATCACATCGG-CATTAGGCCTT
* *
38938890 A-CACATACTATACACTTTCACATTCATCACATCGCTCAATTCGGCCTT
1 ATCACATA-TATACACTTTCACATTCATCACATCG-GC-ATTAGGCCTT
38938938 ATC-CTATATATACACTTTCACATTCATCACATC-GCTATTAGGCACTT
1 ATCAC-ATATATACACTTTCACATTCATCACATCGGC-ATTAGGC-CTT
*
38938985 ATCACCATATATACAC-TTCAAATTCATCACATCGGCTATTA-GCCTTT
1 ATCA-CATATATACACTTTCACATTCATCACATCGGC-ATTAGGCC-TT
*
38939032 ATCAACAATATATACACTTTCA-AGTTCA-CATTCCAATCGCTCATTAGGGCCTT
1 ATC-AC-ATATATACACTTTCACA-TTCATCA---C-ATCG-GCATTA-GGCCTT
38939085 ATCACATATATATGACACTTTCACATCTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATAT-ACACTTTCACAT-TCATCACATCGG-CATTAGGCCTT
* *
38939136 ATCACATATATATACAC-TTCACATTCATTCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCA-TCACATCGG-CATTAGGCCTT
*
38939185 AGTCACATATATACAC-TTCACATTCATCACATAGGCTATTTAGGCCCTT
1 A-TCACATATATACACTTTCACATTCATCACATCGGC-A-TTAGG-CCTT
38939234 ATGCA-ATATTATACACTTTCACATTTCATCAACATCCGGCTATTAGGCCTT
1 AT-CACATA-TATACACTTTCACA-TTCATC-ACAT-CGGC-ATTAGGCCTT
*
38939285 ATC-CAAATTATTAC-CTTTCACATTCATCACATCGGCTATGTAGGCCTT
1 ATCACATA-TA-TACACTTTCACATTCATCACATCGGC-AT-TAGGCCTT
*
38939333 ATCCACTATATTATACACTTTCACACTTCATGCACAGT-GGCCATTAAGCCCTTAT
1 AT-CAC-ATA-TATACACTTTCACA-TTCAT-CACA-TCGG-CATT-AGGCC-T-T
* * *
38939388 ATCACATATATATACACTTTCACATTCAT-ACATTCGCCAGGTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACA-TCGGCA-TTAGGCCTT
*
38939437 ATGCCACATATATACACGTTCACATTC
1 AT--CACATATATACACTTTCACATTC
38939464 CAATGAATAA
Statistics
Matches: 1152, Mismatches: 63, Indels: 253
0.78 0.04 0.17
Matches are distributed among these distances:
44 11 0.01
45 61 0.05
46 128 0.11
47 156 0.14
48 272 0.24
49 158 0.14
50 75 0.07
51 137 0.12
52 47 0.04
53 55 0.05
54 34 0.03
55 15 0.01
56 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (46 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTT
Found at i:38938753 original size:242 final size:233
Alignment explanation
Indices: 38938128--38939463 Score: 1154
Period size: 242 Copynumber: 5.5 Consensus size: 233
38938118 CCTGTCACAT
* *
38938128 TATACACGTTCACATTCATCACA-TCGGCCATTAGGCCTTATCACA-TATATACCAATTTCACAT
1 TATACACTTTCACATTCATCACATTC-GCCATTAGGCCTTATCACATTATATA-CACTTTCACA-
* *
38938191 TTCATCACATCGGCATTAGGCCTTATCACATATATTACACTTTCACATTCATCACATCGGCATTA
63 TTCATCACATCGCCATTCGGCCTTATCACATATA-TACACTTTCACATTCATCACATCGGCATTA
*
38938256 -GCCTTATCACATATATACACTTCACATTCATTCACATCGGCCATGA-GCC-TATC-ACATATAT
127 GGCCTTATCACATATATACACTTCACATTCA-TCACATCGGCCATTAGGCCTTATCAACA-ATAT
* *
38938317 ACCACTTTCACA-TCATC-CAATTGGCCATTCGGCCTTTATCACAT-A
190 A-CACTTTCACATTCATCAC-A-TCGCCATTAGGCC-TTATCACATAA
* * *
38938362 TATACACTTTTCACATTCATCACATTGGCCATTA-G-CTTAAATCAACATAATACACACTTTCCA
1 TATACAC-TTTCACATTCATCACATTCGCCATTAGGCCTT--ATC-ACATTATATACACTTT-CA
* * *
38938425 CATTCAATCACATTGGCCATTCGGCCTTATCACATATATCCACTTTCACATTCATCACATCGGTA
61 CATTC-ATCACA-TCGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCA
38938490 TTA-GCCATGTATCACCATATATACACTTTTCACATTCA-CACATCGGCCATTAGGCCTTATCAA
124 TTAGGCC-T-TATCA-CATATATACAC--TTCACATTCATCACATCGGCCATTAGGCCTTATCAA
38938553 CAATATACACTTTCACATTCCATCACATCGCCATTAGGCC-TATCACATACA
184 CAATATACACTTTCACATT-CATCACATCGCCATTAGGCCTTATCACATA-A
38938604 TATACACTATTCACAGTGGTCATCACA-TCG-CATTTAGGCCTTATTCACATTATCATACAC-TT
1 TATACACT-TTCACA-T--TCATCACATTCGCCA-TTAGGCCTTA-TCACATTAT-ATACACTTT
* *
38938666 CACATTCATCACA-CGCCATTGAGGCCTTATTCACACTATATACAAC-TTC-CATTCATCACATG
59 CACATTCATCACATCGCCATT-CGGCCTTA-TCACA-TATATAC-ACTTTCACATTCATCACATC
*
38938728 GGCATTCAGGCCTTATACACATATATACACTTCACATT-ATCACAT-TGCCATATAGTTAGCCCT
120 GGCATT-AGGCCTTAT-CACATATATACACTTCACATTCATCACATCGGCCAT-TAG---G-CCT
* * *
38938791 TATCCATC-ATATTAACAC-TTCACATTCA-CAATGATTGCCATAGTTAGGCCTTATC-CACT-A
178 TAT-CAACAATA-T-ACACTTTCACATTCATC-A-CATCGCC--A-TTAGGCCTTATCACA-TAA
* *
38938851 TATCACACTTTCACATTCATCACATTGGCCA-TCGGCCTTA-CACA-TACTATACACTTTCACAT
1 TAT-ACACTTTCACATTCATCACATTCGCCATTAGGCCTTATCACATTA-TATACACTTTCACAT
38938913 TCATCACATCGCTCAATTCGGCCTTATC-CTATATATACACTTTCACATTCATCACATC-GCTAT
64 TCATCACATCGC-C-ATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGC-AT
* *
38938976 TAGGCACTTATCACCATATATACACTTCAAATTCATCACATCGGCTATTA-GCCTTTATCAACAA
125 TAGGC-CTTATCA-CATATATACACTTCACATTCATCACATCGGCCATTAGGCC-TTATCAAC-A
38939040 TATATACACTTTCA-AGTTCA-CATTCCAATCGCTCATTAGGGCCTTATCACATATA
186 -ATATACACTTTCACA-TTCATCA---C-ATCGC-CATTA-GGCCTTATCACATA-A
38939095 TATGACACTTTCACATCTCATCACA-TCGGCCATTAGGCCTTATCACATATATATACAC-TTCAC
1 TAT-ACACTTTCACAT-TCATCACATTC-GCCATTAGGCCTTATCACAT-TATATACACTTTCAC
* *
38939158 ATTCATTCACATTGGCCATTCGGCCTTAGTCACATATATACAC-TTCACATTCATCACATAGGCT
62 ATTCA-TCACA-TCGCCATTCGGCCTTA-TCACATATATACACTTTCACATTCATCACATCGGC-
*
38939222 ATTTAGGCCCTTATGCA-ATATTATACACTTTCACATTTCATCAACATCCGGCTATTAGGCCTTA
123 A-TTAGG-CCTTAT-CACATA-TATACAC-TTCACA-TTCATC-ACAT-CGGCCATTAGGCCTTA
* * *
38939286 TCCAA-ATTATTAC-CTTTCACATTCATCACATCGGCTATGTAGGCCTTATCCACTATAT
180 T-CAACAATA-TACACTTTCACATTCATCACATC-GCCAT-TAGGCCTTAT-CAC-ATAA
* * *
38939344 TATACACTTTCACACTTCATGCACAGTGGCCATTAAGCCCTTATATCACATATATATACACTTTC
1 TATACACTTTCACA-TTCAT-CACATTCGCCATT-AGGCC-T-TATCACAT-TATATACACTTTC
* *
38939409 ACATTCAT-ACATTCGCCAGGTCGGCCTTATGCCACATATATACACGTTCACATTC
60 ACATTCATCACA-TCGCCA-TTCGGCCTTAT--CACATATATACACTTTCACATTC
38939464 CAATGAATAA
Statistics
Matches: 930, Mismatches: 49, Indels: 226
0.77 0.04 0.19
Matches are distributed among these distances:
233 3 0.00
234 8 0.01
235 25 0.03
236 12 0.01
237 45 0.05
238 23 0.02
239 16 0.02
240 65 0.07
241 44 0.05
242 140 0.15
243 83 0.09
244 83 0.09
245 54 0.06
246 18 0.02
247 52 0.06
248 74 0.08
249 50 0.05
250 16 0.02
251 29 0.03
252 39 0.04
253 36 0.04
254 15 0.02
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (233 bp):
TATACACTTTCACATTCATCACATTCGCCATTAGGCCTTATCACATTATATACACTTTCACATTC
ATCACATCGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCC
TTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCAACAATATACACTT
TCACATTCATCACATCGCCATTAGGCCTTATCACATAA
Found at i:38938809 original size:51 final size:51
Alignment explanation
Indices: 38938738--38938882 Score: 149
Period size: 51 Copynumber: 2.8 Consensus size: 51
38938728 GGCATTCAGG
*
38938738 CCTTATACACATA-TATACACTTCACATT-ATCACATTGCCATATAGTTAGC
1 CCTTATCCACATATTA-ACACTTCACATTCATCACATTGCCATATAGTTAGC
* *
38938788 CCTTATCCATCATATTAACACTTCACATTCA-CAATGATTGCC--ATAGTTAGG
1 CCTTATCCA-CATATTAACACTTCACATTCATC-A-CATTGCCATATAGTTAGC
*
38938839 CCTTATCCAC-TATATCACACTTTCACATTCATCACATTGGCCAT
1 CCTTATCCACATAT-TAACAC-TTCACATTCATCACATT-GCCAT
38938883 CGGCCTTACA
Statistics
Matches: 79, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
49 3 0.04
50 17 0.22
51 48 0.61
52 5 0.06
53 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (51 bp):
CCTTATCCACATATTAACACTTCACATTCATCACATTGCCATATAGTTAGC
Found at i:38939316 original size:147 final size:142
Alignment explanation
Indices: 38938075--38939463 Score: 1040
Period size: 147 Copynumber: 9.5 Consensus size: 142
38938065 TTCGGGATTA
* * * * * * * *
38938075 ATCACAT-TTATACACTTTCACATCCATC-CGTTGGCCACTCGGCCCTGTCACA-T-TATACACG
1 ATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATTATATACAC-
* * *
38938136 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCAATTTCACATTTCATCACAT
65 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA-CACTTTCACA-TTCATCACAT
38938201 CGGC-ATTAGG-CCTT
128 -GGCTATTAGGCCCTT
*
38938215 ATCACATA-TATTACACTTTCACATTCATCACATCGG-CATTA-GCCTTATCACA-TATATACAC
1 ATCACATATTA-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATTATATACAC
*
38938276 TTCACATTCATTCACATCGGCCA-T-GAGCC-TATCACATATATACCACTTTCACA-TCATC-CA
65 TTCACATTCA-TCACATTGGCCATTCG-GCCTTATCACATATATA-CACTTTCACATTCATCAC-
* * *
38938336 ATTGGCCATTCGGCCTTT
126 A-TGGCTATTAGGCCCTT
* * *
38938354 ATCACATA-TATACACTTTTCACATTCATCACATTGGCCATTA-G-CTTAAATCAACATAATACA
1 ATCACATATTATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTT--ATCAA-ATTATATA
*
38938416 CACTTTCCACATTCAATCACATTGGCCATTCGGCCTTATCACATATATCCACTTTCACATTCATC
62 CAC-TT-CACATTC-ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATC
*
38938481 ACATCGG-TATTA-GCCATGT
124 ACAT-GGCTATTAGGCCCT-T
38938500 ATCACCATA-TATACACTTTTCACATTCA-CACATCGGCCATTAGGCCTTATCAACA--ATATAC
1 ATCA-CATATTATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAA-ATTATATAC
* *
38938561 ACTTTCACATTCCATCACA-TCGCCATTAGGCC-TATCACATACATATACACTATTCACAGTGGT
63 AC-TTCACATT-CATCACATTGGCCATTCGGCCTTATCACAT--ATATACACT-TTCACA-T--T
*
38938624 CATCACATCGC-ATTTAGG-CCTT
120 CATCACATGGCTA-TTAGGCCCTT
* * *
38938646 ATTCACATTATCATACAC-TTCACATTCATCACA-C-GCCATTGAGGCCTTATTCACACTATATA
1 A-TCACA-TATTATACACTTTCACATTCATCACATCGGCCATT-AGGCCTTA-TCAAATTATATA
*
38938708 CAACTTC-CATTCATCACA-TGGGCATTCAGGCCTTATACACATATATACAC-TTCACATT-ATC
62 C-ACTTCACATTCATCACATTGGCCATTC-GGCCTTAT-CACATATATACACTTTCACATTCATC
* *
38938769 ACATTGCCATATAGTTAGCCCTT
124 ACATGGCTAT-TAG---GCCCTT
* *
38938792 ATCCATCATATTA-ACAC-TTCACATTCA-CA-AT-GATTGCCATAGTTAGGCCTTATC-CACTA
1 AT-CA-CATATTATACACTTTCACATTCATCACATCG---GCC--A-TTAGGCCTTATCAAATTA
38938851 TATCACACTTTCACATTCATCACATTGGCCA-TCGGCCTTA-CACATACTATACACTTTCACATT
58 TAT-ACAC-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATA-TATACACTTTCACATT
* *
38938914 CATCACATCGCTCAATTCGG-CCTT
120 CATCACATGGCT--ATTAGGCCCTT
* *
38938938 ATC-C-TATATATACACTTTCACATTCATCACATC-GCTATTAGGCACTTATCACCA-TATATAC
1 ATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC-CTTATCA-AATTATATAC
* * * *
38938999 ACTTCAAATTCATCACATCGGCTATT-AGCCTTTATCAACAATATATACACTTTCA-AGTTCA-C
63 ACTTCACATTCATCACATTGGCCATTCGGCC-TTATC-AC-ATATATACACTTTCACA-TTCATC
* *
38939061 ATTCCAATCGCTCATTAGGGCCTT
124 A---C-ATGGCT-ATTAGGCCCTT
*
38939085 ATCACATATATATGACACTTTCACATCTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 ATCACATAT-TAT-ACACTTTCACAT-TCATCACATCGGCCATTAGGCCTTATCAAAT-TATATA
38939150 CACTTCACATTCATTCACATTGGCCATTCGGCCTTAGTCACATATATACAC-TTCACATTCATCA
62 CACTTCACATTCA-TCACATTGGCCATTCGGCCTTA-TCACATATATACACTTTCACATTCATCA
38939214 CATAGGCTATTTAGGCCCTT
125 CAT-GGCTA-TTAGGCCCTT
*
38939234 ATGCA-ATATTATACACTTTCACATTTCATCAACATCCGGCTATTAGGCCTTATCCAAATTAT-T
1 AT-CACATATTATACACTTTCACA-TTCATC-ACAT-CGGCCATTAGGCCTTAT-CAAATTATAT
* * *
38939297 AC-CTTTCACATTCATCACATCGGCTATGTAGGCCTTATCCACTATATTATACACTTTCACACTT
61 ACAC-TTCACATTCATCACATTGGCCAT-TCGGCCTTAT-CAC-ATA-TATACACTTTCACA-TT
* *
38939361 CATGCACAGTGGCCATTAAGCCCTTAT
120 CAT-CACA-TGGCTATTAGGCCC-T-T
* * *
38939388 ATCACATATATATACACTTTCACATTCAT-ACATTC-GCCAGGTCGGCCTTATGCCACA-TATAT
1 ATCACATAT-TATACACTTTCACATTCATCACA-TCGGCCA-TTAGGCCTTAT--CAAATTATAT
38939450 ACACGTTCACATTC
61 ACAC-TTCACATTC
38939464 CAATGAATAA
Statistics
Matches: 1053, Mismatches: 63, Indels: 252
0.77 0.05 0.18
Matches are distributed among these distances:
136 1 0.00
137 9 0.01
138 11 0.01
139 59 0.06
140 39 0.04
141 89 0.08
142 39 0.04
143 40 0.04
144 48 0.05
145 65 0.06
146 114 0.11
147 154 0.15
148 81 0.08
149 86 0.08
150 36 0.03
151 36 0.03
152 68 0.06
153 36 0.03
154 28 0.03
155 14 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (142 bp):
ATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATTATATACACT
TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATGGC
TATTAGGCCCTT
Found at i:38943059 original size:39 final size:38
Alignment explanation
Indices: 38943016--38943143 Score: 134
Period size: 39 Copynumber: 3.3 Consensus size: 38
38943006 TAACTCATTC
* *
38943016 AATGCCTTCGGGACTTAACCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCGGA-ATTAAAACTCGCACA
* *
38943055 AATGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAA-CCGGAATTA-AAACTCGCACA
* *
38943094 AAGGCC-TCGGGACTTAACCCGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAA-CCGGAATTAA-AACTCGCACA
*
38943133 AATACCTTCGG
1 AATGCCTTCGG
38943144 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 13 0.18
39 57 0.77
40 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCGGAATTAAAACTCGCACA
Found at i:38956596 original size:40 final size:40
Alignment explanation
Indices: 38956537--38956738 Score: 291
Period size: 40 Copynumber: 5.1 Consensus size: 40
38956527 GGATCGATAA
**
38956537 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38956576 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38956616 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * * *
38956656 CCAGGCCAAGTCCCGAGGGCAATTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38956696 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
38956736 CCG
1 CCG
38956739 ACTAAACCCC
Statistics
Matches: 146, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.08
40 134 0.92
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38961042 original size:28 final size:27
Alignment explanation
Indices: 38960967--38961081 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
38960957 TGGAGGAAAC
*
38960967 GTTCTGGTGGCTTTACTACAAATATCT
1 GTTCTGGTGGCTCTACTACAAATATCT
* * *
38960994 GATCTGGTGGCTCTGCTACAAATATTT
1 GTTCTGGTGGCTCTACTACAAATATCT
* *
38961021 GCTTCTAGTGGCTCTACCAC-AATATCT
1 G-TTCTGGTGGCTCTACTACAAATATCT
* *
38961048 GTATCTGGTGACTCT-GT-CACAATATCT
1 GT-TCTGGTGGCTCTACTACA-AATATCT
38961075 GTTCTGG
1 GTTCTGG
38961082 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.01
26 6 0.08
27 50 0.70
28 14 0.20
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTACTACAAATATCT
Found at i:38971758 original size:37 final size:37
Alignment explanation
Indices: 38971708--38971783 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
38971698 TTCAGCCAGT
38971708 GAAGATTCCACTCTAGAAGTGGGAAAGGATCACTATG
1 GAAGATTCCACTCTAGAAGTGGGAAAGGATCACTATG
38971745 GAAGATTCCACTCTAGAAGTGGGAAAGGATCACTATG
1 GAAGATTCCACTCTAGAAGTGGGAAAGGATCACTATG
38971782 GA
1 GA
38971784 CTTTGTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (37 bp):
GAAGATTCCACTCTAGAAGTGGGAAAGGATCACTATG
Found at i:38977061 original size:21 final size:20
Alignment explanation
Indices: 38977033--38977168 Score: 75
Period size: 18 Copynumber: 6.5 Consensus size: 20
38977023 AAAAGAAATG
**
38977033 AAAGAAAAAGAGTGTGAAAA
1 AAAGAAAAAGAAAGTGAAAA
*
38977053 AAAGCAAAAAGAAAGTGAGAA
1 AAAG-AAAAAGAAAGTGAAAA
*
38977074 AAAGAAAAACGAAATTGAAAAA
1 AAAGAAAAA-GAAAGTG-AAAA
* *
38977096 GAAAAAAAAATGATCAAGAAGAGAAA
1 -AAAGAAAAA-GA--AAG-TGA-AAA
**
38977122 ATTGAAAAAGAAAGTG--AA
1 AAAGAAAAAGAAAGTGAAAA
38977140 AAAGAAAAAGAGAAG-G--AA
1 AAAGAAAAAGA-AAGTGAAAA
38977158 AAAGAAAAAGA
1 AAAGAAAAAGA
38977169 GATCGAGAGT
Statistics
Matches: 92, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
18 25 0.27
19 3 0.03
20 9 0.10
21 24 0.26
22 6 0.07
23 10 0.11
24 2 0.02
25 9 0.10
26 4 0.04
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAGAAAGTGAAAA
Found at i:38977087 original size:7 final size:6
Alignment explanation
Indices: 38977051--38977168 Score: 69
Period size: 6 Copynumber: 19.2 Consensus size: 6
38977041 AGAGTGTGAA
* **
38977051 AAAAAG CAAAAAG AAAGTGAG AAAAAG AAAAACG AAATTG AAAAAG AAAAA-
1 AAAAAG -AAAAAG AAA--AAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG
* ** * * **
38977102 AAAATG ATCAAG -AAGAG AAAATTG AAAAAG AAAGTG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG
* *
38977150 AGAAGG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG A
38977169 GATCGAGAGT
Statistics
Matches: 81, Mismatches: 24, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
5 6 0.07
6 55 0.68
7 15 0.19
8 5 0.06
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:38977106 original size:18 final size:18
Alignment explanation
Indices: 38977071--38977134 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
38977061 AAGAAAGTGA
*
38977071 GAAAAAGAAAAACGAAATT
1 GAAAAAGAAAAA-AAAATT
38977090 GAAAAAGAAAAAAAAA-T
1 GAAAAAGAAAAAAAAATT
** * *
38977107 GATCAAGAAGAGAAAATT
1 GAAAAAGAAAAAAAAATT
38977125 GAAAAAGAAA
1 GAAAAAGAAA
38977135 GTGAAAAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.36
18 11 0.31
19 12 0.33
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAATT
Found at i:38977146 original size:18 final size:18
Alignment explanation
Indices: 38977125--38977170 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
38977115 AGAGAAAATT
38977125 GAAAAAGA-AAGTGAAAAA
1 GAAAAAGAGAAG-GAAAAA
38977143 GAAAAAGAGAAGGAAAAA
1 GAAAAAGAGAAGGAAAAA
38977161 GAAAAAGAGA
1 GAAAAAGAGA
38977171 TCGAGAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (18 bp):
GAAAAAGAGAAGGAAAAA
Found at i:38979766 original size:46 final size:46
Alignment explanation
Indices: 38979715--38979833 Score: 220
Period size: 46 Copynumber: 2.6 Consensus size: 46
38979705 ACATATCTCA
38979715 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCG
38979761 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCG
* *
38979807 CATTAGCCATTCGGCTTTGCCACATAT
1 CATTAGCCATTCGGCTTTACCTCATAT
38979834 ATACACTTCC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTTCG
Found at i:38979878 original size:47 final size:47
Alignment explanation
Indices: 38979807--38980181 Score: 581
Period size: 47 Copynumber: 8.0 Consensus size: 47
38979797 ACACGTTTCG
* * ** * * *
38979807 CATTAGCCATTCGGCTTTGCCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
**
38979854 CATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
38979901 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
38979948 CATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38979995 CATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
38980042 CATTGGCCATTCAGCCTTATCACACATATGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38980089 CATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38980136 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATC
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
38980182 TCATAAAATC
Statistics
Matches: 301, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 300 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:38979995 original size:25 final size:25
Alignment explanation
Indices: 38979966--38980090 Score: 72
Period size: 23 Copynumber: 5.2 Consensus size: 25
38979956 ATTCGGCCTT
38979966 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
38979991 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
** *
38980013 ATCACGTATATGCATGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* *
38980038 AT--CACAT-TGGCCA-TTCAGCCTT-
1 ATCACACATAT-GCAAGTTCA-CATTC
38980060 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
38980085 ATCACA
1 ATCACA
38980091 TTGGCCATTC
Statistics
Matches: 70, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 13 0.19
23 19 0.27
24 19 0.27
25 19 0.27
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (25 bp):
ATCACACATATGCAAGTTCACATTC
Found at i:38983327 original size:10 final size:10
Alignment explanation
Indices: 38983314--38983347 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
38983304 AGCTCAACTC
*
38983314 AGCTCATTTG
1 AGCTCGTTTG
*
38983324 AGCTCGTTTT
1 AGCTCGTTTG
38983334 AGCTCGTTTG
1 AGCTCGTTTG
38983344 AGCT
1 AGCT
38983348 GAACCGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:38984982 original size:57 final size:57
Alignment explanation
Indices: 38984915--38985030 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 57
38984905 GTGAGCATGA
* * *
38984915 ATATAATGTGATTTGGGCCGGATGGGTCATAT-AA-ATGAGATTGGGCCTAATGGGCC
1 ATATAATGTGAATTGGGCCGGATGGGCCATATGAACATGA-ATTGGGCCGAATGGGCC
* * *
38984971 ATATGAATGTGAATTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCGGATGGGCC
1 ATAT-AATGTGAATTGGGCCGGATGGGCCATATGAACATGAATTGGGCCGAATGGGCC
38985029 AT
1 AT
38985031 CTAAATGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
56 4 0.08
57 25 0.49
58 19 0.37
59 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.27
Consensus pattern (57 bp):
ATATAATGTGAATTGGGCCGGATGGGCCATATGAACATGAATTGGGCCGAATGGGCC
Found at i:38984996 original size:29 final size:29
Alignment explanation
Indices: 38984915--38985030 Score: 146
Period size: 29 Copynumber: 4.1 Consensus size: 29
38984905 GTGAGCATGA
* *
38984915 ATAT-AATGTGATTTGGGCCGGATGGGTC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* * **
38984943 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
*
38984971 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
*
38985000 ATATGAACGTGAATTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
38985029 AT
1 AT
38985031 CTAAATGAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
28 26 0.34
29 50 0.66
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGGATGGGCC
Found at i:38985047 original size:29 final size:28
Alignment explanation
Indices: 38984927--38985045 Score: 132
Period size: 29 Copynumber: 4.2 Consensus size: 28
38984917 ATAATGTGAT
*
38984927 TTGGGCCGGATGGGTCATATAAATGAGA
1 TTGGGCCGGATGGGCCATATAAATGAGA
** * *
38984955 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCGGATGGGCCATATAAATGAG-A
* *
38984984 TTGGGCCTGATGGGCCATATGAACGTGA-A
1 TTGGGCCGGATGGGCCATAT-AA-ATGAGA
*
38985013 TTGGGCCGGATGGGCCATCTAAATGAGA
1 TTGGGCCGGATGGGCCATATAAATGAGA
38985041 TTGGG
1 TTGGG
38985046 GCTAGAGGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.04
28 30 0.40
29 39 0.52
30 1 0.01
31 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (28 bp):
TTGGGCCGGATGGGCCATATAAATGAGA
Found at i:38987977 original size:43 final size:43
Alignment explanation
Indices: 38987924--38988016 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
38987914 ACATATATTA
* * *
38987924 ATGCCAATGTCCTAGACGTCGTCTTACACATGATCACATATCG
1 ATGCCAATGTCCCAAACGTCGTCTTACACATAATCACATATCG
* * * *
38987967 ATGCCAATGTCCCAAACGTGGTCTTACACTTAATCCCATATGG
1 ATGCCAATGTCCCAAACGTCGTCTTACACATAATCACATATCG
38988010 ATGCCAA
1 ATGCCAA
38988017 CTGTAACACC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTCGTCTTACACATAATCACATATCG
Found at i:38989347 original size:47 final size:46
Alignment explanation
Indices: 38989219--38989412 Score: 182
Period size: 47 Copynumber: 4.2 Consensus size: 46
38989209 TATATATGCT
* * *
38989219 GATGCATGTCCCAAACATGTCTTACACTAGCAC-AACTCAT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCATGAGGCC
* *
38989263 GATGCGTGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCAT-GAGGCC
* * **
38989310 TATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCAT-GAGGCC
* * * *
38989356 GATGCCATGCCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATGAGGCC
38989404 GATGCATGT
1 GATGCATGT
38989413 AATAGCCCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
44 31 0.26
45 2 0.02
46 10 0.08
47 53 0.44
48 24 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATGAGGCC
Found at i:38995407 original size:68 final size:66
Alignment explanation
Indices: 38995335--38995483 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 66
38995325 CATCATGTGT
* * * *
38995335 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
38995398 TGTAG
62 TGTAG
** * *
38995403 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
38995468 G
66 G
38995469 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
38995484 GATGAATTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.34
65 5 0.07
66 28 0.40
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:38995440 original size:64 final size:64
Alignment explanation
Indices: 38995359--38995541 Score: 203
Period size: 66 Copynumber: 2.8 Consensus size: 64
38995349 AGACATTATG
* *
38995359 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGAT-A
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATGA
* * * * *
38995422 TATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 -ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38995487 GA
63 GA
* * *
38995489 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38995542 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 21 0.21
66 32 0.32
67 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATGA
Found at i:39007402 original size:48 final size:48
Alignment explanation
Indices: 39007331--39007619 Score: 499
Period size: 48 Copynumber: 6.0 Consensus size: 48
39007321 CAAGATAAAT
* * *
39007331 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
39007379 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
39007427 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
39007475 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
39007523 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
39007571 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA-ATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
39007618 AT
1 AT
39007620 GTGTGTATAT
Statistics
Matches: 232, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
47 10 0.04
48 222 0.96
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:39007810 original size:37 final size:37
Alignment explanation
Indices: 39007760--39007862 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
39007750 GGAAATATAT
39007760 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39007797 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39007834 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
39007863 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39009302 original size:23 final size:23
Alignment explanation
Indices: 39009236--39009302 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
39009226 ATGTATCTGA
39009236 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
* * *
39009259 GCT-AG-T--G-A-TGCATCCGG
1 GCTAAGTTCCGAAGAGCATTCGT
39009276 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
39009299 GCTA
1 GCTA
39009303 GTGATGTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (23 bp):
GCTAAGTTCCGAAGAGCATTCGT
Found at i:39009409 original size:40 final size:40
Alignment explanation
Indices: 39009149--39009400 Score: 405
Period size: 40 Copynumber: 6.3 Consensus size: 40
39009139 GAGTTATATA
* *
39009149 TATCCGAGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
39009189 TATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
39009229 TATCTGAGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
39009269 CATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
39009309 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * * *
39009349 TATCCGAGCTAAGTTCCGAAGAGTATTCGTTCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
39009389 TATCCGGGCTAA
1 TATCCGGGCTAA
39009401 ACCTCGAAGG
Statistics
Matches: 197, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 197 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:39009472 original size:28 final size:27
Alignment explanation
Indices: 39009438--39009588 Score: 131
Period size: 28 Copynumber: 5.3 Consensus size: 27
39009428 TGAGGCACAG
* *
39009438 TGTGTGCAAGTTCTTCAACCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
* * * * *
39009466 TGTGTGCCAGATCAGTAGTTGAGGCACTA
1 TGTGTGCGAGTTC-TTAATCGA-GCACTA
39009495 TGTGTGCGAGTTCTTCAATCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
* ** *
39009523 CGTGTGCGAGATTGGTAATTGAGGCACTA
1 TGTGTGCGAG-TTCTTAATCGA-GCACTA
*
39009552 TGTGTGCGAGTTCTTTAATCGAGCGCTA
1 TGTGTGCGAGTTC-TTAATCGAGCACTA
39009580 TGTGTGCGA
1 TGTGTGCGA
39009589 AATCAGTCAG
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
28 51 0.53
29 46 0.47
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (27 bp):
TGTGTGCGAGTTCTTAATCGAGCACTA
Found at i:39009495 original size:29 final size:28
Alignment explanation
Indices: 39009460--39009588 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 28
39009450 CTTCAACCGA
* *
39009460 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
39009489 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
* *
39009517 GCACTACGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
39009546 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
*
39009574 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
39009589 AATCAGTCAG
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
28 36 0.45
29 44 0.55
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:39009518 original size:57 final size:57
Alignment explanation
Indices: 39009428--39009616 Score: 231
Period size: 57 Copynumber: 3.3 Consensus size: 57
39009418 GCTGGAGTTA
* * *
39009428 TGAGGCAC-AGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTA-TGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
* ** *
39009485 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTACGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
* * *
39009542 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT-AGT
* *
39009599 TG-GGCACTGTGTATGCGA
1 TGAGGCACTATGTGTGCGA
39009617 AGTGTGTTTC
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
56 14 0.12
57 98 0.86
58 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
Found at i:39013187 original size:48 final size:48
Alignment explanation
Indices: 39013116--39013405 Score: 472
Period size: 48 Copynumber: 6.0 Consensus size: 48
39013106 CAAGATAAAT
* * *
39013116 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
39013164 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
39013212 ATATATATATGTGGTAAAGCCGAATGGCTAATTTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
39013260 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
39013308 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
39013356 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAAATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
39013404 AT
1 AT
39013406 GTGTGTATAT
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 226 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:39013596 original size:37 final size:37
Alignment explanation
Indices: 39013546--39013648 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
39013536 GGAAATATAT
39013546 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39013583 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39013620 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
39013649 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39026157 original size:21 final size:20
Alignment explanation
Indices: 39026133--39026173 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
39026123 TATCCCTACC
*
39026133 TGGTGTGTTGGTTGGTACGGG
1 TGGTGTATTGGTTGG-ACGGG
39026154 TGGTGTATTGGTTGGACGGG
1 TGGTGTATTGGTTGGACGGG
39026174 GCTGGATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.07, C:0.05, G:0.51, T:0.37
Consensus pattern (20 bp):
TGGTGTATTGGTTGGACGGG
Found at i:39028677 original size:139 final size:139
Alignment explanation
Indices: 39028422--39028699 Score: 380
Period size: 139 Copynumber: 2.0 Consensus size: 139
39028412 AGAATCGTTT
* * * *
39028422 GTCGCACCTTTGCTACTAGTCACATTTCTCGTATTTATAGGTGGTCTCCCTCTAATAGCTATATT
1 GTCGCACCTCTACTACTAGTCACATTTCTCGTATTTATAGGTGGTCTCCCTCTAACAGATATATT
* * * *
39028487 ACTTGGCATTGTATTTAGATATTAGTCTTTCTTGGGTAACCTAGGAGAATCCCGAATGAAATGAT
66 ACTTGGCATTGTATTCAAATATTAGTCTTTCTCGGGAAACCTAGGAGAATCCCGAATGAAATGAT
39028552 CTTGTGAGC
131 CTTGTGAGC
* * * *
39028561 GTCGCACCTCTACTACTAGTCACATTTCTCGTATTTCTAGGTGGTCTTCCTCTGACAGATGTATT
1 GTCGCACCTCTACTACTAGTCACATTTCTCGTATTTATAGGTGGTCTCCCTCTAACAGATATATT
* * * *
39028626 ACTTGGCCTTGTATTCAAATA-TATGTCTTTCTCGTGAAACGC-AGGATAATCCCTAATGAAATG
66 ACTTGGCATTGTATTCAAATATTA-GTCTTTCTCGGGAAAC-CTAGGAGAATCCCGAATGAAATG
39028689 ATCTTGTGAGC
129 ATCTTGTGAGC
39028700 CACATCTAAA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 2 0.02
139 118 0.98
140 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (139 bp):
GTCGCACCTCTACTACTAGTCACATTTCTCGTATTTATAGGTGGTCTCCCTCTAACAGATATATT
ACTTGGCATTGTATTCAAATATTAGTCTTTCTCGGGAAACCTAGGAGAATCCCGAATGAAATGAT
CTTGTGAGC
Found at i:39031552 original size:13 final size:13
Alignment explanation
Indices: 39031534--39031568 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
39031524 TTGTTGTTTT
*
39031534 ATTATTTTACTTA
1 ATTATTTTACTAA
39031547 ATTATTTTACTAA
1 ATTATTTTACTAA
39031560 ATTACTTTT
1 ATTA-TTTT
39031569 TTAACCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATTTTACTAA
Found at i:39043201 original size:28 final size:29
Alignment explanation
Indices: 39043164--39043254 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
39043154 AATTCTACAT
*
39043164 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
39043192 TCATTCATATTGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
39043221 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
39043250 A-ATTC
1 ACATTC
39043255 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:39043496 original size:16 final size:16
Alignment explanation
Indices: 39043471--39043505 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39043461 GTAGCCAGAC
*
39043471 TTTCGGCTTTTCGACA
1 TTTCGACTTTTCGACA
*
39043487 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGACA
39043503 TTT
1 TTT
39043506 TGGGATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCGACTTTTCGACA
Done.