Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 219 of 318
Found at i:68896445 original size:68 final size:68
Alignment explanation
Indices: 68896336--68896472 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
68896326 GAGGTTGCAG
*
68896336 CAGCCAAATCTGTTCTTAAAATTGTAGAAAATGAAGAAAAAATAAAGCTTGAGGAGATCTCAATG
1 CAGCCAAATCTATTCTTAAAATTGTAGAAAATGAAGAAAAAATAAAGCTTGAGGAGATCTCAATG
68896401 GAA
66 GAA
*
68896404 CAGCCAAATCTATTCTTAAAATTGTAGAAAATGAAGAAAAAATCAAGCTTGAGGAGATCTCAATG
1 CAGCCAAATCTATTCTTAAAATTGTAGAAAATGAAGAAAAAATAAAGCTTGAGGAGATCTCAATG
68896469 GAA
66 GAA
68896472 C
1 C
68896473 GACTACCTGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (68 bp):
CAGCCAAATCTATTCTTAAAATTGTAGAAAATGAAGAAAAAATAAAGCTTGAGGAGATCTCAATG
GAA
Found at i:68896620 original size:3 final size:3
Alignment explanation
Indices: 68896607--68896678 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
68896597 TTCCATTTTC
* * *
68896607 TCT TAT TCT TCT TCT TCT TCT TCG TCT TCT T-T T-T TGTT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT
* * *
68896650 TCT TAT TCT TCT TTT TC- TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
68896679 ACTGCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
2 8 0.15
3 44 0.81
4 2 0.04
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:68897704 original size:2 final size:2
Alignment explanation
Indices: 68897651--68897686 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
68897641 CCTTATAAAT
68897651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68897687 ATAGAGTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68897733 original size:18 final size:17
Alignment explanation
Indices: 68897703--68897736 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68897693 TTCTTTTATA
*
68897703 TAAAATACTTAAATTTC
1 TAAAATACATAAATTTC
68897720 TAAATATACATAAATTT
1 TAAA-ATACATAAATTT
68897737 TATTACCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATACATAAATTTC
Found at i:68899378 original size:18 final size:18
Alignment explanation
Indices: 68899357--68899407 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
68899347 CATGATGGCT
68899357 TAAATAATATATAAAACA
1 TAAATAATATATAAAACA
*
68899375 TAAAAGAATA-ATAAAACA
1 T-AAATAATATATAAAACA
* *
68899393 CATAATAAGATATAA
1 TA-AATAATATATAA
68899408 TGTATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAATAATATATAAAACA
Found at i:68902140 original size:176 final size:175
Alignment explanation
Indices: 68901813--68902403 Score: 742
Period size: 176 Copynumber: 3.4 Consensus size: 175
68901803 AATAGGACCG
* * * *
68901813 GCGGCTCAAATCTGCTCCATCACCGATACATGGAGATAAGA-TCTGCCATC-CTCAATCTACTCC
1 GCGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTC-GCC-TCTTTCAATCTGCTCC
* * * * * * * *
68901876 ACAACTGCTTTGGGAAAT-AGATCTTCAATGTTCAGTCTGCTTCTTTT-CTACCTAAAGAAAATA
64 GCTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTT-TTTTGCTACCTAGAG-AGATA
** * *
68901939 AGACTTCAATCGCCAA-TCTGCTCTCTTGCTACCTCAGAGAGATAAAGCTA
127 AGAC-TCAATCTTCAACT-TGCTCTCTTGCTACCTCAGAGAGATAAGGCTT
* * *
68901989 GCGGCTAAAATCTTCTCCATTACCGATACATGGAGATAAGATTCGCCTCTTCCAATCTGCTCCGC
1 GCGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCTCTTTCAATCTGCTCCGC
* *
68902054 TACTACTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTTTTTGCTACCTCAGAGAGATAAGA
66 TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTTTTGCTACCT-AGAGAGATAAGA
*
68902119 CTCAATCTTCAACTTGCTCTCTTGCTACCTTAGAGAGATAAGGCTT
130 CTCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT
* * * *
68902165 GAGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTTGCCTCTTTCGATCTGTTCCGC
1 GCGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCTCTTTCAATCTGCTCCGC
* * * * *
68902230 TACTACTTAGGGAGATAAGATATTCAATCTTCAATCTGCTTTCTTGCTACTTTAGAAAGATAAGA
66 TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTTTTGCTAC-CTAGAGAGATAAGA
* * *
68902295 CTCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATATGGCTT
130 CTCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT
* * *
68902341 GGGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCTCTTTCGATCTGCTCC
1 GCGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCTCTTTCAATCTGCTCC
68902404 TGTGACAGCC
Statistics
Matches: 365, Mismatches: 43, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
175 2 0.01
176 320 0.88
177 40 0.11
178 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (175 bp):
GCGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCTCTTTCAATCTGCTCCGC
TACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTTTTGCTACCTAGAGAGATAAGAC
TCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT
Found at i:68902334 original size:43 final size:43
Alignment explanation
Indices: 68902253--68902334 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
68902243 GATAAGATAT
* * * * *
68902253 TCAATCTTCAATCTGCTTTCTTGCTACTTTAGAAAGATAAGAC
1 TCAATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATAAGAC
*
68902296 TCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATA
1 TCAATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATA
68902335 TGGCTTGGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (43 bp):
TCAATCTTCAACCTACTCTCTTGCTACCTCAGAAAGATAAGAC
Found at i:68904121 original size:27 final size:28
Alignment explanation
Indices: 68904065--68904134 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
68904055 AAACTTGTAC
68904065 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
68904093 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
68904120 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68904135 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:68904145 original size:27 final size:27
Alignment explanation
Indices: 68904065--68904146 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
68904055 AAACTTGTAC
* *
68904065 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
68904093 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
68904120 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
68904147 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:68912114 original size:27 final size:28
Alignment explanation
Indices: 68912058--68912127 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
68912048 AAACTTGTAC
68912058 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
68912086 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
68912113 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68912128 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:68912138 original size:27 final size:27
Alignment explanation
Indices: 68912058--68912139 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
68912048 AAACTTGTAC
* *
68912058 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
68912086 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
68912113 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
68912140 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:68915612 original size:37 final size:37
Alignment explanation
Indices: 68915553--68915698 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
68915543 AGCTCAGACG
* *
68915553 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
68915590 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
68915627 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
68915664 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
68915699 ATATATTTTC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:68915970 original size:48 final size:48
Alignment explanation
Indices: 68915844--68916028 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
68915834 GCACATCGCC
* *
68915844 TACATATTTCACACTAACCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
68915894 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
68915942 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68915990 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
68916029 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68916033 original size:98 final size:97
Alignment explanation
Indices: 68915844--68916027 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
68915834 GCACATCGCC
*
68915844 TACATATTTCACACTAACCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAACCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
68915909 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
* * *
68915942 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAACCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
68916005 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCAGCTTTACCACATAT
68916028 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.44
98 44 0.55
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAACCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:68916077 original size:47 final size:47
Alignment explanation
Indices: 68915998--68916191 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
68915988 CATACATATT
* * * *
68915998 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
68916045 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
68916092 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * **
68916139 TCACATTGGTCATTCGACCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
68916186 TCACAT
1 TCACAT
68916192 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:68920174 original size:40 final size:40
Alignment explanation
Indices: 68920142--68920366 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
68920132 CCAGCATGAT
* * * * *
68920142 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
68920182 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
68920222 TGCTCTTCGGGACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
68920262 TGCTTTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
68920302 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
68920342 TGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
68920367 TATATCACTC
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:68921782 original size:37 final size:37
Alignment explanation
Indices: 68921640--68921784 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
68921630 GCTCAGACGA
* * * *
68921640 AATCTCCACACGAAGTTATCGGGTCTTACCCAGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
68921677 AATCTCTACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
68921714 AATCTCCACAGGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
68921751 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
68921785 ATATATTTTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:68921988 original size:50 final size:48
Alignment explanation
Indices: 68921930--68922114 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
68921920 GCACATCGCC
* *
68921930 TACATATTTCACACTATCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
68921980 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
68922028 TACATATTTCACATTAGCCATTCGGCTTTACCACATAGAGATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
68922076 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
68922115 TGCATGTTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
48 79 0.65
49 1 0.01
50 41 0.34
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:68922116 original size:98 final size:99
Alignment explanation
Indices: 68921909--68922119 Score: 277
Period size: 98 Copynumber: 2.1 Consensus size: 99
68921899 GGTCGTTCGG
* * * *
68921909 CCACAATATATGCACATCGCCTACATATTTCACACTATCCATTCGGCTTTACCACATATACATAT
1 CCAC-ATATATGCATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATAGACATAT
*
68921974 CTCATATATATATTTCACATTGACCATTCAGCTTTA
65 CTCA-ATACATATTTCACATTGACCATTCAGCTTTA
* * * *
68922010 CCAC--ATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGAGATTTC
1 CCACATATATGCATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATAGACATATC
*
68922073 TC-ATACATATTTCACATT-AGCCATTCGGCTTTA
66 TCAATACATATTTCACATTGA-CCATTCAGCTTTA
68922106 CCACATATATGCAT
1 CCACATATATGCAT
68922120 GTTCATATTC
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
95 1 0.01
96 31 0.32
98 61 0.63
101 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (99 bp):
CCACATATATGCATATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATAGACATATC
TCAATACATATTTCACATTGACCATTCAGCTTTA
Found at i:68922163 original size:47 final size:47
Alignment explanation
Indices: 68922085--68922189 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
68922075 ATACATATTT
* * * * * *
68922085 CACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTGACCACACATATGCATGCTCACATTCAC
* *
68922132 CACATTGGCCATTCGGCCTGATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTGACCACACATATGCATGCTCACATTCAC
68922179 CACATTGGCCA
1 CACATTGGCCA
68922190 CATATATGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTGACCACACATATGCATGCTCACATTCAC
Found at i:68922199 original size:34 final size:34
Alignment explanation
Indices: 68922154--68922223 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
68922144 TCGGCCTGAT
68922154 CACACATATGCATGCTCACATTCATCACATTGGC
1 CACACATATGCATGCTCACATTCATCACATTGGC
* *
68922188 CACATATATGCATGTTCACATTCATCACATTGGC
1 CACACATATGCATGCTCACATTCATCACATTGGC
68922222 CA
1 CA
68922224 TTCGACCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (34 bp):
CACACATATGCATGCTCACATTCATCACATTGGC
Found at i:68922254 original size:81 final size:81
Alignment explanation
Indices: 68922106--68922264 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
68922096 TTCGGCTTTA
* * * **
68922106 CCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTGATCACACATATGCATGCTC
1 CCACATATATGCATGTTCACATTCACCACATTGGCCATTCGACCTGATCACACATATACACACTC
68922171 ACATTCATCACATTGG
66 ACATTCATCACATTGG
* * * * *
68922187 CCACATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCCCATATATACACATTC
1 CCACATATATGCATGTTCACATTCACCACATTGGCCATTCGACCTGATCACACATATACACACTC
68922252 ACATTCATCACAT
66 ACATTCATCACAT
68922265 AAAATCCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (81 bp):
CCACATATATGCATGTTCACATTCACCACATTGGCCATTCGACCTGATCACACATATACACACTC
ACATTCATCACATTGG
Found at i:68925151 original size:50 final size:51
Alignment explanation
Indices: 68925054--68925292 Score: 410
Period size: 50 Copynumber: 4.7 Consensus size: 51
68925044 TTTATTATTG
68925054 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTTGAA
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTTGAA
* * *
68925105 AGTCTCAAAGCGCCCTTTTCTGTTTTTCACTTTGGTCTTTTTTTTTTTTTGAA
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC--TTTTTTTTTTTGAA
68925158 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC-TTTTTTTTTTGAA
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTTGAA
68925208 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC-TTTTTTTTTTGAA
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTTGAA
*
68925258 AGTCTCAAAGCGCCCTTTGCGGGTTTTTACTTTGG
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
68925293 CTTCCTTCCC
Statistics
Matches: 179, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
50 97 0.54
51 34 0.19
53 48 0.27
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (51 bp):
AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTTGAA
Found at i:68925165 original size:104 final size:103
Alignment explanation
Indices: 68925038--68925292 Score: 412
Period size: 103 Copynumber: 2.5 Consensus size: 103
68925028 TCTTTTTCTT
68925038 TTTTTTTTTATTATTG--AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTT
1 TTTTTTTTT-TT-TTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC-TTTTTTTTT
* * *
68925101 TGAAAGTCTCAAAGCGCCCTTTTCTGTTTTTCACTTTGGTC
63 TGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC
68925142 TTTTTTTTTTTTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTGA
1 TTTTTTTTTTTTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTGA
68925207 AAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC
66 AAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC
*
68925245 ---TTTTTTTTTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTTACTTTGG
1 TTTTTTTTTTTTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
68925293 CTTCCTTCCC
Statistics
Matches: 145, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
100 47 0.32
102 3 0.02
103 49 0.34
104 46 0.32
ACGTcount: A:0.14, C:0.19, G:0.18, T:0.49
Consensus pattern (103 bp):
TTTTTTTTTTTTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTTTTTTTTTTGA
AAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTC
Found at i:68936457 original size:18 final size:18
Alignment explanation
Indices: 68936436--68936486 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
68936426 CATGATGGCT
68936436 TAAATAATATATAAAACA
1 TAAATAATATATAAAACA
*
68936454 TAAAAGAATA-ATAAAACA
1 T-AAATAATATATAAAACA
* *
68936472 CATAATAAGATATAA
1 TA-AATAATATATAA
68936487 TGTATATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAATAATATATAAAACA
Found at i:68939371 original size:20 final size:20
Alignment explanation
Indices: 68939346--68939388 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
68939336 AAAATCAGAC
68939346 CAGGGTTAGTTTTGATTTGA
1 CAGGGTTAGTTTTGATTTGA
68939366 CAGGGTTAGTTTTGATTTGA
1 CAGGGTTAGTTTTGATTTGA
68939386 CAG
1 CAG
68939389 TGTACAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.42
Consensus pattern (20 bp):
CAGGGTTAGTTTTGATTTGA
Found at i:68940437 original size:31 final size:31
Alignment explanation
Indices: 68940399--68940461 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
68940389 AACAAAGTTT
68940399 GAATCACTCAATTTCAAGTTTGGGAGCTCAA
1 GAATCACTCAATTTCAAGTTTGGGAGCTCAA
68940430 GAATCACTCAATTTCAAGTTTGGGAGCTCAA
1 GAATCACTCAATTTCAAGTTTGGGAGCTCAA
68940461 G
1 G
68940462 TTATGACTGT
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:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (31 bp):
GAATCACTCAATTTCAAGTTTGGGAGCTCAA
Found at i:68941149 original size:19 final size:20
Alignment explanation
Indices: 68941106--68941161 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
68941096 ATATTTTCTT
*
68941106 TATTTAGTTA-TTATTTTTAA
1 TATTTA-TTATTTATTCTTAA
68941126 TATTTATTATTTATTCTTAA
1 TATTTATTATTTATTCTTAA
68941146 -ATTTATTATTT-TTCTT
1 TATTTATTATTTATTCTT
68941162 TTTTTTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.15
19 14 0.41
20 15 0.44
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTATTATTTATTCTTAA
Found at i:68942117 original size:22 final size:22
Alignment explanation
Indices: 68942092--68942134 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
68942082 TTTACTTTAA
*
68942092 ATTGAAATATTTTATTTTCTTC
1 ATTGAAATATTTTATATTCTTC
68942114 ATTGAAATATTTTATATTCTT
1 ATTGAAATATTTTATATTCTT
68942135 ATTCACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTGAAATATTTTATATTCTTC
Found at i:68942520 original size:26 final size:23
Alignment explanation
Indices: 68942477--68942551 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
68942467 ATTCTTTTAT
* *
68942477 TAGAGTTAA-TTTTGTCTTAATC
1 TAGAATTAATTTTTTTCTTAATC
*
68942499 TGAGCATTTATATTTTTTTCTT-ATC
1 T-AG-AATTA-ATTTTTTTCTTAATC
68942524 TAGAATTAATTTTTTT-TTAATCC
1 TAGAATTAATTTTTTTCTTAAT-C
68942547 TAGAA
1 TAGAA
68942552 CTTAGGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.05
22 11 0.25
23 12 0.27
24 6 0.14
25 5 0.11
26 8 0.18
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (23 bp):
TAGAATTAATTTTTTTCTTAATC
Found at i:68944533 original size:109 final size:109
Alignment explanation
Indices: 68944337--68944763 Score: 403
Period size: 110 Copynumber: 3.9 Consensus size: 109
68944327 CGGCGATCAT
* * * * *
68944337 TTAGCAGGTACTATGTACCGATGATATAGATCGTAACAATGGCTTGAGATCCTGCTTATGTTGCG
1 TTAGTAGGTACTATGTACCGGTGATACAGATCGTAACAATGGCTTGAGATCCTGCATATGTTACG
* * *
68944402 GATTCTCCGC-GACTTGTGTGAGCAGCATTGTGAATAGGGGATTAA
66 GATTCTCTGCAG-CTTGTATGAGCAGCATCGTGAAT-GGGGATTAA
* ** * *
68944447 TT-GTAGGTATTATGTACCGGTGATACAGATCGTAATGATGGCTTGAGATCCGGAATATGTTACG
1 TTAGTAGGTACTATGTACCGGTGATACAGATCGTAACAATGGCTTGAGATCCTGCATATGTTACG
* * * *
68944511 GATTCTCTGCAGCTTCTATGAGCAGCATCGTGAGCTGAGAATTAA
66 GATTCTCTGCAGCTTGTATGAGCAGCATCGTGA-ATGGGGATTAA
* ** * * * *
68944556 TTAGTAGGTACAATGTACTAGTGATACAG-TCTGTGACAATGGCTTGGGATCCTGCATGTGTTGC
1 TTAGTAGGTACTATGTACCGGTGATACAGATC-GTAACAATGGCTTGAGATCCTGCATATGTTAC
* * * * *
68944620 GGATTGTCTACAACTTGTATGAGCAGCATCATGAGCCT-GGGATTAA
65 GGATTCTCTGCAGCTTGTATGAGCAGCATCGTGA--ATGGGGATTAA
* * * ** * * *
68944666 TTAATATGTACTATGTACTGGTGATACAGGCCATAACGATGGCTTGAGATCCTGCATGTGTTACG
1 TTAGTAGGTACTATGTACCGGTGATACAGATCGTAACAATGGCTTGAGATCCTGCATATGTTACG
** * *
68944731 GATTCTCTATAGCTTGTGTGAACAGCATCGTGA
66 GATTCTCTGCAGCTTGTATGAGCAGCATCGTGA
68944764 GTCGGTTAAA
Statistics
Matches: 258, Mismatches: 53, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
109 90 0.35
110 165 0.64
111 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (109 bp):
TTAGTAGGTACTATGTACCGGTGATACAGATCGTAACAATGGCTTGAGATCCTGCATATGTTACG
GATTCTCTGCAGCTTGTATGAGCAGCATCGTGAATGGGGATTAA
Found at i:68945029 original size:13 final size:13
Alignment explanation
Indices: 68945001--68945039 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
68944991 ACAGGAATTC
*
68945001 TGATAATAACCTTG
1 TGATAAGAA-CTTG
68945015 TGATAAGAACTTG
1 TGATAAGAACTTG
68945028 TGATAAGAACTT
1 TGATAAGAACTT
68945040 TGTTCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (13 bp):
TGATAAGAACTTG
Found at i:68946020 original size:21 final size:21
Alignment explanation
Indices: 68945996--68946049 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
68945986 AACTGTCTTC
*
68945996 CATGTCATGACAGAAGCCTTG
1 CATGTCATGACAAAAGCCTTG
68946017 CATGTCATGACAAAAGCCTTG
1 CATGTCATGACAAAAGCCTTG
*
68946038 CATGTCACGACA
1 CATGTCATGACA
68946050 CTGAACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (21 bp):
CATGTCATGACAAAAGCCTTG
Found at i:68948182 original size:39 final size:39
Alignment explanation
Indices: 68948139--68948214 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
68948129 AAATGAATTG
*
68948139 TTGTTGGAATTATAATATTGAATTGGATATTCGGTTTTA
1 TTGTTGGAATTATAATACTGAATTGGATATTCGGTTTTA
* *
68948178 TTGTTGGAATTGTAATACTGAATTGGATATTCTGTTT
1 TTGTTGGAATTATAATACTGAATTGGATATTCGGTTT
68948215 GAATTGAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (39 bp):
TTGTTGGAATTATAATACTGAATTGGATATTCGGTTTTA
Found at i:68949893 original size:15 final size:15
Alignment explanation
Indices: 68949873--68949906 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
68949863 TGGCACTCTA
68949873 AAGACCATATAATGT
1 AAGACCATATAATGT
*
68949888 AAGACCATATAGTGT
1 AAGACCATATAATGT
68949903 AAGA
1 AAGA
68949907 ACTTGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (15 bp):
AAGACCATATAATGT
Found at i:68950115 original size:29 final size:29
Alignment explanation
Indices: 68950068--68950124 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
68950058 TAAATTGACA
*
68950068 CCTTTATGGCGATCCCTGTTATAAGGAAG
1 CCTTTATGGCGATCCCTGTTAAAAGGAAG
* * *
68950097 CCTTTGTGGCTATCTCTGTTAAAAGGAA
1 CCTTTATGGCGATCCCTGTTAAAAGGAA
68950125 TGCTCTATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (29 bp):
CCTTTATGGCGATCCCTGTTAAAAGGAAG
Found at i:68950135 original size:29 final size:29
Alignment explanation
Indices: 68950072--68950140 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
68950062 TTGACACCTT
* * * *
68950072 TATGGCGATCCCTGTTATAAGGAAGCCTT
1 TATGGCTATCTCTGTTAAAAGGAAGCCTC
*
68950101 TGTGGCTATCTCTGTTAAAAGGAATG-CTC
1 TATGGCTATCTCTGTTAAAAGGAA-GCCTC
68950130 TATGGCTATCT
1 TATGGCTATCT
68950141 TTGGAACGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (29 bp):
TATGGCTATCTCTGTTAAAAGGAAGCCTC
Found at i:68952012 original size:18 final size:19
Alignment explanation
Indices: 68951966--68952013 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
68951956 TATATTAAAC
*
68951966 ATACCACAATTTAGAAATTA
1 ATACCA-AATTTACAAATTA
**
68951986 ATATAAAATTT-CAAATTA
1 ATACCAAATTTACAAATTA
68952004 ATACCAAATT
1 ATACCAAATT
68952014 AAACCATATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 5 0.22
20 4 0.17
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACCAAATTTACAAATTA
Found at i:68954264 original size:20 final size:21
Alignment explanation
Indices: 68954213--68954254 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
68954203 ATACCTGGTA
*
68954213 AAAGGTATCGATACTTTTTGT
1 AAAGGTATTGATACTTTTTGT
68954234 AAAGGTATTGATACTTTTTGT
1 AAAGGTATTGATACTTTTTGT
68954255 GATTGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (21 bp):
AAAGGTATTGATACTTTTTGT
Found at i:68955233 original size:20 final size:20
Alignment explanation
Indices: 68955205--68955248 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
68955195 TACTGATTAT
*
68955205 AATTTTTTAT-ACAAATTTTA
1 AATTATTTATAAC-AATTTTA
*
68955225 AATTATTTATAACACTTTTA
1 AATTATTTATAACAATTTTA
68955245 AATT
1 AATT
68955249 CTATATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTATTTATAACAATTTTA
Found at i:68955673 original size:5 final size:5
Alignment explanation
Indices: 68955660--68955693 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
68955650 ACGGGTTGAA
*
68955660 ATGTG ATGTA ATGTG ATGTG ATGTG ATGTG ATGT
1 ATGTG ATGTG ATGTG ATGTG ATGTG ATGTG ATGT
68955694 TGAAAATGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (5 bp):
ATGTG
Found at i:68962415 original size:48 final size:47
Alignment explanation
Indices: 68962351--68962462 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 47
68962341 AGTGATAATT
68962351 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATG-AAATTATAA
* * *
68962399 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGTAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGAAATTATAA
68962447 TTACAATTTCAATACT
1 TTA-AATTTCAATACT
68962463 GCTTGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 9 0.16
48 43 0.75
49 5 0.09
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGAAATTATAA
Found at i:68962469 original size:48 final size:45
Alignment explanation
Indices: 68962351--68962485 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 45
68962341 AGTGATAATT
*
68962351 TTAAATTTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAA
*
68962399 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATG-TAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAA
* *
68962447 TTACAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTA-AATTTCAATACT-ATTGA-TATTTTTTCATTTATG
68962486 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
47 9 0.12
48 55 0.72
49 12 0.16
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.53
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAA
Found at i:68963466 original size:14 final size:14
Alignment explanation
Indices: 68963447--68963478 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
68963437 TAATCGTTTC
*
68963447 GTATTTAGTATTTT
1 GTATTTAGTATTAT
68963461 GTATTTAGTATTAT
1 GTATTTAGTATTAT
68963475 GTAT
1 GTAT
68963479 ATAAGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:68964102 original size:18 final size:18
Alignment explanation
Indices: 68964061--68964095 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68964051 GCCAGGTGCG
*
68964061 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
68964079 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
68964096 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:68967816 original size:126 final size:126
Alignment explanation
Indices: 68967591--68967972 Score: 649
Period size: 126 Copynumber: 3.0 Consensus size: 126
68967581 TTATAGCCTC
*
68967591 ATTTTTCTACGAACTACTGCAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
68967656 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
68967717 ATTTTTCTACAAACTATTGTAGCAAAAGAGCATCTACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
*
68967782 ACAGTGCATCCTACTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
68967843 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
68967908 ACAGTGTATCCTGCTTGAAGCATTTTCCGACACTATTT-TTCCAGAAACGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAGAAACGTCTACTCAGAATT
68967970 ATT
1 ATT
68967973 CTTGCAGAAA
Statistics
Matches: 239, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
126 206 0.86
127 33 0.14
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:68980502 original size:48 final size:48
Alignment explanation
Indices: 68980431--68980795 Score: 351
Period size: 48 Copynumber: 7.6 Consensus size: 48
68980421 TAAATTGCCT
* * *
68980431 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
* * * * **
68980479 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
* * * * *
68980527 TTGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
* * * * * *
68980575 ATGCCATGTCCTAGACATGGTCTTACACTAGCACAT-ATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCGAGGCCG
* * * *
68980623 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
* * * * * *
68980671 ATGCCATGTCCCAGACATGGTATTACACTAGCACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
* * * *
68980719 ATGCCATGTCCCAGACATGGTCCTACATTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
*
68980767 ATGCCATGTCCCAGACATGATCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
68980796 AGTACACATA
Statistics
Matches: 251, Mismatches: 59, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
47 5 0.02
48 240 0.96
49 6 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
Found at i:68980596 original size:96 final size:96
Alignment explanation
Indices: 68980431--68980806 Score: 486
Period size: 96 Copynumber: 3.9 Consensus size: 96
68980421 TAAATTGCCT
* * * * *
68980431 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGAC
* * **
68980495 ATGGTCTTACACTAGCTCTCATCTCAATACCG
65 ATGGTCTTACACTAGCACTCATATCAACGCCG
* * * * *
68980527 TTGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
*
68980592 TGGTCTTACACTAGCACAT-ATATCAACGCTG
66 TGGTCTTACACTAGCAC-TCATATCAACGCCG
* * *
68980623 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGCCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
* *
68980688 TGGTATTACACTAGCACACATATCAACGCCG
66 TGGTCTTACACTAGCACTCATATCAACGCCG
* * *
68980719 ATGCCATGTCCCAGACATGGTCCTACATTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
* * *
68980784 TGATCTTACACTAGTACACATAT
66 TGGTCTTACACTAGCACTCATAT
68980807 TACCAAATTG
Statistics
Matches: 246, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
96 244 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCACTCATATCAACGCCG
Found at i:68983155 original size:16 final size:16
Alignment explanation
Indices: 68983134--68983172 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
68983124 ATACCCAACA
*
68983134 TGATAGCTTGATAGTG
1 TGATAGCTTGACAGTG
68983150 TGATAGCTTGACAGTG
1 TGATAGCTTGACAGTG
68983166 TGATAGC
1 TGATAGC
68983173 ATCTCCGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (16 bp):
TGATAGCTTGACAGTG
Found at i:68984199 original size:50 final size:50
Alignment explanation
Indices: 68984113--68984235 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
68984103 GCAATGTCCT
* *
68984113 AGACATGGTCTTACACGAAAT--CATATATCGATGCCAATGCCATATCCC
1 AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
* * *
68984161 ATATATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATGTCCC
1 AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
* *
68984211 AGACATGGTTTTACATGGGATCACA
1 AGACATGGTCTTACATGAGATCACA
68984236 CATAGCCCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 17 0.27
50 47 0.73
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
Found at i:68985991 original size:27 final size:27
Alignment explanation
Indices: 68985938--68985991 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
68985928 TACACATGTA
* **
68985938 ACCCCATGTTTAATGTCCTGGTGGACT
1 ACCCCATGTTTAATATCCTGGAAGACT
*
68985965 ACCCCATGTTTATTATCCTGGAAGACT
1 ACCCCATGTTTAATATCCTGGAAGACT
68985992 CCAGATGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
ACCCCATGTTTAATATCCTGGAAGACT
Found at i:68986025 original size:94 final size:94
Alignment explanation
Indices: 68985832--68986045 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 94
68985822 GAACTATGGT
* * *
68985832 CTTACACATGTAACCCTATATTTAATGTCTTAGTGAACTATCACATGTTTACTATCCTGATAGAC
1 CTTACACATGTAACCCTATGTTTAATGTCCTAGTGAACTACCACATGTTTACTATCCTGATAGAC
* * *
68985897 TCTACATGTTGCCATAGTTGAGCTAAGGG
66 TCCACATGTTGCCATAGTCGAGCTAAAGG
* * * * *
68985926 CTTACACATGTAACCCCATGTTTAATGTCCTGGTGGACTACCCCATGTTTATTATCCTGGA-AGA
1 CTTACACATGTAACCCTATGTTTAATGTCCTAGTGAACTACCACATGTTTACTATCCT-GATAGA
* * *
68985990 CTCCAGATGTTGTCATAGTCGAGCTAAAGT
65 CTCCACATGTTGCCATAGTCGAGCTAAAGG
* *
68986020 TTTACAAATGCGTAACCCTATGTTTA
1 CTTACACAT--GTAACCCTATGTTTA
68986046 TAGTCCCAGA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 84 0.84
95 2 0.02
96 14 0.14
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (94 bp):
CTTACACATGTAACCCTATGTTTAATGTCCTAGTGAACTACCACATGTTTACTATCCTGATAGAC
TCCACATGTTGCCATAGTCGAGCTAAAGG
Found at i:68989624 original size:49 final size:49
Alignment explanation
Indices: 68989552--68989652 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
68989542 AAACATGGTA
* * *
68989552 GTTATAATTCTTTTTGGAAAGAATATAACGTTTTTAATACTTTCCATAT
1 GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
* *
68989601 GTTATAATTCTTTTTGGAAAGAATACAATGTGTTTAATGCTTTACATAT
1 GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
68989650 GTT
1 GTT
68989653 CTCTATAGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (49 bp):
GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
Found at i:69000188 original size:16 final size:16
Alignment explanation
Indices: 69000167--69000197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69000157 ATAAATTTGA
69000167 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
69000183 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
69000198 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:69001935 original size:27 final size:27
Alignment explanation
Indices: 69001904--69001957 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
69001894 CAAGTTTTTT
69001904 TTAAAAAACATATATATAAAATAATAA
1 TTAAAAAACATATATATAAAATAATAA
69001931 TTAAAAAACATATATATAAAATAATAA
1 TTAAAAAACATATATATAAAATAATAA
69001958 ATAAGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (27 bp):
TTAAAAAACATATATATAAAATAATAA
Found at i:69001951 original size:14 final size:14
Alignment explanation
Indices: 69001907--69001951 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
69001897 GTTTTTTTTA
69001907 AAAAACATATATAT
1 AAAAACATATATAT
69001921 AAAATA-ATA-AT-T
1 AAAA-ACATATATAT
69001933 AAAAAACATATATAT
1 -AAAAACATATATAT
69001948 AAAA
1 AAAA
69001952 TAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.08
13 9 0.35
14 13 0.50
15 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAACATATATAT
Found at i:69003677 original size:42 final size:42
Alignment explanation
Indices: 69003631--69003720 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
69003621 ACTTATACGC
* *
69003631 CAATATAATCGCTTCGGTATATCTGATGGTGCATTTATGTGT
1 CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
* * *
69003673 CAATATAATTGTTTCGGTTTATCTGATGATGCACTTATGTGT
1 CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
69003715 -AATATA
1 CAATATA
69003721 TTTACTTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 6 0.14
42 37 0.86
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (42 bp):
CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
Found at i:69007429 original size:37 final size:37
Alignment explanation
Indices: 69007386--69007476 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
69007376 ACACCATAGT
69007386 CCAGCTATGGTCTTACATGTCATTATGATGCCATAA-C
1 CCAGCTATGGTCTTACATGTCATTATGATGCCA-AAGC
* * *
69007423 CCAGCTATGGTCTTATATGTTATTATGATGCCAAAGT
1 CCAGCTATGGTCTTACATGTCATTATGATGCCAAAGC
*
69007460 CCAACTATGGTCTTACA
1 CCAGCTATGGTCTTACA
69007477 CGTACACACA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 46 0.96
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (37 bp):
CCAGCTATGGTCTTACATGTCATTATGATGCCAAAGC
Found at i:69010173 original size:21 final size:20
Alignment explanation
Indices: 69010146--69010195 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
69010136 CACGACCTGA
*
69010146 TCACACGGTC-GTGCCTCTG
1 TCACACGGGCAGTGCCTCTG
69010165 TACCACACGGGCATGTGCCTCTG
1 T--CACACGGGCA-GTGCCTCTG
69010188 TCACACGG
1 TCACACGG
69010196 CTGTGTGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
21 15 0.58
23 10 0.38
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (20 bp):
TCACACGGGCAGTGCCTCTG
Found at i:69012990 original size:42 final size:42
Alignment explanation
Indices: 69012883--69013034 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 42
69012873 TACTGTTCCA
* * ** * *
69012883 ATGCCATATCCCAGATATAGTCTCACTTGGAATCGCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
69012925 ACGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
69012968 ATGCCATATCCCTGATATGGTCTTACACGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
69013010 ATACCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
69013035 TTTGAAGTCT
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 60 0.65
43 33 0.35
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:69014986 original size:24 final size:24
Alignment explanation
Indices: 69014954--69015005 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
69014944 AATTTCTTTC
*
69014954 AATTATTATTTAATTAAACAATTG
1 AATTATTATTTAATTAAAAAATTG
69014978 AATTATTATTTAATTAAAAAATTG
1 AATTATTATTTAATTAAAAAATTG
69015002 AATT
1 AATT
69015006 TTGAAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AATTATTATTTAATTAAAAAATTG
Found at i:69025341 original size:5 final size:5
Alignment explanation
Indices: 69025333--69025372 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
69025323 TTAGTTTAGG
* *
69025333 TTTTC TTTTC TTTTC TTTTC TATTC TTTTTC TATTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
69025373 TATTTTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:69025348 original size:10 final size:10
Alignment explanation
Indices: 69025335--69025376 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
69025325 AGTTTAGGTT
*
69025335 TTCTTTTCTT
1 TTCTTTTCTA
69025345 TTCTTTTCTA
1 TTCTTTTCTA
69025355 TTCTTTTTCTA
1 TTC-TTTTCTA
69025366 TTCTTTT-TA
1 TTCTTTTCTA
69025375 TT
1 TT
69025377 TTTGTTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.13
10 16 0.53
11 10 0.33
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTTCTA
Found at i:69025364 original size:11 final size:11
Alignment explanation
Indices: 69025338--69025373 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
69025328 TTAGGTTTTC
*
69025338 TTTTCTTTTC-
1 TTTTCTATTCT
69025348 TTTTCTATTCT
1 TTTTCTATTCT
69025359 TTTTCTATTCT
1 TTTTCTATTCT
69025370 TTTT
1 TTTT
69025374 ATTTTTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTATTCT
Found at i:69026120 original size:19 final size:20
Alignment explanation
Indices: 69026097--69026156 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
69026087 ACAAAAAATA
69026097 CAAAATAATTTTCAAAATTT
1 CAAAATAATTTTCAAAATTT
*
69026117 -AAAAT-ATTTATAAAAATTT
1 CAAAATAATTT-TCAAAATTT
69026136 CAAAATTTATATTTTCAAAAT
1 CAAAA--TA-ATTTTCAAAAT
69026157 AATTATAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 4 0.12
22 1 0.03
23 6 0.19
24 4 0.12
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
CAAAATAATTTTCAAAATTT
Found at i:69029714 original size:46 final size:46
Alignment explanation
Indices: 69029664--69029836 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
69029654 TGGTTGAGCA
*
69029664 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69029710 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
69029755 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
69029803 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
69029837 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69029820 original size:93 final size:93
Alignment explanation
Indices: 69029661--69029831 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
69029651 GGATGGTTGA
* *
69029661 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69029726 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
69029754 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69029819 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
69029832 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69036068 original size:33 final size:33
Alignment explanation
Indices: 69036021--69036086 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
69036011 TGACATCATT
69036021 ATTTATTTTAAGGCACACGGCCAAGGCACACAC
1 ATTTATTTTAAGGCACACGGCCAAGGCACACAC
* *
69036054 ATTTATTTTGAGGCACACGGTCAAGGCACACAC
1 ATTTATTTTAAGGCACACGGCCAAGGCACACAC
69036087 CCGTGTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (33 bp):
ATTTATTTTAAGGCACACGGCCAAGGCACACAC
Found at i:69038622 original size:80 final size:80
Alignment explanation
Indices: 69038538--69038686 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
69038528 TATGGTAACC
* * * *
69038538 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
69038602 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
69038618 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
69038683 CCGG
66 CCGG
69038687 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:69038628 original size:40 final size:38
Alignment explanation
Indices: 69038579--69038686 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
69038569 ATCACGATTT
*
69038579 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
69038619 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
69038659 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
69038687 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:69046737 original size:80 final size:80
Alignment explanation
Indices: 69046653--69046801 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
69046643 TATGGTAACC
* * * *
69046653 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
69046717 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
69046733 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
69046798 CCGG
66 CCGG
69046802 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:69046743 original size:40 final size:38
Alignment explanation
Indices: 69046694--69046801 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
69046684 ATCACGATTT
*
69046694 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
69046734 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
69046774 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
69046802 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:69053505 original size:46 final size:47
Alignment explanation
Indices: 69053363--69053678 Score: 229
Period size: 46 Copynumber: 6.7 Consensus size: 47
69053353 TTTGTGCGCC
* * * ** *
69053363 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
* ** *
69053409 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-AAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAGAGCT
*
69053457 AGTGTAAGACATGTCTGGGACATGTATCGGCCTCAAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
*
69053503 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT-G-TC-
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAGAGCT
** ** * *
69053547 AGTACAAGACTATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CTCAAGATGT-AGAGCT
* * * * * *
69053597 AGTGTAAGACCATGTCCGGGACATGGCATTGGCGTC--GATTTCGGTAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGT-AG-AGCT
69053646 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
69053679 ATTATACCCT
Statistics
Matches: 217, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 8 0.04
45 16 0.07
46 74 0.34
47 28 0.13
48 29 0.13
49 34 0.16
50 27 0.12
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
Found at i:69060547 original size:40 final size:40
Alignment explanation
Indices: 69060449--69060628 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
69060439 TCGAATGGTG
* * *
69060449 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
69060490 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
69060531 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
69060570 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
69060611 -CCGGGC-AATGTCCCGAAG
1 TCCGGGCTAA-GTCCCGAAG
69060629 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 7 0.06
40 78 0.66
41 33 0.28
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69060590 original size:80 final size:81
Alignment explanation
Indices: 69060451--69060600 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 81
69060441 GAATGGTGTC
* * *
69060451 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
69060516 TGCGAGTTACCAAAAT
66 TGCGAGTTACCAAAAT
* * *
69060532 CGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATT
69060595 GTGCGA
65 GTGCGA
69060601 ATCACTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
79 1 0.02
80 37 0.60
81 24 0.39
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAGTTACCAAAAT
Found at i:69060624 original size:80 final size:78
Alignment explanation
Indices: 69060450--69060668 Score: 213
Period size: 80 Copynumber: 2.7 Consensus size: 78
69060440 CGAATGGTGT
* * * * *
69060450 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGC-AAGTCCCGAAGGCATTCGTGC-GAGTCACTAAATCCGGGT-AATTCCCGAAGGCAATT
* *
69060515 GTGCGAGTTACCAAAA
63 GTGCGAATCACCAAAA
* * *
69060531 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTG
1 CCGGG-CAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGG-TAATTCCCGAAGGCAATTG
* *
69060596 TGCGAATCACTATAA
64 TGCGAATCACCAAAA
* * * * * * *
69060611 CCGGGCAATGTCCCGAAGACAATCGAGCGAGTCGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCAA-GTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGGTAATTCCCGAAGG
69060669 TACGTGATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
79 14 0.12
80 76 0.67
81 24 0.21
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (78 bp):
CCGGGCAAGTCCCGAAGGCATTCGTGCGAGTCACTAAATCCGGGTAATTCCCGAAGGCAATTGTG
CGAATCACCAAAA
Found at i:69060649 original size:40 final size:41
Alignment explanation
Indices: 69060450--69060654 Score: 138
Period size: 40 Copynumber: 5.1 Consensus size: 41
69060440 CGAATGGTGT
** * * *
69060450 CCGGGCTAA-GTCCCGAAGGCTTTTGTGCTAAGTGACTA-AA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGC-GAGTCACTATAA
* * * * *
69060490 TCCGGG-TCAAT-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * * *
69060531 TCGGGTTAA-GTCCCGAAGGCATTCGTGCGAGTTACTA-AA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* *
69060570 TCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * * *
69060611 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
69060651 CCGG
1 CCGG
69060655 TTAAATCCCG
Statistics
Matches: 136, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
39 5 0.04
40 102 0.75
41 29 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
Found at i:69065349 original size:40 final size:40
Alignment explanation
Indices: 69065296--69065534 Score: 388
Period size: 40 Copynumber: 6.0 Consensus size: 40
69065286 TTGAGAGTTA
*
69065296 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
69065336 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
69065376 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
69065416 TATATCCGGGCTAAGTCCTGAAGATCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
69065456 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
69065496 TATATCCGGGCTAGGTCCCGAAAAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
69065535 ATGTGCATTT
Statistics
Matches: 186, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 186 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:69065748 original size:25 final size:25
Alignment explanation
Indices: 69065698--69065748 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
69065688 TGTGTAACAA
* *
69065698 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
69065723 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
69065748 C
1 C
69065749 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:69068908 original size:48 final size:48
Alignment explanation
Indices: 69068843--69069315 Score: 865
Period size: 48 Copynumber: 9.9 Consensus size: 48
69068833 TATATATGTG
* * *
69068843 TGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
69068891 TGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
69068939 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
69068987 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
69069035 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
69069083 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
69069131 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
69069179 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
69069227 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
69069275 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
69069316 GTGTGTATAT
Statistics
Matches: 414, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 414 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:69069506 original size:37 final size:37
Alignment explanation
Indices: 69069456--69069558 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
69069446 GGAAATATAT
69069456 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
69069493 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
69069530 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
69069559 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:69070744 original size:49 final size:48
Alignment explanation
Indices: 69070664--69070764 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 48
69070654 GTTGAGTTTG
* * *
69070664 GAATTGAGTTAGTCCCTGATACGTCACCTATCTCGATTGCTCCGTATAA
1 GAATCGAGTTAGTCCCCGATACGTCACCTATCTCGATTACTCCGTAT-A
* * *
69070713 GAATCGAGTTAGTCCCCGGTACGTGAGCTATCTCGATTACTCCGTATA
1 GAATCGAGTTAGTCCCCGATACGTCACCTATCTCGATTACTCCGTATA
69070761 GAAT
1 GAAT
69070765 GGCTCCAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 5 0.11
49 41 0.89
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (48 bp):
GAATCGAGTTAGTCCCCGATACGTCACCTATCTCGATTACTCCGTATA
Found at i:69071428 original size:27 final size:27
Alignment explanation
Indices: 69071367--69071421 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
69071357 TGACGAGATC
69071367 AGAATTGACCCAAGTAAGAGCACAACT
1 AGAATTGACCCAAGTAAGAGCACAACT
*
69071394 AGAATTGACCCAAGTAAGATCACAACT
1 AGAATTGACCCAAGTAAGAGCACAACT
69071421 A
1 A
69071422 TTGTTGAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.16
Consensus pattern (27 bp):
AGAATTGACCCAAGTAAGAGCACAACT
Found at i:69083346 original size:53 final size:52
Alignment explanation
Indices: 69083251--69083354 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
69083241 CACTAAAGAC
* * *
69083251 GACCATATCATGTAAGACCGTAACTGGTAGGTCATGACATCATATGGGAAAAA
1 GACCATATCATGTAAGAACGTAACTAGTAGGTCATGAAATCATAT-GGAAAAA
* * *
69083304 GACCATATCGTGTAAGAACGTAGCTAGTGGGAT-ATGAAATCATATGGAAAA
1 GACCATATCATGTAAGAACGTAACTAGTAGG-TCATGAAATCATATGGAAAA
69083355 GTTTAAGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 6 0.14
53 37 0.84
54 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (52 bp):
GACCATATCATGTAAGAACGTAACTAGTAGGTCATGAAATCATATGGAAAAA
Found at i:69086688 original size:42 final size:41
Alignment explanation
Indices: 69086640--69086723 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
69086630 AATCGAGAGA
* * *
69086640 TTTACTACACTGTTCTTTATTCTACATCAAATCCAAGTTTAT
1 TTTACTACAATGTTCTTCATTCTACATAAAAT-CAAGTTTAT
69086682 TTTACTACAATGTTCTTCATTCTACATAAAATCAAGTTTAT
1 TTTACTACAATGTTCTTCATTCTACATAAAATCAAGTTTAT
69086723 T
1 T
69086724 CTAATCTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.26
42 29 0.74
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (41 bp):
TTTACTACAATGTTCTTCATTCTACATAAAATCAAGTTTAT
Found at i:69086726 original size:21 final size:21
Alignment explanation
Indices: 69086655--69086726 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
69086645 TACACTGTTC
*
69086655 TTTATTCTACATCAAATCCAAG
1 TTTATTCTACATAAAAT-CAAG
* * ****
69086677 TTTATTTTAC-TACAATGTTC
1 TTTATTCTACATAAAATCAAG
*
69086697 TTCATTCTACATAAAATCAAG
1 TTTATTCTACATAAAATCAAG
69086718 TTTATTCTA
1 TTTATTCTA
69086727 ATCTCTTTTC
Statistics
Matches: 34, Mismatches: 15, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 8 0.24
21 17 0.50
22 9 0.26
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (21 bp):
TTTATTCTACATAAAATCAAG
Found at i:69091391 original size:27 final size:28
Alignment explanation
Indices: 69091335--69091404 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
69091325 AAACTTGTAC
69091335 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
69091363 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69091390 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69091405 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69091415 original size:27 final size:27
Alignment explanation
Indices: 69091335--69091416 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
69091325 AAACTTGTAC
* *
69091335 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
69091363 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
69091390 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
69091417 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:69101704 original size:27 final size:28
Alignment explanation
Indices: 69101648--69101717 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
69101638 AAACTTGTAC
69101648 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
69101676 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69101703 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69101718 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69101728 original size:27 final size:27
Alignment explanation
Indices: 69101648--69101729 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
69101638 AAACTTGTAC
* *
69101648 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
69101676 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
69101703 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
69101730 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:69106582 original size:26 final size:25
Alignment explanation
Indices: 69106514--69106598 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 25
69106504 TGGTAATCAA
*
69106514 TAAAATGGAAGCCTTTATGCCATATC
1 TAAAATGGAAGCCTTTGTG-CATATC
**
69106540 TTGAAT-GAAGCCTTTGTAGCATATC
1 TAAAATGGAAGCCTTTGT-GCATATC
*
69106565 TAAAATGGAAGCCTTTGTGGCATATT
1 TAAAATGGAAGCCTTTGT-GCATATC
*
69106591 TCAAATGG
1 TAAAATGG
69106599 GCAACCTCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 20 0.41
26 29 0.59
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (25 bp):
TAAAATGGAAGCCTTTGTGCATATC
Found at i:69118614 original size:40 final size:40
Alignment explanation
Indices: 69118486--69118637 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
69118476 ATAATCACGT
* *
69118486 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAAC-CA
*** *
69118526 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATAACCA
* **
69118566 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACCA
* * * *
69118606 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
69118638 TATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACCA
Found at i:69121653 original size:79 final size:81
Alignment explanation
Indices: 69121552--69121736 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
69121542 ACGACTCGCT
** * * *
69121552 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGTACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
69121615 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
69121632 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
69121696 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
69121712 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69121737 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:69121666 original size:39 final size:40
Alignment explanation
Indices: 69121552--69121736 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
69121542 ACGACTCGCT
** * * *
69121552 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
69121592 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
69121632 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
69121671 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
69121712 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69121737 CATCATTCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:69127431 original size:39 final size:39
Alignment explanation
Indices: 69127377--69127500 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
69127367 TGTGAATGAA
69127377 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
69127416 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
69127455 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGTATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
69127495 TGTGCG
1 TGTGCG
69127501 GGTTACCATA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 64 0.80
40 16 0.20
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:69137836 original size:39 final size:39
Alignment explanation
Indices: 69137782--69137918 Score: 154
Period size: 39 Copynumber: 3.5 Consensus size: 39
69137772 GGATATAACG
* * *
69137782 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
69137822 ACTCGCAC-AATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* * * *
69137861 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
*
69137899 ACTCGCACGAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
69137919 ATCCTAGTCC
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
38 27 0.32
39 32 0.38
40 25 0.30
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:69137912 original size:38 final size:39
Alignment explanation
Indices: 69137782--69137971 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 39
69137772 GGATATAACG
* * *
69137782 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCAC-AATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
69137822 ACTCGCACAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
69137861 ACTTGCACAAATGCCTTCGGG-CTTAGCCC-GATTTATTA
1 ACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAGTA
* ** * *
69137899 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * * *
69137939 ACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAACCCGGA
69137972 CATCATTCGA
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
37 2 0.02
38 23 0.19
39 43 0.35
40 48 0.39
41 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:69137955 original size:78 final size:78
Alignment explanation
Indices: 69137789--69137969 Score: 188
Period size: 78 Copynumber: 2.3 Consensus size: 78
69137779 ACGACTCGCT
* ** * * * * *
69137789 CAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACAATGCCTTCGGGACTTAACCCGGG
1 CAAATGCCTTCAGGACTTAGCCCGATT-TATTAACTCGCACAATGCCTTCGGGACCTAACCCGGA
*
69137854 TTTAGTAACTTGCA
65 TATAGTAACTTGCA
* **
69137868 CAAATGCCTTC-GGGCTTAGCCCGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGTCCGG
1 CAAATGCCTTCAGGACTTAGCCCGATTTATTAACTCGCAC-AATGCCTTCGGGA-CCTAACCCGG
*
69137931 ATATAGTCACTTAGCA
64 ATATAGTAACTT-GCA
69137947 CAAA-GCCTTCAGGACTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCG
69137970 GACATCATTC
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
77 14 0.16
78 42 0.49
79 29 0.34
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCAGGACTTAGCCCGATTTATTAACTCGCACAATGCCTTCGGGACCTAACCCGGAT
ATAGTAACTTGCA
Found at i:69137971 original size:40 final size:38
Alignment explanation
Indices: 69137782--69137971 Score: 139
Period size: 39 Copynumber: 4.8 Consensus size: 38
69137772 GGATATAACG
* ** * *
69137782 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTC-GGACTTAGCCCGGATATAGTA
* * * *
69137822 ACTCGCACAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAAGCCTTC-GGACTTAGCCCGGATATAGTA
* * * *
69137861 ACTTGCACAAATGCCTTCGGGCTTAGCCC-GATTTATTA
1 ACTCGCACAAA-GCCTTCGGACTTAGCCCGGATATAGTA
* * * *
69137899 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGA-CTTAGCCCGGATATAGTA
*
69137939 ACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTC-GGACTTAGCCCGGA
69137972 CATCATTCGA
Statistics
Matches: 118, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
38 22 0.19
39 48 0.41
40 40 0.34
41 8 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
ACTCGCACAAAGCCTTCGGACTTAGCCCGGATATAGTA
Found at i:69148671 original size:24 final size:25
Alignment explanation
Indices: 69148639--69148691 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
69148629 TTGAAATTAA
*
69148639 AAAAGATATAGAATTCA-AAAAAT-T
1 AAAAGATATA-AATTAATAAAAATAT
*
69148663 AAAATATATAAATTAATAAAAATAT
1 AAAAGATATAAATTAATAAAAATAT
69148688 AAAA
1 AAAA
69148692 ATTCTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAAGATATAAATTAATAAAAATAT
Found at i:69151126 original size:30 final size:31
Alignment explanation
Indices: 69151076--69151135 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
69151066 ACCTCTTGAT
69151076 TAATATATAATACTTTATTTA-ATTTAAAAA
1 TAATATATAATACTTTATTTATATTTAAAAA
69151106 TAATGATA-AATA-TTTCATTTATATTTAAAA
1 TAAT-ATATAATACTTT-ATTTATATTTAAAA
69151136 TCACTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 3 0.11
30 13 0.48
31 11 0.41
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (31 bp):
TAATATATAATACTTTATTTATATTTAAAAA
Found at i:69152911 original size:13 final size:14
Alignment explanation
Indices: 69152895--69152936 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
69152885 TTTCAATTTT
69152895 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
69152908 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
69152923 ATTTTAAATAATAT
1 ATTTT-AATAATAT
69152937 TATTCTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:69152921 original size:16 final size:16
Alignment explanation
Indices: 69152899--69152935 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
69152889 AATTTTATTT
69152899 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
69152916 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
69152931 TAATA
1 TAATA
69152936 TTATTCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:69154056 original size:2 final size:2
Alignment explanation
Indices: 69154051--69154077 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
69154041 TTTTTTCTCG
69154051 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
69154078 GTAATAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69157552 original size:15 final size:15
Alignment explanation
Indices: 69157516--69157559 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
69157506 AATTAAAAGT
*
69157516 AATTAAATTATTAATA
1 AATTTAATT-TTAATA
69157532 AATTTATATTTTAAT-
1 AATTTA-ATTTTAATA
69157547 AATTTAATTTTAA
1 AATTTAATTTTAA
69157560 AATATTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 10 0.38
17 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTAATTTTAATA
Found at i:69158803 original size:24 final size:24
Alignment explanation
Indices: 69158704--69158804 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
69158694 AAGTCTGTCA
* *
69158704 GGAGAGGATTTAGGAGTTGATAAC
1 GGAGAGGATTTAGGAGCTGATAAG
* *
69158728 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
69158752 GGATAGAATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
69158776 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
69158800 GGAGA
1 GGAGA
69158805 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.34, C:0.03, G:0.39, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:69159786 original size:8 final size:8
Alignment explanation
Indices: 69159773--69159803 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
69159763 ATAGGCAAAA
69159773 GCCGAAAT
1 GCCGAAAT
69159781 GCCGAAAT
1 GCCGAAAT
69159789 GCCGAAAT
1 GCCGAAAT
69159797 GCCGAAA
1 GCCGAAA
69159804 AGTCGGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:69160327 original size:27 final size:27
Alignment explanation
Indices: 69160226--69160337 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 27
69160216 AGGAAGCGTC
* * * *
69160226 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACGATTATCTGTT
* *
69160253 CTGGTGGA-TCTACCA-TATATATCTGTT
1 CTGGT-GACTCTGCCACGAT-TATCTGTT
*
69160280 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCACGATTATCTGT-T
* *
69160308 CTGGTGACTCTGTCAC-ATTATCTATT
1 CTGGTGACTCTGCCACGATTATCTGTT
69160334 CTGG
1 CTGG
69160338 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
26 8 0.12
27 43 0.62
28 18 0.26
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGACTCTGCCACGATTATCTGTT
Found at i:69160330 original size:54 final size:54
Alignment explanation
Indices: 69160226--69160337 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
69160216 AGGAAGCGTC
* *
69160226 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCATATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACATATATCTATT
* * **
69160280 CTGGTGGCTCTGCCACGATTATCTGTATCTGGT-GACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGA-TCTACCACATATATCTATT
69160334 CTGG
1 CTGG
69160338 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 36 0.72
55 14 0.28
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACATATATCTATT
Found at i:69162013 original size:41 final size:40
Alignment explanation
Indices: 69161880--69162103 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
69161870 AACCCAAGTA
* * * *
69161880 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
69161919 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69161959 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
69162000 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
69162040 CCTTCGGGACTTAACCCAGATACAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
69162081 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69162104 CATCCGAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
39 11 0.07
40 89 0.56
41 58 0.37
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:69162015 original size:81 final size:80
Alignment explanation
Indices: 69161880--69162103 Score: 281
Period size: 81 Copynumber: 2.8 Consensus size: 80
69161870 AACCCAAGTA
* * * * * * *
69161880 CCTTCGGGATTTAACCGGATATAG-CAAATCGCAC-AAATGCCTTCAGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTACCCGGATATAGTC-ACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
*
69161943 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
*
69161959 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTA-CCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
* *
69162024 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
* * *
69162040 CCTTCGGGACTTAACCCAGATACAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTT-ACCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATAT
69162104 CATCCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.09
80 16 0.13
81 98 0.77
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTACCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:69162104 original size:81 final size:80
Alignment explanation
Indices: 69161910--69162104 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 80
69161900 ATAGCAAATC
* * * * * *
69161910 GCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGGGACTTAACC
* *
69161975 CGGATATAGTCACTA
66 CAGATACAGTCACTA
* *
69161990 GCACAAAATGCCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATGCCTTCGGGACTTAAC
1 GCAC-AAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGGGACTTAAC
69162055 CCAGATACAGTCACTA
65 CCAGATACAGTCACTA
69162071 GCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 GCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
69162105 ATCCGAATAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 7 0.07
81 96 0.93
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGGGACTTAACC
CAGATACAGTCACTA
Found at i:69166809 original size:29 final size:27
Alignment explanation
Indices: 69166775--69166877 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
69166765 TACTCAATCA
*
69166775 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
69166804 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
69166833 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
69166862 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
69166878 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:69173984 original size:29 final size:28
Alignment explanation
Indices: 69173952--69174054 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
69173942 GTGACGAGAT
* *
69173952 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
69173981 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
69174010 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
69174039 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69174055 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:69175916 original size:29 final size:27
Alignment explanation
Indices: 69175882--69175984 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
69175872 TACTCAATCA
*
69175882 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
69175911 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
69175940 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
69175969 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
69175985 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:69182210 original size:40 final size:40
Alignment explanation
Indices: 69182156--69182270 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
69182146 GGATTTAACC
* *
69182156 ATATAGCAAATCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
69182196 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
69182236 ATATAGTCACTAGCACAAAATGCCTTCGGGTCTTA
1 ATATAGTAACTCGCAC-AAATGCCTTCGGGACTTA
69182271 ATATCGTCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 52 0.75
41 17 0.25
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
Found at i:69198920 original size:28 final size:28
Alignment explanation
Indices: 69198859--69198956 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69198849 TCACAAATTG
** * *
69198859 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69198888 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69198916 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69198944 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69198957 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69206587 original size:28 final size:28
Alignment explanation
Indices: 69206526--69206623 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69206516 TCACAAATTG
** * *
69206526 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69206555 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69206583 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69206611 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69206624 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69208163 original size:28 final size:28
Alignment explanation
Indices: 69208098--69208198 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
69208088 ATAGTGAATC
*
69208098 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
69208127 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
69208155 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
69208185 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69208199 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:69216085 original size:28 final size:28
Alignment explanation
Indices: 69216020--69216120 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
69216010 ATAGTGAATC
*
69216020 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
69216049 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
69216077 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
69216107 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69216121 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.