Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 31 of 193
Found at i:9793504 original size:101 final size:101
Alignment explanation
Indices: 9793329--9793531 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
9793319 TTGGTCACTA
9793329 GGTATCGAGACTCAACCCTAAGTATTGACACTAGTACTCCAAGTCTCGAGACTTACTCTTCTGCT
1 GGTATCGAGACTCAACCCTAAGTATTGACACTAGTACTCCAAGTCTCGAGACTTACTCTTCTGCT
9793394 TTGATATTTTGGGCCCTAATTGTCACTTTAAAGCCT
66 TTGATATTTTGGGCCCTAATTGTCACTTTAAAGCCT
9793430 GGTATCGAGACTCAACCCTAAGTATTGACACTAGTACTCCAAGTCTCGAGACTTACTCTTCTGCT
1 GGTATCGAGACTCAACCCTAAGTATTGACACTAGTACTCCAAGTCTCGAGACTTACTCTTCTGCT
9793495 TTGATATTTTGGGCCCTAATTGTCACTTTAAAGCCT
66 TTGATATTTTGGGCCCTAATTGTCACTTTAAAGCCT
9793531 G
1 G
9793532 TTTAAGATTG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
GGTATCGAGACTCAACCCTAAGTATTGACACTAGTACTCCAAGTCTCGAGACTTACTCTTCTGCT
TTGATATTTTGGGCCCTAATTGTCACTTTAAAGCCT
Found at i:9796340 original size:35 final size:35
Alignment explanation
Indices: 9796274--9796343 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
9796264 TCGCCTCCCT
* *
9796274 TAAATTTTTTTTTTAACTTCGCCCCTATAGTCACC
1 TAAATTTTTTTTCTAACTTCACCCCTATAGTCACC
* * *
9796309 TAAATTTTTTTTCTAACTTTACCCTTGTAGTCACC
1 TAAATTTTTTTTCTAACTTCACCCCTATAGTCACC
9796344 AATAATCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.23, C:0.24, G:0.06, T:0.47
Consensus pattern (35 bp):
TAAATTTTTTTTCTAACTTCACCCCTATAGTCACC
Found at i:9801803 original size:12 final size:12
Alignment explanation
Indices: 9801782--9801820 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9801772 ATTTATTTGA
* *
9801782 TTTCGATTTCGT
1 TTTCGTTTTCAT
9801794 TTTCGTTTTCAT
1 TTTCGTTTTCAT
*
9801806 TTTCATTTTCAT
1 TTTCGTTTTCAT
9801818 TTT
1 TTT
9801821 AAACACGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.08, T:0.67
Consensus pattern (12 bp):
TTTCGTTTTCAT
Found at i:9812604 original size:30 final size:31
Alignment explanation
Indices: 9812566--9812802 Score: 195
Period size: 30 Copynumber: 7.8 Consensus size: 31
9812556 AAAAGGTCTC
*
9812566 CGAACTTCTCAAAAATCACATTTCGACCCCT
1 CGAACTTCTCAAAAATCACATTTTGACCCCT
* * **
9812597 -AAACTTCTCAAAAATCATATTTTG-GTCCT
1 CGAACTTCTCAAAAATCACATTTTGACCCCT
* *
9812626 CGAACTTCTCAAAAATTACATTTT-AACCCT
1 CGAACTTCTCAAAAATCACATTTTGACCCCT
* * *
9812656 CGAACTTGTCCAAAAAATAACATTTT-AACCC-
1 CGAACTTCT-C-AAAAATCACATTTTGACCCCT
* *
9812687 CGAACTTGTCCAAAAATCACATTTTGACTCC-
1 CGAACTTCT-CAAAAATCACATTTTGACCCCT
* * * * *
9812718 CGAA-TTGTTCCATAATCACA-TTTCAACCCT
1 CGAACTT-CTCAAAAATCACATTTTGACCCCT
* * *
9812748 CGAACTTCTTAAAAATTATATTTTGA-CCCT
1 CGAACTTCTCAAAAATCACATTTTGACCCCT
9812778 CGAACTTCTCAAAAATCACATTTTG
1 CGAACTTCTCAAAAATCACATTTTG
9812803 GCCTCCGTTT
Statistics
Matches: 166, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
29 9 0.05
30 113 0.68
31 26 0.16
32 18 0.11
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.32
Consensus pattern (31 bp):
CGAACTTCTCAAAAATCACATTTTGACCCCT
Found at i:9821141 original size:38 final size:38
Alignment explanation
Indices: 9821092--9821229 Score: 120
Period size: 38 Copynumber: 3.6 Consensus size: 38
9821082 TTGAAAATTT
*
9821092 CGATCTCTTACCCCGAACCTGGGCAGATTGTAGCCATC
1 CGATCTCTTACCCCGAGCCTGGGCAGATTGTAGCCATC
* * *
9821130 CGATCTTTTACCTCGAGCCTGGGGCAGA-T-CA-CCATCAAC
1 CGATCTCTTACCCCGAGCCT-GGGCAGATTGTAGCCAT---C
* * * * *
9821169 CAATCTCTTACCCCGAGCCTAGGTAAATTGTAGCCCTC
1 CGATCTCTTACCCCGAGCCTGGGCAGATTGTAGCCATC
* *
9821207 CGATCTTTTACCTCGAGCCTGGG
1 CGATCTCTTACCCCGAGCCTGGG
9821230 GTAGATCACC
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
36 4 0.05
37 1 0.01
38 42 0.55
39 26 0.34
40 1 0.01
41 3 0.04
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.25
Consensus pattern (38 bp):
CGATCTCTTACCCCGAGCCTGGGCAGATTGTAGCCATC
Found at i:9821180 original size:39 final size:39
Alignment explanation
Indices: 9821132--9821547 Score: 209
Period size: 39 Copynumber: 10.7 Consensus size: 39
9821122 TAGCCATCCG
* * *
9821132 ATCTTTTACCTCGAGCCTGGGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
9821171 ATCTCTTACCCCGAGCCT-AGGTAAATTGTAGCC--C-TCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* * * * *
9821209 ATCTTTTACCTCGAGCCTGGGGTAGATCACCATCAACCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
9821248 ATCTTTTACCCCGAGCTTAGGGTAGACCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * ** * * *
9821287 ATCTCTTACCCTGAGCTTAGGGCAGAT-TGCAGTGATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
** ** * *
9821326 ATCTCTTACCTTGAGCCTGAAGCAAATCACCATCAGTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * **
9821365 ATCTCTTACCCCGAGCCTAGGGAAGAT-TGCAGTC-GTCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAG-CCA
* *
9821404 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * * ** *
9821443 ATCTCTTACCCCGAACCTGAGACAGATTACAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * *
9821482 ATCTTTTACGCCGATG-ATAGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGA-GCCTGGGGCAGATCACCATCAGCCA
* * *
9821521 ATCTCTTATCCCGAGCCAGAGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
9821548 TGCAACCATC
Statistics
Matches: 273, Mismatches: 89, Indels: 30
0.70 0.23 0.08
Matches are distributed among these distances:
36 2 0.01
37 1 0.00
38 30 0.11
39 232 0.85
40 6 0.02
41 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:9821262 original size:77 final size:77
Alignment explanation
Indices: 9821092--9821268 Score: 273
Period size: 77 Copynumber: 2.3 Consensus size: 77
9821082 TTGAAAATTT
* * *
9821092 CGATCTCTTACCCCGAACCTGGGCAGATTGTAGCCATCCGATCTTTTACCTCGAGCCTGGGGCAG
1 CGATCTCTTACCCCGAGCCTAGGCAAATTGTAGCCATCCGATCTTTTACCTCGAGCCTGGGGCAG
9821157 ATCACCATCAAC
66 ATCACCATCAAC
* * * *
9821169 CAATCTCTTACCCCGAGCCTAGGTAAATTGTAGCCCTCCGATCTTTTACCTCGAGCCTGGGGTAG
1 CGATCTCTTACCCCGAGCCTAGGCAAATTGTAGCCATCCGATCTTTTACCTCGAGCCTGGGGCAG
9821234 ATCACCATCAAC
66 ATCACCATCAAC
* *
9821246 CGATCTTTTACCCCGAGCTTAGG
1 CGATCTCTTACCCCGAGCCTAGG
9821269 GTAGACCATC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (77 bp):
CGATCTCTTACCCCGAGCCTAGGCAAATTGTAGCCATCCGATCTTTTACCTCGAGCCTGGGGCAG
ATCACCATCAAC
Found at i:9821335 original size:78 final size:77
Alignment explanation
Indices: 9821245--9821551 Score: 278
Period size: 78 Copynumber: 3.9 Consensus size: 77
9821235 TCACCATCAA
* * * * * * *
9821245 CCGATCTTTTACCCCGAGCTTAGGGTAGACCATCATCAGCCAATCTCTTACCCTGAGCTTAGGGC
1 CCGATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGA
9821310 AGATTGCAGT-GAT
65 AGATTGCAGTCG-T
** * * * *
9821323 CCGATCTCTTACCTTGAGCCTGAAGCAAATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGA
1 CCGATCTCTTACCCCGAGCTTG-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGA
9821388 AGATTGCAGTCGT
65 AGATTGCAGTCGT
* * * *
9821401 CCAATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCTAATCTCTTACCCCGAACCT-GAGA
1 CCGATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGA
* ** *
9821465 CAGATTACAACCAT
65 -AGATTGCAGTCGT
* * * * * *
9821479 TCGATCTTTTACGCCGATGATAGGGCAGATCACCATCAGCCAATCTCTTATCCCGAGCC-AGAGG
1 CCGATCTCTTACCCCGA-GCTTGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAG-GG
*
9821543 CAGATTGCA
64 AAGATTGCA
9821552 ACCATCTAAT
Statistics
Matches: 183, Mismatches: 39, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
77 4 0.02
78 174 0.95
79 5 0.03
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (77 bp):
CCGATCTCTTACCCCGAGCTTGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAA
GATTGCAGTCGT
Found at i:9821374 original size:117 final size:117
Alignment explanation
Indices: 9821168--9821430 Score: 273
Period size: 117 Copynumber: 2.3 Consensus size: 117
9821158 TCACCATCAA
* * * * *** * ** *
9821168 CCAATCTCTTACCCCGAGCCTA-GGTAAATTGTAGCCCTCCGATCTTTTACCTCGAGCCTGGGGT
1 CCAATCTCTTACCCCGAGCTTAGGGCAGATTGCAGTGATCCGATCTCTTACCTCGAGCCTGAAGC
* * * * *
9821232 AGATCACCATCAACCGATCTTTTACCCCGAGCTTAGGGTAGACCAT-CA-TCAG-
66 AAATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGAAGA--ATGCAGTC-GT
* *
9821284 CCAATCTCTTACCCTGAGCTTAGGGCAGATTGCAGTGATCCGATCTCTTACCTTGAGCCTGAAGC
1 CCAATCTCTTACCCCGAGCTTAGGGCAGATTGCAGTGATCCGATCTCTTACCTCGAGCCTGAAGC
** *
9821349 AAATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGAAGATTGCAGTCGT
66 AAATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGAAGAATGCAGTCGT
*
9821401 CCAATCTCTTACCCCGAGCTTGGGGCAGAT
1 CCAATCTCTTACCCCGAGCTTAGGGCAGAT
9821431 CACCATCAGC
Statistics
Matches: 120, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
115 1 0.01
116 23 0.19
117 96 0.80
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (117 bp):
CCAATCTCTTACCCCGAGCTTAGGGCAGATTGCAGTGATCCGATCTCTTACCTCGAGCCTGAAGC
AAATCACCATCAACCAATCTCTTACCCCGAGCCTAGGGAAGAATGCAGTCGT
Found at i:9822026 original size:18 final size:18
Alignment explanation
Indices: 9821997--9822048 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
9821987 TAAGACAAGT
9821997 TTTAAA-TTTAAATTTAC
1 TTTAAATTTTAAATTTAC
9822014 TTTAAATTTTAAATTTAC
1 TTTAAATTTTAAATTTAC
** *
9822032 AATACATTTTAAATTTA
1 TTTAAATTTTAAATTTA
9822049 AAAGTCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAATTTTAAATTTAC
Found at i:9822050 original size:24 final size:24
Alignment explanation
Indices: 9821996--9822047 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9821986 ATAAGACAAG
**
9821996 TTTTAAATTTAAATTTACTTTAAA
1 TTTTAAATTTAAATACACTTTAAA
*
9822020 TTTTAAATTTACAATACATTTTAAA
1 TTTTAAATTTA-AATACACTTTAAA
9822045 TTT
1 TTT
9822048 AAAAGTCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAAATTTAAATACACTTTAAA
Found at i:9823919 original size:30 final size:30
Alignment explanation
Indices: 9823858--9824161 Score: 186
Period size: 30 Copynumber: 10.2 Consensus size: 30
9823848 GTCCCCAAAA
** *
9823858 TTCTCAAAAATCATATTTCAACCC-CTAAAC
1 TTCTCAAAAATCATATTTTGACCCTC-GAAC
* **
9823888 TTCTTAAAAATCATATTTTGGTCCTCGAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
* * * *
9823918 TTCTCAAAAATTACATTTTAACCCTCAAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
*
9823948 TTGTCCAAAAATCATATTTTGACCCTCGAAC
1 TTCT-CAAAAATCATATTTTGACCCTCGAAC
* * * ** * **
9823979 TTTTCCATAATCGCATTTCGACCCTTAAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
* * * **
9824009 TTCTCAAAATTTACATTTTGACCCTTAAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
* * * * * *
9824039 TTTTCCAAAATCACATTTTAAGCCTCAAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
* * * *
9824069 TTTTCAAAAATAACATTTTGGCCC-CTGAAC
1 TTCTCAAAAATCATATTTTGACCCTC-GAAC
** *
9824099 TTCTCAAAAATCGCATTTTGACCCTCAAAC
1 TTCTCAAAAATCATATTTTGACCCTCGAAC
* *
9824129 TT-TCCAAAAATCACATTTT-AACCTCGAA-
1 TTCT-CAAAAATCATATTTTGACCCTCGAAC
9824157 TTCTC
1 TTCTC
9824162 CGAAACTTCA
Statistics
Matches: 214, Mismatches: 54, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
28 3 0.01
29 10 0.05
30 174 0.81
31 27 0.13
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (30 bp):
TTCTCAAAAATCATATTTTGACCCTCGAAC
Found at i:9823941 original size:60 final size:60
Alignment explanation
Indices: 9823858--9824161 Score: 267
Period size: 60 Copynumber: 5.1 Consensus size: 60
9823848 GTCCCCAAAA
* * * **
9823858 TTCTCAAAAATCATATTTCAACCC-CTAAACTTCTTAAAAATCATATTTTGGTCCTCGAAC
1 TTCTCAAAAATCACATTTCAACCCTC-AAACTTCTCAAAAATCACATTTTGACCCTCGAAC
* * * *
9823918 TTCTCAAAAATTACATTTTAACCCTCAAACTTGTCCAAAAATCATATTTTGACCCTCGAAC
1 TTCTCAAAAATCACATTTCAACCCTCAAACTTCT-CAAAAATCACATTTTGACCCTCGAAC
* * * * * * * * **
9823979 TTTTCCATAATCGCATTTCGACCCTTAAACTTCTCAAAATTTACATTTTGACCCTTAAAC
1 TTCTCAAAAATCACATTTCAACCCTCAAACTTCTCAAAAATCACATTTTGACCCTCGAAC
* * * * * * *
9824039 TTTTCCAAAATCACATTTTAAGCCTCAAACTTTTCAAAAATAACATTTTGGCCC-CTGAAC
1 TTCTCAAAAATCACATTTCAACCCTCAAACTTCTCAAAAATCACATTTTGACCCTC-GAAC
* ** *
9824099 TTCTCAAAAATCGCATTTTGACCCTCAAACTT-TCCAAAAATCACATTTT-AACCTCGAA-
1 TTCTCAAAAATCACATTTCAACCCTCAAACTTCT-CAAAAATCACATTTTGACCCTCGAAC
9824157 TTCTC
1 TTCTC
9824162 CGAAACTTCA
Statistics
Matches: 198, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
58 5 0.03
59 6 0.03
60 138 0.70
61 49 0.25
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (60 bp):
TTCTCAAAAATCACATTTCAACCCTCAAACTTCTCAAAAATCACATTTTGACCCTCGAAC
Found at i:9824100 original size:90 final size:90
Alignment explanation
Indices: 9823862--9824153 Score: 313
Period size: 90 Copynumber: 3.2 Consensus size: 90
9823852 CCAAAATTCT
* * * * *
9823862 CAAAAATCATATTTCAACCCCTAAACTTCTT-AAAAATCATATTTTGG-TCCTCGAACTTCTCAA
1 CAAAAATCACATTTTAACCTC-AAACTT-TTCAAAAATCACATTTTGGCCCCT-GAACTTCTCAA
* *
9823925 AAATTACATTTTAACCCTCAAACTTGTC
63 AAATTACATTTTGACCCTCAAACTTTTC
* * * * * * * * * *
9823953 CAAAAATCATATTTTGACCCTCGAACTTTTCCATAATCGCATTTCGACCCTTAAACTTCTCAAAA
1 CAAAAATCACATTTT-AACCTCAAACTTTTCAAAAATCACATTTTGGCCCCTGAACTTCTCAAAA
* *
9824018 TTTACATTTTGACCCTTAAACTTTTC
65 ATTACATTTTGACCCTCAAACTTTTC
*
9824044 C-AAAATCACATTTTAAGCCTCAAACTTTTCAAAAATAACATTTTGGCCCCTGAACTTCTCAAAA
1 CAAAAATCACATTTTAA-CCTCAAACTTTTCAAAAATCACATTTTGGCCCCTGAACTTCTCAAAA
**
9824108 ATCGCATTTTGACCCTCAAAC-TTTC
65 ATTACATTTTGACCCTCAAACTTTTC
9824133 CAAAAATCACATTTTAACCTC
1 CAAAAATCACATTTTAACCTC
9824154 GAATTCTCCG
Statistics
Matches: 164, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
89 10 0.06
90 84 0.51
91 64 0.39
92 6 0.04
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (90 bp):
CAAAAATCACATTTTAACCTCAAACTTTTCAAAAATCACATTTTGGCCCCTGAACTTCTCAAAAA
TTACATTTTGACCCTCAAACTTTTC
Found at i:9826007 original size:14 final size:14
Alignment explanation
Indices: 9825988--9826018 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9825978 TAGTTTCTAA
*
9825988 ATACACACCTACAT
1 ATACACACATACAT
9826002 ATACACACATACAT
1 ATACACACATACAT
9826016 ATA
1 ATA
9826019 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (14 bp):
ATACACACATACAT
Found at i:9831479 original size:25 final size:25
Alignment explanation
Indices: 9831445--9831498 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
9831435 ATTACTGGAG
*
9831445 GTTGTTAGCTATTTTCTTGATTC-TA
1 GTTGTTAGCTACTTTCTT-ATTCTTA
*
9831470 GTTGTTAGCTGCTTTCTTATTCTTA
1 GTTGTTAGCTACTTTCTTATTCTTA
9831495 GTTG
1 GTTG
9831499 AATAGGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.56
Consensus pattern (25 bp):
GTTGTTAGCTACTTTCTTATTCTTA
Found at i:9835740 original size:24 final size:26
Alignment explanation
Indices: 9835694--9835747 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
9835684 GTTACTGGAG
*
9835694 GTTGTTAGCTATTTTCCTGATTC-TA
1 GTTGTTAGCTATCTTCCTGATTCTTA
*
9835719 GTTGTTAGCTA-CTTCCTTATTCTTA
1 GTTGTTAGCTATCTTCCTGATTCTTA
9835744 GTTG
1 GTTG
9835748 AGTAGTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.52
Consensus pattern (26 bp):
GTTGTTAGCTATCTTCCTGATTCTTA
Found at i:9838487 original size:16 final size:16
Alignment explanation
Indices: 9838466--9838496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9838456 TCATTCCAAA
9838466 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
9838482 CATATATATTTGAAA
1 CATATAAATTTGAAA
9838497 ACTTCTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:9838615 original size:9 final size:10
Alignment explanation
Indices: 9838591--9838628 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
9838581 CATAATTATT
*
9838591 ATTTTAAAAT
1 ATTTTAAAAA
*
9838601 TTTTTAAAAA
1 ATTTTAAAAA
9838611 A-TTTAAAAA
1 ATTTTAAAAA
9838620 ATTTTAAAA
1 ATTTTAAAA
9838629 TATTCTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:9838716 original size:18 final size:19
Alignment explanation
Indices: 9838668--9838716 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9838658 AAGATATATA
*
9838668 ATTTTGATTTTTCATAAAT
1 ATTTTGATTTTTCAAAAAT
*
9838687 ATTTTGAATTTT-AAAAATT
1 ATTTTGATTTTTCAAAAA-T
9838706 ATTTT-ATTTTT
1 ATTTTGATTTTT
9838717 TTGTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTTGATTTTTCAAAAAT
Found at i:9844626 original size:21 final size:21
Alignment explanation
Indices: 9844602--9844643 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9844592 AATCATGAAT
9844602 TTTCAAGCCTAATTTCTTATG
1 TTTCAAGCCTAATTTCTTATG
*
9844623 TTTCAATCCTAATTTCTTATG
1 TTTCAAGCCTAATTTCTTATG
9844644 ACTCAACATG
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:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTCAAGCCTAATTTCTTATG
Found at i:9844649 original size:21 final size:21
Alignment explanation
Indices: 9844604--9844649 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9844594 TCATGAATTT
**
9844604 TCAAGCCTAATTTCTTATGTT
1 TCAAGCCTAATTTCTTATGAC
*
9844625 TCAATCCTAATTTCTTATGAC
1 TCAAGCCTAATTTCTTATGAC
9844646 TCAA
1 TCAA
9844650 CATGATACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (21 bp):
TCAAGCCTAATTTCTTATGAC
Found at i:9848378 original size:19 final size:19
Alignment explanation
Indices: 9848354--9848397 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9848344 GCCTCAGTAT
*
9848354 GTCTATTAATTTAGATACA
1 GTCTATTAATTTAGACACA
*
9848373 GTCTATTAATTTTGACACA
1 GTCTATTAATTTAGACACA
9848392 GTCTAT
1 GTCTAT
9848398 GTTGGTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (19 bp):
GTCTATTAATTTAGACACA
Found at i:9852187 original size:121 final size:121
Alignment explanation
Indices: 9852055--9852296 Score: 484
Period size: 121 Copynumber: 2.0 Consensus size: 121
9852045 TACTTTCATT
9852055 TTTTATTTTTTTCAAACATGGCATTTTGAAAATTTAAGTTTATTATATGTAGTTTTCTTTTTCTT
1 TTTTATTTTTTTCAAACATGGCATTTTGAAAATTTAAGTTTATTATATGTAGTTTTCTTTTTCTT
9852120 TTTTAAATGGTAAGTGTATTATATACAGTTGAATGACAAGATTGATTCATAAATTG
66 TTTTAAATGGTAAGTGTATTATATACAGTTGAATGACAAGATTGATTCATAAATTG
9852176 TTTTATTTTTTTCAAACATGGCATTTTGAAAATTTAAGTTTATTATATGTAGTTTTCTTTTTCTT
1 TTTTATTTTTTTCAAACATGGCATTTTGAAAATTTAAGTTTATTATATGTAGTTTTCTTTTTCTT
9852241 TTTTAAATGGTAAGTGTATTATATACAGTTGAATGACAAGATTGATTCATAAATTG
66 TTTTAAATGGTAAGTGTATTATATACAGTTGAATGACAAGATTGATTCATAAATTG
9852297 AATACATCAT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.50
Consensus pattern (121 bp):
TTTTATTTTTTTCAAACATGGCATTTTGAAAATTTAAGTTTATTATATGTAGTTTTCTTTTTCTT
TTTTAAATGGTAAGTGTATTATATACAGTTGAATGACAAGATTGATTCATAAATTG
Found at i:9855574 original size:20 final size:20
Alignment explanation
Indices: 9855532--9855588 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
9855522 ACATCAGCAT
* ** *
9855532 GCATCGAGCAACATTAGGAA
1 GCATCGAGCAATACCAGGGA
* *
9855552 GCATTGAGCAGTACCAGGGA
1 GCATCGAGCAATACCAGGGA
9855572 GCATCGAGCAATACCAG
1 GCATCGAGCAATACCAG
9855589 ACATGGTCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.28, T:0.14
Consensus pattern (20 bp):
GCATCGAGCAATACCAGGGA
Found at i:9860106 original size:20 final size:20
Alignment explanation
Indices: 9860083--9860125 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9860073 CGATTAACAT
*
9860083 CAGGAAGCATCAAGCAGTAC
1 CAGGAAGCATCAAGCAATAC
* *
9860103 CAGGGAGCATCGAGCAATAC
1 CAGGAAGCATCAAGCAATAC
9860123 CAG
1 CAG
9860126 ACATGGTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.28, T:0.09
Consensus pattern (20 bp):
CAGGAAGCATCAAGCAATAC
Found at i:9861677 original size:17 final size:17
Alignment explanation
Indices: 9861655--9861690 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9861645 TCCTTTTTCT
* *
9861655 CTTCTCTCTCTACTTCC
1 CTTCTCTATCTACATCC
9861672 CTTCTCTATCTACATCC
1 CTTCTCTATCTACATCC
9861689 CT
1 CT
9861691 GGTAATGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44
Consensus pattern (17 bp):
CTTCTCTATCTACATCC
Found at i:9867252 original size:17 final size:17
Alignment explanation
Indices: 9867230--9867263 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9867220 GGTCAAAATG
9867230 TAATTT-TAATATTTTAT
1 TAATTTATAAT-TTTTAT
9867247 TAATTTATAATTTTTAT
1 TAATTTATAATTTTTAT
9867264 ATTTTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTTATAATTTTTAT
Found at i:9874943 original size:4 final size:4
Alignment explanation
Indices: 9874934--9875066 Score: 71
Period size: 4 Copynumber: 34.0 Consensus size: 4
9874924 AGCACCAGAG
* * * *
9874934 AAGA AAGA AAGAA AAGA AAGA AAGA AAGA ATG- ACGA AAG- AAGC AGGA
1 AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* * * * * *
9874981 AA-A AGGA GAGGA AATA AAGA AAAA AAGA AAGA AAGA AAG- AAGG ACGA
1 AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* * * *
9875028 ATG- AAGA ATGA GAGGA AAGA AAG- AAGA AAGA GAGA AAGA
1 AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA
9875067 CAGTAATTTG
Statistics
Matches: 99, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
3 15 0.15
4 73 0.74
5 11 0.11
ACGTcount: A:0.65, C:0.02, G:0.29, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:9875295 original size:31 final size:30
Alignment explanation
Indices: 9875253--9875320 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
9875243 TTTATTAGTA
*
9875253 ATTTAAAGTTA-TATTTTGTTTAGTATTTATT
1 ATTTTAAGTTATTATTTTGTTTA--ATTTATT
*
9875284 ATTTTAAGTTATTTGTTTTGTTTAATTTATT
1 ATTTTAAGTTA-TTATTTTGTTTAATTTATT
9875315 -TTTTAA
1 ATTTTAA
9875321 TTGATTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 6 0.18
31 17 0.52
33 10 0.30
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (30 bp):
ATTTTAAGTTATTATTTTGTTTAATTTATT
Found at i:9875328 original size:30 final size:32
Alignment explanation
Indices: 9875266--9875330 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
9875256 TAAAGTTATA
9875266 TTTTGTTTAGTATTTATTATTTTAAGTTATTTG
1 TTTTGTTTAG-ATTTATTATTTTAAGTTATTTG
9875299 TTTTGTTTA-ATTTATT-TTTTAA-TTGATTTG
1 TTTTGTTTAGATTTATTATTTTAAGTT-ATTTG
9875329 TT
1 TT
9875331 ATCTAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.06
30 13 0.42
31 7 0.23
33 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (32 bp):
TTTTGTTTAGATTTATTATTTTAAGTTATTTG
Found at i:9878050 original size:6 final size:5
Alignment explanation
Indices: 9878006--9878047 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
9877996 ACTTACTAAC
*
9878006 AAAAT AAAAT AAAAT AAAAT AAATT AAAATT AAAATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA-T AAAAT
9878048 TAATCAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
AAAAT
Found at i:9878153 original size:30 final size:32
Alignment explanation
Indices: 9878109--9878173 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
9878099 AACATTAAAT
*
9878109 AACAAATCAATTAAAA-ATTAAAT-TAAACAA
1 AACAAATCAATTAAAATAATAAATATAAACAA
9878139 AACAAA-CAACTTAAAATAATAAATACTAAACAA
1 AACAAATCAA-TTAAAATAATAAATA-TAAACAA
9878172 AA
1 AA
9878174 TATAACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.10
30 12 0.40
31 6 0.20
33 9 0.30
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (32 bp):
AACAAATCAATTAAAATAATAAATATAAACAA
Found at i:9878394 original size:4 final size:4
Alignment explanation
Indices: 9878385--9878441 Score: 55
Period size: 4 Copynumber: 14.5 Consensus size: 4
9878375 TTTCTCTCCC
* * * *
9878385 TTCT TTCT TTCCT CTCT TTC- TTCC TTCT TTCT TTCT TTCT TTTT TTAT
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
9878433 TTC- TTCT TT
1 TTCT TTCT TT
9878442 GGTGCCTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 6 0.14
4 35 0.80
5 3 0.07
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:9878402 original size:13 final size:12
Alignment explanation
Indices: 9878383--9878426 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
9878373 CATTTCTCTC
9878383 CCTTCTTTCTTT
1 CCTTCTTTCTTT
9878395 CCTCTCTTTC-TT
1 CCT-TCTTTCTTT
9878407 CCTTCTTTCTTT
1 CCTTCTTTCTTT
*
9878419 CTTTCTTT
1 CCTTCTTT
9878427 TTTTATTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 6 0.21
12 17 0.59
13 6 0.21
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
CCTTCTTTCTTT
Found at i:9889013 original size:2 final size:2
Alignment explanation
Indices: 9889006--9889060 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
9888996 CTAGATAAAT
9889006 TA TA TA 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 TA TA TA
9889048 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
9889061 TAAATTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9896205 original size:57 final size:57
Alignment explanation
Indices: 9896108--9896232 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 57
9896098 GATAATTAGA
* *
9896108 TTGAATTTTTTTGTCTAAGTTAGTCGTTGAACTTGACAATTATTTTTATA-TAGGGT
1 TTGAATTTTTTTGTCCAAGTTAGTCGTTAAACTTGACAATTATTTTTATATTAGGGT
* * *
9896164 TTGAATTTTTTTGGTCCAAGTTAGT-GTCTAAATTTGTCAATTATTTTTATATTGGGGT
1 TTGAATTTTTTT-GTCCAAGTTAGTCGT-TAAACTTGACAATTATTTTTATATTAGGGT
*
9896222 TTGAGTTTTTT
1 TTGAATTTTTT
9896233 CTCCAAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
56 14 0.23
57 31 0.52
58 15 0.25
ACGTcount: A:0.22, C:0.06, G:0.18, T:0.53
Consensus pattern (57 bp):
TTGAATTTTTTTGTCCAAGTTAGTCGTTAAACTTGACAATTATTTTTATATTAGGGT
Found at i:9896417 original size:31 final size:31
Alignment explanation
Indices: 9896364--9896424 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
9896354 AAAAAAAATT
*
9896364 AAGCTCCAATATGACAACAATTACCAAGTTC
1 AAGCTCCAATATAACAACAATTACCAAGTTC
* * * *
9896395 AAGCTCCAATGTAAGAATAATTATCAAGTT
1 AAGCTCCAATATAACAACAATTACCAAGTT
9896425 TAGGGATTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (31 bp):
AAGCTCCAATATAACAACAATTACCAAGTTC
Found at i:9896539 original size:17 final size:18
Alignment explanation
Indices: 9896519--9896560 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9896509 AAAGAAATAA
9896519 TTAAAAAT-CATAAATTT
1 TTAAAAATACATAAATTT
*
9896536 TTAAAAATATATAAATTT
1 TTAAAAATACATAAATTT
9896554 TATAAAA
1 T-TAAAA
9896561 TCAATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAATACATAAATTT
Found at i:9897587 original size:20 final size:20
Alignment explanation
Indices: 9897551--9897602 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
9897541 ATTTTATGTT
*
9897551 TATATATTGTA-TAAAAAATAA
1 TATATATT-TATTCAAAAA-AA
9897572 T-TATATTTATTCAAAAAAA
1 TATATATTTATTCAAAAAAA
*
9897591 TATGTATTTATT
1 TATATATTTATT
9897603 TTTGTAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATATTTATTCAAAAAAA
Found at i:9903245 original size:31 final size:30
Alignment explanation
Indices: 9903184--9903254 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 30
9903174 CATTTAACAC
9903184 AACAGTCACTCAATTTTGAAAATGTGACAA
1 AACAGTCACTCAATTTTGAAAATGTGACAA
9903214 AACAGTCACT-AATACTATTGAAAA-GTGACAA
1 AACAGTCACTCAAT--T-TTGAAAATGTGACAA
9903245 AACAGTCACT
1 AACAGTCACT
9903255 GAAATCAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 3 0.08
30 10 0.26
31 18 0.47
32 7 0.18
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (30 bp):
AACAGTCACTCAATTTTGAAAATGTGACAA
Found at i:9912321 original size:21 final size:21
Alignment explanation
Indices: 9912297--9912349 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9912287 AACCCTGCAA
*
9912297 ACTACGGATATAACATATGAT
1 ACTACCGATATAACATATGAT
9912318 ACTACCGATATAACATATGAT
1 ACTACCGATATAACATATGAT
*
9912339 ACTACCAATAT
1 ACTACCGATAT
9912350 TACAAGTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
ACTACCGATATAACATATGAT
Found at i:9914924 original size:25 final size:26
Alignment explanation
Indices: 9914888--9914941 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
9914878 TTAAATTTGA
9914888 TTTTAATGTTGA-ATTTAATATATATT
1 TTTTAATGTTGATATTTAA-ATATATT
*
9914914 TTTTAAT-TTGATATTTAAATTTATT
1 TTTTAATGTTGATATTTAAATATATT
9914939 TTT
1 TTT
9914942 AATAATCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
TTTTAATGTTGATATTTAAATATATT
Found at i:9919926 original size:23 final size:22
Alignment explanation
Indices: 9919874--9919931 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
9919864 TATACGGAAC
* *
9919874 AAACAGAGAGTACATAAGTGCT
1 AAACAGAGAGCACACAAGTGCT
9919896 AGGCAACAGAGAGCACACACAGTGCT
1 A---AACAGAGAGCACACA-AGTGCT
9919922 AAACAGAGAG
1 AAACAGAGAG
9919932 TGTAACACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 9 0.30
25 13 0.43
26 7 0.23
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (22 bp):
AAACAGAGAGCACACAAGTGCT
Found at i:9920685 original size:40 final size:38
Alignment explanation
Indices: 9920614--9920751 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 38
9920604 CACACCAGAA
* *
9920614 TGACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAG
1 TGACACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAG
*
9920654 TGACACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAG
1 TGACACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAG
** * * *
9920691 TGGTACCCAGTGCCTCATCGAATCTATCCGAAGTAA-AATAA
1 TGACACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AG
*
9920732 TGACACCCAGTGTCTCATCG
1 TGACACCCAGTGCCTCATCG
9920752 ACTCAAGGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
37 22 0.28
38 9 0.11
40 27 0.34
41 21 0.27
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (38 bp):
TGACACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAG
Found at i:9920870 original size:12 final size:12
Alignment explanation
Indices: 9920855--9920891 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9920845 ACAATTCATA
9920855 TCACTTTCAATT
1 TCACTTTCAATT
*
9920867 TCACTTTCACTT
1 TCACTTTCAATT
*
9920879 TCACTTTCTATT
1 TCACTTTCAATT
9920891 T
1 T
9920892 TGATCACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:9920874 original size:6 final size:6
Alignment explanation
Indices: 9920855--9920886 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9920845 ACAATTCATA
*
9920855 TCACTT TCAATT TCACTT TCACTT TCACTT TC
1 TCACTT TCACTT TCACTT TCACTT TCACTT TC
9920887 TATTTTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (6 bp):
TCACTT
Found at i:9921064 original size:22 final size:22
Alignment explanation
Indices: 9921038--9921083 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9921028 TAAACATATA
9921038 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
9921060 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
9921082 AT
1 AT
9921084 CACATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATTTCACATATACATTGTTC
Found at i:9921088 original size:18 final size:20
Alignment explanation
Indices: 9921042--9921091 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
9921032 CATATAATAT
9921042 TTCACATATACATTGTTCATA
1 TTCACATATACATTGTTCA-A
9921063 TTTCACATATACATTGTTC-A
1 -TTCACATATACATTGTTCAA
9921083 -TCACATATA
1 TTCACATATA
9921092 TATCATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.32
20 1 0.04
22 18 0.64
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (20 bp):
TTCACATATACATTGTTCAA
Found at i:9922718 original size:25 final size:25
Alignment explanation
Indices: 9922667--9922745 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 25
9922657 AAGTACTAAT
* *
9922667 CAGAGAGCACATAAAGGGCTAAT--
1 CAGAGAGCACATACAGTGCTAATAA
*
9922690 CAGAGAGCACACACAGTGCTAATAA
1 CAGAGAGCACATACAGTGCTAATAA
9922715 CAGAGAGCACGATAC-GTGCT-A-AA
1 CAGAGAGCAC-ATACAGTGCTAATAA
9922738 CAGAGAGC
1 CAGAGAGC
9922746 GCGCTAGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 30 0.61
24 1 0.02
25 15 0.31
26 3 0.06
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (25 bp):
CAGAGAGCACATACAGTGCTAATAA
Found at i:9922739 original size:23 final size:22
Alignment explanation
Indices: 9922646--9922745 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 22
9922636 CGCGGATGTT
* *
9922646 ACAGAGAGTACA-A-GTACTAA
1 ACAGAGAGCACATACGTGCTAA
* * *
9922666 TCAGAGAGCACATAAAGGGCTAA
1 ACAGAGAGCACAT-ACGTGCTAA
* *
9922689 TCAGAGAGCACACACAGTGCTAATA
1 ACAGAGAGCACATAC-GTGCT-A-A
9922714 ACAGAGAGCACGATACGTGCTAA
1 ACAGAGAGCAC-ATACGTGCTAA
9922737 ACAGAGAGC
1 ACAGAGAGC
9922746 GCGCTAGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 10 0.16
22 2 0.03
23 31 0.48
24 2 0.03
25 16 0.25
26 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (22 bp):
ACAGAGAGCACATACGTGCTAA
Found at i:9926800 original size:16 final size:16
Alignment explanation
Indices: 9926750--9926800 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
9926740 TATTTTTGAG
*
9926750 ATTTTATTTTTCTATA
1 ATTTTATTTTTATATA
* **
9926766 A-TTT-TTTGTATGGA
1 ATTTTATTTTTATATA
9926780 ATTTTATTTTTATATA
1 ATTTTATTTTTATATA
9926796 ATTTT
1 ATTTT
9926801 TAGTTATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 13 0.50
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (16 bp):
ATTTTATTTTTATATA
Found at i:9929649 original size:18 final size:19
Alignment explanation
Indices: 9929628--9929676 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9929618 TTATAAAAAA
9929628 TATAAATTTTAAAATT-TT
1 TATAAATTTTAAAATTCTT
*
9929646 TATAAATATTTTAAATTCTT
1 TATAAAT-TTTAAAATTCTT
9929666 T-TATAATTTTA
1 TATA-AATTTTA
9929677 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAAATTTTAAAATTCTT
Found at i:9929658 original size:20 final size:21
Alignment explanation
Indices: 9929633--9929671 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9929623 AAAAATATAA
9929633 ATTTTAAAAT-TTTTATAAAT
1 ATTTTAAAATCTTTTATAAAT
*
9929653 ATTTTAAATTCTTTTATAA
1 ATTTTAAAATCTTTTATAA
9929672 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTAAAATCTTTTATAAAT
Found at i:9930474 original size:34 final size:34
Alignment explanation
Indices: 9930388--9930457 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
9930378 TGACACAGTA
9930388 ACCCCTTTACATTTGTTTATTGTCTTTTAAATTC
1 ACCCCTTTACATTTGTTTATTGTCTTTTAAATTC
9930422 ACCCCTTTACATTTGTTTATTGTCTTTTAAATTC
1 ACCCCTTTACATTTGTTTATTGTCTTTTAAATTC
9930456 AC
1 AC
9930458 GGGTGTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.51
Consensus pattern (34 bp):
ACCCCTTTACATTTGTTTATTGTCTTTTAAATTC
Found at i:9932016 original size:16 final size:16
Alignment explanation
Indices: 9931992--9932041 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
9931982 TAGAATTTTT
*
9931992 TATATATTTTTAAAAA
1 TATAAATTTTTAAAAA
9932008 TATAAATTTTATAAAAA
1 TATAAATTTT-TAAAAA
*
9932025 TTTTAAA-TTTTAAAAA
1 -TATAAATTTTTAAAAA
9932041 T
1 T
9932042 TATTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 1 0.03
16 15 0.50
17 9 0.30
18 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAATTTTTAAAAA
Found at i:9932031 original size:18 final size:18
Alignment explanation
Indices: 9931997--9932053 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
9931987 TTTTTTATAT
*
9931997 ATTTT-TAAAAA-TATAA
1 ATTTTATAAAAATTTTAA
9932013 ATTTTATAAAAATTTTAA
1 ATTTTATAAAAATTTTAA
9932031 ATTTTA-AAAATTATTTT-A
1 ATTTTATAAAA--ATTTTAA
9932049 ATTTT
1 ATTTT
9932054 TTTTATAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 10 0.28
18 16 0.44
19 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTATAAAAATTTTAA
Found at i:9932734 original size:22 final size:22
Alignment explanation
Indices: 9932692--9932739 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9932682 AAAGCTCTGC
9932692 TTTTGAACAATAAAATGGGTT-
1 TTTTGAACAATAAAATGGGTTG
* * *
9932713 TTTTGAAGCAATGAGATTGGTTG
1 TTTTGAA-CAATAAAATGGGTTG
9932736 TTTT
1 TTTT
9932740 TTTTTTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (22 bp):
TTTTGAACAATAAAATGGGTTG
Found at i:9947168 original size:3 final size:3
Alignment explanation
Indices: 9947157--9947191 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9947147 AATAATAATA
*
9947157 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9947192 AATAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9949981 original size:36 final size:36
Alignment explanation
Indices: 9949934--9950006 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
9949924 GATTATTTTA
9949934 TTTTTAAATTGTGATATTGAATCTTACCACTAAAGG
1 TTTTTAAATTGTGATATTGAATCTTACCACTAAAGG
9949970 TTTTTAAATTGTGATATTGAATCTTACCACTAAAGG
1 TTTTTAAATTGTGATATTGAATCTTACCACTAAAGG
9950006 T
1 T
9950007 GCTGATGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTTTAAATTGTGATATTGAATCTTACCACTAAAGG
Found at i:9954337 original size:28 final size:28
Alignment explanation
Indices: 9954285--9954339 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
9954275 TAACAAAAAA
9954285 AATTAATTAAAAAATATTAATATTTCAT
1 AATTAATTAAAAAATATTAATATTTCAT
* *
9954313 AATTCAATTAAAATATTTTAA-ATTTCA
1 AATT-AATTAAAAAATATTAATATTTCA
9954340 AATACTAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTAATTAAAAAATATTAATATTTCAT
Found at i:9956255 original size:26 final size:26
Alignment explanation
Indices: 9956219--9956270 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9956209 CCGTTCTATG
9956219 TTTAATATCCAATTTAATTTAATCCC
1 TTTAATATCCAATTTAATTTAATCCC
9956245 TTTAATATCCAATTTAATTTAATCCC
1 TTTAATATCCAATTTAATTTAATCCC
9956271 ACTTAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTAATATCCAATTTAATTTAATCCC
Found at i:9968318 original size:11 final size:11
Alignment explanation
Indices: 9968302--9968349 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 11
9968292 AACCAAACCT
9968302 TTTTAAATTTA
1 TTTTAAATTTA
9968313 TTTTAAATTTAGA
1 TTTTAAATTT--A
9968326 TTTATTAAATTTA
1 -TT-TTAAATTTA
9968339 TTTTAAATTTA
1 TTTTAAATTTA
9968350 AATTTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 19 0.58
12 2 0.06
13 2 0.06
14 2 0.06
15 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:9968333 original size:26 final size:26
Alignment explanation
Indices: 9968304--9968358 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9968294 CCAAACCTTT
*
9968304 TTAAATTTATTTTAAATTTAGATTTA
1 TTAAATTTATTTTAAATTTAAATTTA
9968330 TTAAATTTATTTTAAATTTAAATTTA
1 TTAAATTTATTTTAAATTTAAATTTA
9968356 TTA
1 TTA
9968359 TAAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTAAATTTATTTTAAATTTAAATTTA
Found at i:9968350 original size:17 final size:17
Alignment explanation
Indices: 9968330--9968367 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9968320 TTTAGATTTA
*
9968330 TTAAATTTATTTTAAAT
1 TTAAATTTATTATAAAT
9968347 TTAAATTTATTATAAAT
1 TTAAATTTATTATAAAT
9968364 TTAA
1 TTAA
9968368 TAAAATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATTTATTATAAAT
Found at i:9968371 original size:26 final size:25
Alignment explanation
Indices: 9968304--9968371 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
9968294 CCAAACCTTT
* *
9968304 TTAAATTTATTTTAAATTTAGATTTA
1 TTAAATTTA-TATAAATTTAAATTTA
*
9968330 TTAAATTTATTTTAAATTTAAATTTA
1 TTAAATTTA-TATAAATTTAAATTTA
9968356 TTATAAATTTA-ATAAA
1 -T-TAAATTTATATAAA
9968372 ATATCCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 29 0.76
27 1 0.03
28 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
TTAAATTTATATAAATTTAAATTTA
Found at i:9968996 original size:15 final size:15
Alignment explanation
Indices: 9968971--9969042 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 15
9968961 TTATTGCATT
9968971 AAATAAGTTATTAATA
1 AAATAA-TTATTAATA
9968987 AAATAATTATTAAGTA
1 AAATAATTATTAA-TA
*
9969003 ATAATAATATTTGTAATA
1 A-AATAAT-TAT-TAATA
* * *
9969021 ATATTATTAAATAATA
1 AAATAATT-ATTAATA
9969037 AAATAA
1 AAATAA
9969043 AAAGAAAGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
15 7 0.16
16 19 0.43
17 10 0.23
18 5 0.11
19 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
AAATAATTATTAATA
Found at i:9969095 original size:12 final size:12
Alignment explanation
Indices: 9969078--9969112 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9969068 TGGTCGCCGA
*
9969078 AGCCTTCACTGG
1 AGCCTTCACCGG
9969090 AGCCTTCACCGG
1 AGCCTTCACCGG
*
9969102 AGCCATCACCG
1 AGCCTTCACCG
9969113 TCGTTGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (12 bp):
AGCCTTCACCGG
Found at i:9970106 original size:29 final size:29
Alignment explanation
Indices: 9970068--9970456 Score: 186
Period size: 29 Copynumber: 13.4 Consensus size: 29
9970058 TAAATTTAAA
*
9970068 CCTCAAAACTTTTCAAAATTACATTTTTAC
1 CCTC-AAACTTTCCAAAATTACATTTTTAC
* ** *
9970098 CCTCGAACTTTTTAAAATT-CTATTTTGA-
1 CCTCAAACTTTCCAAAATTAC-ATTTTTAC
*
9970126 CCTC-GA-TTTCACCAAAAATTACCA--TTTAC
1 CCTCAAACTTT--CC-AAAATTA-CATTTTTAC
* * * *
9970155 CCTCGAATTTTCCACAATTACATTTTAAC
1 CCTCAAACTTTCCAAAATTACATTTTTAC
* * * *
9970184 CCTAAAACTTTCCAAAATTATAATTTGAC
1 CCTCAAACTTTCCAAAATTACATTTTTAC
* * *
9970213 CCCCAAACTTTCCAAAATTCCAATTTTAAC
1 CCTCAAACTTTCCAAAATTAC-ATTTTTAC
9970243 CCT--AA-TTTCACCAAAAATTACCA-TTTTAC
1 CCTCAAACTTT--CC-AAAATTA-CATTTTTAC
* *
9970272 CC-CTAAACTTTTCAAAATTACATTTTAAC
1 CCTC-AAACTTTCCAAAATTACATTTTTAC
* * *
9970301 CCTAAAACTTCCCAAAATTA-TTTTTTAC
1 CCTCAAACTTTCCAAAATTACATTTTTAC
* *
9970329 CCTCAAACTTTCCAAAATTCCATTTTTAA
1 CCTCAAACTTTCCAAAATTACATTTTTAC
*
9970358 CCTC-GA-TTTCACTAAAAATTACCA-TTTTAC
1 CCTCAAACTTTC-C--AAAATTA-CATTTTTAC
* * * *
9970388 CCCCGAACTTTCTAAAATTCCATTTTTGA-
1 CCTCAAACTTTCCAAAATTACATTTTT-AC
* *
9970417 CCT-AGATTTTACCAAAATTATCA-TTTTAC
1 CCTCAAACTTT-CCAAAATTA-CATTTTTAC
9970446 CC-CTAAACTTT
1 CCTC-AAACTTT
9970457 TTACAATTCC
Statistics
Matches: 270, Mismatches: 53, Indels: 72
0.68 0.13 0.18
Matches are distributed among these distances:
26 3 0.01
27 10 0.04
28 50 0.19
29 146 0.54
30 44 0.16
31 10 0.04
32 7 0.03
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
CCTCAAACTTTCCAAAATTACATTTTTAC
Found at i:9970269 original size:30 final size:28
Alignment explanation
Indices: 9970140--9970523 Score: 159
Period size: 29 Copynumber: 13.2 Consensus size: 28
9970130 GATTTCACCA
*
9970140 AAAATTACCA-TTT-ACCCTCGAATTTTCC
1 AAAATTACCATTTTAACCCT--AACTTTCC
*
9970168 ACAATTA-CATTTTAACCCTAAAACTTTCC
1 AAAATTACCATTTTAACCCT--AACTTTCC
** * * *
9970197 AAAATTATAATTTGACCCCCAAACTTTCC
1 AAAATTACCATTTTA-ACCCTAACTTTCC
9970226 AAAATT-CCAATTTTAACCCTAA-TTTCACC
1 AAAATTACC-ATTTTAACCCTAACTTT--CC
* *
9970255 AAAAATTACCATTTTACCCCTAAACTTTTC
1 -AAAATTACCATTTTAACCCT-AACTTTCC
*
9970285 AAAATTA-CATTTTAACCCTAAAACTTCCC
1 AAAATTACCATTTTAACCCT--AACTTTCC
* *
9970314 AAAATTA--TTTTTTACCCTCAAACTTTCC
1 AAAATTACCATTTTAACCCT--AACTTTCC
*
9970342 AAAATT-CCATTTTTAA-CCTCGA-TTTCAC
1 AAAATTACCA-TTTTAACCCT-AACTTTC-C
* * *
9970370 TAAAAATTACCATTTTACCCCCGAACTTTCT
1 --AAAATTACCATTTTA-ACCCTAACTTTCC
* *
9970401 AAAATT-CCATTTTTGA-CCTAGATTTTACC
1 AAAATTACCA-TTTTAACCCTA-ACTTT-CC
* * **
9970430 AAAATTATCATTTTACCCCTAAACTTTTT
1 AAAATTACCATTTTAACCCT-AACTTTCC
* ** *
9970459 ACAATT-CCATTTTAAACCCCGATTTTACC
1 AAAATTACCATTTT-AACCCTAACTTT-CC
*
9970488 AAAAATTACCATTTT-ACCCTTATACTTTCT
1 -AAAATTACCATTTTAACCC-TA-ACTTTCC
9970518 AAAATT
1 AAAATT
9970524 TTATTTTTGA
Statistics
Matches: 267, Mismatches: 55, Indels: 67
0.69 0.14 0.17
Matches are distributed among these distances:
27 12 0.04
28 67 0.25
29 103 0.39
30 53 0.20
31 23 0.09
32 9 0.03
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAATTACCATTTTAACCCTAACTTTCC
Found at i:9970345 original size:116 final size:117
Alignment explanation
Indices: 9970062--9970523 Score: 476
Period size: 116 Copynumber: 4.0 Consensus size: 117
9970052 AACAATTAAA
* * * * * ** * *
9970062 TTTAAACCTCAAAACTTTTCAAAATTACATTTTTACCCTCGAACTTTTTAAAATT-CTATTTTGA
1 TTTAACCCT-AAAACTTTCCAAAATTATAATTTTACCCTCAAACTTTCCAAAATTCCAATTTTAA
* * * *
9970126 CCTCGATTTCACCAAAAATTACCA-TTTA-CCCTCGAATTTTCCACAATTACAT
65 CCTCGATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCTAAAATTACAT
* *
9970178 TTTAACCCTAAAACTTTCCAAAATTATAATTTGACCCCCAAACTTTCCAAAATTCCAATTTTAAC
1 TTTAACCCTAAAACTTTCCAAAATTATAATTTTACCCTCAAACTTTCCAAAATTCCAATTTTAAC
*
9970243 C-CTAATTTCACCAAAAATTACCATTTTACCCCTAAACTTT-TCAAAATTACAT
66 CTC-GATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCT-AAAATTACAT
* * *
9970295 TTTAACCCTAAAACTTCCCAAAATTAT-TTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAAC
1 TTTAACCCTAAAACTTTCCAAAATTATAATTTTACCCTCAAACTTTCCAAAATTCCAATTTTAAC
* ** *
9970359 CTCGATTTCACTAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATT
66 CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTACA-T
* * * * ** *
9970412 TTTGA-CCT-AGATTTTACCAAAATTATCATTTTACCC-CTAAACTTTTTACAATTCC-ATTTTA
1 TTTAACCCTAAAACTTT-CCAAAATTATAATTTTACCCTC-AAACTTTCCAAAATTCCAATTTT-
* * * *
9970473 AACCCCGATTTTACCAAAAATTACCATTTTACCCTTATACTTTCTAAAATT
63 AACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATT
9970524 TTATTTTTGA
Statistics
Matches: 292, Mismatches: 42, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
115 42 0.14
116 129 0.44
117 117 0.40
118 4 0.01
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (117 bp):
TTTAACCCTAAAACTTTCCAAAATTATAATTTTACCCTCAAACTTTCCAAAATTCCAATTTTAAC
CTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTACAT
Found at i:9970399 original size:59 final size:58
Alignment explanation
Indices: 9970082--9970565 Score: 331
Period size: 59 Copynumber: 8.3 Consensus size: 58
9970072 AAAACTTTTC
* * ** * *
9970082 AAAATTA-CATTTTTACCCTCGAACTTTTTAAAATTCTA-TTTTGACCTCGATTTCACCA
1 AAAATTACCA-TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-CA
* * * * * **
9970140 AAAATTACCA-TTTACCCTCGAATTTTCCACAATTACA-TTTTAACCCTAAAACTTTC-C-
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCT-CGA-TTTCACA
** * * *
9970197 AAAATTATAATTTGACCCCCAAACTTTCCAAAATTCCAATTTTAACC-CTAATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCA-CA
* * * ** * *
9970256 AAAATTACCATTTTACCCCTAAACTTTTCAAAATTACA-TTTTAACCCTAAAACTTC-CC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCT-CGATTTCACA
** *
9970314 AAAATTA-TTTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACTA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC-A
* * * * * *
9970372 AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTGACCTAGATTTTACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
* * ** * * * *
9970430 AAAATTATCATTTTACCCCTAAACTTTTTACAATTCCATTTTAAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-CA
** * * ** * * *
9970489 AAAATTACCATTTTACCCTTATACTTTCTAAAATTTTATTTTTGACCCCGATTTTATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-CA
9970548 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
9970566 TCGAAAGTCC
Statistics
Matches: 342, Mismatches: 66, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
56 8 0.02
57 64 0.19
58 109 0.32
59 152 0.44
60 9 0.03
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
Found at i:9983053 original size:202 final size:200
Alignment explanation
Indices: 9982440--9983147 Score: 893
Period size: 202 Copynumber: 3.5 Consensus size: 200
9982430 ACAAACAATG
* * * *
9982440 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACC-AACTCAACGCTCAAATACGAGCAAA
1 AGGCGGTCATCTTCCTGATGAGACACAGAGAAGTAGACCAAACT-AAGGCTC-AATGCGAGCAAA
* * * * * *
9982504 TATTCGAACTCCAGCTTCCTGATAAGACACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTT
64 TCTTCGAACCCCAGCTTCCTGATGAGACACAGAGAAGCAGGTCGAAGCAATAAAACGGTTAGCTT
* * * *
9982569 CCTTATGAGATACTGAGAAGTGGACCAAAATTCATCTTCTTGAGGAGATCCAAAGAAGCGAATTA
129 CCTGATGAGATACTGAGAAGTGGACC-AAATTCGTCTTCCTGAGGAGAT-CAGAGAAGCGAATTA
9982634 AAACAAGCA
192 AAACAAGCA
** * * **
9982643 ATACGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAACCCAGGCTCAATGCGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGACACAGAGAAGTAGACCAAACTAAGGCTCAATGCGAGCAAATC
* *
9982708 TTCGAACCCCAGCTTCCTGATGAGACACA-AAAAGCAAGTCGAAGCAATAAAACGGTTAGCTTCC
66 TTCGAACCCCAGCTTCCTGATGAGACACAGAGAAGCAGGTCGAAGCAATAAAACGGTTAGCTTCC
*
9982772 TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCAAATTAAAA
131 TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATC-AGAGAAGCGAATTAAAA
9982837 CAAGCA
195 CAAGCA
* * * * *
9982843 ATGCGGTCATCTTCCTGATGAGACACTGAGAA-TAAGACCAAACTTAGGCTCAATGTGAACAAAT
1 AGGCGGTCATCTTCCTGATGAGACACAGAGAAGT-AGACCAAACTAAGGCTCAATGCGAGCAAAT
* *
9982907 CTTCGAACCCCAACTTCCTGATTGAGACACAGAGGAGCAGGTCGAAGCAATAAAACGGTTAGCTT
65 CTTCGAACCCCAGCTTCCTGA-TGAGACACAGAGAAGCAGGTCGAAGCAATAAAACGGTTAGCTT
* * *
9982972 CCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGA
129 CCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT-CAGAGAAGCGAATTAA
***
9983037 AACAATTG
193 AACAAGCA
* * ** *
9983045 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACC-AACTCAACGCTTGATACGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGACACAGAGAAGTAGACCAAACT-AAGGCTCAATGCGAGCAAAT
* * * *
9983109 CTTCGAATCCCTAGCTTCCAGATGAGATACTGAGAAGCA
65 CTTCGAA-CCCCAGCTTCCTGATGAGACACAGAGAAGCA
9983148 AGACGAAGTC
Statistics
Matches: 440, Mismatches: 56, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
199 1 0.00
200 118 0.27
201 67 0.15
202 200 0.45
203 51 0.12
204 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (200 bp):
AGGCGGTCATCTTCCTGATGAGACACAGAGAAGTAGACCAAACTAAGGCTCAATGCGAGCAAATC
TTCGAACCCCAGCTTCCTGATGAGACACAGAGAAGCAGGTCGAAGCAATAAAACGGTTAGCTTCC
TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCAGAGAAGCGAATTAAAAC
AAGCA
Found at i:9983500 original size:11 final size:11
Alignment explanation
Indices: 9983485--9983573 Score: 96
Period size: 11 Copynumber: 8.1 Consensus size: 11
9983475 ACCAAACCTT
*
9983485 TTTAAATTTAT
1 TTTAAATTTAA
9983496 TTTAAATTTAGA
1 TTTAAATTTA-A
*
9983508 TTT--ATTAAA
1 TTTAAATTTAA
9983517 TTTAAATTTAA
1 TTTAAATTTAA
9983528 TTTAAATTTGAA
1 TTTAAATTT-AA
9983540 TTT-AATTTAAA
1 TTTAAATTT-AA
9983551 TTTAAATTT-A
1 TTTAAATTTAA
9983561 TTATAAATTTAA
1 TT-TAAATTTAA
9983573 T
1 T
9983574 AAAATGTCCA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
9 4 0.06
10 7 0.10
11 41 0.61
12 15 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:9983505 original size:6 final size:6
Alignment explanation
Indices: 9983485--9983572 Score: 84
Period size: 6 Copynumber: 15.8 Consensus size: 6
9983475 ACCAAACCTT
* *
9983485 TTTAAA TTT-AT TTTAAA TTTAGA TTT--A -TTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9983528 TTTAAA TTTGAA TTT-AA TTTAAA TTTAAA TTT--A TTATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAA
9983573 TAAAATGTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
3 2 0.03
4 4 0.06
5 16 0.23
6 44 0.64
7 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:9983510 original size:17 final size:17
Alignment explanation
Indices: 9983485--9983572 Score: 119
Period size: 17 Copynumber: 5.3 Consensus size: 17
9983475 ACCAAACCTT
*
9983485 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
*
9983502 TTTAGATTT-A-TTAAA
1 TTTAAATTTAATTTAAA
9983517 TTTAAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
*
9983534 TTTGAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
9983551 TTTAAATTT-ATTATAAA
1 TTTAAATTTAATT-TAAA
9983568 TTTAA
1 TTTAA
9983573 TAAAATGTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
15 13 0.21
16 4 0.06
17 46 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:9983773 original size:25 final size:25
Alignment explanation
Indices: 9983743--9983792 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9983733 TTACTGTTGC
* *
9983743 CCACCAGCTTCAATCTGTTCTGCCA
1 CCACCAGCTTCAACCTGCTCTGCCA
9983768 CCACCAGCTTCAACCTGCTCTGCCA
1 CCACCAGCTTCAACCTGCTCTGCCA
9983793 TCTCCAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.44, G:0.12, T:0.24
Consensus pattern (25 bp):
CCACCAGCTTCAACCTGCTCTGCCA
Found at i:9984200 original size:15 final size:15
Alignment explanation
Indices: 9984175--9984246 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 15
9984165 TTATTGCATT
9984175 AAATAAGTTATTAATA
1 AAATAA-TTATTAATA
9984191 AAATAATTATTAAGTA
1 AAATAATTATTAA-TA
*
9984207 ATAATAATATGTGTAATA
1 A-AATAAT-TAT-TAATA
* * *
9984225 ATATTATTAAATAATA
1 AAATAATT-ATTAATA
9984241 AAATAA
1 AAATAA
9984247 AAAGAAAGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
15 7 0.16
16 19 0.43
17 10 0.23
18 5 0.11
19 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATAATTATTAATA
Found at i:9985326 original size:28 final size:28
Alignment explanation
Indices: 9985268--9985507 Score: 138
Period size: 29 Copynumber: 8.5 Consensus size: 28
9985258 AAATTATCTA
* ** *
9985268 AAAATTACATTTTAACCCCAAAACTTCCC
1 AAAATTACATTTT-TCCCCCGAACTTTCC
9985297 AAAATTACATTTTTCCCCCGAACTTTCC
1 AAAATTACATTTTTCCCCCGAACTTTCC
*
9985325 AAAATTCCA-TTTT------AACTTTTCACC
1 AAAATTACATTTTTCCCCCGAAC-TTT--CC
* *
9985349 AAAAATTACCATTTTACCCTCGAACTTTCC
1 -AAAATTA-CATTTTTCCCCCGAACTTTCC
* *** *
9985379 AAAATTACATTTTAACCCTAAAACTTCCC
1 AAAATTACATTTT-TCCCCCGAACTTTCC
*
9985408 AAAATTACA-TTTTCCCCTGAACTTTCC
1 AAAATTACATTTTTCCCCCGAACTTTCC
** * * *
9985435 AAAATTTTATTTTTAACCCTG-ATTTTACC
1 AAAATTACATTTTT-CCCCCGAACTTT-CC
9985464 AAAAATTACATTTTTACCCCCGAACTTTCC
1 -AAAATTACATTTTT-CCCCCGAACTTTCC
* *
9985494 AAGATTCCATTTTT
1 AAAATTACATTTTT
9985508 GACCCCGATT
Statistics
Matches: 167, Mismatches: 26, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.02
22 3 0.02
24 2 0.01
25 6 0.04
26 2 0.01
27 24 0.14
28 36 0.22
29 60 0.36
30 21 0.13
31 4 0.02
32 3 0.02
33 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTACATTTTTCCCCCGAACTTTCC
Found at i:9985596 original size:117 final size:116
Alignment explanation
Indices: 9985268--9985654 Score: 346
Period size: 117 Copynumber: 3.4 Consensus size: 116
9985258 AAATTATCTA
* ** * * * **
9985268 AAAATTACA-TTTTAACCCCAAAACTTCCCAAAATTACATTTTTCCCCCGAACTTTCCAAAATTC
1 AAAATTACATTTTTGA-CCCAAATTTTACCAAAATTATAATTTTCCCCTAAACTTTCCAAAATTC
*
9985332 CATTTT-AA--CT--TTTCACCAAAAATTACCATTTTACCCTCGAACTTTCC
65 CATTTTAAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* ** * * * *
9985379 AAAATTACA-TTTTAACCCTAAAACTTCCCAAAATTA-CATTTTCCCCTGAACTTTCCAAAATTT
1 AAAATTACATTTTTGACCC-AAATTTTACCAAAATTATAATTTTCCCCTAAACTTTCCAAAATTC
* * *
9985442 TATTTTTAACCCTGATTTTACCAAAAATTA-CATTTTTACCCCCGAACTTTCC
65 CATTTTAAACCCTGATTTCACCAAAAATTACCA-TTTTACCCCCGAACTTTCC
* * ** * ** *
9985494 AAGATTCCATTTTTGACCCCGATTTTAGCAAAATTATAATTTTACCCCTAAACTTTTTATAATTC
1 AAAATTACATTTTTGACCCAAATTTTACCAAAATTATAATTTT-CCCCTAAACTTTCCAAAATTC
* *
9985559 CATTTTAAA-CCTCGATTTCACCAAAAATTACCATTTTA-CCCTGATACTTTCT
65 CATTTTAAACCCT-GATTTCACCAAAAATTACCATTTTACCCCCGA-ACTTTCC
* * *
9985611 AAAATTTCATTTTTGACCCTAATTTTACCAAAAATTATTATTTT
1 AAAATTACATTTTTGACCCAAATTTTACC-AAAATTATAATTTT
9985655 GCTCTCGAAA
Statistics
Matches: 229, Mismatches: 33, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
110 31 0.14
111 34 0.15
113 2 0.01
114 2 0.01
115 50 0.22
116 21 0.09
117 74 0.32
118 15 0.07
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.39
Consensus pattern (116 bp):
AAAATTACATTTTTGACCCAAATTTTACCAAAATTATAATTTTCCCCTAAACTTTCCAAAATTCC
ATTTTAAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
Found at i:9985654 original size:59 final size:57
Alignment explanation
Indices: 9985297--9985647 Score: 297
Period size: 59 Copynumber: 6.1 Consensus size: 57
9985287 AAAACTTCCC
* * *
9985297 AAAATTACATTTTTCCCCCGAACTTTCCAAAATTCCA-TTTTAA--CT--TTTCACCA
1 AAAATTACA-TTTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCA
* * ** *
9985350 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTACA-TTTTAACCCTAAAACTT-CCC
1 AAAATTA-CATTTTACCCT-GAACTTTCCAAAATTCCATTTTTAACCCT-GATTTTACCA
* **
9985408 AAAATTACATTTTCCCCTGAACTTTCCAAAATTTTATTTTTAACCCTGATTTTACCA
1 AAAATTACATTTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCA
* * * * *
9985465 AAAATTACATTTTTACCCCCGAACTTTCCAAGATTCCATTTTTGACCCCGATTTTAGC-
1 AAAATTACA-TTTTA-CCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCA
* * ** * * *
9985523 AAAATTATAATTTTACCCCTAAACTTTTTATAATTCCA-TTTTAAACCTCGATTTCACCA
1 AAAATTA-CATTTTA-CCCTGAACTTTCCAAAATTCCATTTTTAACCCT-GATTTTACCA
* * * *
9985582 AAAATTACCATTTTACCCTGATACTTTCTAAAATTTCATTTTTGACCCTAATTTTACCA
1 AAAATTA-CATTTTACCCTGA-ACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCA
9985641 AAAATTA
1 AAAATTA
9985648 TTATTTTGCT
Statistics
Matches: 238, Mismatches: 44, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
53 14 0.06
54 25 0.11
56 21 0.09
57 38 0.16
58 54 0.23
59 78 0.33
60 8 0.03
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (57 bp):
AAAATTACATTTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCA
Found at i:9989021 original size:12 final size:12
Alignment explanation
Indices: 9989000--9989090 Score: 110
Period size: 12 Copynumber: 7.6 Consensus size: 12
9988990 GCATCTAAAT
9989000 AACAAAAATAAC
1 AACAAAAATAAC
* *
9989012 AACCAAAATAGC
1 AACAAAAATAAC
* *
9989024 AGCAAAAATAGC
1 AACAAAAATAAC
* *
9989036 AACAAAAACAGC
1 AACAAAAATAAC
9989048 AACAAAAATAAC
1 AACAAAAATAAC
* *
9989060 AGCAAAAATAGC
1 AACAAAAATAAC
9989072 AACAAAAATAAC
1 AACAAAAATAAC
9989084 AACAAAA
1 AACAAAA
9989091 CAACACTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.68, C:0.19, G:0.07, T:0.07
Consensus pattern (12 bp):
AACAAAAATAAC
Found at i:9989030 original size:24 final size:24
Alignment explanation
Indices: 9989000--9989090 Score: 137
Period size: 24 Copynumber: 3.8 Consensus size: 24
9988990 GCATCTAAAT
*
9989000 AACAAAAATAACAACCAAAATAGC
1 AACAAAAATAACAACAAAAATAGC
* * *
9989024 AGCAAAAATAGCAACAAAAACAGC
1 AACAAAAATAACAACAAAAATAGC
*
9989048 AACAAAAATAACAGCAAAAATAGC
1 AACAAAAATAACAACAAAAATAGC
9989072 AACAAAAATAACAACAAAA
1 AACAAAAATAACAACAAAA
9989091 CAACACTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.68, C:0.19, G:0.07, T:0.07
Consensus pattern (24 bp):
AACAAAAATAACAACAAAAATAGC
Found at i:9989056 original size:36 final size:36
Alignment explanation
Indices: 9989000--9989090 Score: 146
Period size: 36 Copynumber: 2.5 Consensus size: 36
9988990 GCATCTAAAT
* *
9989000 AACAAAAATAACAACCAAAATAGCAGCAAAAATAGC
1 AACAAAAATAACAACAAAAATAACAGCAAAAATAGC
* *
9989036 AACAAAAACAGCAACAAAAATAACAGCAAAAATAGC
1 AACAAAAATAACAACAAAAATAACAGCAAAAATAGC
9989072 AACAAAAATAACAACAAAA
1 AACAAAAATAACAACAAAA
9989091 CAACACTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.68, C:0.19, G:0.07, T:0.07
Consensus pattern (36 bp):
AACAAAAATAACAACAAAAATAACAGCAAAAATAGC
Found at i:9993457 original size:29 final size:30
Alignment explanation
Indices: 9993392--9993467 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
9993382 CAAATGATTT
9993392 TAAAATTATTAAAATTATTTTTAAAAAATA
1 TAAAATTATTAAAATTATTTTTAAAAAATA
*
9993422 TAAAATTATTAAAATTATTTTTTAAAAATA
1 TAAAATTATTAAAATTATTTTTAAAAAATA
*
9993452 -ATAATTATT-AAATTAT
1 TAAAATTATTAAAATTAT
9993468 GATATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.16
29 8 0.18
30 29 0.66
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTAAAAAATA
Found at i:9993735 original size:158 final size:158
Alignment explanation
Indices: 9993546--9993856 Score: 534
Period size: 158 Copynumber: 2.0 Consensus size: 158
9993536 CTTAATCCAC
* *
9993546 TAAAAATTTGGGTTTTAGAAATTTGAAAATTAGTGTTT-TAAAAAGCTTACAGATGAACAAAAGT
1 TAAAAATTTGGGTTTTAGAAATTTAAAAATTAATGTTTCTAAAAA-CTTACAGATGAACAAAAGT
*
9993610 ATGAAAAAATGAGGAAGAAGAAGATTTGTAACACCCAGGTTTTTAAGTTTGATTTTTAAAAATTT
65 ATGAAAAAATGAAGAAGAAGAAGATTTGTAACACCCAGGTTTTTAAGTTTGATTTTTAAAAATTT
9993675 TCAGATTTCAAAAACTCAAATTTTATTTT
130 TCAGATTTCAAAAACTCAAATTTTATTTT
* * *
9993704 TAAAAATTTGGGTTTTTGAAATTTAAAAATTAATGTTTCTAAAGACTTACATATGAACAAAAGTA
1 TAAAAATTTGGGTTTTAGAAATTTAAAAATTAATGTTTCTAAAAACTTACAGATGAACAAAAGTA
* *
9993769 TGGAACAATGAAGAAGAAGAAGATTTGTAACACCCAGGTTTTTAAGTTTGATTTTTAAAAATTTT
66 TGAAAAAATGAAGAAGAAGAAGATTTGTAACACCCAGGTTTTTAAGTTTGATTTTTAAAAATTTT
9993834 CAGATTTCAAAAACTCAAATTTT
131 CAGATTTCAAAAACTCAAATTTT
9993857 GTTTGGTGAA
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
158 139 0.97
159 5 0.03
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (158 bp):
TAAAAATTTGGGTTTTAGAAATTTAAAAATTAATGTTTCTAAAAACTTACAGATGAACAAAAGTA
TGAAAAAATGAAGAAGAAGAAGATTTGTAACACCCAGGTTTTTAAGTTTGATTTTTAAAAATTTT
CAGATTTCAAAAACTCAAATTTTATTTT
Found at i:9998370 original size:26 final size:27
Alignment explanation
Indices: 9998309--9998378 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
9998299 TTTTTTAAAA
*
9998309 AATATTTATATTATATTATTTTAATATTT
1 AATATTT-T-TTATATAATTTTAATATTT
* *
9998338 AATA-TTTTTATATAATTTTCATTTTT
1 AATATTTTTTATATAATTTTAATATTT
9998364 GAA-ATTTTTTATATA
1 -AATATTTTTTATATA
9998379 GTCATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 17 0.47
27 13 0.36
28 2 0.06
29 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
AATATTTTTTATATAATTTTAATATTT
Found at i:10003638 original size:22 final size:23
Alignment explanation
Indices: 10003608--10003652 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
10003598 TTCTAAAAGT
*
10003608 GGTATAAATATCAAAAT-ATATA
1 GGTACAAATATCAAAATGATATA
*
10003630 GGTACAAATATGAAAATGATATA
1 GGTACAAATATCAAAATGATATA
10003653 CTAACTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.29
Consensus pattern (23 bp):
GGTACAAATATCAAAATGATATA
Found at i:10004627 original size:65 final size:65
Alignment explanation
Indices: 10004523--10004657 Score: 209
Period size: 65 Copynumber: 2.1 Consensus size: 65
10004513 ACTTTTACAT
*
10004523 GGCATGACTTCATTTATAGTAGTGAAATTCACAGATCGATAAAAGGTAAATGATATTCTCTCATG
1 GGCATGACTTCATTTATAGTAGTGAAATTCACAGATCGATAAAAGGTAAATGATATCCTCTCATG
* * *
10004588 GGCATGACTTCCTTTATAGTAGTGAAATTCATA-ACTCGATAAAAGGTTAATGATATCCTCTCAT
1 GGCATGACTTCATTTATAGTAGTGAAATTCACAGA-TCGATAAAAGGTAAATGATATCCTCTCAT
10004652 G
65 G
*
10004653 AGCAT
1 GGCAT
10004658 TACATGGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.02
65 63 0.98
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (65 bp):
GGCATGACTTCATTTATAGTAGTGAAATTCACAGATCGATAAAAGGTAAATGATATCCTCTCATG
Found at i:10013041 original size:35 final size:35
Alignment explanation
Indices: 10012975--10013041 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
10012965 ATATACTCTC
* *
10012975 TTTATACTTTTATTACATCTAAATGATTCTTTAAA
1 TTTATACTTTTATTACATCTAAATAACTCTTTAAA
*
10013010 TTTATACTTTTGTTACATCTAAATAACTCTTT
1 TTTATACTTTTATTACATCTAAATAACTCTTT
10013042 TAAGTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.52
Consensus pattern (35 bp):
TTTATACTTTTATTACATCTAAATAACTCTTTAAA
Found at i:10016345 original size:16 final size:17
Alignment explanation
Indices: 10016324--10016357 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10016314 TTCCTCGTAA
10016324 TTTATTT-AAAAATATT
1 TTTATTTCAAAAATATT
10016340 TTTATTTCAAAAATATT
1 TTTATTTCAAAAATATT
10016357 T
1 T
10016358 CTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTTCAAAAATATT
Found at i:10018004 original size:9 final size:10
Alignment explanation
Indices: 10017974--10018020 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
10017964 TATAGTGTAT
*
10017974 AAATAATGTAT
1 AAATAAT-TAA
10017985 AAATAATTAA
1 AAATAATTAA
10017995 AAAT-ATTAA
1 AAATAATTAA
*
10018004 AAAAAACTTAA
1 AAATAA-TTAA
10018015 AAATAA
1 AAATAA
10018021 AATAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 8 0.26
10 7 0.23
11 16 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AAATAATTAA
Found at i:10018032 original size:18 final size:19
Alignment explanation
Indices: 10017991--10018034 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
10017981 GTATAAATAA
10017991 TTAAAAATATTAAAAAAAAC
1 TTAAAAATA-TAAAAAAAAC
* *
10018011 TTAAAAATA-AAATAAAAT
1 TTAAAAATATAAAAAAAAC
10018029 TTAAAA
1 TTAAAA
10018035 TACATAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAAAAATATAAAAAAAAC
Found at i:10018142 original size:25 final size:26
Alignment explanation
Indices: 10018052--10018149 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 26
10018042 TTGTAAATTT
* **
10018052 AAAAATCAAAATATTATATATAAATTGAA
1 AAAAAT-AAAA-A-TATATATAGATTCTA
10018081 AAAAATAAAAAT-TATA-AGATTCTA
1 AAAAATAAAAATATATATAGATTCTA
* * * *
10018105 AAATATATAAATATATATA-TTTTTA
1 AAAAATAAAAATATATATAGATTCTA
10018130 AAAAATAAAAATATTATATA
1 AAAAATAAAAATA-TATATA
10018150 AAAATTGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 15 0.26
25 23 0.40
26 8 0.14
27 1 0.02
28 4 0.07
29 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AAAAATAAAAATATATATAGATTCTA
Found at i:10023321 original size:22 final size:22
Alignment explanation
Indices: 10023279--10023332 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10023269 AACGAAACAA
* *
10023279 AAAATGAAAGAGATAGTGAGGG
1 AAAACGAAAGAGATAGTGAGGC
*
10023301 AAAACGAAAGAGA-CGTAGAGGC
1 AAAACGAAAGAGATAGT-GAGGC
*
10023323 AAAACAAAAG
1 AAAACGAAAG
10023333 GAAATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.56, C:0.07, G:0.30, T:0.07
Consensus pattern (22 bp):
AAAACGAAAGAGATAGTGAGGC
Found at i:10028458 original size:20 final size:20
Alignment explanation
Indices: 10028411--10028459 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
10028401 TTAAGGTATT
* * *
10028411 GGTAGAACTGTAGTTGTATC
1 GGTAGAAGTGGAGTTCTATC
10028431 GGTAGAAGTGGAGTTCTATC
1 GGTAGAAGTGGAGTTCTATC
10028451 GGTAGAAGT
1 GGTAGAAGT
10028460 CTCACTGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (20 bp):
GGTAGAAGTGGAGTTCTATC
Found at i:10028477 original size:13 final size:13
Alignment explanation
Indices: 10028459--10028485 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10028449 TCGGTAGAAG
10028459 TCTCACTGGAGTC
1 TCTCACTGGAGTC
10028472 TCTCACTGGAGTC
1 TCTCACTGGAGTC
10028485 T
1 T
10028486 TTTTCACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (13 bp):
TCTCACTGGAGTC
Found at i:10029850 original size:19 final size:19
Alignment explanation
Indices: 10029826--10029892 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
10029816 CAAGAACACC
*
10029826 AAATATAACTTAGTCATAA
1 AAATATAACTTAATCATAA
** *
10029845 AAATATAA-AAAATAATACA
1 AAATATAACTTAATCATA-A
*
10029864 CCAAATATAACTTATTCATAA
1 --AAATATAACTTAATCATAA
10029885 AAATATAA
1 AAATATAA
10029893 AAAAATAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 5 0.14
19 17 0.47
21 9 0.25
22 5 0.14
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (19 bp):
AAATATAACTTAATCATAA
Found at i:10029866 original size:40 final size:41
Alignment explanation
Indices: 10029821--10029902 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 41
10029811 GTCATCAAGA
10029821 ACACCAAATATAACTTAGTCATAAAAATAT-AAAAAATAAT
1 ACACCAAATATAACTTAGTCATAAAAATATAAAAAAATAAT
*
10029861 ACACCAAATATAACTTATTCATAAAAATATAAAAAAATAAT
1 ACACCAAATATAACTTAGTCATAAAAATATAAAAAAATAAT
10029902 A
1 A
10029903 GTAAAGGGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 29 0.73
41 11 0.28
ACGTcount: A:0.61, C:0.12, G:0.01, T:0.26
Consensus pattern (41 bp):
ACACCAAATATAACTTAGTCATAAAAATATAAAAAAATAAT
Found at i:10030978 original size:8 final size:8
Alignment explanation
Indices: 10030965--10030999 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
10030955 CTTCTCAAGT
10030965 CTTCCACA
1 CTTCCACA
10030973 CTTCCACA
1 CTTCCACA
*
10030981 CTTTCACA
1 CTTCCACA
*
10030989 CTTTCACA
1 CTTCCACA
10030997 CTT
1 CTT
10031000 TCTCTTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (8 bp):
CTTCCACA
Found at i:10031000 original size:8 final size:8
Alignment explanation
Indices: 10030969--10031001 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
10030959 TCAAGTCTTC
*
10030969 CACACTTC
1 CACACTTT
10030977 CACACTTT
1 CACACTTT
10030985 CACACTTT
1 CACACTTT
10030993 CACACTTT
1 CACACTTT
10031001 C
1 C
10031002 TCTTCCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.33
Consensus pattern (8 bp):
CACACTTT
Found at i:10032878 original size:6 final size:6
Alignment explanation
Indices: 10032867--10032901 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
10032857 ATCAAATGTC
10032867 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGGCA
1 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGGCA
10032902 GGTGGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
TGGCAA
Found at i:10036416 original size:16 final size:16
Alignment explanation
Indices: 10036395--10036428 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10036385 TATGGTTAGT
10036395 TAATCTATATAGTTAA
1 TAATCTATATAGTTAA
10036411 TAATCTATATAGTTAA
1 TAATCTATATAGTTAA
10036427 TA
1 TA
10036429 TTGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TAATCTATATAGTTAA
Found at i:10037087 original size:28 final size:28
Alignment explanation
Indices: 10036999--10037090 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 28
10036989 TTAAAGTGTG
* *
10036999 ATTTAATTTTTTTTATTTTTTCGTATATTTAA
1 ATTTAA-TATTTTTATTTTTT--TA-ATTTGA
*
10037031 ATTTAA-ATTTTATATTTTATTT--TCATGA
1 ATTTAATATTTT-TATTTT-TTTAAT-TTGA
10037059 ATTTAATATTTTTATTTTTTTAATTTGA
1 ATTTAATATTTTTATTTTTTTAATTTGA
10037087 ATTT
1 ATTT
10037091 TTTGGATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
27 4 0.08
28 21 0.42
29 6 0.12
30 5 0.10
31 6 0.12
32 8 0.16
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTAATATTTTTATTTTTTTAATTTGA
Found at i:10037170 original size:11 final size:11
Alignment explanation
Indices: 10037156--10037182 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10037146 ATTCGGCCTA
10037156 AGCATTATATT
1 AGCATTATATT
10037167 AGCATTATATT
1 AGCATTATATT
10037178 AGCAT
1 AGCAT
10037183 ATTTTATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (11 bp):
AGCATTATATT
Found at i:10040208 original size:58 final size:57
Alignment explanation
Indices: 10040102--10040244 Score: 146
Period size: 58 Copynumber: 2.5 Consensus size: 57
10040092 GAAATATGAA
* * * * * *
10040102 GACTAACATGAAAAAAAAAAATTAAA-TTCCAATATAAGAACAATTGTTAAATTTAAG
1 GACTAACTTG-AACAAAAAAATTAAACCTCCAATATAAAAACAACTGTTAAATTCAAG
* *
10040159 GACTAATTTGAATAAAAAAATTAAACCT-CAATATATATAAACAACTGTTAAATTCAAG
1 GACTAACTTGAACAAAAAAATTAAACCTCCAATATA-A-AAACAACTGTTAAATTCAAG
* *
10040217 TACTAACTTGAACCAAAAAATTCAAACC
1 GACTAACTTGAACAAAAAAATT-AAACC
10040245 ACTATGAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 21 0.30
57 10 0.14
58 35 0.49
59 5 0.07
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (57 bp):
GACTAACTTGAACAAAAAAATTAAACCTCCAATATAAAAACAACTGTTAAATTCAAG
Found at i:10040702 original size:14 final size:15
Alignment explanation
Indices: 10040683--10040712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10040673 GTACGTATTT
10040683 AATATT-TATTTTTA
1 AATATTATATTTTTA
10040697 AATATTATATTTTTA
1 AATATTATATTTTTA
10040712 A
1 A
10040713 TTGCAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTATATTTTTA
Found at i:10044496 original size:22 final size:22
Alignment explanation
Indices: 10044468--10044510 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10044458 GAAATGGTAG
10044468 CAAAACAACAACATAACAGTAA
1 CAAAACAACAACATAACAGTAA
10044490 CAAAACAACAACATAACAGTA
1 CAAAACAACAACATAACAGTA
10044511 CGTTTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.23, G:0.05, T:0.09
Consensus pattern (22 bp):
CAAAACAACAACATAACAGTAA
Found at i:10045666 original size:3 final size:3
Alignment explanation
Indices: 10045658--10045683 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10045648 TCCAGGCTTC
10045658 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
10045684 GGTGAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10047942 original size:30 final size:28
Alignment explanation
Indices: 10047907--10048000 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 28
10047897 TGTTAAGAGC
10047907 ATTTAGGCATAAATTAAAGGTTAAGGGCTT
1 ATTTAGG-ATAAATTAAA-GTTAAGGGCTT
*
10047937 ATTTA-GATACAAGTTAAATGTTAAGGGCTA
1 ATTTAGGATA-AA-TTAAA-GTTAAGGGCTT
* *
10047967 ATTT-GTGTAGAAATTAAATTTCAAGGGCTT
1 ATTTAG-G-ATAAATTAAAGTT-AAGGGCTT
10047997 ATTT
1 ATTT
10048001 CAGTGTAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
28 3 0.06
29 5 0.09
30 40 0.75
31 3 0.06
32 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.37
Consensus pattern (28 bp):
ATTTAGGATAAATTAAAGTTAAGGGCTT
Found at i:10048515 original size:262 final size:261
Alignment explanation
Indices: 10048050--10048573 Score: 976
Period size: 262 Copynumber: 2.0 Consensus size: 261
10048040 GTAAAGTTCA
*
10048050 AGGGTCTACTTAATATTTTAGCTTATTAGCTATCATGCTGGAAAGGGTGGGTCGGTTTCTTAAAT
1 AGGGTCTACTTAATATTTTAGCTTATTAGCTATCATGCTGGAAAGGGTGGATCGGTTTCTTAAAT
*
10048115 ACTACAACAATTCTGATAATATAATAGCCTTGATGTGCTTTTCCAACTAGGTTCTCACTTTAATT
66 ACTACAACAATTCTGATAATATAATAGCCTTGATGTGCATTTCCAACTAGGTTCTCACTTTAATT
*
10048180 GTATTGATAAGTAGGCATGAATTAGCATAACCAATAAGAAGAAAGCAAGATTTCCTTATGGAATC
131 GTATTGATAAGTAGGCATGAATTAGCATAACCAATAAGAAGAAAGCAAAATTTCCTTATGGAATC
10048245 TGCCTAGTAAATTGTTAATTGTAATGTTTCAATATTTTGTGTAGGCAGCACTATCTTATTGTATG
196 TGCCTAGTAAATTGTTAATTGTAATGTTTCAATA-TTTGTGTAGGCAGCACTATCTTATTGTATG
10048310 GG
260 GG
*
10048312 AGGGTCTACTTAATATTTTAGCTTATTAGCTATCATGCTGGAAAGGGTGGATTGGTTTCTTAAAT
1 AGGGTCTACTTAATATTTTAGCTTATTAGCTATCATGCTGGAAAGGGTGGATCGGTTTCTTAAAT
* *
10048377 ACTACAACAATTCTGATAATATAATAGCCTTGATTTGCATTTCCAACTAGGTTCTCACTTTACTT
66 ACTACAACAATTCTGATAATATAATAGCCTTGATGTGCATTTCCAACTAGGTTCTCACTTTAATT
10048442 GTATTGATAAGTAGGCATGAATTAGCATAACCAATAAGAAGAAAGCAAAATTTCCTTATGGAATC
131 GTATTGATAAGTAGGCATGAATTAGCATAACCAATAAGAAGAAAGCAAAATTTCCTTATGGAATC
*
10048507 TGCCTAGTAAATTGTTAATTGTAATGTTTCAGTATTTGTGTAGGCAGCACTATCTTATTGTATGG
196 TGCCTAGTAAATTGTTAATTGTAATGTTTCAATATTTGTGTAGGCAGCACTATCTTATTGTATGG
10048572 G
261 G
10048573 A
1 A
10048574 CCTTTGACAT
Statistics
Matches: 255, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
261 33 0.13
262 222 0.87
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (261 bp):
AGGGTCTACTTAATATTTTAGCTTATTAGCTATCATGCTGGAAAGGGTGGATCGGTTTCTTAAAT
ACTACAACAATTCTGATAATATAATAGCCTTGATGTGCATTTCCAACTAGGTTCTCACTTTAATT
GTATTGATAAGTAGGCATGAATTAGCATAACCAATAAGAAGAAAGCAAAATTTCCTTATGGAATC
TGCCTAGTAAATTGTTAATTGTAATGTTTCAATATTTGTGTAGGCAGCACTATCTTATTGTATGG
G
Found at i:10051179 original size:12 final size:13
Alignment explanation
Indices: 10051162--10051195 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10051152 TTATTTTATA
10051162 ATTTTATGTATT-
1 ATTTTATGTATTC
10051174 ATTTTAT-TATTC
1 ATTTTATGTATTC
10051186 ATTTTATGTA
1 ATTTTATGTA
10051196 ATAAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 14 0.70
13 2 0.10
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (13 bp):
ATTTTATGTATTC
Found at i:10053066 original size:19 final size:19
Alignment explanation
Indices: 10053030--10053066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10053020 AACTAGTTCG
**
10053030 ATTAAAAAATTATTAAAAT
1 ATTAAAAAATTAAAAAAAT
10053049 ATTAAAAAATTAAAAAAA
1 ATTAAAAAATTAAAAAAA
10053067 ATGGTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTAAAAAATTAAAAAAAT
Found at i:10056545 original size:29 final size:29
Alignment explanation
Indices: 10056513--10056918 Score: 266
Period size: 29 Copynumber: 14.0 Consensus size: 29
10056503 AGTTTCAAAG
*
10056513 AGTTTGGGGTCAAAATGTGATTTTTGAAA
1 AGTTTGGGGTCAAAATGTAATTTTTGAAA
* * * *
10056542 AGTTTAGGGTTAAAATGTGATTTTTG-GA
1 AGTTTGGGGTCAAAATGTAATTTTTGAAA
* * *
10056570 AGTTCGAGGGT-ATAAATGTGATTTTTG-GA
1 AGTTTG-GGGTCA-AAATGTAATTTTTGAAA
* * * *
10056599 AGTTTGGGGGTAAAAATATGATTTTTG-GA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAAA
* *
10056628 AGTTCGAGGGTAAAAATGTAATTTTTGAAA
1 AGTTTG-GGGTCAAAATGTAATTTTTGAAA
*
10056658 AGTTTGGGGT-AAAATGCAA-TTTTGAAA
1 AGTTTGGGGTCAAAATGTAATTTTTGAAA
* ** *
10056685 AGTTCAGAAG-CAAAAATGTAATTTTTGATA
1 AGTT-TGGGGTC-AAAATGTAATTTTTGAAA
* * * *
10056715 A-TTCAGTGG-CAAAAATGTAATTTTTTAGA
1 AGTT-TGGGGTC-AAAATGTAATTTTTGAAA
* * *
10056744 AGTTTAAGGG--AAAAAGTAATTTTAGAAA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAAA
* *
10056772 AGTTTGGGGGTCAAAATGTATTTTTTG-GA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAAA
*
10056801 AGTTTAGGGG-CAAAATGCAA-TTTT-AAGA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAA-A
* *
10056829 AGTTTAGGGGTTAAAATGTAATTTTGGAAA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAAA
* *
10056859 AGTTTAGGGTCAAAATGTAATTTTGGAAA
1 AGTTTGGGGTCAAAATGTAATTTTTGAAA
* *
10056888 AGTTTAGGGGTTAAAATGTAATTTTGGAAA
1 AGTTT-GGGGTCAAAATGTAATTTTTGAAA
10056918 A
1 A
10056919 ATTTTAGGGT
Statistics
Matches: 311, Mismatches: 46, Indels: 39
0.79 0.12 0.10
Matches are distributed among these distances:
27 16 0.05
28 58 0.19
29 171 0.55
30 64 0.21
31 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AGTTTGGGGTCAAAATGTAATTTTTGAAA
Found at i:10056911 original size:59 final size:59
Alignment explanation
Indices: 10056513--10057008 Score: 330
Period size: 58 Copynumber: 8.5 Consensus size: 59
10056503 AGTTTCAAAG
* * * *
10056513 AGTTTGGGGTCAAAATGTGATTTTTGAAAAGTTTA-GGGTTAAAATGTGATTTTTGG--A
1 AGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGT-AATTTTGGAAA
* * * * * *
10056570 AGTTCGAGGGT-ATAAATGTGATTTTTGG--AAGTTTGGGGGTAAAAATATGATTTTTGG--A
1 AGTT-TAGGGTCA-AAATGT-AATTTTGGAAAAGTTTAGGGGTTAAAATGT-AATTTTGGAAA
* * * *
10056628 AGTTCGAGGGTAAAAATGTAATTTTTGAAAAGTTT-GGGG-TAAAATGCAATTTT-GAAA
1 AGTT-TAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAA
* * * * * * ** ** *
10056685 AGTTCAGAAG-CAAAAATGTAATTTTTGATAA-TTCAGTGGCAAAAATGTAATTTTTTAGA
1 AGTTTAG-GGTC-AAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAA
* * * * *
10056744 AGTTTAAGGG--AAAAAGTAATTTTAGAAAAGTTTGGGGGTCAAAATGTATTTTTTGG--A
1 AGTTT-AGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTA-ATTTTGGAAA
* *
10056801 AGTTTAGGGGCAAAATGCAATTTT--AAGAAGTTTAGGGGTTAAAATGTAATTTTGGAAA
1 AGTTTAGGGTCAAAATGTAATTTTGGAA-AAGTTTAGGGGTTAAAATGTAATTTTGGAAA
10056859 AGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAA
1 AGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGG-AAA
* * * * ** * * *
10056919 ATTTTAGGGT-AAGACGTGATTTTGGAAAAAATTAGGGGTTAATATATAATTTTAGAAA
1 AGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAA
* * *
10056977 AGTTCGAGGGTCAAAATATGATTTCTGGAAAA
1 AGTT-TAGGGTCAAAATGTAATTT-TGGAAAA
10057009 TTCAGCGACC
Statistics
Matches: 353, Mismatches: 58, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
55 1 0.00
56 21 0.06
57 90 0.25
58 116 0.33
59 93 0.26
60 25 0.07
61 7 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (59 bp):
AGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAA
Found at i:10056948 original size:29 final size:28
Alignment explanation
Indices: 10056513--10057008 Score: 244
Period size: 29 Copynumber: 17.0 Consensus size: 28
10056503 AGTTTCAAAG
* * *
10056513 AGTTTGGGGTCAAAATGTGATTTTTGAAA
1 AGTTTAGGGT-AAAATGTAATTTTGGAAA
*
10056542 AGTTTAGGGTTAAAATGTGATTTTTGG--A
1 AGTTTAGGG-TAAAATGT-AATTTTGGAAA
* *
10056570 AGTTCGAGGGTATAAATGTGATTTTTGG--A
1 AGTT-TAGGGTA-AAATGT-AATTTTGGAAA
* * *
10056599 AGTTTGGGGGTAAAAATATGATTTTTGG--A
1 AGTTT-AGGGT-AAAATGT-AATTTTGGAAA
* *
10056628 AGTTCGAGGGTAAAAATGTAATTTTTGAAA
1 AGTT-TAGGGT-AAAATGTAATTTTGGAAA
* *
10056658 AGTTTGGGGTAAAATGCAATTTT-GAAA
1 AGTTTAGGGTAAAATGTAATTTTGGAAA
* ** * *
10056685 AGTTCAGAAGCAAAAATGTAATTTTTGATA
1 AGTTTAG--GGTAAAATGTAATTTTGGAAA
* * ** *
10056715 A-TTCAGTGGCAAAAATGTAATTTTTTAGA
1 AGTTTAG-GG-TAAAATGTAATTTTGGAAA
* *
10056744 AGTTTAAGGG-AAAAAGTAATTTTAGAAA
1 AGTTT-AGGGTAAAATGTAATTTTGGAAA
* *
10056772 AGTTTGGGGGTCAAAATGTATTTTTTGG--A
1 AGTTT-AGGGT-AAAATGTA-ATTTTGGAAA
* *
10056801 AGTTTAGGGGCAAAATGCAATTTT--AAGA
1 AGTTTA-GGGTAAAATGTAATTTTGGAA-A
10056829 AGTTTAGGGGTTAAAATGTAATTTTGGAAA
1 AGTTTA-GGG-TAAAATGTAATTTTGGAAA
10056859 AGTTTAGGGTCAAAATGTAATTTTGGAAA
1 AGTTTAGGGT-AAAATGTAATTTTGGAAA
10056888 AGTTTAGGGGTTAAAATGTAATTTTGGAAAA
1 AGTTTA-GGG-TAAAATGTAATTTTGG-AAA
* * * *
10056919 ATTTTAGGGTAAGACGTGATTTTGGAAA
1 AGTTTAGGGTAAAATGTAATTTTGGAAA
** * * *
10056947 AAATTAGGGGTTAATATATAATTTTAGAAA
1 AGTTTA-GGG-TAAAATGTAATTTTGGAAA
* * *
10056977 AGTTCGAGGGTCAAAATATGATTTCTGGAAA
1 AGTT-TAGGGT-AAAATGTAATTT-TGGAAA
10057008 A
1 A
10057009 TTCAGCGACC
Statistics
Matches: 374, Mismatches: 59, Indels: 66
0.75 0.12 0.13
Matches are distributed among these distances:
27 13 0.03
28 74 0.20
29 178 0.48
30 84 0.22
31 25 0.07
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (28 bp):
AGTTTAGGGTAAAATGTAATTTTGGAAA
Found at i:10064280 original size:30 final size:28
Alignment explanation
Indices: 10064240--10064303 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
10064230 AGAACATGAC
10064240 AATATCAAAATTTACAAAAAAAGTAAATTG
1 AATATCAAAATTT--AAAAAAAGTAAATTG
* * *
10064270 AATATGAAAATTTATAAAAAGTAATTTG
1 AATATCAAAATTTAAAAAAAGTAAATTG
10064298 AATATC
1 AATATC
10064304 CGAATAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.60
30 12 0.40
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (28 bp):
AATATCAAAATTTAAAAAAAGTAAATTG
Found at i:10072036 original size:24 final size:23
Alignment explanation
Indices: 10071957--10072044 Score: 106
Period size: 23 Copynumber: 3.8 Consensus size: 23
10071947 TTAATGTTGA
*
10071957 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
* *
10071980 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
10072003 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
* *
10072027 TGAACATGTTTATGAACA
1 CGAACATGTTCATGAACA
10072045 ATGTTAATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 34 0.61
24 19 0.34
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:10072054 original size:13 final size:12
Alignment explanation
Indices: 10071975--10072055 Score: 58
Period size: 12 Copynumber: 6.7 Consensus size: 12
10071965 TTCATTTAAC
10071975 TTAATCGAACATG
1 TTAAT-GAACATG
* *
10071988 TTCACGAACAT-
1 TTAATGAACATG
* *
10071999 TAAACGAACATG
1 TTAATGAACATG
*
10072011 TTCATGAACAT-
1 TTAATGAACATG
*
10072022 ATAATTGAACATG
1 TTAA-TGAACATG
*
10072035 TTTATGAACAATG
1 TTAATGAAC-ATG
10072048 TTAATGAA
1 TTAATGAA
10072056 TAATAAACAA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
11 11 0.21
12 26 0.50
13 15 0.29
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (12 bp):
TTAATGAACATG
Found at i:10076006 original size:45 final size:45
Alignment explanation
Indices: 10075938--10076027 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
10075928 GAAGAATAGC
* *
10075938 TGGTAATGAATTTGTGTTATCTGGTCTTGGTTAATTTGCTCATCT
1 TGGTAATGAAATTGTGTTATCTGGTCTTGATTAATTTGCTCATCT
* *
10075983 TGGTAATGAAATTGTGTTGTCTGGTGTTGATTAATTTGCTCATCT
1 TGGTAATGAAATTGTGTTATCTGGTCTTGATTAATTTGCTCATCT
10076028 CAATGGTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (45 bp):
TGGTAATGAAATTGTGTTATCTGGTCTTGATTAATTTGCTCATCT
Done.