Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 315 of 444
Found at i:90781133 original size:25 final size:25
Alignment explanation
Indices: 90781073--90781127 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
90781063 CACACCAAAA
90781073 CTTGTATGAGCTTCCCGATTCACAG
1 CTTGTATGAGCTTCCCGATTCACAG
90781098 CTTGTATGAGCTTCCCGATTCACAG
1 CTTGTATGAGCTTCCCGATTCACAG
90781123 CTTGT
1 CTTGT
90781128 GAGAGCATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (25 bp):
CTTGTATGAGCTTCCCGATTCACAG
Found at i:90781143 original size:25 final size:25
Alignment explanation
Indices: 90781090--90781162 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
90781080 GAGCTTCCCG
* * * **
90781090 ATTCACAGCTTGTATGAGCTTCCCG
1 ATTCACAGCTCGTATGAGCATACTA
*
90781115 ATTCACAGCTTGTGA-GAGCATACTA
1 ATTCACAGCTCGT-ATGAGCATACTA
*
90781140 ATTCATAGCTCGTATGAGCATAC
1 ATTCACAGCTCGTATGAGCATAC
90781163 ATGAATATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
ATTCACAGCTCGTATGAGCATACTA
Found at i:90797140 original size:93 final size:93
Alignment explanation
Indices: 90796981--90797159 Score: 349
Period size: 93 Copynumber: 1.9 Consensus size: 93
90796971 GAAACAAAAA
*
90796981 ATATAACTTTTGGGGCGTTACAACTTTCCCCCTAAAAGAAAATTTCAGCCTCGAAATTTACCTGA
1 ATATAACTTTTGAGGCGTTACAACTTTCCCCCTAAAAGAAAATTTCAGCCTCGAAATTTACCTGA
90797046 TCAGAACAGATGAGGATACTGATACGTC
66 TCAGAACAGATGAGGATACTGATACGTC
90797074 ATATAACTTTTGAGGCGTTACAACTTTCCCCCTAAAAGAAAATTTCAGCCTCGAAATTTACCTGA
1 ATATAACTTTTGAGGCGTTACAACTTTCCCCCTAAAAGAAAATTTCAGCCTCGAAATTTACCTGA
90797139 TCAGAACAGATGAGGATACTG
66 TCAGAACAGATGAGGATACTG
90797160 CTGACGCATC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (93 bp):
ATATAACTTTTGAGGCGTTACAACTTTCCCCCTAAAAGAAAATTTCAGCCTCGAAATTTACCTGA
TCAGAACAGATGAGGATACTGATACGTC
Found at i:90803174 original size:31 final size:31
Alignment explanation
Indices: 90803136--90803220 Score: 136
Period size: 31 Copynumber: 2.7 Consensus size: 31
90803126 TTTAAAAAGT
90803136 TGGGCTCACACGCCCATGTGGCCTGCCCGTG
1 TGGGCTCACACGCCCATGTGGCCTGCCCGTG
*
90803167 TGGGCTCACACGCCCATGTGGCCTGCCTGTG
1 TGGGCTCACACGCCCATGTGGCCTGCCCGTG
*
90803198 TGGG-TCCACACACCCATGTGGCC
1 TGGGCT-CACACGCCCATGTGGCC
90803221 CACACAGCCC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 1 0.02
31 50 0.98
ACGTcount: A:0.12, C:0.38, G:0.31, T:0.20
Consensus pattern (31 bp):
TGGGCTCACACGCCCATGTGGCCTGCCCGTG
Found at i:90803186 original size:18 final size:18
Alignment explanation
Indices: 90803136--90803187 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
90803126 TTTAAAAAGT
90803136 TGGGCTCACACGCCCATG
1 TGGGCTCACACGCCCATG
* *
90803154 T-GG--C-C-TGCCCGTG
1 TGGGCTCACACGCCCATG
90803167 TGGGCTCACACGCCCATG
1 TGGGCTCACACGCCCATG
90803185 TGG
1 TGG
90803188 CCTGCCTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 10
0.64 0.10 0.26
Matches are distributed among these distances:
13 7 0.28
14 3 0.12
15 1 0.04
16 1 0.04
17 3 0.12
18 10 0.40
ACGTcount: A:0.12, C:0.37, G:0.33, T:0.19
Consensus pattern (18 bp):
TGGGCTCACACGCCCATG
Found at i:90808555 original size:27 final size:27
Alignment explanation
Indices: 90808517--90808575 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
90808507 TAAGAGACAA
90808517 TATGTTATATGACATGAAATGCCTATT
1 TATGTTATATGACATGAAATGCCTATT
*
90808544 TATGTTATATGACATGAAATGTCTATT
1 TATGTTATATGACATGAAATGCCTATT
90808571 TATGT
1 TATGT
90808576 GATCTGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (27 bp):
TATGTTATATGACATGAAATGCCTATT
Found at i:90808714 original size:18 final size:20
Alignment explanation
Indices: 90808679--90808719 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
90808669 GGTGAACGGA
90808679 GTTGATTTTAAGGC-AAAAG
1 GTTGATTTTAAGGCAAAAAG
90808698 GTTGATTTTAA-GCAAAAAG
1 GTTGATTTTAAGGCAAAAAG
90808717 GTT
1 GTT
90808720 TAGTATGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGATTTTAAGGCAAAAAG
Found at i:90810660 original size:23 final size:23
Alignment explanation
Indices: 90810597--90810715 Score: 93
Period size: 22 Copynumber: 5.2 Consensus size: 23
90810587 TCGAAATATC
*
90810597 AGCTCG-TAAGAGCTTAATGTTTTT
1 AGCTCGAT-AGAGCTTACTG-TTTT
*
90810621 AGCTC-ATTGGAGCTTACTGTTTT
1 AGCTCGA-TAGAGCTTACTGTTTT
* *
90810644 AGCTCGATAGAGTTTACT-TCTT
1 AGCTCGATAGAGCTTACTGTTTT
** * *
90810666 AGCTTAATAGAGCTTATTG-TTC
1 AGCTCGATAGAGCTTACTGTTTT
* *
90810688 AGCTCGATAGAGCTTACCGTTTC
1 AGCTCGATAGAGCTTACTGTTTT
90810711 AGCTC
1 AGCTC
90810716 ATTAAACCTT
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
22 33 0.44
23 26 0.35
24 15 0.20
25 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (23 bp):
AGCTCGATAGAGCTTACTGTTTT
Found at i:90810669 original size:45 final size:44
Alignment explanation
Indices: 90810619--90810704 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
90810609 CTTAATGTTT
* * * *
90810619 TTAGCTCATTGGAGCTTACTGTTTTAGCTCGATAGAGTTTACTTC
1 TTAGCTCAATAGAGCTTACTG-TTCAGCTCGATAGAGCTTACTTC
* *
90810664 TTAGCTTAATAGAGCTTATTGTTCAGCTCGATAGAGCTTAC
1 TTAGCTCAATAGAGCTTACTGTTCAGCTCGATAGAGCTTAC
90810705 CGTTTCAGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (44 bp):
TTAGCTCAATAGAGCTTACTGTTCAGCTCGATAGAGCTTACTTC
Found at i:90812036 original size:43 final size:43
Alignment explanation
Indices: 90811975--90812072 Score: 196
Period size: 43 Copynumber: 2.3 Consensus size: 43
90811965 AAGGTCTAAG
90811975 ACACGGGCGTGTCTACTAGCCGTGTGAGGCACACGGCCTATTC
1 ACACGGGCGTGTCTACTAGCCGTGTGAGGCACACGGCCTATTC
90812018 ACACGGGCGTGTCTACTAGCCGTGTGAGGCACACGGCCTATTC
1 ACACGGGCGTGTCTACTAGCCGTGTGAGGCACACGGCCTATTC
90812061 ACACGGGCGTGT
1 ACACGGGCGTGT
90812073 GACATTTGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (43 bp):
ACACGGGCGTGTCTACTAGCCGTGTGAGGCACACGGCCTATTC
Found at i:90815671 original size:11 final size:10
Alignment explanation
Indices: 90815612--90815670 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
90815602 GTTATATATA
*
90815612 ATAATATAAT
1 ATAATAAAAT
90815622 ATGAATAAAAT
1 AT-AATAAAAT
**
90815633 ATAAGGAAAT
1 ATAATAAAAT
90815643 ATAATATAAA-
1 ATAATA-AAAT
90815653 ATAATAAGAAT
1 ATAATAA-AAT
90815664 ATAATAA
1 ATAATAA
90815671 GTATTTTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:90815730 original size:21 final size:21
Alignment explanation
Indices: 90815695--90815747 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
90815685 AAAATATGGT
* *
90815695 AAAATAATTAGTATA-AAAAA
1 AAAATAAATAATATATAAAAA
*
90815715 CAAAATAAATAATATATAATAA
1 -AAAATAAATAATATATAAAAA
*
90815737 AAAATATATAA
1 AAAATAAATAA
90815748 GAAAGATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATAAATAATATATAAAAA
Found at i:90815737 original size:14 final size:14
Alignment explanation
Indices: 90815718--90815747 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90815708 TAAAAAACAA
*
90815718 AATAAATAATATAT
1 AATAAAAAATATAT
90815732 AATAAAAAATATAT
1 AATAAAAAATATAT
90815746 AA
1 AA
90815748 GAAAGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAAATATAT
Found at i:90815910 original size:14 final size:15
Alignment explanation
Indices: 90815891--90815924 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
90815881 GAAACATAGT
90815891 ATATAAAAATATAA-
1 ATATAAAAATATAAC
90815905 ATAT-AAAATATAAC
1 ATATAAAAATATAAC
90815919 ATATAA
1 ATATAA
90815925 TAGAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 8 0.44
15 1 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAAAAATATAAC
Found at i:90816305 original size:21 final size:22
Alignment explanation
Indices: 90816263--90816307 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
90816253 TTGAATAGTA
*
90816263 ATAATAATATATAACTAATATTT
1 ATAAAAATATATAAC-AATATTT
*
90816286 ATAAAAATATATAA-AGTATTT
1 ATAAAAATATATAACAATATTT
90816307 A
1 A
90816308 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATATATAACAATATTT
Found at i:90816554 original size:22 final size:21
Alignment explanation
Indices: 90816528--90816569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90816518 ATTAGGGCTA
90816528 AATTAGAAATAAATAAAAATGG
1 AATTAGAAAT-AATAAAAATGG
* *
90816550 AATTATAAATATTAAAAATG
1 AATTAGAAATAATAAAAATG
90816570 CAAGAGGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTAGAAATAATAAAAATGG
Found at i:90818685 original size:207 final size:207
Alignment explanation
Indices: 90817959--90818928 Score: 1462
Period size: 207 Copynumber: 4.7 Consensus size: 207
90817949 AGATCTGCTT
* *
90817959 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
90818024 GCGAAAACCAAATCAGCTATGTCTTCGA-TTTGTTCCTTGTAAACACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * ** * * * * *
90818088 TGGATCTACTTCAGTCTAATCATCTGAAGGTTAGATATGCTATGTGTTTGCCCTCCGTCGAATAT
131 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATAT
90818153 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
90818165 CTTCGATTTGTTCTCTGACAATACAAAGATACCAAATCATCTTAAACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
90818230 GTGAAAGCTAAATCAGCTATGAT-TTC-AATTTGTTCATTGTAAACACAAGGATGCCAAATCATC
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
* *
90818293 TTGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTATCTGCTCTCCGTCGAATA
130 TTGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATA
90818358 TGGAGACGCCAAA
195 TGGAGACGCCAAA
* *
90818371 CTTTGATTT-TTCTCTGACAATACAGAGATGCCAAATCATATTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
90818435 ATGAAAGCCAAATAAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * *
90818500 TGGATCTGCTTCAATATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTTCATCAAATAT
131 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATAT
90818565 GGAGACGCCAAA
196 GGAGACGCCAAA
* **
90818577 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCTT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
90818642 GTGAAAGCCAAATCAGCTATGCCTTCGATTTTGTTGCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
90818707 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCGTCAAATAT
131 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATAT
*
90818772 GGAGATGCCAAA
196 GGAGACGCCAAA
* *
90818784 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
90818849 GTGAAAGCCAAATCAACTATGTTTTTGATTTTGTTCCTTGTAAGTACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
90818914 TGGATCTTGCTTCAG
131 TGGATC-TGCTTCAG
90818929 GAAGATCTGC
Statistics
Matches: 697, Mismatches: 61, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
204 1 0.00
205 71 0.10
206 304 0.44
207 313 0.45
208 8 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATAT
GGAGACGCCAAA
Found at i:90830801 original size:11 final size:10
Alignment explanation
Indices: 90830742--90830800 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
90830732 GTTATATATA
*
90830742 ATAATATAAT
1 ATAATAAAAT
90830752 ATGAATAAAAT
1 AT-AATAAAAT
**
90830763 ATAAGGAAAT
1 ATAATAAAAT
90830773 ATAATATAAA-
1 ATAATA-AAAT
90830783 ATAATAAGAAT
1 ATAATAA-AAT
90830794 ATAATAA
1 ATAATAA
90830801 GTATTTTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:90830873 original size:13 final size:14
Alignment explanation
Indices: 90830848--90830876 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
90830838 TAAAAAACAA
90830848 AATAAATAATATAT
1 AATAAATAATATAT
90830862 AATAAA-AATATAT
1 AATAAATAATATAT
90830875 AA
1 AA
90830877 GAAAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAATAATATAT
Found at i:90831342 original size:44 final size:44
Alignment explanation
Indices: 90831287--90831370 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
90831277 TTAGTAAATA
90831287 ATAATACAATTTTATA-AAAAAATATAT-AAAATAAAATATACAAT
1 ATAATACAA-TTTATAGAAAAAATATATGAAAAT-AAATATACAAT
* * *
90831331 ATAATATAATTTATAGATAAAATATATGATAATAAATATA
1 ATAATACAATTTATAGAAAAAATATATGAAAATAAATATA
90831371 ATGGATAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.17
44 25 0.71
45 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (44 bp):
ATAATACAATTTATAGAAAAAATATATGAAAATAAATATACAAT
Found at i:90831401 original size:32 final size:31
Alignment explanation
Indices: 90831317--90831401 Score: 77
Period size: 32 Copynumber: 2.7 Consensus size: 31
90831307 AATATATAAA
** **
90831317 ATAAAATATACAAT-ATAATATAATTTATAG
1 ATAAAATATATGATAATAATATAATGGATAG
90831347 ATAAAATATATGATAATAAATATAATGGATAG
1 ATAAAATATATGATAAT-AATATAATGGATAG
90831379 -TAATAATAATAT-ATAACTAATAT
1 ATAA-AAT-ATATGATAA-TAATAT
90831402 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 12 0.26
31 5 0.11
32 24 0.52
33 5 0.11
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (31 bp):
ATAAAATATATGATAATAATATAATGGATAG
Found at i:90838760 original size:15 final size:15
Alignment explanation
Indices: 90838724--90838773 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
90838714 CGATATTCTT
90838724 TTTGCAT-TCATACA
1 TTTGCATCTCATACA
90838738 TTTGCATCTCATAGCA
1 TTTGCATCTCATA-CA
*
90838754 TTT-CATCGCAT-CA
1 TTTGCATCTCATACA
90838767 TTTGCAT
1 TTTGCAT
90838774 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 12 0.38
16 5 0.16
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATACA
Found at i:90847338 original size:206 final size:204
Alignment explanation
Indices: 90846832--90847382 Score: 798
Period size: 205 Copynumber: 2.7 Consensus size: 204
90846822 AGCAATCGAG
* *
90846832 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACGAACCAAAGACATAGCT
1 CTGAAG-AAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCT
* * * *
90846897 GATTTGGCTTTCACGTGCTTACGATGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAA
65 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
90846962 AGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGTGGAGCAGCTACATAGCAGATCTCACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCACTTCAAC-TGGAGCAGATACATAGCAGATCTCACCTTC
* * *
90847027 AGATGTTTATA
194 AGACGATTAGA
* ** *
90847038 CTGAAGCAGATCCAAGATGGTTTGATATCCTTGTGCTTACAAGGAACAAATCAAATACATAGCTG
1 CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
*
90847103 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATTATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
90847168 GAACAAATCGAAGTCTTGCATTTCCACTTTAA-TGGAAAGCAGATACATAGCAGATCTGACCTTT
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAACTGG--AGCAGATACATAGCAGATCTCACCTTC
90847232 AGACGATTAGA
194 AGACGATTAGA
* * *
90847243 CTGAAGTAAGATCCAAGATGATTTGGCATCCTTGTGCTTACCAGGAACAAATCGAAGACATAGCT
1 CTGAAG-AAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCT
* * * *
90847308 GATTTGGCTTTCGCGTGTTTATGCTGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
90847373 AGAACAAATC
130 AGAACAAATC
90847383 AAAGAAACAG
Statistics
Matches: 309, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
203 3 0.01
205 179 0.58
206 127 0.41
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (204 bp):
CTGAAGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCACTTCAACTGGAGCAGATACATAGCAGATCTCACCTTCAG
ACGATTAGA
Found at i:90852899 original size:23 final size:23
Alignment explanation
Indices: 90852869--90852921 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
90852859 TCAAAGCCCA
90852869 AATTCACTATACATATAGGTGAG
1 AATTCACTATACATATAGGTGAG
*
90852892 AATTCACTATACATATATGTGAG
1 AATTCACTATACATATAGGTGAG
*
90852915 TATTCAC
1 AATTCAC
90852922 AATCCTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (23 bp):
AATTCACTATACATATAGGTGAG
Found at i:90858372 original size:24 final size:25
Alignment explanation
Indices: 90858324--90858373 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
90858314 TATCGATCAT
*
90858324 GATGCTCGCAGGAGCTATATAACAG
1 GATGCTCGCAGAAGCTATATAACAG
90858349 GATGCTCG-AGAAGGCT-TATAACAG
1 GATGCTCGCAGAA-GCTATATAACAG
90858373 G
1 G
90858374 GTTTCTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (25 bp):
GATGCTCGCAGAAGCTATATAACAG
Found at i:90860671 original size:20 final size:20
Alignment explanation
Indices: 90860617--90860663 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
90860607 ACGATAAGTT
*
90860617 GGGCCTCGAGGGGCTGAAATC
1 GGGCC-CGAAGGGCTGAAATC
90860638 GGGCCCGAAGGGCTGAAATC
1 GGGCCCGAAGGGCTGAAATC
90860658 GGGCCC
1 GGGCCC
90860664 AATGGGCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.19, C:0.28, G:0.43, T:0.11
Consensus pattern (20 bp):
GGGCCCGAAGGGCTGAAATC
Found at i:90860972 original size:25 final size:25
Alignment explanation
Indices: 90860940--90860987 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
90860930 TTATATTATG
* *
90860940 AAAATGACTATTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90860965 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90860988 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90861188 original size:24 final size:24
Alignment explanation
Indices: 90861096--90861204 Score: 130
Period size: 25 Copynumber: 4.4 Consensus size: 24
90861086 AGGAAGTGCA
* *
90861096 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
90861120 GAAAAAGGGCTTTTGCCCCAGTTTATT
1 --AAAAGGGC-TTTGCCCCAGTTTATC
90861147 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
90861172 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
90861195 AAAAGAGGCT
1 AAAAG-GGCT
90861205 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 9 0.12
24 14 0.18
25 32 0.42
26 8 0.11
27 13 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:90861448 original size:31 final size:31
Alignment explanation
Indices: 90861413--90861476 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
90861403 CGTTTACAGT
90861413 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
90861444 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
90861475 AA
1 AA
90861477 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:90865148 original size:15 final size:15
Alignment explanation
Indices: 90865130--90865180 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
90865120 TAAATAGATT
90865130 AATAATAATAAGAAA
1 AATAATAATAAGAAA
*
90865145 AATAAATACTAA-AAA
1 AAT-AATAATAAGAAA
90865160 AATAA-AATAAAGACAA
1 AATAATAAT-AAGA-AA
90865176 AATAA
1 AATAA
90865181 AAAATATCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 4 0.13
15 10 0.33
16 14 0.47
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (15 bp):
AATAATAATAAGAAA
Found at i:90867504 original size:40 final size:40
Alignment explanation
Indices: 90867460--90867538 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
90867450 AACACGAAGT
90867460 AAGCTTCATAGCTTAATAAGCTCGTATGTGAACAACTTAC
1 AAGCTTCATAGCTTAATAAGCTCGTATGTGAACAACTTAC
*
90867500 AAGCTTCATAGCTTAGTAAGCTCGTATGTGAACAACTTA
1 AAGCTTCATAGCTTAATAAGCTCGTATGTGAACAACTTA
90867539 ATTCATATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
AAGCTTCATAGCTTAATAAGCTCGTATGTGAACAACTTAC
Found at i:90871289 original size:5 final size:5
Alignment explanation
Indices: 90871279--90871303 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90871269 TTTTTCTAGC
90871279 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
90871304 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:90880058 original size:47 final size:46
Alignment explanation
Indices: 90879851--90880124 Score: 247
Period size: 49 Copynumber: 5.8 Consensus size: 46
90879841 GTTAAGTTGT
* *
90879851 CGATGACATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTATCATC-T-TAGGC
* *
90879900 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATAAGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTATCATCT-T-AG-GC
* * * *
90879950 TGATGTATGTCCCAGACAT-GTCTTACACTAGC-ATGAAGCTTA-GC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTTAGGC
* * *
90879994 CGATGCATGTCCTAGACA-CGTCTTACACTGGCTATCATCATTGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATC-TT-AGGC
* *
90880041 CGATGCATGTCCCAGACACT--TCTTACACTGGC-ACTCATCTCTATGC
1 CGATGCATGTCCCAGACA-TGGTCTTACACTAGCTA-TCATCT-TAGGC
*
90880087 CGATGCTATGTCCCAGACATGGTCTTACACTGGCTATC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAGCTATC
90880125 GTAATGTGGC
Statistics
Matches: 189, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
44 31 0.16
45 4 0.02
46 14 0.07
47 51 0.27
48 30 0.16
49 53 0.28
50 6 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTAGGC
Found at i:90880145 original size:141 final size:140
Alignment explanation
Indices: 90879851--90880117 Score: 355
Period size: 141 Copynumber: 1.9 Consensus size: 140
90879841 GTTAAGTTGT
* *
90879851 CGATGACATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCGAGGCCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* * *
90879916 ACATGGTCTTACACTAGCTCTCATGTATAAGTGCTGATGTATGTCCCAGACATGTCTTACACTAG
65 ACAT-GTCTTACACTAGCACTCATCTATAAGTGCCGATGTATGTCCCAGACATGTCTTACACTAG
90879981 CATGAAGCTTAGC
129 CATGAAGC-TAGC
* * *
90879994 CGATGCATGTCCTAGACA-CGTCTTACACTGGCTATCATCATTGAGGCCGATG-CATGTCCCAGA
1 CGATGCATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
* *
90880057 CACT-TCTTACACTGGCACTCATCTCT-A-TGCCGATGCTATGTCCCAGACATGGTCTTACACT
66 CA-TGTCTTACACTAGCACTCATCTATAAGTGCCGATG-TATGTCCCAGACAT-GTCTTACACT
90880118 GGCTATCGTA
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
137 7 0.06
138 15 0.14
139 28 0.25
140 13 0.12
141 31 0.28
142 12 0.11
143 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTATAAGTGCCGATGTATGTCCCAGACATGTCTTACACTAGCA
TGAAGCTAGC
Found at i:90885901 original size:43 final size:43
Alignment explanation
Indices: 90885810--90885966 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
90885800 TGCTTTCTCG
* * * * * *
90885810 TGTAAGACCACGTCTAGGA-AGTTGGAATTGATATGTGATTTAGA
1 TGTAAGACCATGTCTGGGACA-TTGGCATCGACATGTGA-TTACA
90885854 -GTAAGACCATGTCTGGGACATTGGCATCGTA-ATTGTGATT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ACA-TGTGATTACA
* * * *
90885896 TGTAAGACCCTGCCTGGGACAGTCGCATCGACATGTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGACATGTGATTACA
* *
90885939 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
90885967 TGTATGATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 9 0.10
43 76 0.83
44 7 0.08
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGACATGTGATTACA
Found at i:90889822 original size:55 final size:55
Alignment explanation
Indices: 90889763--90889881 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
90889753 CGTGTGTAAC
* * **
90889763 ACTGACTT-TAGGGCACGGCAATGACACACGCCTGTGTGGCCTACCCGTGGACAAT
1 ACTGACTTATA-GACACGACAATGACACACGCCCATGTGGCCTACCCGTGGACAAT
* * * *
90889818 ACTGACTTATAGACACGACTATGGCACACGCCCATGTGGCCTACCTGTGGAGAAT
1 ACTGACTTATAGACACGACAATGACACACGCCCATGTGGCCTACCCGTGGACAAT
90889873 ACTGACTTA
1 ACTGACTTA
90889882 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 53 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (55 bp):
ACTGACTTATAGACACGACAATGACACACGCCCATGTGGCCTACCCGTGGACAAT
Found at i:90890779 original size:47 final size:47
Alignment explanation
Indices: 90890627--90890900 Score: 148
Period size: 48 Copynumber: 5.8 Consensus size: 47
90890617 GGTTAAGTTA
* * * * * * *
90890627 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTGTATAAGTG
1 CCGATG-CATGTCCCAGACATCGTCTTACACTGGCACTCATCTCT-A-CG
* * * * ** *
90890677 CTGATGCATGTCCCAAACAT-GTCTTATACTAGCACGAAGCT-TA-G
1 CCGATGCATGTCCCAGACATCGTCTTACACTGGCACTCATCTCTACG
* *
90890721 CTGATGCATGTCCCAGACA-CATCTTACACTGGCACTCATCTCTACG
1 CCGATGCATGTCCCAGACATCGTCTTACACTGGCACTCATCTCTACG
* * * * * * *
90890767 CCGATGCCATGTCCTAGACATGGTCTTACATTGGCTA-TCGTAATGT-GG
1 CCGATG-CATGTCCCAGACATCGTCTTACACTGGC-ACTCAT-CTCTACG
* * * * * * *
90890815 CTGATGCATGTCCCAGACA-CGTTTTACACTAGCCCTCGTCTCAATG
1 CCGATGCATGTCCCAGACATCGTCTTACACTGGCACTCATCTCTACG
* *
90890861 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 CCGATG-CATGTCCCAGACATCGTCTTACACTGGCACTCA
90890901 CATAACCTAA
Statistics
Matches: 171, Mismatches: 42, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
44 34 0.20
45 3 0.02
46 27 0.16
47 38 0.22
48 48 0.28
49 16 0.09
50 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATCGTCTTACACTGGCACTCATCTCTACG
Found at i:90890828 original size:94 final size:94
Alignment explanation
Indices: 90890720--90890896 Score: 273
Period size: 94 Copynumber: 1.9 Consensus size: 94
90890710 ACGAAGCTTA
* * *
90890720 GCTGATGCATGTCCCAGACACATCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCTAGA
1 GCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGA
*
90890785 CATGGTCTTACATTGGCTATCGTAATGTG
66 CATGGTCTTACACTGGCTATCGTAATGTG
* * * * *
90890814 GCTGATGCATGTCCCAGACACGTTTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGA
90890879 CATGGTCTTACACTGGCT
66 CATGGTCTTACACTGGCT
90890897 CTCACATAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACACATCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTATCGTAATGTG
Found at i:90902750 original size:27 final size:26
Alignment explanation
Indices: 90902702--90902753 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90902692 ACGAGGCTGC
*
90902702 CAGATATTGTGGCAAAGTCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
90902728 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGGCAAAGCCACCAGA
90902754 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:90902962 original size:55 final size:55
Alignment explanation
Indices: 90902900--90903010 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
90902890 TGTAATTTTG
90902900 CATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
1 CATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
* * *
90902955 CATGCATAAGGTTATTTTAGTAATTATTACCTATTGCTAAGGTTTTATGCTCATT
1 CATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
90903010 C
1 C
90903011 TAACATTTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (55 bp):
CATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
Found at i:90909915 original size:71 final size:67
Alignment explanation
Indices: 90909838--90909979 Score: 169
Period size: 67 Copynumber: 2.1 Consensus size: 67
90909828 TCACCAGATA
* * *
90909838 CAGATATTGTGGC-TAGCCCACCAGAACAGATATATATATATGGCGAAGCCACCAGATTGCAGCG
1 CAGATATTGTGACGAAG-CCACCAGAACAG--ATATATAT-T-GAGAAGCCACCAGATTGCAGCG
90909902 AGGCTGC
61 AGGCTGC
* * * *
90909909 CAGATATTGTGACGAAGTCACCAGAATAGATATATGTTGAGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATTGAGAAGCCACCAGATTGCAGCGAGGCT
90909974 GC
66 GC
90909976 CAGA
1 CAGA
90909980 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 31 0.49
68 1 0.02
69 7 0.11
71 22 0.35
72 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATATTGAGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:90912094 original size:2 final size:2
Alignment explanation
Indices: 90912087--90912121 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90912077 GAGACTAGTC
90912087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90912122 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90913071 original size:32 final size:32
Alignment explanation
Indices: 90913035--90913131 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
90913025 TTTATAACCT
90913035 TACCACATCCTGGTCACTTAATGAACACATCA
1 TACCACATCCTGGTCACTTAATGAACACATCA
90913067 TACCACATCCTGGTCACTTAATGAACACATCA
1 TACCACATCCTGGTCACTTAATGAACACATCA
90913099 TTA-CACATCCTGGTCACTTAATGAACACATCA
1 -TACCACATCCTGGTCACTTAATGAACACATCA
90913131 T
1 T
90913132 TCACATAACC
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
31 1 0.02
32 61 0.95
33 2 0.03
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (32 bp):
TACCACATCCTGGTCACTTAATGAACACATCA
Found at i:90917223 original size:6 final size:6
Alignment explanation
Indices: 90917212--90917278 Score: 84
Period size: 6 Copynumber: 11.3 Consensus size: 6
90917202 CTTTATAACT
***
90917212 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT- AAAATA AAGCGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
90917259 AAAATA AAAGAT- AAAATA AA
1 AAAATA AAA-ATA AAAATA AA
90917279 TGGCCTCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
5 7 0.13
6 43 0.83
7 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:90923050 original size:41 final size:41
Alignment explanation
Indices: 90923005--90923122 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
90922995 TGAAAGATAA
90923005 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
90923046 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90923076 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90923117 ATGTAG
1 ATGTAG
90923123 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:90923061 original size:71 final size:71
Alignment explanation
Indices: 90922973--90923136 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90922963 GAGATGTATC
90922973 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90923038 AGGACA
66 AGGACA
90923044 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90923109 AGGACA
66 AGGACA
90923115 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
90923137 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:90930167 original size:40 final size:40
Alignment explanation
Indices: 90930118--90930268 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
90930108 ATCACGATTT
*
90930118 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
90930158 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
90930198 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
90930238 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
90930269 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:90930189 original size:80 final size:79
Alignment explanation
Indices: 90930086--90930307 Score: 189
Period size: 80 Copynumber: 2.8 Consensus size: 79
90930076 CCGCACCAAG
* * * * * * *
90930086 GCCTACGGGACTTAACTCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATAG
1 GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCC-TCGGGACTTAGCCCGGAT-G
*
90930150 AATG-ACTCGCACGAA-T
64 AA-GCACTAGCAC-AATT
* ** * *
90930166 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTA
1 GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGAA
90930231 GCCACTAGCACAATT
66 G-CACTAGCACAATT
*** * ** * *
90930246 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACGTCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGAT
90930308 ATCATTCAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 4 0.03
80 112 0.94
81 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCCTTCGGGTCTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGAA
GCACTAGCACAATT
Found at i:90937658 original size:40 final size:40
Alignment explanation
Indices: 90937616--90937766 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
90937606 ATCACGATTT
* *
90937616 GCACAAATGCCTTCGGGTTTTAGCCCGGATAGAATGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * * *
90937656 GCACGAATGCCTTCGGGTCTTAGCCTGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
90937696 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
90937736 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
90937767 TAATTTCCAG
Statistics
Matches: 89, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:90937719 original size:80 final size:80
Alignment explanation
Indices: 90937635--90937806 Score: 215
Period size: 80 Copynumber: 2.1 Consensus size: 80
90937625 CCTTCGGGTT
* * * *
90937635 TTAGCCCGGATAGAATG-ACTTGCACGAA-TGCCTTCGGGTCTTAGCCTGGATATAATTACTAGC
1 TTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTACCAGC
*
90937698 ATAAATGTCCTCGGGAC
64 ATAAACGTCCTCGGGAC
* *
90937715 TTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCA
1 TTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTACCAGCA
* *
90937779 TTAACGTCTTCGGGAC
65 TAAACGTCCTCGGGAC
90937795 TTAGCCCGGATA
1 TTAGCCCGGATA
90937807 TCATTCAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 4 0.05
80 74 0.94
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
TTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTACCAGCAT
AAACGTCCTCGGGAC
Found at i:90940843 original size:41 final size:41
Alignment explanation
Indices: 90940798--90940915 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
90940788 TGAAAGATAA
90940798 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
90940839 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90940869 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90940910 ATGTAG
1 ATGTAG
90940916 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:90940854 original size:71 final size:71
Alignment explanation
Indices: 90940766--90940929 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90940756 GAGATGTATC
90940766 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90940831 AGGACA
66 AGGACA
90940837 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90940902 AGGACA
66 AGGACA
90940908 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
90940930 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:90949817 original size:25 final size:25
Alignment explanation
Indices: 90949789--90949853 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
90949779 CAAGAGAAAG
*
90949789 AAAAGTATATTAATAAATAATAAAA
1 AAAAGTAAATTAATAAATAATAAAA
90949814 AAAAGTAAATTAATAAATAATAAAA
1 AAAAGTAAATTAATAAATAATAAAA
*
90949839 ATTAAATTAAATTAA
1 A--AAAGTAAATTAA
90949854 ATTGTAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 25 0.69
27 11 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (25 bp):
AAAAGTAAATTAATAAATAATAAAA
Found at i:90961724 original size:16 final size:17
Alignment explanation
Indices: 90961703--90961735 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90961693 ATTCAACTGA
*
90961703 TAGCTA-GTTATTTTTC
1 TAGCTAGGTAATTTTTC
90961719 TAGCTAGGTAATTTTTC
1 TAGCTAGGTAATTTTTC
90961736 AATTGAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (17 bp):
TAGCTAGGTAATTTTTC
Found at i:90967189 original size:17 final size:17
Alignment explanation
Indices: 90967169--90967252 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 17
90967159 TTATGATAAA
90967169 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* *
90967186 GCATGAATTGTTATTTG
1 GCATGAACTGTTATTTT
* * * *
90967203 GTATGAACTGATGTTTC
1 GCATGAACTGTTATTTT
** *
90967220 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
* *
90967237 GCATGAGCTGTCATTT
1 GCATGAACTGTTATTT
90967253 GGTAAAAACT
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:90967226 original size:51 final size:51
Alignment explanation
Indices: 90967171--90967278 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
90967161 ATGATAAAGC
* * * ** *
90967171 ATGAACTGTTATTTTGCATGAATTGTTATTTGGTATGAACTGATGTTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
* *
90967222 ATGAACTATTATTTTGCATGAGCTGTCATTTGGTAAAAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
90967273 ATGAAC
1 ATGAAC
90967279 AGATGTTTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
Found at i:90984631 original size:40 final size:40
Alignment explanation
Indices: 90984576--90984819 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
90984566 TGAATGATAC
* * * *
90984576 CCGGGCTAAGTCCCGAAGGCAATT-ATGCTAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
90984616 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
90984656 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
90984696 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* *
90984736 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * * ** *
90984776 CCGGGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
90984816 CCGG
1 CCGG
90984820 TTAAATTCCG
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 3 0.02
40 182 0.98
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:90986497 original size:2 final size:2
Alignment explanation
Indices: 90986490--90986514 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90986480 TCATGACATG
90986490 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 T
90986515 GTCTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90999139 original size:28 final size:28
Alignment explanation
Indices: 90999099--90999200 Score: 127
Period size: 28 Copynumber: 3.6 Consensus size: 28
90999089 AAAAATTTTC
*
90999099 TCGCACACTTAGTGCTCAATAACTGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
* *
90999127 TCGCACACTTAGTGCTCGGAA-ATCCAATT
1 TCGCACACTTAGTGCTC--AATAACCGATT
*
90999156 T-GCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
*
90999183 TCGCACACTTAGTTCTCA
1 TCGCACACTTAGTGCTCA
90999201 GTATCAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.03
27 6 0.10
28 47 0.75
29 6 0.10
30 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCAATAACCGATT
Found at i:90999211 original size:28 final size:28
Alignment explanation
Indices: 90999099--90999224 Score: 116
Period size: 28 Copynumber: 4.5 Consensus size: 28
90999089 AAAAATTTTC
* **
90999099 TCGCACACTTAGTGCTCAATAACTGATT
1 TCGCACACTTAGTGCTCAATATCCAATT
90999127 TCGCACACTTAGTGCTCGGAA-ATCCAATT
1 TCGCACACTTAGTGCTC--AATATCCAATT
*
90999156 T-GCACACTTAGTGCTCAATGA-CCGATT
1 TCGCACACTTAGTGCTCAAT-ATCCAATT
* * *
90999183 TCGCACACTTAGTTCTCAGTATCAAATT
1 TCGCACACTTAGTGCTCAATATCCAATT
**
90999211 T-GCACGTTTAGTGC
1 TCGCACACTTAGTGC
90999225 ATCTCTCAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
26 2 0.02
27 17 0.21
28 54 0.67
29 6 0.07
30 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCAATATCCAATT
Found at i:91006490 original size:28 final size:26
Alignment explanation
Indices: 91006449--91006572 Score: 122
Period size: 28 Copynumber: 4.5 Consensus size: 26
91006439 AATTTTCTCT
*
91006449 CACACTTAGTGCTCAATAACCGATTTCG
1 CACACTTAGTGCTCAA-AACCAATTT-G
* *
91006477 TACACTTAGTGCTCGGAAATCCAATTTG
1 CACACTTAGTGCTC--AAAACCAATTTG
* * *
91006505 CACACTTAATGCTTAAAACCAACTTG
1 CACACTTAGTGCTCAAAACCAATTTG
* *
91006531 CACACTTAGTGCTCAATGACCGATTTCG
1 CACACTTAGTGCTCAA-AACCAATTT-G
91006559 CACACTTAGTGCTC
1 CACACTTAGTGCTC
91006573 GGTATCAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 24 0.30
27 6 0.08
28 40 0.51
29 7 0.09
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (26 bp):
CACACTTAGTGCTCAAAACCAATTTG
Found at i:91008155 original size:32 final size:34
Alignment explanation
Indices: 91008119--91008183 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
91008109 TAACAGTGGT
*
91008119 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
91008151 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
91008184 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:91010064 original size:26 final size:26
Alignment explanation
Indices: 91010028--91010111 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
91010018 TATGAAATTC
91010028 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91010054 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
91010080 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91010106 TTATCA
1 TTATCA
91010112 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91018374 original size:22 final size:22
Alignment explanation
Indices: 91018349--91018394 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
91018339 TAAAACCCTA
*
91018349 TTTTTCCTTTCTTTTCTT-TCCC
1 TTTTT-CTTTCTTTCCTTCTCCC
91018371 TTTTTCTTTCTTTCCTTCTCCC
1 TTTTTCTTTCTTTCCTTCTCCC
91018393 TT
1 TT
91018395 ATTTTTCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTCTTTCTTTCCTTCTCCC
Found at i:91018401 original size:21 final size:21
Alignment explanation
Indices: 91018355--91018401 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
91018345 CCTATTTTTC
* *
91018355 CTTTCTTTTCTTTCCCTTTTT
1 CTTTCTTTCCTTTCCCTTATT
91018376 CTTTCTTTCCTTCTCCCTTATT
1 CTTTCTTTCCTT-TCCCTTATT
91018398 -TTTC
1 CTTTC
91018402 GTTTGGCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTTCTTTCCTTTCCCTTATT
Found at i:91028085 original size:40 final size:40
Alignment explanation
Indices: 91028026--91028194 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
91028016 CGGGACTTTA
* * *
91028026 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
91028066 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
91028106 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
91028146 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
91028186 CCCGGATAT
1 CCCGGATAT
91028195 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:91036110 original size:40 final size:40
Alignment explanation
Indices: 91036051--91036219 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
91036041 CGGGACTTTA
* * *
91036051 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
91036091 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
91036131 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
91036171 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
91036211 CCCGGATAT
1 CCCGGATAT
91036220 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:91056235 original size:14 final size:15
Alignment explanation
Indices: 91056206--91056239 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
91056196 AGGAGAGAAT
*
91056206 GATGAATGAGTGAGG
1 GATGAAGGAGTGAGG
91056221 GATGAAGGA-TGAGG
1 GATGAAGGAGTGAGG
91056235 GATGA
1 GATGA
91056240 TTAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (15 bp):
GATGAAGGAGTGAGG
Found at i:91059302 original size:6 final size:6
Alignment explanation
Indices: 91059291--91059316 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
91059281 GTGGTGCAAA
91059291 CTGATG CTGATG CTGATG CTGATG CT
1 CTGATG CTGATG CTGATG CTGATG CT
91059317 TCTGTGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (6 bp):
CTGATG
Found at i:91060989 original size:12 final size:12
Alignment explanation
Indices: 91060972--91060997 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91060962 GTCTTTCCAT
91060972 TAATAATAATGA
1 TAATAATAATGA
91060984 TAATAATAATGA
1 TAATAATAATGA
91060996 TA
1 TA
91060998 GATCAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATAATAATGA
Found at i:91061226 original size:17 final size:16
Alignment explanation
Indices: 91061188--91061219 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
91061178 GATCTAAAGA
91061188 ATAAAAGAAAAGAAAC
1 ATAAAAGAAAAGAAAC
91061204 ATAAAAGTAAAAGAAA
1 ATAAAAG-AAAAGAAA
91061220 ATGAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAAAGAAAAGAAAC
Found at i:91065647 original size:2 final size:2
Alignment explanation
Indices: 91065640--91065678 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
91065630 TTGATATGTT
91065640 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
91065679 TAAAATAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91066440 original size:26 final size:26
Alignment explanation
Indices: 91066404--91066513 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91066394 TGATACAAAT
91066404 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
91066430 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
91066456 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
91066482 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
91066508 TGATAA
1 TGATAA
91066514 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:91068545 original size:137 final size:137
Alignment explanation
Indices: 91068299--91068585 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
91068289 GAGTAGTCTC
91068299 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
91068364 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91068429 ACTATTA
131 ACTATTA
91068436 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
91068501 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
91068566 ACTGTTA
131 ACTATTA
**
91068573 CCTGAATGGGCTT
1 CCCAAATGGGCTT
91068586 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:91075308 original size:388 final size:386
Alignment explanation
Indices: 91074577--91075356 Score: 1436
Period size: 388 Copynumber: 2.0 Consensus size: 386
91074567 TATTCTTATC
* *
91074577 CCTAAGATCTTTTTTTTCTTGAACCCTTACAAAAACACACATACTTGATTAATGACCCCAGAATC
1 CCTAAGATCTTTGTTTTCTTGAACCCTTACAAAAACACACATACTTGATTAATGACCCCAAAATC
91074642 AATGACCCAATAGTCTACTAAATCTTCCACTAAACAAGTTTCAAAAACTAAGAGTTTCATACACC
66 AATGACCCAATAGTCTACTAAATCTTCCACTAAACAAGTTTCAAAAACTAAGAGTTTCATACACC
91074707 ATTCAACTATTTGCAGTTTACCTTAAAGTGCCCTTTTCTTGTTGTAAAAGAAACACTTAGACTTT
131 ATTCAACTATTTGCAGTTTACCTTAAAGTGCCCTTTTCTTGTTGTAAAAGAAACACTTAGACTTT
*
91074772 GATAAATCTTTACGCTTCCTAGTCTTCTTCCCATGTACTTTTGGAGGACTCAAAGGCTTAGTCTT
196 GATAAATATTTACGCTTCCTAGTCTTCTTCCCATGTACTTTTGGAGGACTCAAAGGCTTAGTCTT
91074837 TATCTTATTAAATTGTTTTCCTTTCCCTTTTAAGAAGAGACAACTGCTAAGGTAGCTTCTGTTTT
261 TATCTTATTAAATTGTTTTCCTTTCCCTTTTAAGAAGAGACAACTGCTAAGGTAGCTTCTGTTTT
*
91074902 TCGAATCAACTTATAGGATTAGAGCTCCCTTATAAGTTATGTAAGTGTCAACTGCATGTTT
326 TCGAATCAACTCATAGGATTAGAGCTCCCTTATAAGTTATGTAAGTGTCAACTGCATGTTT
*
91074963 CCTAAGATCTTTCGTTTTCTTGAACCCTTACAAAGACACACATACTTGATTAATGACCCCAAAAT
1 CCTAAGATCTTT-GTTTTCTTGAACCCTTACAAAAACACACATACTTGATTAATGACCCCAAAAT
91075028 CAATGACCCAATAGTCTACTAAATCTTCCACTAAACAAGTTTCAAAAACTAAGAGTTTCATACAC
65 CAATGACCCAATAGTCTACTAAATCTTCCACTAAACAAGTTTCAAAAACTAAGAGTTTCATACAC
* *
91075093 CATTCAACTCTTTGTAGTTTACCTTAAAGTGCCCTTTTTCTTGTTGTAAAAGAAACACTTAGACT
130 CATTCAACTATTTGCAGTTTACCTTAAAGTGCCC-TTTTCTTGTTGTAAAAGAAACACTTAGACT
*
91075158 TT-ATTAAATATTTACGCTTCCTAGTCTTCTTCCCCTGTACTTTTGGAGGACTCAAAGGCTTAGT
194 TTGA-TAAATATTTACGCTTCCTAGTCTTCTTCCCATGTACTTTTGGAGGACTCAAAGGCTTAGT
* *
91075222 CTTTATCTTATTAAATTGTTTTCCTTTCCCTTTTAAGAAGAGACAACTTCTAAGTTAGCTTCTGT
258 CTTTATCTTATTAAATTGTTTTCCTTTCCCTTTTAAGAAGAGACAACTGCTAAGGTAGCTTCTGT
91075287 TTTTCGAATCAACTCATAGGATTAGAGCTCCCTTATAAGTTATGTAAGTGTCAACTGCATGTTT
323 TTTTCGAATCAACTCATAGGATTAGAGCTCCCTTATAAGTTATGTAAGTGTCAACTGCATGTTT
91075351 CCTAAG
1 CCTAAG
91075357 TTACATACAA
Statistics
Matches: 381, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
386 12 0.03
387 147 0.39
388 222 0.58
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (386 bp):
CCTAAGATCTTTGTTTTCTTGAACCCTTACAAAAACACACATACTTGATTAATGACCCCAAAATC
AATGACCCAATAGTCTACTAAATCTTCCACTAAACAAGTTTCAAAAACTAAGAGTTTCATACACC
ATTCAACTATTTGCAGTTTACCTTAAAGTGCCCTTTTCTTGTTGTAAAAGAAACACTTAGACTTT
GATAAATATTTACGCTTCCTAGTCTTCTTCCCATGTACTTTTGGAGGACTCAAAGGCTTAGTCTT
TATCTTATTAAATTGTTTTCCTTTCCCTTTTAAGAAGAGACAACTGCTAAGGTAGCTTCTGTTTT
TCGAATCAACTCATAGGATTAGAGCTCCCTTATAAGTTATGTAAGTGTCAACTGCATGTTT
Found at i:91078137 original size:23 final size:23
Alignment explanation
Indices: 91078107--91078189 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
91078097 GTTTAAACCT
* *
91078107 CACACGCCCATGTGGAGGTAATG
1 CACACGCCCGTGTGGAGGCAATG
91078130 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
91078153 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
91078176 CACACGCCTGTGTG
1 CACACGCCCGTGTG
91078190 CATTAGGACA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.16
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:91079680 original size:51 final size:45
Alignment explanation
Indices: 91079625--91079753 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 45
91079615 ACATGTAACA
91079625 CATCCATAATGAACTCGGACCTCTCAACGAGCTCTGATGTTACATGAATTG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTC-GATG----ATG-ATTG
* * * *
91079676 CATCCATTATGAACTCGAACCTCTCAATGAGCTCG--GATGCTTG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGATGATGATTG
*
91079719 TATCCATAATGAACTCGGACCTCTCAACGAGCTCG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCG
91079754 GATGCCACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
43 34 0.49
44 3 0.04
48 1 0.01
50 1 0.01
51 31 0.44
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (45 bp):
CATCCATAATGAACTCGGACCTCTCAACGAGCTCGATGATGATTG
Found at i:91083890 original size:19 final size:19
Alignment explanation
Indices: 91083846--91083882 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
91083836 CTATATGGGA
91083846 CAATAGAGATGGGTGTCGG
1 CAATAGAGATGGGTGTCGG
91083865 CAATAGAGATGGGTGTCG
1 CAATAGAGATGGGTGTCG
91083883 TCCCTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.41, T:0.22
Consensus pattern (19 bp):
CAATAGAGATGGGTGTCGG
Found at i:91087256 original size:9 final size:8
Alignment explanation
Indices: 91087235--91087278 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
91087225 TGCCCAAATG
91087235 AAGAAAAA
1 AAGAAAAA
91087243 CAAGAAGAAA
1 -AAGAA-AAA
91087253 AAGAAAAA
1 AAGAAAAA
* *
91087261 AGGAAGAA
1 AAGAAAAA
91087269 AAGAAAAA
1 AAGAAAAA
91087277 AA
1 AA
91087279 TGGCAGGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 17 0.57
9 10 0.33
10 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:91087272 original size:16 final size:17
Alignment explanation
Indices: 91087235--91087278 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
91087225 TGCCCAAATG
91087235 AAGAAAAACAAGAAGAAA
1 AAGAAAAA-AAGAAGAAA
*
91087253 AAGAAAAAAGGAAG-AA
1 AAGAAAAAAAGAAGAAA
91087269 AAGAAAAAAA
1 AAGAAAAAAA
91087279 TGGCAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.46
17 5 0.21
18 8 0.33
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAAGAAA
Found at i:91090734 original size:17 final size:17
Alignment explanation
Indices: 91090712--91090753 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
91090702 ATTTGGGCTA
91090712 TGTGGGCCACATGGGCG
1 TGTGGGCCACATGGGCG
91090729 TGTGGGCCACATGGGCG
1 TGTGGGCCACATGGGCG
91090746 TGTGGGCC
1 TGTGGGCC
91090754 CACACAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (17 bp):
TGTGGGCCACATGGGCG
Found at i:91095908 original size:2 final size:2
Alignment explanation
Indices: 91095901--91095950 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
91095891 GGTCTGTTGA
91095901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91095943 AT AT AT AT
1 AT AT AT AT
91095951 GCATGCTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91097519 original size:20 final size:21
Alignment explanation
Indices: 91097491--91097541 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
91097481 ATAAAATTTA
91097491 ATTAGAATATATAAACTAT-ACT
1 ATTA-AATATATAAA-TATAACT
*
91097513 -TTAAATATTTAAATATAACT
1 ATTAAATATATAAATATAACT
91097533 ATTAAATAT
1 ATTAAATAT
91097542 TTATAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTAAATATATAAATATAACT
Found at i:91097558 original size:21 final size:21
Alignment explanation
Indices: 91097491--91097544 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
91097481 ATAAAATTTA
*
91097491 ATTAGAATATATAAACTAT-ACT
1 ATTA-AATATTTAAA-TATAACT
91097513 -TTAAATATTTAAATATAACT
1 ATTAAATATTTAAATATAACT
91097533 ATTAAATATTTA
1 ATTAAATATTTA
91097545 TAATTAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 12 0.41
21 14 0.48
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAATATTTAAATATAACT
Found at i:91098817 original size:18 final size:19
Alignment explanation
Indices: 91098794--91098832 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
91098784 GATTTTATTG
91098794 ATGC-ATTAGTAATCGGAT
1 ATGCAATTAGTAATCGGAT
91098812 ATGCATATTAGTAATCGGAT
1 ATGCA-ATTAGTAATCGGAT
91098832 A
1 A
91098833 CCCTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
ATGCAATTAGTAATCGGAT
Found at i:91099259 original size:20 final size:20
Alignment explanation
Indices: 91099216--91099258 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
91099206 CAGTAAAATG
91099216 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
91099236 TTTTCTGG-AAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
91099255 TTTT
1 TTTT
91099259 TTGGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:91099389 original size:14 final size:14
Alignment explanation
Indices: 91099344--91099389 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
91099334 TGTTTTTACA
*
91099344 TATATTAATAAACT
1 TATATTAATAAATT
* *
91099358 TATA-T-ATATATA
1 TATATTAATAAATT
91099370 TATATTAATAAATT
1 TATATTAATAAATT
91099384 TATATT
1 TATATT
91099390 TTAAATTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 8 0.32
13 2 0.08
14 15 0.60
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATTAATAAATT
Found at i:91100657 original size:32 final size:32
Alignment explanation
Indices: 91100611--91100703 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
91100601 TGTCAATCAT
* *
91100611 TTCAATATCCAACAAGTTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
91100643 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
91100675 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCTAACAAGCTTAAAACATAAT
91100704 CAATATCTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:91100730 original size:27 final size:27
Alignment explanation
Indices: 91100612--91100716 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 27
91100602 GTCAATCATT
* *
91100612 TCAATATCCAACAAGTTTAAAACATAATAAA
1 TCAATATCTAACAAGCTTAAAAC---AT-AA
91100643 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 -TCAATATCTAACAAGCTTAAAAC---AT-AA
91100675 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGCTTAAAACATAA
91100703 TCAATATCTAACAA
1 TCAATATCTAACAA
91100717 ATCTAAGACA
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
27 14 0.20
28 2 0.03
29 2 0.03
32 53 0.75
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (27 bp):
TCAATATCTAACAAGCTTAAAACATAA
Found at i:91100738 original size:59 final size:62
Alignment explanation
Indices: 91100609--91100748 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 62
91100599 ATTGTCAATC
*
91100609 ATTTCAATATCCAACAAGTTTAAAACATAATAAATTCAATATCTAACAAGCTTAAAACATAATA
1 ATTTCAATATCCAACAAGCTTAAAAC--AATAAATTCAATATCTAACAAGCTTAAAACATAATA
* * * *
91100673 AATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATCTAAGACATAATA
1 ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCT-TAAAACATAATA
*
91100732 ATTTCAAAATCCAACAA
1 ATTTCAATATCCAACAA
91100749 ACTAAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 1 0.01
59 39 0.58
60 2 0.03
61 2 0.03
64 23 0.34
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (62 bp):
ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCTAACAAGCTTAAAACATAATA
Found at i:91102620 original size:21 final size:19
Alignment explanation
Indices: 91102596--91102638 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
91102586 TCTTAATTAT
*
91102596 TTTAAATTTTAAAATTAAATA
1 TTTAAATTGTAAAA--AAATA
91102617 TTTAAATTGTAAAAAAATA
1 TTTAAATTGTAAAAAAATA
91102636 TTT
1 TTT
91102639 TATTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTAAATTGTAAAAAAATA
Found at i:91110618 original size:44 final size:44
Alignment explanation
Indices: 91110563--91110650 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
91110553 ACCGGGCCCG
*
91110563 GCCCGGCCCGAATTATATAATAAATATATATTTTTTATTTTTAA
1 GCCCAGCCCGAATTATATAATAAATATATATTTTTTATTTTTAA
91110607 GCCCAGCCCGAATTATATAATAAATATATATTTTTTATTTTTAA
1 GCCCAGCCCGAATTATATAATAAATATATATTTTTTATTTTTAA
91110651 TCATATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (44 bp):
GCCCAGCCCGAATTATATAATAAATATATATTTTTTATTTTTAA
Found at i:91110656 original size:23 final size:23
Alignment explanation
Indices: 91110630--91110674 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91110620 TATATAATAA
* *
91110630 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTAATTTTAATC
*
91110653 ATATTTATATTTTAATTTTAAT
1 ATATATATATTTTAATTTTAAT
91110675 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATC
Found at i:91110752 original size:41 final size:42
Alignment explanation
Indices: 91110696--91110785 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
91110686 CAATTTTCAT
91110696 TATAT-TTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTAA
1 TATATATTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTAA
* * * *
91110737 TATATATTTTT-ATTTGTTTCTTGTTTTAATATTTGTTTTAA
1 TATATATTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTAA
*
91110778 -ATGTATTT
1 TATATATTT
91110786 GATTATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 7 0.16
41 31 0.72
42 5 0.12
ACGTcount: A:0.24, C:0.01, G:0.10, T:0.64
Consensus pattern (42 bp):
TATATATTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTAA
Found at i:91112465 original size:26 final size:26
Alignment explanation
Indices: 91112436--91112491 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
91112426 GCTTTATATT
* *
91112436 AATATTTATATATTTAAATAAATTAA
1 AATATTTATAAAATTAAATAAATTAA
* * *
91112462 AATATTTTTAAAATTAATTAATTTAA
1 AATATTTATAAAATTAAATAAATTAA
91112488 AATA
1 AATA
91112492 CTAGCAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATATTTATAAAATTAAATAAATTAA
Found at i:91113114 original size:19 final size:19
Alignment explanation
Indices: 91113076--91113114 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
91113066 TCATTATTGA
*
91113076 TTTTATTATTTTAAATATT
1 TTTTATTATTTTAAAGATT
91113095 TTTTATTA-TTTATAAGATT
1 TTTTATTATTTTA-AAGATT
91113114 T
1 T
91113115 ATCACATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATTATTTTAAAGATT
Found at i:91116380 original size:29 final size:30
Alignment explanation
Indices: 91116324--91116382 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
91116314 TTCTCGAGCC
91116324 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
91116354 TAGGGGCAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
91116383 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:91117197 original size:18 final size:18
Alignment explanation
Indices: 91117174--91117213 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 18
91117164 ACGAATGTCT
91117174 TGATGTTGTTTATGCAAA
1 TGATGTTGTTTATGCAAA
91117192 TGA---TGTTTATGCAAA
1 TGATGTTGTTTATGCAAA
91117207 TGATGTT
1 TGATGTT
91117214 TTATTTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
15 15 0.79
18 4 0.21
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (18 bp):
TGATGTTGTTTATGCAAA
Found at i:91117200 original size:15 final size:15
Alignment explanation
Indices: 91117180--91117214 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
91117170 GTCTTGATGT
91117180 TGTTTATGCAAATGA
1 TGTTTATGCAAATGA
91117195 TGTTTATGCAAATGA
1 TGTTTATGCAAATGA
91117210 TGTTT
1 TGTTT
91117215 TATTTGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (15 bp):
TGTTTATGCAAATGA
Found at i:91127343 original size:47 final size:49
Alignment explanation
Indices: 91127274--91127537 Score: 213
Period size: 47 Copynumber: 5.6 Consensus size: 49
91127264 GGTAAGGTGG
*
91127274 CGATGCCATGTCCCAGACATGGTCTTACACTGA-TTCATATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTTCATATCTCGAAGC
* *
91127321 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCAT-T-TCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-TCATATCTCGAAGC
* *
91127369 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTT-ATGA-CTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTTCAT-ATCTCGAAGC
* * * * * *
91127415 CGATG-CATGTCCTAAACAT-TTCTTACACT-AGC-TCTTGTCTC-AATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTTCATATCTCGAA-GC
* * *
91127461 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGT-G--GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-TCAT-ATCTCGAAGC
*
91127509 CGATG-CATGTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
91127538 AGCCAACAAT
Statistics
Matches: 176, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 65 0.37
47 72 0.41
48 25 0.14
49 4 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTTCATATCTCGAAGC
Found at i:91127510 original size:94 final size:92
Alignment explanation
Indices: 91127368--91127540 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
91127358 CATTTCGTAG
* *
91127368 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGACTCGAGGCCGATGCATGTCCTAAACA
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTTATGAATCGAGGCCGATGCATGTCCTAAACA
*
91127433 TTTCTTACACTAGCTCTTGTCTCAATA
66 TGTCTTACACTAGCTCTTGTCTCAATA
*
91127460 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AAT-GTGGCCGATGCATGTCCTA
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ATGAATCGAGGCCGATGCATGTCCTA
*
91127523 GACATGTCTTACACTAGC
62 AACATGTCTTACACTAGC
91127541 CAACAATAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 6 0.08
93 13 0.18
94 48 0.67
95 3 0.04
96 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATGTCTTACACTGGCTTATGAATCGAGGCCGATGCATGTCCTAAACA
TGTCTTACACTAGCTCTTGTCTCAATA
Found at i:91133217 original size:18 final size:18
Alignment explanation
Indices: 91133194--91133230 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91133184 TATCGTAACT
91133194 TAGAAAGTAATTAAGAAA
1 TAGAAAGTAATTAAGAAA
91133212 TAGAAAGTAATTAAGAAA
1 TAGAAAGTAATTAAGAAA
91133230 T
1 T
91133231 TAATTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.24
Consensus pattern (18 bp):
TAGAAAGTAATTAAGAAA
Found at i:91151244 original size:46 final size:46
Alignment explanation
Indices: 91151096--91151263 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
91151086 TTTGTGTACT
* * *
91151096 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-TTAATGAGAGCC
* * * *
91151142 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTTA-ATGAGAGCC
* * *
91151190 AGTATAAGACATGTCTGGGATATTCATCGGCCTCTTAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTTAATG-AGAGCC
*
91151236 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
91151264 AGCTACATGA
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
46 47 0.48
47 29 0.30
48 22 0.22
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTTAATGAGAGCC
Found at i:91151342 original size:50 final size:47
Alignment explanation
Indices: 91151284--91151404 Score: 143
Period size: 47 Copynumber: 2.5 Consensus size: 47
91151274 TGTGTCTGTA
* *
91151284 TAAGACCATGTCTGGGACATGGCAACGCCACAGATATGTGGGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCAACG--ACAGA-ACGTGAGAGCCAGTG
* * ** *
91151334 TAAGACCATGTCTAGGACATGGCATCGACTTAACGTGAGATCCAGTG
1 TAAGACCATGTCTGGGACATGGCAACGACAGAACGTGAGAGCCAGTG
*
91151381 TAAGACCATGTCTGGTACATGGCA
1 TAAGACCATGTCTGGGACATGGCA
91151405 TTGGCATTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 34 0.55
48 3 0.05
50 25 0.40
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCAACGACAGAACGTGAGAGCCAGTG
Found at i:91154414 original size:179 final size:179
Alignment explanation
Indices: 91154114--91154473 Score: 684
Period size: 179 Copynumber: 2.0 Consensus size: 179
91154104 GCAGTAGAGG
* *
91154114 TAATCCTAGAGATCTAGCTGTGACGTCAGAGGGCCGAGCGCCTGCAAGAACTTATGCCATTCGCG
1 TAATCCTAGAGATCCAGCTGTGACGTCAGAGGGCCGAACGCCTGCAAGAACTTATGCCATTCGCG
*
91154179 CTCACGAAGAGGCGTCTTCACCAGATGTTATCATGGGTACTTTTTCTCTTCATGATATTTCTGTT
66 CTCACGAAGAGGCGCCTTCACCAGATGTTATCATGGGTACTTTTTCTCTTCATGATATTTCTGTT
91154244 ATTGCTTTAATTGATTCAGGGTCTACTCATTCCTATATGTGCATCAAAT
131 ATTGCTTTAATTGATTCAGGGTCTACTCATTCCTATATGTGCATCAAAT
91154293 TAATCCTAGAGATCCAGCTGTGACGTCAGAGGGCCGAACGCCTGCAAGAACTTATGCCATTCGCG
1 TAATCCTAGAGATCCAGCTGTGACGTCAGAGGGCCGAACGCCTGCAAGAACTTATGCCATTCGCG
91154358 CTCACGAAGAGGCGCCTTCACCAGATGTTATCATGGGTACTTTTTCTCTTCATGATATTTCTGTT
66 CTCACGAAGAGGCGCCTTCACCAGATGTTATCATGGGTACTTTTTCTCTTCATGATATTTCTGTT
*
91154423 ATTGCTTTAATTGATTCAGGGTCTACTCATTCCTATGTGTGCATCAAAT
131 ATTGCTTTAATTGATTCAGGGTCTACTCATTCCTATATGTGCATCAAAT
91154472 TA
1 TA
91154474 GTACCCAGAA
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (179 bp):
TAATCCTAGAGATCCAGCTGTGACGTCAGAGGGCCGAACGCCTGCAAGAACTTATGCCATTCGCG
CTCACGAAGAGGCGCCTTCACCAGATGTTATCATGGGTACTTTTTCTCTTCATGATATTTCTGTT
ATTGCTTTAATTGATTCAGGGTCTACTCATTCCTATATGTGCATCAAAT
Found at i:91171666 original size:6 final size:6
Alignment explanation
Indices: 91171649--91171729 Score: 117
Period size: 6 Copynumber: 12.8 Consensus size: 6
91171639 CTTTAAGGTT
91171649 ATTTTC ATTTTTC ATTTTTC ATTTTC ATTTTC ATTTTTC ATTTTC ATTTTTC
1 ATTTTC A-TTTTC A-TTTTC ATTTTC ATTTTC A-TTTTC ATTTTC A-TTTTC
*
91171701 ATTTTC GTTTTC ATTTTC ATTTTC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
91171730 AGAGAAAACC
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
6 45 0.64
7 25 0.36
ACGTcount: A:0.15, C:0.15, G:0.01, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:91171673 original size:13 final size:13
Alignment explanation
Indices: 91171649--91171729 Score: 123
Period size: 13 Copynumber: 6.4 Consensus size: 13
91171639 CTTTAAGGTT
91171649 ATTTTCATTTTTC
1 ATTTTCATTTTTC
91171662 ATTTTTCA-TTTTC
1 A-TTTTCATTTTTC
91171675 ATTTTCATTTTTC
1 ATTTTCATTTTTC
91171688 ATTTTCATTTTTC
1 ATTTTCATTTTTC
*
91171701 ATTTTC-GTTTTC
1 ATTTTCATTTTTC
91171713 ATTTTCA-TTTTC
1 ATTTTCATTTTTC
91171725 ATTTT
1 ATTTT
91171730 AGAGAAAACC
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
12 27 0.42
13 31 0.48
14 6 0.09
ACGTcount: A:0.15, C:0.15, G:0.01, T:0.69
Consensus pattern (13 bp):
ATTTTCATTTTTC
Found at i:91171681 original size:19 final size:19
Alignment explanation
Indices: 91171649--91171729 Score: 121
Period size: 19 Copynumber: 4.3 Consensus size: 19
91171639 CTTTAAGGTT
91171649 ATTTTCATTTTTCATTTTTC
1 ATTTTCA-TTTTCATTTTTC
91171669 ATTTTCATTTTCATTTTTC
1 ATTTTCATTTTCATTTTTC
91171688 ATTTTCATTTTTCA-TTTTC
1 ATTTTCA-TTTTCATTTTTC
*
91171707 GTTTTCATTTTCA-TTTTC
1 ATTTTCATTTTCATTTTTC
91171725 ATTTT
1 ATTTT
91171730 AGAGAAAACC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
18 15 0.26
19 30 0.52
20 13 0.22
ACGTcount: A:0.15, C:0.15, G:0.01, T:0.69
Consensus pattern (19 bp):
ATTTTCATTTTCATTTTTC
Found at i:91176721 original size:40 final size:40
Alignment explanation
Indices: 91176676--91176843 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
91176666 CGGAATATAA
91176676 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
91176716 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
91176756 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
91176796 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
91176836 CCGGATAT
1 CCGGATAT
91176844 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:91184732 original size:40 final size:40
Alignment explanation
Indices: 91184687--91184854 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
91184677 CGGAATATAA
91184687 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
91184727 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
91184767 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
91184807 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
91184847 CCGGATAT
1 CCGGATAT
91184855 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:91192852 original size:17 final size:17
Alignment explanation
Indices: 91192830--91192870 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
91192820 TAAGCCGTAG
91192830 GTTTAT-GACCGATGGGA
1 GTTTATCGA-CGATGGGA
91192847 GTTTATTCGACGATGGGA
1 GTTTA-TCGACGATGGGA
91192865 GTTTAT
1 GTTTAT
91192871 TGGTAGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 14 0.64
19 2 0.09
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (17 bp):
GTTTATCGACGATGGGA
Found at i:91207292 original size:40 final size:39
Alignment explanation
Indices: 91207165--91207294 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
91207155 ATGCTGGAAA
* *
91207165 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
91207205 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
91207245 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
91207285 TTATATCCGG
1 TTATATCCGG
91207295 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:91215355 original size:40 final size:39
Alignment explanation
Indices: 91215228--91215357 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
91215218 ATGCTGGAAA
* *
91215228 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
91215268 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
91215308 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
91215348 TTATATCCGG
1 TTATATCCGG
91215358 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:91218098 original size:12 final size:12
Alignment explanation
Indices: 91218083--91218126 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
91218073 CCTCTAATTT
91218083 TACTTCTACATC
1 TACTTCTACATC
*
91218095 TACTACTACATC
1 TACTTCTACATC
91218107 TACTTCTACATC
1 TACTTCTACATC
91218119 TACTTCTA
1 TACTTCTA
91218127 TGTTAATTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (12 bp):
TACTTCTACATC
Found at i:91223824 original size:67 final size:67
Alignment explanation
Indices: 91223712--91223845 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
91223702 TTGCCAGCAA
*
91223712 CAATTATCAATGGCCAACCAATCAAGCAGTGCTAGGAAGATGAGTCACTAGAATACATGAAGTAG
1 CAATTATCAATGGCCAACCAATCAAGCAGTGCTAGGAAGAGGAGTCACTAGAATACATGAAGTAG
91223777 AT
66 AT
* *
91223779 CAATTATCAATGGCCAGCCAATCAAGCAGTGGC-AGGAAGAGGAGTCACTGGAATACATGAAGTA
1 CAATTATCAATGGCCAACCAATCAAGCAGT-GCTAGGAAGAGGAGTCACTAGAATACATGAAGTA
91223843 GAT
65 GAT
91223846 GCTCCAAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 61 0.97
68 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (67 bp):
CAATTATCAATGGCCAACCAATCAAGCAGTGCTAGGAAGAGGAGTCACTAGAATACATGAAGTAG
AT
Found at i:91228175 original size:22 final size:19
Alignment explanation
Indices: 91228150--91228191 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
91228140 TGATAATCAT
91228150 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
91228172 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
91228191 T
1 T
91228192 CAGCTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:91231201 original size:39 final size:39
Alignment explanation
Indices: 91231147--91231224 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
91231137 TACCACGAGG
91231147 GTCAATCACCACTTGGGAACAAATGACCGAAAAATTCTT
1 GTCAATCACCACTTGGGAACAAATGACCGAAAAATTCTT
91231186 GTCAATCACCACTTGGGAACAAATGACCGAAAAATTCTT
1 GTCAATCACCACTTGGGAACAAATGACCGAAAAATTCTT
91231225 ACTTAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (39 bp):
GTCAATCACCACTTGGGAACAAATGACCGAAAAATTCTT
Found at i:91235296 original size:40 final size:40
Alignment explanation
Indices: 91235247--91235557 Score: 534
Period size: 40 Copynumber: 7.8 Consensus size: 40
91235237 CCAGTATGAT
* * *
91235247 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
91235287 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
91235327 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
91235367 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
91235407 TGCTCTTCGAAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
91235447 TGCTCTTCGG-ACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
91235486 TGCTCTTCGGAACTTAGTCCGGATACATCACTAACACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
91235526 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
91235558 CTCAATTCTC
Statistics
Matches: 260, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 38 0.15
40 222 0.85
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:91235524 original size:119 final size:120
Alignment explanation
Indices: 91235247--91235557 Score: 536
Period size: 119 Copynumber: 2.6 Consensus size: 120
91235237 CCAGTATGAT
* * * *
91235247 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGT-TCGGAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCT-GGAT
91235311 ACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
65 ACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
91235367 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAAACTTAGTCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATA
91235432 CATCACTAGCACGAATGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* *
91235486 TGCTCTTCGGAACTTAGTCCGGATACATCACTAACACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATA
91235551 CATCACT
66 CATCACT
91235558 CTCAATTCTC
Statistics
Matches: 182, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 100 0.55
120 81 0.45
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATA
CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:91235537 original size:159 final size:160
Alignment explanation
Indices: 91235267--91235557 Score: 548
Period size: 159 Copynumber: 1.8 Consensus size: 160
91235257 GACCTAGCCC
*
91235267 GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAATGCTC
1 GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTC
* *
91235332 TTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCA
66 TTCGGAACTTAGTCCGGATACATCACTAACACGAATGCTCTTCGGAACTTAGTCCGGATACATCA
91235397 CTAGCACGAATGCTCTTCGAAACTTAGTCT
131 CTAGCACGAATGCTCTTCGAAACTTAGTCT
91235427 GGATACATCACTAGCACGAATGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAATGCTC
1 GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTC
91235491 TTCGGAACTTAGTCCGGATACATCACTAACACGAATGCTCTTCGGAACTTAGTCCGGATACATCA
66 TTCGGAACTTAGTCCGGATACATCACTAACACGAATGCTCTTCGGAACTTAGTCCGGATACATCA
91235556 CT
131 CT
91235558 CTCAATTCTC
Statistics
Matches: 128, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
159 100 0.78
160 28 0.22
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (160 bp):
GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTC
TTCGGAACTTAGTCCGGATACATCACTAACACGAATGCTCTTCGGAACTTAGTCCGGATACATCA
CTAGCACGAATGCTCTTCGAAACTTAGTCT
Done.