Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 136 of 230
Found at i:39947544 original size:16 final size:16
Alignment explanation
Indices: 39947523--39947553 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39947513 CCTACACATT
39947523 CGCATATCATTTCACA
1 CGCATATCATTTCACA
39947539 CGCATATCATTTCAC
1 CGCATATCATTTCAC
39947554 CATAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (16 bp):
CGCATATCATTTCACA
Found at i:39953972 original size:39 final size:39
Alignment explanation
Indices: 39953759--39953981 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
39953749 TTGAATGCTG
* * * * * *
39953759 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
39953799 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
39953838 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
39953879 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
39953919 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
39953958 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39953982 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39954001 original size:79 final size:80
Alignment explanation
Indices: 39953839--39954016 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
39953829 AGATACAAAT
* * * *
39953839 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
39953904 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
39953919 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACTGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
39953983 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
39953998 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39954017 TACGTGATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.20
79 47 0.57
80 19 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:39970356 original size:28 final size:29
Alignment explanation
Indices: 39970324--39970422 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
39970314 ATAATAAGCC
*
39970324 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
39970352 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
39970380 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
39970409 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39970423 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:39973192 original size:58 final size:58
Alignment explanation
Indices: 39973102--39973218 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
39973092 TAAATCACAT
*
39973102 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
1 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACACGAAC
* *
39973160 TACATACAAACACAACATTCAATTAACATAATTACATGCTCGATTAAGTTACACGAAC
1 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACACGAAC
39973218 T
1 T
39973219 TACCTCGACA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (58 bp):
TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACACGAAC
Found at i:39977379 original size:25 final size:24
Alignment explanation
Indices: 39977327--39977387 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
39977317 ATAGCTCGAA
39977327 CGAGCAATCCTG-TTATAGCTCTCT
1 CGAGC-ATCCTGTTTATAGCTCTCT
39977351 CGAGCATCCTGTTATATAGCTC-CT
1 CGAGCATCCTGTT-TATAGCTCTCT
*
39977375 GCGAGCATACTGT
1 -CGAGCATCCTGT
39977388 GTTGCACACT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 6 0.18
24 8 0.24
25 19 0.58
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (24 bp):
CGAGCATCCTGTTTATAGCTCTCT
Found at i:39983119 original size:35 final size:35
Alignment explanation
Indices: 39983012--39983284 Score: 259
Period size: 35 Copynumber: 7.8 Consensus size: 35
39983002 CATATGGCCA
* * *
39983012 AATATATAAATTCAATAT-ATCATCACATGTAACCT
1 AATATACAAGTTCAATATAATC-TCACATGTAACCG
* * * * *
39983047 AATGTTCATGTTCAATAAAACATCTCATATTGT---CG
1 AATATACAAGTTCAAT-ATA-ATCTCACA-TGTAACCG
* * *
39983082 AATATACAAATTCAATATAATATCATATGTAACCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* *
39983117 AATATACAAGTTCAATATAAGCTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
39983152 AATACACAAGTTCAATATAATCTCACATGCAGCCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
39983187 AATATACAAGTTAAATATAAACTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * * *
39983222 AATACACAAGTTCAATATAACCTCACATGTAGCCA
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
39983257 AATATACAAGTTCAATAT-ATCCTCACAT
1 AATATACAAGTTCAATATAAT-CTCACAT
39983285 ATACTTACCT
Statistics
Matches: 192, Mismatches: 38, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
32 3 0.02
33 7 0.04
34 3 0.02
35 168 0.88
36 1 0.01
37 4 0.02
38 6 0.03
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (35 bp):
AATATACAAGTTCAATATAATCTCACATGTAACCG
Found at i:39983153 original size:70 final size:70
Alignment explanation
Indices: 39983019--39983284 Score: 293
Period size: 70 Copynumber: 3.8 Consensus size: 70
39983009 CCAAATATAT
* * * * * * **
39983019 AAATTCAATAT-ATCATCACATGTAACCTAATGTTCATGTTCAATA-AAACATCTCATATTGTCG
1 AAATTCAATATAAT-ATCACATGTAACCGAATATACAAGTTCAATATAAAC-TCACATGTAATCG
*
39983082 AATATAC
64 AATACAC
* *
39983089 AAATTCAATATAATATCATATGTAACCGAATATACAAGTTCAATATAAGCTCACATGTAATCGAA
1 AAATTCAATATAATATCACATGTAACCGAATATACAAGTTCAATATAAACTCACATGTAATCGAA
39983154 TACAC
66 TACAC
* * * * *
39983159 AAGTTCAATATAATCTCACATGCAGCCGAATATACAAGTTAAATATAAACTCACATGTAATCGAA
1 AAATTCAATATAATATCACATGTAACCGAATATACAAGTTCAATATAAACTCACATGTAATCGAA
39983224 TACAC
66 TACAC
* ** * * **
39983229 AAGTTCAATATAACCTCACATGTAGCCAAATATACAAGTTCAATATATCCTCACAT
1 AAATTCAATATAATATCACATGTAACCGAATATACAAGTTCAATATAAACTCACAT
39983285 ATACTTACCT
Statistics
Matches: 170, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
70 165 0.97
71 5 0.03
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (70 bp):
AAATTCAATATAATATCACATGTAACCGAATATACAAGTTCAATATAAACTCACATGTAATCGAA
TACAC
Found at i:39983274 original size:105 final size:105
Alignment explanation
Indices: 39983080--39983284 Score: 288
Period size: 105 Copynumber: 2.0 Consensus size: 105
39983070 CTCATATTGT
* * * *
39983080 CGAATATACAAATTCAATATAATATCATATGTAACCGAATATACAAGTTCAATATAAGCTCACAT
1 CGAATATACAAATTAAATATAATATCACATGTAACCGAATACACAAGTTCAATATAACCTCACAT
* *
39983145 GTAATCGAATACACAAGTTCAATATAAT-CTCACATGCAGC
66 GTAACCAAATACACAAGTTCAATAT-ATCCTCACATGCAGC
* *
39983185 CGAATATACAAGTTAAATATAA-ACTCACATGTAATCGAATACACAAGTTCAATATAACCTCACA
1 CGAATATACAAATTAAATATAATA-TCACATGTAACCGAATACACAAGTTCAATATAACCTCACA
* *
39983249 TGTAGCCAAATATACAAGTTCAATATATCCTCACAT
65 TGTAACCAAATACACAAGTTCAATATATCCTCACAT
39983285 ATACTTACCT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
104 3 0.03
105 85 0.97
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (105 bp):
CGAATATACAAATTAAATATAATATCACATGTAACCGAATACACAAGTTCAATATAACCTCACAT
GTAACCAAATACACAAGTTCAATATATCCTCACATGCAGC
Found at i:39985810 original size:27 final size:27
Alignment explanation
Indices: 39985780--39985923 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
39985770 TACTGAAATG
**
39985780 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
39985807 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
** *
39985834 CCCTTAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
39985861 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
39985888 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
39985915 CCCTCGATT
1 CCCTCGATT
39985924 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:39985860 original size:54 final size:54
Alignment explanation
Indices: 39985792--39985923 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
39985782 CTCGATTTGT
* * * *
39985792 AGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
* *
39985846 AGAATTACCGTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCAGTTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
* *
39985900 AAAATTATCGTTTTACCCTCGATT
1 AGAATTACCGTTTTACCCTCGATT
39985924 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (54 bp):
AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
Found at i:39985945 original size:27 final size:27
Alignment explanation
Indices: 39985915--39986105 Score: 138
Period size: 27 Copynumber: 7.1 Consensus size: 27
39985905 TATCGTTTTA
* * *
39985915 CCCTCGATTGTGAAATTACGAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * *
39985942 CCCTATA-GGATAGAATTACCAAAATAC
1 CCCTAGATTG-TAAAATTACCAAAATAC
*
39985969 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * **
39985996 CCCTAGTTTGTAAAATCACTGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
** * * * *
39986023 CAATGGTTTGTGAAATTACCGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
*
39986050 CCC-AAATTTGTAAAATTACCAAAATA-
1 CCCTAGA-TTGTAAAATTACCAAAATAC
* *
39986076 CCCTTGATT-TACAAAATTACAAAAATAC
1 CCCTAGATTGT--AAAATTACCAAAATAC
39986104 CC
1 CC
39986106 TTGACTTTCT
Statistics
Matches: 128, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.01
26 6 0.05
27 118 0.92
28 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:39986021 original size:54 final size:54
Alignment explanation
Indices: 39985959--39986105 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
39985949 GGATAGAATT
* *
39985959 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
** ** * * * *
39986013 ACTGAAATACCAATGGTTTGTGAAATTACCGAAATACCCCAAATTTGTAAAATT
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
* ** *
39986067 ACCAAAATA-CCCTTGATTTACAAAATTACAAAAATACCC
1 ACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC
39986106 TTGACTTTCT
Statistics
Matches: 72, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
53 3 0.04
54 69 0.96
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (54 bp):
ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
Found at i:39986102 original size:81 final size:81
Alignment explanation
Indices: 39985955--39986104 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
39985945 TATAGGATAG
* * ** **
39985955 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATCACTGAAA
1 AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATCACAAAAA
39986020 TACCAATGGTTTGTGA
66 TACCAATGGTTTGTGA
* * *
39986036 AATTACCGAAATACCCCAAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTACAAAA
1 AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATCACAAAA
39986100 ATACC
65 ATACC
39986105 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.08
81 54 0.92
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATCACAAAAA
TACCAATGGTTTGTGA
Found at i:39986130 original size:29 final size:27
Alignment explanation
Indices: 39986061--39986163 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 27
39986051 CCAAATTTGT
*
39986061 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACAAAAATACCCTTGATTTAC
39986088 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACAAAAATACCCTTGA-TTTAC
* * * *
39986115 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAAAAATACCCTTGATTTAC
**
39986144 AAAATTACTGAAATACCCTT
1 AAAATTACAAAAATACCCTT
39986164 ATAGGATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 39 0.61
28 6 0.09
29 19 0.30
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTACAAAAATACCCTTGATTTAC
Found at i:39986259 original size:27 final size:27
Alignment explanation
Indices: 39986194--39986259 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
39986184 TACCCCTAAT
*
39986194 AGGTAAAACGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
39986221 AGGTAAAGTGACCGTAATA-CCCTTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
39986248 TGGTAAAATGAC
1 AGGTAAAATGAC
39986260 GAATATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:39987008 original size:20 final size:20
Alignment explanation
Indices: 39986977--39987053 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
39986967 ACAAGATTGA
*
39986977 TATGACATGCACATGATATG
1 TATGAAATGCACATGATATG
* *
39986997 TATAAAATGCACATGATAAG
1 TATGAAATGCACATGATATG
*
39987017 TATGAAATGCACATGATATA
1 TATGAAATGCACATGATATG
39987037 TATGAAATGCACATGAT
1 TATGAAATGCACATGAT
39987054 GTATTCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
TATGAAATGCACATGATATG
Found at i:39988123 original size:24 final size:24
Alignment explanation
Indices: 39988096--39988221 Score: 175
Period size: 24 Copynumber: 5.2 Consensus size: 24
39988086 CTGGAGGCCT
39988096 AGCCTCTTTTAATAATTGGGGCA-A
1 AGCC-CTTTTAATAATTGGGGCATA
39988120 AGCCCTTTTAATAACTT-GGGCATA
1 AGCCCTTTTAATAA-TTGGGGCATA
39988144 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAATTGGGGCATA
* * *
39988168 ACCCCTTTTAATAACTGGGGCAGA
1 AGCCCTTTTAATAATTGGGGCATA
* *
39988192 ACCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAATTGGGGCATA
39988216 AGCCCT
1 AGCCCT
39988222 ATTGTACTTC
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
23 17 0.18
24 77 0.82
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAATTGGGGCATA
Found at i:39988305 original size:11 final size:11
Alignment explanation
Indices: 39988274--39988329 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
39988264 TTATGAATAC
39988274 ATCATGTGCAT
1 ATCATGTGCAT
*
39988285 ATCA--TACAT
1 ATCATGTGCAT
39988294 ATCATGTGCAT
1 ATCATGTGCAT
*
39988305 ATCA--TACAT
1 ATCATGTGCAT
39988314 ATCATGTGCAT
1 ATCATGTGCAT
39988325 ATCAT
1 ATCAT
39988330 ATTAATCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:39988337 original size:20 final size:20
Alignment explanation
Indices: 39988274--39988330 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
39988264 TTATGAATAC
39988274 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
39988294 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
39988314 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
39988331 TTAATCAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:39990177 original size:25 final size:25
Alignment explanation
Indices: 39990144--39990200 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
39990134 TTACATATGG
** *
39990144 CCCAGTTTATTGAAAAGGGCTTTGC
1 CCCAGTTTACCGAAAACGGCTTTGC
*
39990169 CCCATTTTACCGAAAACGGCTTTGC
1 CCCAGTTTACCGAAAACGGCTTTGC
39990194 CCCAGTT
1 CCCAGTT
39990201 ATTAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (25 bp):
CCCAGTTTACCGAAAACGGCTTTGC
Found at i:39990410 original size:42 final size:42
Alignment explanation
Indices: 39990345--39990432 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
39990335 TAGTCTCCCC
* * ** *
39990345 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
39990387 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
39990429 AAAT
1 AAAT
39990433 TGGCCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:39990493 original size:31 final size:31
Alignment explanation
Indices: 39990458--39990536 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
39990448 ACCGTTTACA
* *
39990458 GAAAAGGCTTCGGCCGAGTGAAATGATTTAT
1 GAAAAGGCTTCGGCCCAATGAAATGATTTAT
* * *
39990489 GAAAAGGGTTCAGCCCAATGATATGATTTAT
1 GAAAAGGCTTCGGCCCAATGAAATGATTTAT
*
39990520 GAAATGGCTTCGGCCCA
1 GAAAAGGCTTCGGCCCA
39990537 GTAACTGTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAATGAAATGATTTAT
Found at i:39990558 original size:29 final size:29
Alignment explanation
Indices: 39990520--39990597 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
39990510 TATGATTTAT
39990520 GAAATGGCTTCGGCCCAGTAACTGTTAAAC
1 GAAA-GGCTTCGGCCCAGTAACTGTTAAAC
*
39990550 GAAAGGCTTCAGCCCAGTAACTGTTAAAC
1 GAAAGGCTTCGGCCCAGTAACTGTTAAAC
39990579 GAAAGGCTTCGGCCCAGTA
1 GAAAGGCTTCGGCCCAGTA
39990598 TATGTCAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (29 bp):
GAAAGGCTTCGGCCCAGTAACTGTTAAAC
Found at i:39994598 original size:24 final size:24
Alignment explanation
Indices: 39994571--39994616 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39994561 TATAATATGG
* * *
39994571 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
39994595 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
39994617 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:39994760 original size:25 final size:24
Alignment explanation
Indices: 39994727--39994784 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
39994717 AGGAAGTGCA
39994727 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAG-TTATC
* *
39994752 AAAAGGGC-TTTGCCCTAGTTATT
1 AAAAGGGCTTTTGCCCCAGTTATC
39994775 AAAAGAGGCT
1 AAAAG-GGCT
39994785 AGGCCTCGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 12 0.41
25 8 0.28
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTATC
Found at i:39998997 original size:20 final size:23
Alignment explanation
Indices: 39998949--39998998 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
39998939 ATCATGTTAG
* *
39998949 ATGTTAGAATTGGATTGGTTATA
1 ATGTTTGAATTGGACTGGTTATA
39998972 ATGTTTGAATTGG-CTGG-TAT-
1 ATGTTTGAATTGGACTGGTTATA
39998992 ATGTTTG
1 ATGTTTG
39998999 CAAGTATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 3 0.12
23 12 0.48
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (23 bp):
ATGTTTGAATTGGACTGGTTATA
Found at i:40001517 original size:42 final size:41
Alignment explanation
Indices: 40001443--40001595 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 41
40001433 CCAAAGCTAC
* *
40001443 GTCCCAGACATGGTCTTACATGGGTCTGCATATCGATGCCAT
1 GTCCCAGACATGGTCTTATACGGGTCT-CATATCGATGCCAT
* * *
40001485 ATCCCAGATATGGTCTTATACGAAGTCTCATATAGGTGCTGATGCCAT
1 GTCCCAGACATGGTCTTATACG-GGTCTC--ATA--T-C-GATGCCAT
* * *
40001533 GTCCCAGACATGGTCTTATATGGGACCTCATATCAATGCCAT
1 GTCCCAGACATGGTCTTATACGGG-TCTCATATCGATGCCAT
* *
40001575 GTTCCAGATATGGTCTTATAC
1 GTCCCAGACATGGTCTTATAC
40001596 AAAATCACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 44 0.49
43 5 0.06
44 4 0.04
46 4 0.04
47 2 0.02
48 30 0.34
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTATACGGGTCTCATATCGATGCCAT
Found at i:40001749 original size:48 final size:48
Alignment explanation
Indices: 40001568--40001749 Score: 145
Period size: 48 Copynumber: 3.8 Consensus size: 48
40001558 CCTCATATCA
* * * * *
40001568 ATGCCATGTTCC-AGATATGGTCTTATACAAAATCACTTAAT-GATGTCG
1 ATGCCATG-TCCTAGACATGGTCTTACACAGAATCACAT-ATCAATGTCG
* * * * * * * * * *
40001616 AAGCCATATCCTTGATATGGTCTTATACGGGATCAGATATCAGTGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACATATCAATGTCG
* * * *
40001664 ATGCCATGTCCCAGACACGGTCTTACACTAGCA-CACATATCAACGTCG
1 ATGCCATGTCCTAGACATGGTCTTACAC-AGAATCACATATCAATGTCG
40001712 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACAT
1 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACAT
40001750 TAACCATGGT
Statistics
Matches: 103, Mismatches: 27, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
47 8 0.08
48 93 0.90
49 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACAGAATCACATATCAATGTCG
Found at i:40019851 original size:13 final size:13
Alignment explanation
Indices: 40019833--40019862 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
40019823 AAAAGAGAAT
40019833 ATTGAAGAAAACA
1 ATTGAAGAAAACA
*
40019846 ATTGAAGAACACA
1 ATTGAAGAAAACA
40019859 ATTG
1 ATTG
40019863 GAGCAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (13 bp):
ATTGAAGAAAACA
Found at i:40022358 original size:28 final size:27
Alignment explanation
Indices: 40022317--40022416 Score: 92
Period size: 28 Copynumber: 3.6 Consensus size: 27
40022307 AGGAAGCGTC
* *
40022317 CTGGTGGCTATGCCATAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAA-TATCTGAT
* * *
40022345 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
40022372 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* *
40022400 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
40022417 TTATCTGTTC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 26 0.46
28 31 0.54
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:40022381 original size:27 final size:26
Alignment explanation
Indices: 40022317--40022427 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
40022307 AGGAAGCGTC
* * *
40022317 CTGGTGGCTATGCCATAAATTATCTGAT
1 CTGGTGGCTCTGCC--ACATTATCTGTT
*
40022345 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
40022372 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
40022400 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
40022426 CT
1 CT
40022428 TGCAGCCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 30 0.42
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:40022402 original size:55 final size:54
Alignment explanation
Indices: 40022317--40022427 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 54
40022307 AGGAAGCGTC
* *
40022317 CTGGTGGCTATGCCATAAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* ** * *
40022372 CTGGTGGCTCTGCCA-CGATTATCTATATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCATAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
40022426 CT
1 CT
40022428 TGCAGCCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 16 0.33
55 32 0.67
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:40027500 original size:38 final size:38
Alignment explanation
Indices: 40027458--40027550 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
40027448 TAAAGACCCG
* *
40027458 CAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
** *
40027496 CAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
* * *
40027534 CAAGCCTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
40027551 TTATATTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
Found at i:40027621 original size:43 final size:43
Alignment explanation
Indices: 40027554--40027794 Score: 383
Period size: 43 Copynumber: 5.6 Consensus size: 43
40027544 GCTGGTATTA
40027554 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
**
40027597 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
40027640 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATTCTGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
40027683 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
40027726 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCTGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
40027769 TATTCGGGCCTTCGTGCCTAGTAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
40027795 GTAAAACCGG
Statistics
Matches: 179, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 179 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:40032030 original size:38 final size:38
Alignment explanation
Indices: 40031983--40032079 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 38
40031973 GGCTTAAAGA
* * *
40031983 CCCGGAGGCTTCGTGCCGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
** **
40032021 CCCGCAGGCTTCGTGCTAGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
* *
40032059 CCCGCAGGCCTAGTGCCGGTA
1 CCCGCAGGCTTCGTGCCGGTA
40032080 TTATATTCGG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
Found at i:40032336 original size:43 final size:43
Alignment explanation
Indices: 40032062--40032323 Score: 384
Period size: 43 Copynumber: 6.1 Consensus size: 43
40032052 GATAAATCCC
* * *
40032062 GCAGGCCTAGTGCCGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
40032103 GCAGGCTTCGTGCCGGTGATATGTATTTGGGCATTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
40032146 GCAGGCTTCGTGCCGGAGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
40032189 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTCCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
40032232 GTAGGCTTCGTGCCGATGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
40032275 GCAGGCTTCGTACTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
40032318 GCAGGC
1 GCAGGC
40032324 GTAATGCCGG
Statistics
Matches: 197, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.08
42 2 0.01
43 180 0.91
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:40035142 original size:13 final size:13
Alignment explanation
Indices: 40035124--40035148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40035114 TAATGGTATA
40035124 TTGAATCCATGAC
1 TTGAATCCATGAC
40035137 TTGAATCCATGA
1 TTGAATCCATGA
40035149 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:40036632 original size:47 final size:47
Alignment explanation
Indices: 40036579--40036920 Score: 486
Period size: 47 Copynumber: 7.2 Consensus size: 47
40036569 AATTCTAAAT
40036579 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40036626 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
40036675 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
40036722 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * * *
40036771 TGTGATAAGGCTTAATGGCCAATGTGAAGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
40036818 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
40036865 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40036912 TGTGATAAG
1 TGTGATAAG
40036921 TCCCGAAGGG
Statistics
Matches: 263, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 176 0.67
49 87 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:40036743 original size:96 final size:96
Alignment explanation
Indices: 40036579--40036920 Score: 508
Period size: 96 Copynumber: 3.6 Consensus size: 96
40036569 AATTCTAAAT
* *
40036579 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40036644 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
40036675 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40036740 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
40036771 TGTGATAAGGCTTAATGGCCAATGTGAAGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40036836 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * * * **
40036865 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
40036921 TCCCGAAGGG
Statistics
Matches: 225, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 51 0.23
96 174 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:40036823 original size:143 final size:143
Alignment explanation
Indices: 40036582--40036920 Score: 497
Period size: 143 Copynumber: 2.4 Consensus size: 143
40036572 TCTAAATTGT
40036582 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
* * *
40036646 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 AATGTGAAGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
40036711 AAGTGTATATGTGC
130 AAGTGTATATATGC
* *
40036725 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
40036790 CAATGTGAAGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
65 CAATGTGAAGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
40036854 AAGTGTATATATGT
130 AAGTGTATATATGC
* * * * * *
40036868 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
40036921 TCCCGAAGGG
Statistics
Matches: 178, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 123 0.69
145 44 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
AATGTGAAGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGC
Found at i:40037094 original size:37 final size:37
Alignment explanation
Indices: 40037038--40037116 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40037028 TCGAGCTCTA
* * *
40037038 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40037075 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40037112 AAGAC
1 AAGAC
40037117 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40039023 original size:43 final size:43
Alignment explanation
Indices: 40038962--40039092 Score: 244
Period size: 43 Copynumber: 3.0 Consensus size: 43
40038952 TTGGTTTTCA
40038962 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
40039005 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
* *
40039048 GCAATAAGTATTCACGGTTGTGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
40039091 GC
1 GC
40039093 TTGAAATGCA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (43 bp):
GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
Found at i:40039107 original size:29 final size:29
Alignment explanation
Indices: 40039074--40039147 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40039064 GTTGTGAGAT
* *
40039074 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40039103 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40039132 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40039148 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40039225 original size:40 final size:40
Alignment explanation
Indices: 40039170--40039567 Score: 654
Period size: 40 Copynumber: 9.9 Consensus size: 40
40039160 AAGCACTATG
40039170 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
40039210 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
40039250 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
40039290 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
40039330 TGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
40039370 TGTGCGAATTGATATATCTGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
*
40039410 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
40039450 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
40039490 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGTTAAGACCCGAAGGCATT
* * * * *
40039530 CGTGCGAGTTGCTATACCCGAGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCA
40039568 ATTGAGCTTG
Statistics
Matches: 339, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 336 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
Found at i:40039636 original size:120 final size:117
Alignment explanation
Indices: 40039171--40039655 Score: 569
Period size: 120 Copynumber: 4.0 Consensus size: 117
40039161 AGCACTATGT
*
40039171 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGTTAA
1 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
* ** *
40039236 GACCCGAAGGCATTTGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTT
66 GA-CCGAAGGCA-TTGTGC-AAGTGATATATCCGGACTAAGACCCGAAGGCATTC
40039291 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
1 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
* * *
40039356 GACCTGAAGGCATTTGTGCGAATTGATATATCTGGGA-TAAGACCCGAAGGCATTT
66 GACC-GAAGGCA-TTGTGC-AAGTGATATATC-CGGACTAAGACCCGAAGGCATTC
*
40039411 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
1 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
* *
40039476 GACCCGAAGGCAATTGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGCATTC
66 GA-CCGAAGGC-ATTGTGCAAG-TGATATATCCGGACTAAGACCCGAAGGCATTC
* * * * * * *** * *
40039531 GTGCGAGTTGCTATACCCGAGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTAA
1 GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
* ** ** *
40039596 -ATTCCGAAGAGCATTCGTGCTAGTGAGGTATCCGGACTAAGTTCCAAAGAGCATTC
66 GA--CCGAAG-GCATT-GTGCAAGTGATATATCCGGACTAAGACCCGAAG-GCATTC
40039652 GTGC
1 GTGC
40039656 TGGTGTTATA
Statistics
Matches: 325, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
119 7 0.02
120 295 0.91
121 23 0.07
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (117 bp):
GTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
GACCGAAGGCATTGTGCAAGTGATATATCCGGACTAAGACCCGAAGGCATTC
Found at i:40039686 original size:40 final size:40
Alignment explanation
Indices: 40039580--40039700 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
40039570 TGAGCTTGTG
* *
40039580 GTTATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
*** * *
40039620 GAGGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
* * * * *
40039660 GTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
40039700 G
1 G
40039701 ACATGTATTC
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
Found at i:40042159 original size:13 final size:13
Alignment explanation
Indices: 40042141--40042165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40042131 TAATGGTATA
40042141 TTGAATCCATGAC
1 TTGAATCCATGAC
40042154 TTGAATCCATGA
1 TTGAATCCATGA
40042166 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:40043650 original size:47 final size:47
Alignment explanation
Indices: 40043597--40043938 Score: 495
Period size: 47 Copynumber: 7.2 Consensus size: 47
40043587 AATTCTAAAT
40043597 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40043644 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
40043693 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
40043740 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
40043789 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
40043836 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
40043883 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40043930 TGTGATAAG
1 TGTGATAAG
40043939 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 177 0.67
49 88 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:40043761 original size:96 final size:96
Alignment explanation
Indices: 40043597--40043938 Score: 517
Period size: 96 Copynumber: 3.6 Consensus size: 96
40043587 AATTCTAAAT
* *
40043597 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40043662 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
40043693 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40043758 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
40043789 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
40043854 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * * * **
40043883 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
40043939 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
94 52 0.23
96 175 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:40043841 original size:143 final size:143
Alignment explanation
Indices: 40043600--40043938 Score: 506
Period size: 143 Copynumber: 2.4 Consensus size: 143
40043590 TCTAAATTGT
40043600 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
* *
40043664 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 AATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
40043729 AAGTGTATATGTGC
130 AAGTGTATATATGC
* *
40043743 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
40043808 CAATGTGATGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
65 CAATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
40043872 AAGTGTATATATGT
130 AAGTGTATATATGC
* * * * * *
40043886 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
40043939 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 123 0.69
145 45 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
AATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGC
Found at i:40044112 original size:37 final size:37
Alignment explanation
Indices: 40044056--40044134 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40044046 TCGAGCTCTA
* * *
40044056 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40044093 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40044130 AAGAC
1 AAGAC
40044135 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40049377 original size:27 final size:26
Alignment explanation
Indices: 40049347--40049427 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
40049337 AGCGTCCTAA
*
40049347 TGGCTATGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGTTCTGG
40049374 TGGCTCTGCCACGATTATCTGTATCTGG
1 TGGCTCTGCCAC-ATTATCTGT-TCTGG
* * *
40049402 TGACTCTGTCACATTATTTGTTCTGG
1 TGGCTCTGCCACATTATCTGTTCTGG
40049428 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 5 0.10
27 26 0.54
28 17 0.35
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGTTCTGG
Found at i:40055536 original size:12 final size:12
Alignment explanation
Indices: 40055519--40055548 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
40055509 AAGATCTCTA
40055519 CTTATTTGATGC
1 CTTATTTGATGC
40055531 CTTATTTGATGC
1 CTTATTTGATGC
40055543 CTTATT
1 CTTATT
40055549 GAAGCACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (12 bp):
CTTATTTGATGC
Found at i:40064960 original size:24 final size:24
Alignment explanation
Indices: 40064924--40064992 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 24
40064914 TTCACATTCT
*
40064924 TTCTCTCTCTCAAACTCTTTTTCA
1 TTCTCTCTCTCAAACTCATTTTCA
* * * *
40064948 TTCTCTTTTTCAATCTCATTTTCT
1 TTCTCTCTCTCAAACTCATTTTCA
* * *
40064972 TTTTCACTCTCAATCT-ATTTT
1 TTCTCTCTCTCAAACTCATTTT
40064993 TATTTTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.57
Consensus pattern (24 bp):
TTCTCTCTCTCAAACTCATTTTCA
Found at i:40064966 original size:18 final size:18
Alignment explanation
Indices: 40064945--40064993 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
40064935 AAACTCTTTT
40064945 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
40064963 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
* *
40064981 TCAATCTATTTTT
1 TCATTCTCTTTTT
40064994 ATTTTTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:40065138 original size:12 final size:12
Alignment explanation
Indices: 40065105--40065138 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
40065095 TGTTCTTTTT
*
40065105 CTTTTTCAACGG
1 CTTTTTCAATGG
40065117 CTTTTTCAATGG
1 CTTTTTCAATGG
*
40065129 CTTTCTCAAT
1 CTTTTTCAAT
40065139 CTCTTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.47
Consensus pattern (12 bp):
CTTTTTCAATGG
Found at i:40071385 original size:48 final size:48
Alignment explanation
Indices: 40071324--40071658 Score: 600
Period size: 48 Copynumber: 7.0 Consensus size: 48
40071314 ATATATGTGC
*
40071324 GTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
40071372 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
40071420 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
40071468 GTGGTAAAGCCGAATGGCTAATGTGAAATAAATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
40071516 GTGGTAAAGCCGAATGGCTAATGTGAAATATGA-ATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATAT
* *
40071564 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
40071612 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
40071659 CTAGTGTGAA
Statistics
Matches: 277, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 276 1.00
49 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
Found at i:40071670 original size:78 final size:78
Alignment explanation
Indices: 40071581--40071736 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
40071571 AGCCGAATGG
* * *
40071581 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
1 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
40071646 TGAGATATGTATA
66 TGAGATATGTATA
*
40071659 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAA
1 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
40071724 TGAGATATGTATA
66 TGAGATATGTATA
40071737 TGTGGCCGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (78 bp):
CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
TGAGATATGTATA
Found at i:40071922 original size:37 final size:37
Alignment explanation
Indices: 40071867--40071969 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
40071857 GGAAATATAT
*
40071867 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
40071904 TCCGGGTAAGACCCGATGACTACCTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
40071941 TCCGGGTAAGACCCGATAACTACGCGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
40071970 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:40075322 original size:93 final size:93
Alignment explanation
Indices: 40075212--40075382 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
40075202 GCCCCTAAGT
* *
40075212 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
40075277 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
40075305 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
40075370 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40075383 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40075379 original size:46 final size:46
Alignment explanation
Indices: 40075207--40075379 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
40075197 AACCCGCCCC
* * * **
40075207 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* *
40075253 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * *
40075301 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
40075346 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40075380 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:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:40075836 original size:30 final size:30
Alignment explanation
Indices: 40075802--40075861 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40075792 TTTTAATACG
40075802 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
40075832 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
40075862 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:40083392 original size:56 final size:54
Alignment explanation
Indices: 40083273--40083413 Score: 147
Period size: 56 Copynumber: 2.5 Consensus size: 54
40083263 CATAACGTAG
* ** * *
40083273 CACGCCTCTCAACAGGGCTACATAAGAGCACCCGGACCTAGCATGCATCACATAAC
1 CACGCCTCTCAACAGGGCTACAT-A-AGCTCCCAAACCTAGCATGCACCACATAAA
* *
40083329 CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCGTGTACCACATAATTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCATGCACCACATAA--A
* ** *
40083385 CATGCCTCTCAATGGGGCTACACAAGCTC
1 CACGCCTCTCAACAGGGCTACATAAGCTC
40083414 TAGGACCTAG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
54 23 0.32
55 1 0.01
56 48 0.67
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCATGCACCACATAAA
Found at i:40086815 original size:47 final size:48
Alignment explanation
Indices: 40086756--40087020 Score: 231
Period size: 47 Copynumber: 5.5 Consensus size: 48
40086746 TAATGTAAAA
*
40086756 CATGTTTGGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGAC
* * *
40086803 CATGTCTAGGACATGACATCGG---CATTGA-GACGAGTGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCACATT-ATGA-GA--GCCAGTGTAAGAC
* * *
40086850 CATGTCTGGGACAT-GCATCGGCCTCGATGATGATAGCCAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGAC
* * * *
40086897 CATGTCTGAGACATGGCATCAGCACATATATATACGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGC-CACAT-TAT--GAGAGCCAGTGTAAGAC
* * * * *
40086949 CATGTCTGGGACATGGCATCAGCCTCGATGACGATAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGAC
*
40086998 CATGTCTTGGACATGGCATCGGC
1 CATGTCTGGGACATGGCATCGGC
40087021 AACTTATTCC
Statistics
Matches: 176, Mismatches: 25, Indels: 32
0.76 0.11 0.14
Matches are distributed among these distances:
45 6 0.03
46 9 0.05
47 49 0.28
48 26 0.15
49 42 0.24
50 4 0.02
51 16 0.09
52 24 0.14
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGAC
Found at i:40086903 original size:94 final size:96
Alignment explanation
Indices: 40086742--40087021 Score: 352
Period size: 94 Copynumber: 2.9 Consensus size: 96
40086732 GGTTATTTGT
* * * * * *
40086742 GTGCTAATGTAAAACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
*
40086806 GTCTAGGACATGACATCGGCAT-T-GAGACGA
66 GTCT-GGACATGGCATCGGCATATAGAGACGA
40086836 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-CAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
* * *
40086900 GTCTGAGACATGGCATCAGCACATATATATACGA
66 GTCTG-GACATGGCATC-G-GCATATAGAGACGA
* * *
40086934 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGATAGCCAGTGTAAGACC
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGATAGCCAGTGTAAGACC
40086999 ATGTCTTGGACATGGCATCGGCA
64 ATGTC-TGGACATGGCATCGGCA
40087022 ACTTATTCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
93 1 0.01
94 52 0.32
95 20 0.12
96 3 0.02
97 1 0.01
98 18 0.11
99 16 0.10
100 32 0.20
101 17 0.10
102 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
GTCTGGACATGGCATCGGCATATAGAGACGA
Found at i:40087010 original size:49 final size:49
Alignment explanation
Indices: 40086789--40087017 Score: 252
Period size: 47 Copynumber: 4.7 Consensus size: 49
40086779 ACATTATGAG
* * * * *
40086789 AGCCAGTGTAAGACCATGTCTAGGACATGACATCGGCATTGA-GACGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGA-T
* * *
40086838 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
* ** * *
40086884 AGCCAGTGTAAGA-CATGTCTGAGACATGGCATCAGCACATATATATACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-C-TCGAT-GACGAT
*
40086935 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
*
40086984 AGCCAGTGTAAGACCATGTCTTGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
40087018 GGCAACTTAT
Statistics
Matches: 151, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 11 0.07
47 41 0.27
48 18 0.12
49 37 0.25
50 6 0.04
51 16 0.11
52 22 0.15
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
Found at i:40088129 original size:56 final size:56
Alignment explanation
Indices: 40088043--40088218 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
40088033 ACAAGGGATG
40088043 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
40088099 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
40088155 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
40088211 ATGGGCAA
1 ATGGGCAA
40088219 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:40089450 original size:39 final size:40
Alignment explanation
Indices: 40089347--40089531 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
40089337 TCGAATGATG
* * * *
40089347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
40089386 ATCCGGACTAAGATCTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
*
40089427 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
40089466 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
40089505 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
40089532 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:40089485 original size:79 final size:81
Alignment explanation
Indices: 40089347--40089531 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
40089337 TCGAATGATG
* * *
40089347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40089411 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40089426 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40089488 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
40089506 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
40089532 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:40089553 original size:79 final size:79
Alignment explanation
Indices: 40089402--40089554 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
40089392 ACTAAGATCT
* **
40089402 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
40089467 CCGGGTTAAGTCCC
66 CCGGGTTAAGTCCC
* *
40089481 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
*
40089544 TATCC-GGTTAA
63 AATCCGGGTTAA
40089555 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAGTCCC
Found at i:40090532 original size:32 final size:32
Alignment explanation
Indices: 40090496--40090564 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
40090486 AGATAATTAG
*
40090496 AAGTCATTCCATATATGAATAGATTCCTTTTT
1 AAGTCATCCCATATATGAATAGATTCCTTTTT
40090528 AAGTCATCCCATATATGAATAGATTCCTTTTT
1 AAGTCATCCCATATATGAATAGATTCCTTTTT
*
40090560 GAGTC
1 AAGTC
40090565 TAGTTTCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (32 bp):
AAGTCATCCCATATATGAATAGATTCCTTTTT
Found at i:40095674 original size:39 final size:39
Alignment explanation
Indices: 40095477--40095692 Score: 202
Period size: 40 Copynumber: 5.4 Consensus size: 39
40095467 CTGTCCAGGC
* * * * * **
40095477 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGAC
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGT
*
40095517 TAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGT
* * *
40095557 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGT
*
40095597 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGT
* * * * *
40095637 TATGTCCCGAAGGCATTGTGTGAGTTAGTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
*
40095676 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
40095693 TGAACGAGGA
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 40 0.27
40 99 0.66
41 11 0.07
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
Found at i:40103518 original size:39 final size:39
Alignment explanation
Indices: 40103458--40103628 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
40103448 GGACTAAGAT
*
40103458 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
40103498 CCGAAGGC-TTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * * *
40103537 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
40103577 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
40103616 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40103629 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
39 67 0.58
40 49 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:40103553 original size:79 final size:79
Alignment explanation
Indices: 40103405--40103626 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 79
40103395 TTGAAAGCTG
* * * * *
40103405 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGA-T-ACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
40103468 TTGTGCGAGATA-CAAA
63 TCGTGCGAGATATCAAA
* *
40103484 TTCCGGGTTAAGCCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
* *
40103549 GTGCGAGTTATTAAA
65 GTGCGAGATATCAAA
* * * * * *
40103564 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATT
40103627 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 88 0.73
80 31 0.26
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATATCAAA
Found at i:40103646 original size:79 final size:79
Alignment explanation
Indices: 40103485--40103661 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 79
40103475 AGATACAAAT
* * * *
40103485 TCCGGGTTAAGCCCCGAAGGCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
40103550 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * * * *
40103564 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
*
40103629 AACGAG-GAGCTATA
66 AACGAGTGA-CTAAA
*
40103643 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40103662 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 15 0.19
79 66 0.81
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:40114111 original size:15 final size:14
Alignment explanation
Indices: 40114091--40114124 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
40114081 CTGTTTTTAT
*
40114091 TTTATTTTATGTTTG
1 TTTATTTTAT-TTTC
40114106 TTTATTTTATTTTC
1 TTTATTTTATTTTC
40114120 TTTAT
1 TTTAT
40114125 CAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:40116008 original size:46 final size:46
Alignment explanation
Indices: 40115945--40116194 Score: 272
Period size: 46 Copynumber: 5.5 Consensus size: 46
40115935 TCAAACAAAG
40115945 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* * * * *
40115991 ATGACCATAGTTCAAAGAAACTATGGTATCATGACAGAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
**
40116037 -AGCACCATAGTTGAAAGACACTATGGCAACATGATGGAAAATGAAT
1 AAG-ACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* * **
40116083 AAGACCATAGTTGAAAGACACAATGGAAACACAAC-GAAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAG-AAAATGAAT
** * * * * **
40116129 AAGGTCATGGTTGAAAGACACTATGGCACCAAGTC-GCGAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* *
40116174 AAGAACATGGTTGAAAGACAC
1 AAGACCATAGTTGAAAGACAC
40116195 GATGACATCA
Statistics
Matches: 171, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
45 28 0.16
46 141 0.82
47 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (46 bp):
AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
Found at i:40116288 original size:31 final size:31
Alignment explanation
Indices: 40116250--40116312 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
40116240 TGAGGTATAT
40116250 ATCATAAGTATGAATACGAGTTGAACATTTG
1 ATCATAAGTATGAATACGAGTTGAACATTTG
40116281 ATCATAAGTATGAATACGAGTTGAACATTTG
1 ATCATAAGTATGAATACGAGTTGAACATTTG
40116312 A
1 A
40116313 CTAGTATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (31 bp):
ATCATAAGTATGAATACGAGTTGAACATTTG
Found at i:40118802 original size:16 final size:17
Alignment explanation
Indices: 40118769--40118805 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
40118759 TAAACAGCCG
40118769 ATTTTTGTTTGATGTTT
1 ATTTTTGTTTGATGTTT
*
40118786 ATTTTTGTTTG-TTTTT
1 ATTTTTGTTTGATGTTT
40118802 ATTT
1 ATTT
40118806 CTTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.76
Consensus pattern (17 bp):
ATTTTTGTTTGATGTTT
Found at i:40118959 original size:11 final size:11
Alignment explanation
Indices: 40118943--40118968 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
40118933 TTAGAGGATA
40118943 ATTCATCTTCT
1 ATTCATCTTCT
40118954 ATTCATCTTCT
1 ATTCATCTTCT
40118965 ATTC
1 ATTC
40118969 GGGCATTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTCATCTTCT
Found at i:40123813 original size:50 final size:50
Alignment explanation
Indices: 40123671--40123865 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
40123661 AATAATAACA
* ** * * *
40123671 TGCCAAAGG-CATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCC-AAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAT-CGG
* * * * * * **
40123720 TGCCAATGTCATATCCCAGATATGGGCTTACATGGGAGTTCTCATATCGG
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* * * * *
40123770 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATATTGG
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
40123820 TGCCAAGGCCATGTCCCAGACATGGTCTTCCATGGGACCTCTCATA
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
40123866 ACCTCAATAA
Statistics
Matches: 117, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
48 4 0.03
49 34 0.29
50 79 0.68
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:40133830 original size:18 final size:18
Alignment explanation
Indices: 40133807--40133848 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
40133797 ACTATGAAAT
40133807 TGATTTTCTTGAAAACAC
1 TGATTTTCTTGAAAACAC
*
40133825 TGATTTTCTTGAAAACAT
1 TGATTTTCTTGAAAACAC
40133843 TGATTT
1 TGATTT
40133849 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
TGATTTTCTTGAAAACAC
Found at i:40138907 original size:14 final size:14
Alignment explanation
Indices: 40138888--40138932 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
40138878 AAATCAATAC
40138888 ATTAAGACTAATGT
1 ATTAAGACTAATGT
*
40138902 ATTAAGAACAATAATGC
1 ATTAAG-AC--TAATGT
40138919 ATTAAGACTAATGT
1 ATTAAGACTAATGT
40138933 GTAGTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 2 0.08
17 11 0.42
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (14 bp):
ATTAAGACTAATGT
Found at i:40141396 original size:21 final size:21
Alignment explanation
Indices: 40141370--40141433 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
40141360 TTTGGGTGGA
*
40141370 TCAGCTCTTTTGAGCTTTTGT
1 TCAGCTCTTTTGAGCTTCTGT
* *
40141391 TTAGCTCTTTTGTGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
**
40141412 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
40141433 T
1 T
40141434 GGCATGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (21 bp):
TCAGCTCTTTTGAGCTTCTGT
Found at i:40147281 original size:39 final size:39
Alignment explanation
Indices: 40147164--40147293 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
40147154 GGACTAAGAT
* * *
40147164 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
40147204 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* *
40147244 CCGAAGGCATTGTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACT-AAATCCGGGTTATGTC
40147283 CCGAAGGCATT
1 CCGAAGGCATT
40147294 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.42
40 46 0.58
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:40155124 original size:39 final size:39
Alignment explanation
Indices: 40155013--40155142 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
40155003 GGACTAAGAT
* * *
40155013 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
40155053 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
40155093 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
40155132 CCGAAGGCATT
1 CCGAAGGCATT
40155143 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:40155162 original size:79 final size:79
Alignment explanation
Indices: 40155013--40155177 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
40155003 GGACTAAGAT
* * * ** ** *
40155013 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
40155078 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
40155093 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
40155157 TATCCGGTTAAATC
66 AATCCGGTTAAATC
40155171 CCGAAGG
1 CCGAAGG
40155178 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:40159313 original size:27 final size:25
Alignment explanation
Indices: 40159263--40159313 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
40159253 ACTTGGCAAG
*
40159263 AGAAAAATCAAGAGAAATTCTTAAA
1 AGAAAAATCAAGAGAAATTATTAAA
40159288 AGAAAAACTCAA-AGAAAATTTATTAA
1 AGAAAAA-TCAAGAG-AAA-TTATTAA
40159314 GTTAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.41
26 7 0.32
27 6 0.27
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.22
Consensus pattern (25 bp):
AGAAAAATCAAGAGAAATTATTAAA
Found at i:40159538 original size:8 final size:8
Alignment explanation
Indices: 40159525--40159549 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
40159515 TAGGAATTTC
40159525 AAATAATA
1 AAATAATA
40159533 AAATAATA
1 AAATAATA
40159541 AAATAATA
1 AAATAATA
40159549 A
1 A
40159550 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:40160665 original size:6 final size:6
Alignment explanation
Indices: 40160639--40160697 Score: 91
Period size: 6 Copynumber: 9.8 Consensus size: 6
40160629 CCCTCGTACC
* * *
40160639 CATCTT CATCTC CACCCT CATCTT CATCTT CATCTT CATCTT CATCTT
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT
40160687 CATCTT CATCT
1 CATCTT CATCT
40160698 CCACCCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (6 bp):
CATCTT
Found at i:40160716 original size:24 final size:23
Alignment explanation
Indices: 40160639--40160724 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
40160629 CCCTCGTACC
40160639 CATCTTCATCTCCACCCTCATCTT
1 CATCTTCATCTCCACCC-CATCTT
* **
40160663 CATCTTCATCTTCATCTTCATCTT
1 CATCTTCATCTCCA-CCCCATCTT
*
40160687 CATCTTCATCTCCACCCCAGTTTT
1 CATCTTCATCTCCACCCCA-TCTT
* *
40160711 CGTCTTCGTCTCCA
1 CATCTTCATCTCCA
40160725 TCGCCTTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 3 0.06
24 47 0.92
25 1 0.02
ACGTcount: A:0.15, C:0.41, G:0.03, T:0.41
Consensus pattern (23 bp):
CATCTTCATCTCCACCCCATCTT
Found at i:40160913 original size:12 final size:12
Alignment explanation
Indices: 40160896--40160925 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
40160886 TGGATACGTT
40160896 GGCATTGATGTG
1 GGCATTGATGTG
*
40160908 GGCATTGATGTT
1 GGCATTGATGTG
40160920 GGCATT
1 GGCATT
40160926 AATGACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (12 bp):
GGCATTGATGTG
Found at i:40165628 original size:10 final size:10
Alignment explanation
Indices: 40165613--40165638 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
40165603 ATCGACAAAA
40165613 TAAAATAATT
1 TAAAATAATT
40165623 TAAAATAATT
1 TAAAATAATT
40165633 TAAAAT
1 TAAAAT
40165639 TTTAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATAATT
Found at i:40165880 original size:18 final size:18
Alignment explanation
Indices: 40165857--40165899 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
40165847 AAACCTAGAG
40165857 AGAGTTGAAAGAATTGAA
1 AGAGTTGAAAGAATTGAA
* *
40165875 AGAGTTGAGAGAATTGAG
1 AGAGTTGAAAGAATTGAA
40165893 AGAGTTG
1 AGAGTTG
40165900 GATTTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (18 bp):
AGAGTTGAAAGAATTGAA
Found at i:40172589 original size:198 final size:199
Alignment explanation
Indices: 40172098--40172693 Score: 1061
Period size: 198 Copynumber: 3.0 Consensus size: 199
40172088 AAAAAGGGGA
*
40172098 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAGGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* * * *
40172163 TTTTGGTTAACAAATTTTCCATCCTCATTCTTTTCCTATCCTTTGTACATAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
* *
40172228 TGGAATTGTAAGATAATGTGTCAGTGAACATAATCTCTTTT-GGGATGCCCTTTCCAAGTTTTTT
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGG-TGCCCTTTTCAAGTTTTTT
40172292 CTTGT
195 CTTGT
40172297 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
40172362 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
40172427 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAG-TTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
40172491 TTGT
196 TTGT
*
40172495 GGATTAAAAATTTGTCAATCTAATGCTTAAGCGACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* *
40172560 TTTTGATTAACAAATTTTCCATTCTCACTCTTTTCCTGTCCTTTGTCCCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
* *
40172625 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGATGCCTTTTTCAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
40172690 TTGT
196 TTGT
40172694 TGATAATTAG
Statistics
Matches: 383, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
198 193 0.50
199 187 0.49
200 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (199 bp):
GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
TTGT
Found at i:40174340 original size:9 final size:9
Alignment explanation
Indices: 40174326--40174356 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
40174316 GTTAAACGAA
40174326 TCGAGTTAT
1 TCGAGTTAT
*
40174335 TCGAGTTAA
1 TCGAGTTAT
40174344 TCGAGTTAT
1 TCGAGTTAT
40174353 TCGA
1 TCGA
40174357 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:40174431 original size:18 final size:18
Alignment explanation
Indices: 40174410--40174446 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
40174400 TGAGTTTTCG
40174410 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
*
40174428 AATTCGAATAATTCAAAT
1 AATTCGAATAACTCAAAT
40174446 A
1 A
40174447 TCAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:40174529 original size:30 final size:30
Alignment explanation
Indices: 40174497--40174554 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
40174487 ACCTTTTTAC
*
40174497 TTTTCCCTCAAAACTTTTACTCCTTCCCACT
1 TTTTCCC-CAAAACTTTTACTCCCTCCCACT
40174528 TTTTCCCCAAAACTTTTACTCCCTCCC
1 TTTTCCCCAAAACTTTTACTCCCTCCC
40174555 TTCCCAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTCCCACT
Found at i:40175360 original size:5 final size:5
Alignment explanation
Indices: 40175350--40175377 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
40175340 GAACAAATAT
40175350 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
40175378 TCCATCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:40175479 original size:5 final size:5
Alignment explanation
Indices: 40175469--40175495 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
40175459 AAAATTTTCA
40175469 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
40175496 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:40175716 original size:18 final size:17
Alignment explanation
Indices: 40175682--40175715 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
40175672 TCATATTTAC
40175682 TTTTTAACATTTATATA
1 TTTTTAACATTTATATA
*
40175699 TTTTTAAC-TTTGTATA
1 TTTTTAACATTTATATA
40175715 T
1 T
40175716 AAAGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAACATTTATATA
Found at i:40177418 original size:12 final size:12
Alignment explanation
Indices: 40177382--40177430 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
40177372 TTTTTCATCA
*
40177382 ATTAATT-TAAT
1 ATTAATTATATT
40177393 ATT-ATTAT-TT
1 ATTAATTATATT
40177403 ATTAATTATATT
1 ATTAATTATATT
* *
40177415 ATTATTTGTATT
1 ATTAATTATATT
40177427 ATTA
1 ATTA
40177431 TTAAACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 7 0.22
11 9 0.28
12 16 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
ATTAATTATATT
Found at i:40182397 original size:25 final size:25
Alignment explanation
Indices: 40182336--40182400 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
40182326 TCGAGCCATA
*
40182336 TAACGGGAAGCCCATGTGAGCTATG
1 TAACGGGAAGCTCATGTGAGCTATG
40182361 TAACGGGAAGCTCATGTGAGCTATG
1 TAACGGGAAGCTCATGTGAGCTATG
40182386 TAACGGGAAGCTCAT
1 TAACGGGAAGCTCAT
40182401 AAGAGTCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (25 bp):
TAACGGGAAGCTCATGTGAGCTATG
Found at i:40182445 original size:24 final size:23
Alignment explanation
Indices: 40182334--40182446 Score: 93
Period size: 25 Copynumber: 4.7 Consensus size: 23
40182324 TCTCGAGCCA
* *
40182334 TATAACGGGAAGCCCATGTGAGC
1 TATAACGGGAAGCTCATGCGAGC
*
40182357 TATGTAACGGGAAGCTCATGTGAGC
1 TA--TAACGGGAAGCTCATGCGAGC
**
40182382 TATGTAACGGGAAGCTCATAAGAG-
1 TA--TAACGGGAAGCTCATGCGAGC
*
40182406 TCATAATCAGGAAGCTCATGCGAGCC
1 T-ATAA-CGGGAAGCTCATGCGAG-C
*
40182432 TATAACGGGTAGCTC
1 TATAACGGGAAGCTC
40182447 CGAAGAGCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.07
24 23 0.30
25 47 0.62
26 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.21
Consensus pattern (23 bp):
TATAACGGGAAGCTCATGCGAGC
Found at i:40182570 original size:26 final size:26
Alignment explanation
Indices: 40182510--40182571 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
40182500 GGGCCATATG
*
40182510 AGGAAGCTCACAAAGAGCCTTTAATC
1 AGGAAGCTCACAAAGAGCCTATAATC
* *
40182536 GGGAAGCTCACGAAGAGCCATATAA-C
1 AGGAAGCTCACAAAGAGCC-TATAATC
*
40182562 AGGACGCTCA
1 AGGAAGCTCA
40182572 TAAGAGCTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCTATAATC
Found at i:40187101 original size:86 final size:87
Alignment explanation
Indices: 40186972--40187139 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 87
40186962 ACTTTTTCAG
* * *
40186972 AAAAAGCAATTAAGCCCTTACTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAAATGCATA
1 AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
40187037 AAAAAAAACCCTCAAACCTTTA
66 AAAAAAAACCCTCAAACCTTTA
* *
40187059 AAAAAACAATTAAGCCC-CCCTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAGATGCATA
1 AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
40187123 AAAAAAAACCCTCAAAC
66 AAAAAAAACCCTCAAAC
40187140 TTTTTCAGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 60 0.79
87 16 0.21
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
AAAAAAAACCCTCAAACCTTTA
Found at i:40187247 original size:9 final size:8
Alignment explanation
Indices: 40187223--40187286 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
40187213 AAATTTTAAT
*
40187223 ATTAAAAT
1 ATTAAAAA
40187231 ATTAAAAA
1 ATTAAAAA
40187239 ATTAGAAAA
1 ATTA-AAAA
40187248 ATTAAAAAA
1 ATT-AAAAA
40187257 ATTGTAAAAAA
1 A-T-T-AAAAA
*
40187268 ATAAAAAA
1 ATTAAAAA
*
40187276 ATTATAAA
1 ATTAAAAA
40187284 ATT
1 ATT
40187287 TTATAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 25 0.52
9 12 0.25
10 3 0.06
11 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:40187277 original size:19 final size:19
Alignment explanation
Indices: 40187234--40187284 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
40187224 TTAAAATATT
* *
40187234 AAAAAATTA-GAAAAATTA
1 AAAAAATTATAAAAAAATA
*
40187252 AAAAAATTGTAAAAAAATA
1 AAAAAATTATAAAAAAATA
40187271 AAAAAATTATAAAA
1 AAAAAATTATAAAA
40187285 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAAATTATAAAAAAATA
Found at i:40187290 original size:10 final size:10
Alignment explanation
Indices: 40187277--40187339 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
40187267 AATAAAAAAA
40187277 TTATAAAATT
1 TTATAAAATT
*
40187287 TTATAAAATA
1 TTATAAAATT
40187297 TTA-AAAA-T
1 TTATAAAATT
*
40187305 ATATAGAAA--
1 TTATA-AAATT
40187314 -TATAAAATT
1 TTATAAAATT
*
40187323 TTATAAAACT
1 TTATAAAATT
40187333 TTATAAA
1 TTATAAA
40187340 GTTGTAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 3 0.07
8 6 0.14
9 5 0.11
10 30 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TTATAAAATT
Found at i:40187294 original size:18 final size:17
Alignment explanation
Indices: 40187273--40187330 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
40187263 AAAAAATAAA
40187273 AAAATTATAAAATTTTAT
1 AAAA-TATAAAATTTTAT
* *
40187291 AAAATATTAAAAATATAT
1 AAAATA-TAAAATTTTAT
40187309 AGAAATATAAAATTTTAT
1 A-AAATATAAAATTTTAT
40187327 AAAA
1 AAAA
40187331 CTTTATAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATATAAAATTTTAT
Found at i:40187294 original size:28 final size:28
Alignment explanation
Indices: 40187225--40187303 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
40187215 ATTTTAATAT
* * *
40187225 TAAAATATTAAAAAATTAGAAAAATTAA
1 TAAAATTTTAAAAAAATAAAAAAATTAA
* *
40187253 AAAAATTGTAAAAAAATAAAAAAATT-A
1 TAAAATTTTAAAAAAATAAAAAAATTAA
* *
40187280 TAAAATTTTATAAAATATTAAAAA
1 TAAAATTTTA-AAAAAATAAAAAA
40187304 TATATAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 9 0.22
28 32 0.78
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAATTTTAAAAAAATAAAAAAATTAA
Found at i:40187303 original size:36 final size:36
Alignment explanation
Indices: 40187220--40187330 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 36
40187210 ATTAAATTTT
* * * * * *
40187220 AATATTAAAATATTAAAAAATTAGAAAAATTAAAAA
1 AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
40187256 AAT-TGTAAAAAAATAAAAAAATTATAAAATTTTATAA
1 AATAT-T-AAAAAATAAAAAAATTATAAAATTTTATAA
* *
40187293 AATATTAAAAATATATAGAAA-TATAAAATTTTATAA
1 AATATTAAAAA-ATAAAAAAATTATAAAATTTTATAA
40187329 AA
1 AA
40187331 CTTTATAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
35 1 0.02
36 26 0.41
37 35 0.56
38 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
Found at i:40187445 original size:11 final size:11
Alignment explanation
Indices: 40187425--40187457 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
40187415 AGAAGCATTT
40187425 TATAATTTTTA
1 TATAATTTTTA
*
40187436 TATAACTTTTA
1 TATAATTTTTA
40187447 T-TAATTTTTA
1 TATAATTTTTA
40187457 T
1 T
40187458 TTTTTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:40187858 original size:87 final size:86
Alignment explanation
Indices: 40187707--40187872 Score: 228
Period size: 87 Copynumber: 1.9 Consensus size: 86
40187697 AGAGTAGGGG
* *
40187707 CTTAATTGCTGTTTTGAAAATTTTGAGGCTTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATT
1 CTTAATTGCTGTTTTGAAAATTTTGAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATT
40187772 GAGTG-AAA-AAAAGCAAGGA
66 GAGTGCAAACAAAAGCAAGGA
* * * * *
40187791 CTTAATTGCTTTTTTTGAAGAATTTTGGGGGCCTTTTTGATGCATTTTAAAAGTTGAAGTGCTCA
1 CTTAATTGC-TGTTTTGAA-AATTTT-GAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCA
40187856 ATTGAGTGCAAACAAAA
63 ATTGAGTGCAAACAAAA
40187873 AAGGAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 9 0.13
85 8 0.11
86 6 0.09
87 40 0.57
88 3 0.04
89 4 0.06
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (86 bp):
CTTAATTGCTGTTTTGAAAATTTTGAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATT
GAGTGCAAACAAAAGCAAGGA
Found at i:40196315 original size:14 final size:14
Alignment explanation
Indices: 40196296--40196322 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40196286 GTGGTCCAGT
40196296 TGAACTGAACCGAG
1 TGAACTGAACCGAG
40196310 TGAACTGAACCGA
1 TGAACTGAACCGA
40196323 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:40205063 original size:19 final size:18
Alignment explanation
Indices: 40205011--40205067 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
40205001 AAGAGGATGA
*
40205011 TTGAATA-TTTTTTATTT
1 TTGAATACTTTTTAATTT
*
40205028 TTGAAAACTTGTATTAATTT
1 TTGAATACTT-T-TTAATTT
40205048 TTGAATACTTCTTTAATTT
1 TTGAATACTT-TTTAATTT
40205067 T
1 T
40205068 AACTTTGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 9 0.27
20 16 0.48
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
TTGAATACTTTTTAATTT
Found at i:40208650 original size:42 final size:42
Alignment explanation
Indices: 40208591--40208727 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
40208581 ACCCCTTGGG
*
40208591 GGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
* * * *
40208633 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAGT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
40208666 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
40208708 GGAATCAGCACCTAGCAACC
1 GGAATCAGCACTTAGCAACC
40208728 ACCAATAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
33 17 0.23
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 5 0.07
42 35 0.47
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
Found at i:40208712 original size:75 final size:75
Alignment explanation
Indices: 40208589--40208761 Score: 301
Period size: 75 Copynumber: 2.3 Consensus size: 75
40208579 GAACCCCTTG
* *
40208589 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
*
40208654 CCAATGAGTC
66 CCAATAAGTC
*
40208664 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
*
40208729 CCAATAATTC
66 CCAATAAGTC
40208739 GGGGAATCAGCACTTAGCAACCC
1 GGGGAATCAGCACTTAGCAACCC
40208762 ATTGGGGGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 92 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
CCAATAAGTC
Found at i:40216146 original size:33 final size:32
Alignment explanation
Indices: 40216104--40216384 Score: 126
Period size: 27 Copynumber: 8.5 Consensus size: 32
40216094 ATACGGTGGG
40216104 ATCAGCACTTAGCAACCACCAATGAGTTGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
40216137 ATCAGCACTTAGCAACC-CC-----TTGGGGAA
1 ATCAGCACTTAGCAACCACCAATGATTGGGG-A
*
40216164 ATCAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
* * *
40216191 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GAT-TGG-GGA
* *
40216233 ATCAGCATTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
* *
40216266 ATCAGCACTTAGCAACCCCTTGCACATTTAAAATATGGTGGA
1 ATCAGCACTTAGCAACCAC---CA-A--T--GAT-TGG-GGA
*
40216308 ATCAGCACCTAGCAACCACCAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATT-GGGGA
* *
40216341 ATTAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
*
40216368 ACCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
40216385 CCCTTTATAT
Statistics
Matches: 202, Mismatches: 17, Indels: 64
0.71 0.06 0.23
Matches are distributed among these distances:
26 6 0.03
27 56 0.28
28 8 0.04
29 1 0.00
30 1 0.00
31 1 0.00
32 4 0.02
33 56 0.28
34 8 0.04
35 1 0.00
36 5 0.02
37 1 0.00
38 2 0.01
39 5 0.02
40 2 0.01
41 8 0.04
42 37 0.18
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (32 bp):
ATCAGCACTTAGCAACCACCAATGATTGGGGA
Done.