Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
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: 2703160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:873115 original size:12 final size:12
Alignment explanation
Indices: 873100--873124 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
873090 AATACATAAA
873100 TATTAATGTTAT
1 TATTAATGTTAT
873112 TATTAATGTTAT
1 TATTAATGTTAT
873124 T
1 T
873125 TTTTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTAATGTTAT
Found at i:875776 original size:20 final size:18
Alignment explanation
Indices: 875753--875791 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
875743 ATTTTAATAA
875753 TTGTAATATTTTTATAATTT
1 TTGTAAT-TTTTT-TAATTT
*
875773 TTGTAGTTTTTTTAATTT
1 TTGTAATTTTTTTAATTT
875791 T
1 T
875792 ATTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTGTAATTTTTTTAATTT
Found at i:885076 original size:39 final size:39
Alignment explanation
Indices: 885028--885566 Score: 353
Period size: 39 Copynumber: 13.8 Consensus size: 39
885018 TAAGGTGGTG
* * *
885028 AAAGATGATCGGGGTGAAGTGGATGATA-CAGAAACACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCA-AAACACCA
* * *
885067 AAAGCTGATCAGGGTGAAACGGACGGTACCAAAACACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * *
885106 AAAGCTTATCAGGGTGAAGCAGATGATACCAAAACCCCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * ** * *
885145 AAATCTTATCAGGGTGAAGCGGATGATGTCAGAACATCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * *
885184 AAGGCTGATCAAGGTGAAGCGGATGATATCATAGCACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * *
885223 AAAGTTGATCAGGGTGATGCAGATGATGCCAGAACACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * ** * *
885262 AACGCTTATCAAGGTGAAGCGAATGATGTCATAGCACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * * * *
885301 AACGTTGATCAAGGTGAAGCAGATGATGCCATAAGACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * * * * *
885340 AACGCTTATCAAGGTGAAGCGGCTGGTGCCATAGCACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * * * *
885379 GACGTTGATCAGGATGAAGCAGATGATTCCAGAACACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * ** * *
885418 AACGCTTATCAAGGTGAAGCGGATGATGTCATAGCACCA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * * *
885457 AACGTTGATCAGGGTGAAGCAGATGATGCCAGAACACGA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* * * * ** *
885496 AACA-CTTATCAAGGTGAAACGGAAGATGTCATAACACCA
1 AA-AGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
* *
885535 AAAGCTGATCAGGATGAAGCGGTTGATACCAA
1 AAAGCTGATCAGGGTGAAGCGGATGATACCAA
885567 TTTTCCAAAA
Statistics
Matches: 389, Mismatches: 108, Indels: 6
0.77 0.21 0.01
Matches are distributed among these distances:
38 1 0.00
39 386 0.99
40 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (39 bp):
AAAGCTGATCAGGGTGAAGCGGATGATACCAAAACACCA
Found at i:885200 original size:78 final size:77
Alignment explanation
Indices: 885040--885561 Score: 415
Period size: 78 Copynumber: 6.7 Consensus size: 77
885030 AGATGATCGG
* * * * * * *
885040 GGTGAAGTGGATGATACAGAAACACCAAAAGCTGATCAGGGTGAAACGGACGGTACCAAAACACC
1 GGTGAAGCGGATGATACA-AAACACCAAAATCTGATCAGGGTGAAGCGGATGATGCCAGAACACC
*
885105 AAAAGCTTATCAG
65 AAAAGCTTATCAA
* * * * *
885118 GGTGAAGCAGATGATACCAAAACCCCAAAATCTTATCAGGGTGAAGCGGATGATGTCAGAACATC
1 GGTGAAGCGGATGATA-CAAAACACCAAAATCTGATCAGGGTGAAGCGGATGATGCCAGAACACC
* *
885183 AAAGGCTGATCAA
65 AAAAGCTTATCAA
* * * *
885196 GGTGAAGCGGATGATATCATAGCACCAAAAGT-TGATCAGGGTGATGCAGATGATGCCAGAACAC
1 GGTGAAGCGGATGATA-CAAAACACCAAAA-TCTGATCAGGGTGAAGCGGATGATGCCAGAACAC
*
885260 CAAACGCTTATCAA
64 CAAAAGCTTATCAA
* * * * * * * * *
885274 GGTGAAGCGAATGATGTCATAGCACCAAACGT-TGATCAAGGTGAAGCAGATGATGCCATAAGAC
1 GGTGAAGCGGATGAT-ACAAAACACCAAA-ATCTGATCAGGGTGAAGCGGATGATGCCAGAACAC
*
885338 CAAACGCTTATCAA
64 CAAAAGCTTATCAA
* * * * * ** * * *
885352 GGTGAAGCGGCTGGTGCCATAGCACCAGACGT-TGATCAGGATGAAGCAGATGATTCCAGAACAC
1 GGTGAAGCGGATGAT-ACAAAACACCA-AAATCTGATCAGGGTGAAGCGGATGATGCCAGAACAC
*
885416 CAAACGCTTATCAA
64 CAAAAGCTTATCAA
* * * * *
885430 GGTGAAGCGGATGATGTCATAGCACCAAACGT-TGATCAGGGTGAAGCAGATGATGCCAGAACAC
1 GGTGAAGCGGATGAT-ACAAAACACCAAA-ATCTGATCAGGGTGAAGCGGATGATGCCAGAACAC
*
885494 GAAACA-CTTATCAA
64 CAAA-AGCTTATCAA
* * * * * * *
885508 GGTGAAACGGAAGATGTCATAACACCAAAAGCTGATCAGGATGAAGCGGTTGAT
1 GGTGAAGCGGATGAT-ACAAAACACCAAAATCTGATCAGGGTGAAGCGGATGAT
885562 ACCAATTTTC
Statistics
Matches: 376, Mismatches: 60, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
77 1 0.00
78 371 0.99
79 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (77 bp):
GGTGAAGCGGATGATACAAAACACCAAAATCTGATCAGGGTGAAGCGGATGATGCCAGAACACCA
AAAGCTTATCAA
Found at i:885575 original size:156 final size:155
Alignment explanation
Indices: 885062--885565 Score: 582
Period size: 156 Copynumber: 3.2 Consensus size: 155
885052 GATACAGAAA
* * * * * * * * *
885062 CACCAAAAGCTGATCAGGGTGAAACGGACGGTACCAAAACACCAAAAGCTTATCAGGGTGAAGC-
1 CACCAAAAGTTGATCAGGATGAAGCAGATGATACCAGAACACCAAACGCTTATCAAGGTGAAGCG
** * * * * * *
885126 AGATGATACCAAAACCCCAAAATC-TT-ATCAGGGTGAAGCGGATGATGTCAGAACATCAAAGGC
66 A-ATGATGTCATAGCACC-AAA-CGTTGATCAGGGTGAAGCAGATGATGCCAGAACA-CAAACGC
* *
885189 TGATCAAGGTGAAGCGGATGATATCATAG
127 TTATCAAGGTGAAGCGGATGATGTCATAG
* * *
885218 CACCAAAAGTTGATCAGGGTGATGCAGATGATGCCAGAACACCAAACGCTTATCAAGGTGAAGCG
1 CACCAAAAGTTGATCAGGATGAAGCAGATGATACCAGAACACCAAACGCTTATCAAGGTGAAGCG
* * *
885283 AATGATGTCATAGCACCAAACGTTGATCAAGGTGAAGCAGATGATGCCATAAGACCAAACGCTTA
66 AATGATGTCATAGCACCAAACGTTGATCAGGGTGAAGCAGATGATGCCAGAACA-CAAACGCTTA
* * *
885348 TCAAGGTGAAGCGGCTGGTGCCATAG
130 TCAAGGTGAAGCGGATGATGTCATAG
* * *
885374 CACCAGACGTTGATCAGGATGAAGCAGATGATTCCAGAACACCAAACGCTTATCAAGGTGAAGCG
1 CACCAAAAGTTGATCAGGATGAAGCAGATGATACCAGAACACCAAACGCTTATCAAGGTGAAGCG
* *
885439 GATGATGTCATAGCACCAAACGTTGATCAGGGTGAAGCAGATGATGCCAGAACACGAAACACTTA
66 AATGATGTCATAGCACCAAACGTTGATCAGGGTGAAGCAGATGATGCCAGAACAC-AAACGCTTA
* * *
885504 TCAAGGTGAAACGGAAGATGTCATAA
130 TCAAGGTGAAGCGGATGATGTCATAG
* * *
885530 CACCAAAAGCTGATCAGGATGAAGCGGTTGATACCA
1 CACCAAAAGTTGATCAGGATGAAGCAGATGATACCA
885566 ATTTTCCAAA
Statistics
Matches: 295, Mismatches: 49, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
154 1 0.00
155 6 0.02
156 287 0.97
157 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (155 bp):
CACCAAAAGTTGATCAGGATGAAGCAGATGATACCAGAACACCAAACGCTTATCAAGGTGAAGCG
AATGATGTCATAGCACCAAACGTTGATCAGGGTGAAGCAGATGATGCCAGAACACAAACGCTTAT
CAAGGTGAAGCGGATGATGTCATAG
Found at i:885732 original size:39 final size:39
Alignment explanation
Indices: 885674--885794 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
885664 CAAGATACTG
885674 CTGATATTTCTAGTGCAGTTTCGGAACAACAAAACGAAC
1 CTGATATTTCTAGTGCAGTTTCGGAACAACAAAACGAAC
* *
885713 TTGATATTTCTAGTCCAGTTTCGGAACAACAAAACGAAC
1 CTGATATTTCTAGTGCAGTTTCGGAACAACAAAACGAAC
* * * *
885752 CTGATATTTCTATTGCAGTTTTGGAACGACAAAAGGAAC
1 CTGATATTTCTAGTGCAGTTTCGGAACAACAAAACGAAC
885791 CTGA
1 CTGA
885795 GCCTGTGCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (39 bp):
CTGATATTTCTAGTGCAGTTTCGGAACAACAAAACGAAC
Found at i:886218 original size:12 final size:12
Alignment explanation
Indices: 886203--886305 Score: 66
Period size: 12 Copynumber: 8.6 Consensus size: 12
886193 AGGCGGTGGT
886203 AAAGGCAGAGGC
1 AAAGGCAGAGGC
* *
886215 AAAGACA-ATGGT
1 AAAGGCAGA-GGC
*
886227 AAAGGCAGAGCC
1 AAAGGCAGAGGC
* *
886239 AAAGACAGAGGT
1 AAAGGCAGAGGC
*
886251 AAAGGCAGAGAC
1 AAAGGCAGAGGC
* *
886263 AAAGACAGTA-GT
1 AAAGGCAG-AGGC
* *
886275 AAAAGCAGAGAC
1 AAAGGCAGAGGC
* *
886287 AAAGACAGAGGT
1 AAAGGCAGAGGC
886299 AAAGGCA
1 AAAGGCA
886306 AAGCCAAAGA
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
11 2 0.03
12 60 0.94
13 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.31, T:0.06
Consensus pattern (12 bp):
AAAGGCAGAGGC
Found at i:886226 original size:24 final size:24
Alignment explanation
Indices: 886199--886318 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
886189 ACAGAGGCGG
*
886199 TGGTAAAGGCAGAGGCAAAGACAA
1 TGGTAAAGGCAGAGACAAAGACAA
*
886223 TGGTAAAGGCAGAGCCAAAGACAGA
1 TGGTAAAGGCAGAGACAAAGACA-A
*
886248 -GGTAAAGGCAGAGACAAAGACAG
1 TGGTAAAGGCAGAGACAAAGACAA
* *
886271 TAGTAAAAGCAGAGACAAAGACAGA
1 TGGTAAAGGCAGAGACAAAGACA-A
* *
886296 -GGTAAAGGCAAAGCCAAAGACAA
1 TGGTAAAGGCAGAGACAAAGACAA
886319 CAAACCTCGT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.30, T:0.07
Consensus pattern (24 bp):
TGGTAAAGGCAGAGACAAAGACAA
Found at i:886233 original size:48 final size:48
Alignment explanation
Indices: 886200--886318 Score: 175
Period size: 48 Copynumber: 2.5 Consensus size: 48
886190 CAGAGGCGGT
* * *
886200 GGTAAAGGCAGAGGCAAAGACAATGGTAAAGGCAGAGCCAAAGACAGA
1 GGTAAAGGCAGAGACAAAGACAATAGTAAAGGCAGAGACAAAGACAGA
* *
886248 GGTAAAGGCAGAGACAAAGACAGTAGTAAAAGCAGAGACAAAGACAGA
1 GGTAAAGGCAGAGACAAAGACAATAGTAAAGGCAGAGACAAAGACAGA
* *
886296 GGTAAAGGCAAAGCCAAAGACAA
1 GGTAAAGGCAGAGACAAAGACAA
886319 CAAACCTCGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.50, C:0.14, G:0.30, T:0.06
Consensus pattern (48 bp):
GGTAAAGGCAGAGACAAAGACAATAGTAAAGGCAGAGACAAAGACAGA
Found at i:913933 original size:2 final size:2
Alignment explanation
Indices: 913921--913971 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
913911 CAAGCTTAAC
913921 AT AT A- 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
913962 AT AT AT AT AT
1 AT AT AT AT AT
913972 GAGGGAGGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:917903 original size:6 final size:6
Alignment explanation
Indices: 917883--917919 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
917873 TCTAGAGGAA
* *
917883 GAGGTG GACGAG GAGGTG GAGGTG GAGGTG GAGGTG G
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG G
917920 CCCGGGACGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.65, T:0.14
Consensus pattern (6 bp):
GAGGTG
Found at i:919013 original size:114 final size:114
Alignment explanation
Indices: 918757--919055 Score: 367
Period size: 114 Copynumber: 2.6 Consensus size: 114
918747 TTCTGGGTCT
*
918757 GCCTCATTACTTTTCTGCTTCTACACCTAAGGGATTTACTTCTTTGC-TGCCCGGCTCTGGGATC
1 GCCTCATTACTTTTCTGCTTCTACACCTAAGGGATTTACTTCTTTGCTTGCCCGGCTATGGGATC
* * * * * *
918821 TTCAGTGCTTGATATTTGTGGGTCAGGTCCTATTTGGTATCTTCTGCGTCT
66 ATCAATGCTTCATATTTGT-GG-CAGGTCCCATTTGGTATCTTCTGCATCC
* *
918872 GCCTCATTACTTTTCTGCTTCTTCACCTAAGGGATTTACTTCTTTGCTTGCTGCCTGTCTATGGG
1 GCCTCATTACTTTTCTGCTTCTACACCTAAGGGATTTACTTCTTTGCTTGC--CC-GGCTATGGG
* *
918937 ATCATCAAT-CTTTCATCTTTGT-G-A-GTCCCATTTGGTATGTTCTGCATCC
63 ATCATCAATGC-TTCATATTTGTGGCAGGTCCCATTTGGTATCTTCTGCATCC
* * *
918986 GCCTCATTGCTTTTCTGCTTCTACACCTAAGGGATTTACTTATTTGC-TGCCCAGCTATGGGATC
1 GCCTCATTACTTTTCTGCTTCTACACCTAAGGGATTTACTTCTTTGCTTGCCCGGCTATGGGATC
*
919050 TTCAAT
66 ATCAAT
919056 ATGTTCTTTG
Statistics
Matches: 162, Mismatches: 17, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
110 15 0.09
111 2 0.01
113 3 0.02
114 65 0.40
115 47 0.29
116 3 0.02
117 1 0.01
118 3 0.02
119 23 0.14
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (114 bp):
GCCTCATTACTTTTCTGCTTCTACACCTAAGGGATTTACTTCTTTGCTTGCCCGGCTATGGGATC
ATCAATGCTTCATATTTGTGGCAGGTCCCATTTGGTATCTTCTGCATCC
Found at i:933306 original size:63 final size:63
Alignment explanation
Indices: 933195--933320 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
933185 ATGGTAAATA
* * * *
933195 CTTCCCTCCTGTAAACATGAGTTGCTTCCTACTTGTTTCAAGCGACCATTTTACGAGTTTATC
1 CTTCCCTCCTGTAAACATGAGTTGCTTCCAACTGGTTTAAAGCAACCATTTTACGAGTTTATC
* **
933258 CTTCCGTCCTGTGTACATGAGTTGCTTCCAACTGGTTTAAAGCAACCATTTTACGAGTTTATC
1 CTTCCCTCCTGTAAACATGAGTTGCTTCCAACTGGTTTAAAGCAACCATTTTACGAGTTTATC
933321 TTGCAGGATG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.37
Consensus pattern (63 bp):
CTTCCCTCCTGTAAACATGAGTTGCTTCCAACTGGTTTAAAGCAACCATTTTACGAGTTTATC
Found at i:940637 original size:29 final size:29
Alignment explanation
Indices: 940605--940693 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
940595 ACTATGATTC
940605 ATTCTAAATTGGTCCCCAAACTTTTGAAT
1 ATTCTAAATTGGTCCCCAAACTTTTGAAT
* ** *
940634 ATTCTTAATTCATCCCCAAA-TTATGAATCTT
1 ATTCTAAATTGGTCCCCAAACTTTTGAA---T
* * **
940665 ATTATATATTGGTCTTCAAACTTTTGAAT
1 ATTCTAAATTGGTCCCCAAACTTTTGAAT
940694 GTTCCAATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
28 6 0.14
29 18 0.41
31 14 0.32
32 6 0.14
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (29 bp):
ATTCTAAATTGGTCCCCAAACTTTTGAAT
Found at i:941433 original size:60 final size:59
Alignment explanation
Indices: 941317--941495 Score: 180
Period size: 60 Copynumber: 2.9 Consensus size: 59
941307 ACATCACATA
* * * *
941317 TCCTCAAAGTATGACTCTCATTTTAAATTAGTACCT-AAAGTTTTAAATATTCCAATTTCAT
1 TCCT-AAACTATGACT-TCATTTTAAATTAGT-CCTCAAACTTTTGAACATTCCAATTTCAT
* * *
941378 TCCTAAATTATGACTATCATTTTAAATTAGTCCTCAAACTTTTGAACATTTCAATTCCAT
1 TCCTAAACTATGACT-TCATTTTAAATTAGTCCTCAAACTTTTGAACATTCCAATTTCAT
* * * * * *
941438 CCCCAAACGATGCCCTTCATTCTAAATTAGTCCCCAAACTTTTTGAACATTCCAATTT
1 TCCTAAACTATG-ACTTCATTTTAAATTAGTCCTCAAAC-TTTTGAACATTCCAATTT
941496 TATCTCAAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
59 3 0.03
60 74 0.75
61 22 0.22
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (59 bp):
TCCTAAACTATGACTTCATTTTAAATTAGTCCTCAAACTTTTGAACATTCCAATTTCAT
Found at i:941720 original size:59 final size:60
Alignment explanation
Indices: 941644--941886 Score: 224
Period size: 60 Copynumber: 4.1 Consensus size: 60
941634 AAAACTTTTG
* * * * *
941644 AGGACTAATTTATAATGGAGGTTAT-GGTTAGAGATGAAATTAGAATGTTCAAAGGTTTA
1 AGGACTAATTTAGAATGGAGGTTATAGCTTAGGGATGAAATTAGAATATTCAAAAGTTTA
* * * * * *
941703 AGGAATAATTTAGAATGG-GTGTCATAGCTTGGGGATGAAAATGGAATATTCAAAAGTTTG
1 AGGACTAATTTAGAATGGAG-GTTATAGCTTAGGGATGAAATTAGAATATTCAAAAGTTTA
* * * * *
941763 AGGACCAATTTAGAAT-GAAGTTCATAGTTTAGGGGTGAAATTATAATATTCAAAAGTTTA
1 AGGACTAATTTAGAATGGAGGTT-ATAGCTTAGGGATGAAATTAGAATATTCAAAAGTTTA
* * * * * * *
941823 AGGACTAACTTAAAAT-GAGAGTCATAGTTTGGGGATGAAATTTGAATATTCAAAAGTTCA
1 AGGACTAATTTAGAATGGAG-GTTATAGCTTAGGGATGAAATTAGAATATTCAAAAGTTTA
941883 AGGA
1 AGGA
941887 TTGTTTTAAA
Statistics
Matches: 147, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
58 1 0.01
59 23 0.16
60 121 0.82
61 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (60 bp):
AGGACTAATTTAGAATGGAGGTTATAGCTTAGGGATGAAATTAGAATATTCAAAAGTTTA
Found at i:941755 original size:60 final size:60
Alignment explanation
Indices: 941676--941917 Score: 263
Period size: 60 Copynumber: 4.0 Consensus size: 60
941666 TATGGTTAGA
* * * * *
941676 GATGAAATTAGAATGTTCAAAGGTTTAAGGAATAATTTAGAATGGGTGTCATAGCTTGGG
1 GATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTGTCATAGTTTGGG
* * * *
941736 GATGAAAATGGAATATTCAAAAGTTTGAGGACCAATTTAGAATGAAGT-TCATAGTTTAGGG
1 GATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATG-AGTGTCATAGTTT-GGG
* * * *
941797 G-TGAAATTATAATATTCAAAAGTTTAAGGACTAACTTAAAATGAGAGTCATAGTTTGGG
1 GATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTGTCATAGTTTGGG
* * * ** * * *
941856 GATGAAATTTGAATATTCAAAAGTTCAAGGATTGTTTTAAAATGAGAGTTATAGTTTGGG
1 GATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTGTCATAGTTTGGG
941916 GA
1 GA
941918 CATATTATGC
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
59 6 0.04
60 141 0.92
61 6 0.04
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.32
Consensus pattern (60 bp):
GATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGTGTCATAGTTTGGG
Found at i:941900 original size:120 final size:119
Alignment explanation
Indices: 941678--941916 Score: 291
Period size: 120 Copynumber: 2.0 Consensus size: 119
941668 TGGTTAGAGA
* * * * * *
941678 TGAAATTAGAATGTTCAAAGGTTTAAGGAATAATTTAGAATGGGTGTCATAGCTTGGGGATGAAA
1 TGAAATTAGAATATTCAAAAGTTTAAGGAATAACTTAAAATGAGAGTCATAGCTTGGGGATGAAA
** *
941743 ATGGAATATTCAAAAGTTTGAGGACCAATTTAGAATGA-AGTTCATAGTTTAGGGG
66 ATGGAATATTCAAAAGTTCAAGGACCAATTTAAAATGAGAGTT-ATAGTTT-GGGG
* * *
941798 TGAAATTATAATATTCAAAAGTTTAAGGACTAACTTAAAATGAGAGTCATAGTTTGGGGATGAAA
1 TGAAATTAGAATATTCAAAAGTTTAAGGAATAACTTAAAATGAGAGTCATAGCTTGGGGATGAAA
* * ****
941863 TTTGAATATTCAAAAGTTCAAGGATTGTTTTAAAATGAGAGTTATAGTTTGGGG
66 ATGGAATATTCAAAAGTTCAAGGACCAATTTAAAATGAGAGTTATAGTTTGGGG
941917 ACATATTATG
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
119 4 0.04
120 92 0.92
121 4 0.04
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (119 bp):
TGAAATTAGAATATTCAAAAGTTTAAGGAATAACTTAAAATGAGAGTCATAGCTTGGGGATGAAA
ATGGAATATTCAAAAGTTCAAGGACCAATTTAAAATGAGAGTTATAGTTTGGGG
Found at i:942009 original size:40 final size:40
Alignment explanation
Indices: 941965--942044 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
941955 GTATTTAAAA
*
941965 ACTAAATTACGGTAGAAAAATGTATACTTATCCAAGGCAG
1 ACTAAATTAAGGTAGAAAAATGTATACTTATCCAAGGCAG
* * *
942005 ACTAAATTAATGTAGAAAAATGTTTGCTTATCCAAGGCAG
1 ACTAAATTAAGGTAGAAAAATGTATACTTATCCAAGGCAG
942045 TGGCCCGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (40 bp):
ACTAAATTAAGGTAGAAAAATGTATACTTATCCAAGGCAG
Found at i:946169 original size:19 final size:19
Alignment explanation
Indices: 946147--946185 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
946137 ATTAATATTT
946147 GCTAATCAAATGATAATCA
1 GCTAATCAAATGATAATCA
946166 GCTAATCAAATGATAATCA
1 GCTAATCAAATGATAATCA
946185 G
1 G
946186 TACAGCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
GCTAATCAAATGATAATCA
Found at i:957748 original size:2 final size:2
Alignment explanation
Indices: 957741--957802 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
957731 AAATATTTTC
957741 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
957783 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
957803 TGTGTTTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:964511 original size:40 final size:37
Alignment explanation
Indices: 964404--964525 Score: 192
Period size: 37 Copynumber: 3.2 Consensus size: 37
964394 TTCAATATTC
*
964404 TTTCAATTTTATTTAACTTCACAATAAATGGTTTT-AT
1 TTTCAATTTTATTTAACTTCATAATAAAT-GTTTTCAT
964441 TTTCAATTTTATTTAACTTCATAATAAATGTTTTCAT
1 TTTCAATTTTATTTAACTTCATAATAAATGTTTTCAT
964478 TTTCAATTTTATTTAAGTACTTCATAATAAATGTTTTCAT
1 TTTCAATTTTATTT-A--ACTTCATAATAAATGTTTTCAT
964518 TTTCAATT
1 TTTCAATT
964526 ATTACTGTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
36 5 0.06
37 44 0.55
38 1 0.01
40 30 0.38
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (37 bp):
TTTCAATTTTATTTAACTTCATAATAAATGTTTTCAT
Found at i:969380 original size:61 final size:61
Alignment explanation
Indices: 969280--969403 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
969270 TAAATTTAAG
*
969280 TCACACACCCACTCAATCTCTCGCCTAAGGTATAATACCTTACTTTCGCCTTCATTGCTCA
1 TCACACACCCACACAATCTCTCGCCTAAGGTATAATACCTTACTTTCGCCTTCATTGCTCA
* * *
969341 TCACACACCTACACAATCTCTCGCCTAAGGTATATTACCTTGCTTTCGCCTTCATTGCTCA
1 TCACACACCCACACAATCTCTCGCCTAAGGTATAATACCTTACTTTCGCCTTCATTGCTCA
969402 TC
1 TC
969404 GTTGAGGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.09, T:0.32
Consensus pattern (61 bp):
TCACACACCCACACAATCTCTCGCCTAAGGTATAATACCTTACTTTCGCCTTCATTGCTCA
Found at i:970207 original size:31 final size:31
Alignment explanation
Indices: 970170--970232 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
970160 TAGCATGTGT
970170 CCAGGATTGAAAGTTGTTGTGCCATTGGATA
1 CCAGGATTGAAAGTTGTTGTGCCATTGGATA
970201 CCAGGATTGAAAGTTGTTGTGCCATTGGATA
1 CCAGGATTGAAAGTTGTTGTGCCATTGGATA
970232 C
1 C
970233 TGGCTCATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (31 bp):
CCAGGATTGAAAGTTGTTGTGCCATTGGATA
Found at i:974872 original size:36 final size:36
Alignment explanation
Indices: 974832--974903 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
974822 AATTATAAAG
974832 GGTTAACTATTTCATCCATGGTTAGGGTATGGTTTA
1 GGTTAACTATTTCATCCATGGTTAGGGTATGGTTTA
*
974868 GGTTAACTATTTCATCCTTGGTTAGGGTATGGTTTA
1 GGTTAACTATTTCATCCATGGTTAGGGTATGGTTTA
974904 TTCTTAGGCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (36 bp):
GGTTAACTATTTCATCCATGGTTAGGGTATGGTTTA
Found at i:978319 original size:18 final size:19
Alignment explanation
Indices: 978284--978320 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
978274 CACAGAATGT
978284 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
978304 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
978321 GGATTACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:978459 original size:18 final size:18
Alignment explanation
Indices: 978436--978483 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
978426 AAATTGTCCT
*
978436 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
* *
978454 TATTATA-AATGGTAAAA
1 TATTATATATTTGTAAAA
978471 TATTTATATATTT
1 TA-TTATATATTT
978484 TCTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 9 0.39
18 12 0.52
19 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:982833 original size:21 final size:23
Alignment explanation
Indices: 982785--982834 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
982775 TTCAATCTCT
*
982785 TTATCACGTCATCATCCACCATAGA
1 TTATCACGTCATCA--CACCATAAA
982810 TTATCACGTCATCA-A-CATAAA
1 TTATCACGTCATCACACCATAAA
982831 TTAT
1 TTAT
982835 TTTGTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
25 14 0.58
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (23 bp):
TTATCACGTCATCACACCATAAA
Found at i:989378 original size:2 final size:2
Alignment explanation
Indices: 989371--989399 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
989361 GGAGGCGAGT
989371 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
989400 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:989404 original size:2 final size:2
Alignment explanation
Indices: 989399--989430 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
989389 TCTCTCTCTC
989399 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
989431 GCTAAGTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1005137 original size:15 final size:16
Alignment explanation
Indices: 1005094--1005161 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 16
1005084 AAATAGTTAT
*
1005094 TATT-TTTTATATTAA
1 TATTATTTTATATAAA
*
1005109 TA-TA-TTTATGTAAA
1 TATTATTTTATATAAA
1005123 TATTATTTTAT-TAAA
1 TATTATTTTATATAAA
* *
1005138 -ATAATATTTATATAAT
1 TATTAT-TTTATATAAA
1005154 TATTATTT
1 TATTATTT
1005162 ATTTAGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.36
15 13 0.31
16 10 0.24
17 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTATTTTATATAAA
Found at i:1005162 original size:15 final size:16
Alignment explanation
Indices: 1005094--1005163 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 16
1005084 AAATAGTTAT
*
1005094 TATTTTTTATATT-AA
1 TATTATTTATATTAAA
*
1005109 TA-TATTTAT-GTAAA
1 TATTATTTATATTAAA
1005123 TATTATTT-TATTAAAA
1 TATTATTTATATT-AAA
* *
1005139 TAATATTTATA-TAAT
1 TATTATTTATATTAAA
1005154 TATTATTTAT
1 TATTATTTAT
1005164 TTAGGATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 19 0.43
16 11 0.25
17 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTATTTATATTAAA
Found at i:1006919 original size:21 final size:21
Alignment explanation
Indices: 1006889--1006936 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1006879 GCAGGGGTAC
* *
1006889 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1006910 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1006931 ATGCCA
1 ATGCCA
1006937 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1006966 original size:21 final size:21
Alignment explanation
Indices: 1006940--1007012 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
1006930 TATGCCATCT
*
1006940 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
1006961 CCGCAGGGTTATATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
1006982 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
1007003 CCGCAGGGTT
1 CCGCAGGGTT
1007013 TTATACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:1006973 original size:42 final size:41
Alignment explanation
Indices: 1006927--1007021 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
1006917 GCCCACCAGT
* *
1006927 TTATATGCCATCTCCG-CAGGGTTACATTCCGAGCCCGCAGGG
1 TTATATACCATC-CCGCCA-GGTTACATGCCGAGCCCGCAGGG
* * *
1006969 TTATATTCCTAGCCCGCCAGGTTACATGCCTAGCCCGCAGGG
1 TTATATACC-ATCCCGCCAGGTTACATGCCGAGCCCGCAGGG
*
1007011 TTTTATACCAT
1 TTATATACCAT
1007022 ATGGAGGTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 39 0.89
43 4 0.09
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (41 bp):
TTATATACCATCCCGCCAGGTTACATGCCGAGCCCGCAGGG
Found at i:1007593 original size:33 final size:34
Alignment explanation
Indices: 1007534--1007630 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
1007524 AAATGTTTTT
*
1007534 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
1007568 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* *
1007601 AAAATATAAATTATAATATTCAAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
1007631 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:1007637 original size:34 final size:33
Alignment explanation
Indices: 1007532--1007637 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
1007522 ATAAATGTTT
*
1007532 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTT-AAA
* *
1007566 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAA
* *
1007598 TTTAAAATATAAATTATAATATTCAAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCAAAATTTAA-A
1007633 TTAAA
1 TTAAA
1007638 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAA
Found at i:1008262 original size:128 final size:128
Alignment explanation
Indices: 1008034--1009168 Score: 1983
Period size: 128 Copynumber: 8.9 Consensus size: 128
1008024 CCTGATTTAT
1008034 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* * *
1008099 TGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAGTAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1008162 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*** *
1008227 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTAC
* *
1008290 TGATATATCTATTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATTATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *** *
1008355 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCT-GAGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTAC
*
1008418 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1008483 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1008546 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* * *
1008611 TGAAATAATGGAAGGCGCGCCCCTGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1008674 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
1008739 TGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTG-ATA--GAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1008799 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
1008864 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTTAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1008927 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
1008992 CGAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTTAATAGTGAAATAATAGGTAC
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
* *
1009055 TGATATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
1009120 CGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
1009169 ACTCCGATTA
Statistics
Matches: 967, Mismatches: 35, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
125 120 0.12
126 3 0.00
127 4 0.00
128 839 0.87
129 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (128 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
Found at i:1008999 original size:381 final size:382
Alignment explanation
Indices: 1008034--1009163 Score: 2003
Period size: 381 Copynumber: 3.0 Consensus size: 382
1008024 CCTGATTTAT
1008034 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* * *
1008099 TGAAATAATGGAAGGCGCGTCCCCGGGAACGCGCCTTCATGTGAGTAGTGAAATAATAGGTACTG
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
1008164 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
131 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
** *
1008229 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGA
196 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGTGAAATAATAGGTACTGA
* *
1008293 TATATCTATTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATTATAACATATTCTCTGACGA
260 TATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
* **
1008358 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTCCCCTGAGAAATAATAGGTAC
325 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT--GATGAGAAATAATAGGTAC
*
1008418 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1008483 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
*
1008548 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATG
131 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
* * *
1008613 AAATAATGGAAGGCGCGCCCCTGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAT
196 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
*
1008678 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAA
261 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
1008743 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAT-AGAAATAATAGGTAC
326 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGATGAGAAATAATAGGTAC
1008799 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
1008864 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTTAAATAATAGGTACTG
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
1008929 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
131 ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
* *
1008994 AAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTTAATAGTGAAATAATAGGTACTGAT
196 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
* *
1009059 ATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCTCTGACGAA
261 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
*
1009124 ATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCATGTGA
326 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGA
1009164 ATAGTACTCC
Statistics
Matches: 716, Mismatches: 29, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
381 368 0.51
382 1 0.00
383 1 0.00
384 346 0.48
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (382 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
ATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGGTACTGAT
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAA
ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGATGAGAAATAATAGGTAC
Found at i:1009252 original size:8 final size:8
Alignment explanation
Indices: 1009239--1009279 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1009229 TCACAATCTT
1009239 TCAAATTC
1 TCAAATTC
1009247 TCAAATTC
1 TCAAATTC
* *
1009255 CCAAACTC
1 TCAAATTC
1009263 T-AAATTC
1 TCAAATTC
1009270 TCAAATTC
1 TCAAATTC
1009278 TC
1 TC
1009280 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1030063 original size:22 final size:22
Alignment explanation
Indices: 1030035--1030079 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1030025 TTCATCCTTA
1030035 ACCAATGTTAAAGAATTCTATT
1 ACCAATGTTAAAGAATTCTATT
1030057 ACCAATGTTAAAGAATTCTATT
1 ACCAATGTTAAAGAATTCTATT
1030079 A
1 A
1030080 AATGAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (22 bp):
ACCAATGTTAAAGAATTCTATT
Found at i:1045207 original size:28 final size:28
Alignment explanation
Indices: 1045174--1045255 Score: 164
Period size: 28 Copynumber: 2.9 Consensus size: 28
1045164 CTCCACCCAT
1045174 GCACATATATAAAGCAAATTTACCCAAC
1 GCACATATATAAAGCAAATTTACCCAAC
1045202 GCACATATATAAAGCAAATTTACCCAAC
1 GCACATATATAAAGCAAATTTACCCAAC
1045230 GCACATATATAAAGCAAATTTACCCA
1 GCACATATATAAAGCAAATTTACCCA
1045256 TTAGATACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (28 bp):
GCACATATATAAAGCAAATTTACCCAAC
Found at i:1047036 original size:45 final size:45
Alignment explanation
Indices: 1046967--1047116 Score: 239
Period size: 45 Copynumber: 3.3 Consensus size: 45
1046957 GGGCCCTTGT
* *
1046967 GGAATGCGGAACATTAGTCA-ATTCTTCCTCAGTTGCTTTTTGCGA
1 GGAATGCGGAACATCAGT-AGATTCTTCCTCAGTTGCTTTTTGAGA
*
1047012 GGAATGCGGAACATCAGTAGATTCTTTCTCAGTTGCTTTTTGAGA
1 GGAATGCGGAACATCAGTAGATTCTTCCTCAGTTGCTTTTTGAGA
* *
1047057 GGAATGAGGAACATCAGTTGATTCTTCCTCAGTTGCTTTTTGAGA
1 GGAATGCGGAACATCAGTAGATTCTTCCTCAGTTGCTTTTTGAGA
1047102 GGAATGCGGAACATC
1 GGAATGCGGAACATC
1047117 TGTTTCTCTT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 96 0.99
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
GGAATGCGGAACATCAGTAGATTCTTCCTCAGTTGCTTTTTGAGA
Found at i:1051854 original size:28 final size:29
Alignment explanation
Indices: 1051816--1051885 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
1051806 TGCTCAATAA
* *
1051816 TCAATCTGACCACCGAACTTTTT-TT-AT
1 TCAATCAGACCACCAAACTTTTTATTGAT
*
1051843 CTCAATCAGACCACTAAACTTTTTAATTGAT
1 -TCAATCAGACCACCAAACTTTTT-ATTGAT
1051874 TCAATCAGACCA
1 TCAATCAGACCA
1051886 TCGTGCCGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 20 0.56
30 14 0.39
31 2 0.06
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (29 bp):
TCAATCAGACCACCAAACTTTTTATTGAT
Found at i:1052338 original size:20 final size:20
Alignment explanation
Indices: 1052305--1052344 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1052295 AAATTAAACA
**
1052305 AATTATTTGTTTAAACAAAT
1 AATTATTTAATTAAACAAAT
*
1052325 AATTATTTAATTAAATAAAT
1 AATTATTTAATTAAACAAAT
1052345 TATTCACGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTATTTAATTAAACAAAT
Found at i:1052459 original size:29 final size:29
Alignment explanation
Indices: 1052422--1052484 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
1052412 TTGAAAAAAA
*
1052422 AATT-ATTTGAAAATTATTAACCGAACTG
1 AATTAATTTGAAAATTATTAACCGAACCG
1052450 AATTAATTTGAAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
1052479 AATTAA
1 AATTAA
1052485 CCGATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCGAACCG
Found at i:1052678 original size:107 final size:110
Alignment explanation
Indices: 1052450--1052703 Score: 397
Period size: 107 Copynumber: 2.3 Consensus size: 110
1052440 AACCGAACTG
*
1052450 AATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAAAAATGACTATCTGAAT
1 AATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTT-AAAAAATGAC-ATCTGAAC
* *
1052515 TAATCGAAGCAAAATTTTGGTTAATTCGGTTCGGTTAATCGAACCAA
64 TAATCGAAGCAAAATTTCGGTTAATTCGGCTCGGTTAATCGAACCAA
* ** *
1052562 AATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTT-AATTATTA-ATC-GAACTA
1 AATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAAAATGACATCTGAACTA
1052624 ATCGAAGCAAAATTTCGGTTAATTCGGCTCGGTTAATCGAACCAA
66 ATCGAAGCAAAATTTCGGTTAATTCGGCTCGGTTAATCGAACCAA
*
1052669 AATTTATTTGAAAATTATTAACCGAACCGAATTAA
1 AATTAATTTGAAAATTATTAACCGAACCGAATTAA
1052704 TTTAAAAATT
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
107 81 0.61
108 3 0.02
110 5 0.04
112 44 0.33
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (110 bp):
AATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAAAATGACATCTGAACTA
ATCGAAGCAAAATTTCGGTTAATTCGGCTCGGTTAATCGAACCAA
Found at i:1052706 original size:29 final size:30
Alignment explanation
Indices: 1052669--1052733 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
1052659 ATCGAACCAA
* *
1052669 AATTTATTTGAAAATTATTAACCG-AACCG
1 AATTAATTTAAAAATTATTAACCGAAACCG
1052698 AATTAATTTAAAAATTATTAACCGAAACCG
1 AATTAATTTAAAAATTATTAACCGAAACCG
1052728 AATTAA
1 AATTAA
1052734 CCGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
AATTAATTTAAAAATTATTAACCGAAACCG
Found at i:1052742 original size:136 final size:135
Alignment explanation
Indices: 1052562--1052859 Score: 492
Period size: 136 Copynumber: 2.2 Consensus size: 135
1052552 ATCGAACCAA
*
1052562 AATTAATTTGAAAATTATTAACC-AAACCGAATTAACCGATTTTTTAATTATTAATCGAACTAAT
1 AATTAATTTAAAAATTATTAACCGAAACCGAATTAACCGATTTTTTAATTATTAAT--AACTAAT
1052626 CGAAGC-AAAATTTCGGTTAATTCGGCTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAA
64 CGAAGCAAAAATTT-GGTTAATTCGGCTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAA
* *
1052690 CCGAACCG
128 CCAAAACG
*
1052698 AATTAATTTAAAAATTATTAACCGAAACCGAATTAACCGATTTTTTTAATTATTAATAATTAATC
1 AATTAATTTAAAAATTATTAACCGAAACCGAATTAACCGA-TTTTTTAATTATTAATAACTAATC
* *
1052763 GAAGCAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAATC
65 GAAGCAAAAATTTGGTTAATTCGGCTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
1052828 AAAACG
130 AAAACG
1052834 AATTAATTTAAAAATTATTAACCGAA
1 AATTAATTTAAAAATTATTAACCGAA
1052860 CAAATTTCGT
Statistics
Matches: 153, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
136 114 0.75
137 23 0.15
138 16 0.10
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (135 bp):
AATTAATTTAAAAATTATTAACCGAAACCGAATTAACCGATTTTTTAATTATTAATAACTAATCG
AAGCAAAAATTTGGTTAATTCGGCTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCA
AAACG
Found at i:1053786 original size:14 final size:13
Alignment explanation
Indices: 1053767--1053807 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
1053757 TTTAGATTTT
1053767 TTAAAACTACATTA
1 TTAAAA-TACATTA
1053781 TTAAAA-ACA-TA
1 TTAAAATACATTA
1053792 TTTAAAATACATTA
1 -TTAAAATACATTA
1053806 TT
1 TT
1053808 GATAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.08
12 9 0.38
13 5 0.21
14 8 0.33
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAATACATTA
Found at i:1054387 original size:21 final size:21
Alignment explanation
Indices: 1054363--1054411 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
1054353 AAACACTAAT
*
1054363 CCCTAAATCT-TAATCTTTAAA
1 CCCTAAAT-TATAATCATTAAA
1054384 CCCTAAATTATAATCATTAAA
1 CCCTAAATTATAATCATTAAA
1054405 CCCTAAA
1 CCCTAAA
1054412 ACCTAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
CCCTAAATTATAATCATTAAA
Found at i:1055876 original size:23 final size:23
Alignment explanation
Indices: 1055847--1055979 Score: 122
Period size: 23 Copynumber: 5.7 Consensus size: 23
1055837 TAACCCATTT
*
1055847 TCGAGTTTGAATTGAGCTCAAAA
1 TCGAGTTTGAATCGAGCTCAAAA
* *
1055870 TTGAGTTTGAATCAAGCTCAAAA
1 TCGAGTTTGAATCGAGCTCAAAA
* ***
1055893 TCGAGCTTGAATCGAGCTCGAGTT
1 TCGAGTTTGAATCGAGCTC-AAAA
* ***
1055917 TCGAGCTTGAATCGAGCTCGAGTT
1 TCGAGTTTGAATCGAGCTC-AAAA
* *
1055941 TCGAGCTTGAATCGAGCTCAAAG
1 TCGAGTTTGAATCGAGCTCAAAA
*
1055964 TCGAGCTTGAATCGAG
1 TCGAGTTTGAATCGAG
1055980 TTTCGAGTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
23 53 0.55
24 44 0.45
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (23 bp):
TCGAGTTTGAATCGAGCTCAAAA
Found at i:1055907 original size:11 final size:11
Alignment explanation
Indices: 1055891--1055979 Score: 79
Period size: 11 Copynumber: 7.6 Consensus size: 11
1055881 TCAAGCTCAA
1055891 AATCGAGCTTG
1 AATCGAGCTTG
*
1055902 AATCGAGCTCG
1 AATCGAGCTTG
*
1055913 AGTTTCGAGCTTG
1 A--ATCGAGCTTG
*
1055926 AATCGAGCTCG
1 AATCGAGCTTG
*
1055937 AGTTTCGAGCTTG
1 A--ATCGAGCTTG
**
1055950 AATCGAGCTCA
1 AATCGAGCTTG
1055961 AAGTCGAGCTTG
1 AA-TCGAGCTTG
1055973 AATCGAG
1 AATCGAG
1055980 TTTCGAGTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
11 34 0.56
12 9 0.15
13 18 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (11 bp):
AATCGAGCTTG
Found at i:1055922 original size:13 final size:13
Alignment explanation
Indices: 1055904--1055947 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1055894 CGAGCTTGAA
1055904 TCGAGCTCGAGTT
1 TCGAGCTCGAGTT
* *
1055917 TCGAGCTTGA--A
1 TCGAGCTCGAGTT
1055928 TCGAGCTCGAGTT
1 TCGAGCTCGAGTT
1055941 TCGAGCT
1 TCGAGCT
1055948 TGAATCGAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (13 bp):
TCGAGCTCGAGTT
Found at i:1055925 original size:24 final size:24
Alignment explanation
Indices: 1055893--1055989 Score: 144
Period size: 24 Copynumber: 4.0 Consensus size: 24
1055883 AAGCTCAAAA
1055893 TCGAGCTTGAATCGAGCTCGAGTT
1 TCGAGCTTGAATCGAGCTCGAGTT
1055917 TCGAGCTTGAATCGAGCTCGAGTT
1 TCGAGCTTGAATCGAGCTCGAGTT
*
1055941 TCGAGCTTGAATCGAGCTCAAAG--
1 TCGAGCTTGAATCGAGCTC-GAGTT
*
1055964 TCGAGCTTGAATCGAGTTTCGAGTT
1 TCGAGCTTGAATCGAG-CTCGAGTT
1055989 T
1 T
1055990 TAATTGAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.27
24 45 0.68
25 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (24 bp):
TCGAGCTTGAATCGAGCTCGAGTT
Found at i:1055972 original size:71 final size:71
Alignment explanation
Indices: 1055845--1055989 Score: 193
Period size: 71 Copynumber: 2.0 Consensus size: 71
1055835 ATTAACCCAT
* * *
1055845 TTTCGAGTTTGAATTGAGCTCAAAATTGAGTTTGAATCAAGCTCAAAATCGAGCTTGAATCGAG-
1 TTTCGAGCTTGAATCGAGCTCAAAATTGAGCTTGAATCAAGCTCAAAATCGAGCTTGAATCGAGT
1055909 CTCGAG
66 CTCGAG
* ** * *
1055915 TTTCGAGCTTGAATCGAGCTCGAGTTTCGAGCTTGAATCGAGCTCAAAGTCGAGCTTGAATCGAG
1 TTTCGAGCTTGAATCGAGCTCAAAATT-GAGCTTGAATCAAGCTCAAAATCGAGCTTGAATCGAG
*
1055980 TTTCGAG
65 TCTCGAG
1055987 TTT
1 TTT
1055990 TAATTGAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 22 0.34
71 34 0.53
72 8 0.12
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (71 bp):
TTTCGAGCTTGAATCGAGCTCAAAATTGAGCTTGAATCAAGCTCAAAATCGAGCTTGAATCGAGT
CTCGAG
Found at i:1068080 original size:31 final size:31
Alignment explanation
Indices: 1068042--1068138 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
1068032 TTTGAAAATA
*
1068042 AATAAATTAATTATTAATATTATCAATTTGT
1 AATAAATTAATTATTAATTTTATCAATTTGT
* *
1068073 AATAAATTAATCATTAATTTTATC-ATTTAT
1 AATAAATTAATTATTAATTTTATCAATTTGT
*
1068103 ATTAAATTAATTATTAATTTTATCAATTTGT
1 AATAAATTAATTATTAATTTTATCAATTTGT
1068134 AATAA
1 AATAA
1068139 GTGATCATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 27 0.47
31 31 0.53
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (31 bp):
AATAAATTAATTATTAATTTTATCAATTTGT
Found at i:1072795 original size:20 final size:19
Alignment explanation
Indices: 1072734--1072795 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
1072724 AGTTTCATTA
*
1072734 TTAATTTATATATTATATGT
1 TTAATTTATATTTTATAT-T
* *
1072754 GTAATTTATGAATTTAATTATT
1 TTAATTTAT--ATTTTA-TATT
1072776 TTAATTTATATTTTTATATT
1 TTAATTTATA-TTTTATATT
1072796 AAAATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 13 0.39
21 4 0.12
22 13 0.39
23 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTAATTTATATTTTATATT
Found at i:1076716 original size:30 final size:30
Alignment explanation
Indices: 1076676--1076732 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1076666 CTTAAAAGAG
* *
1076676 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
1076706 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
1076733 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:1076807 original size:22 final size:22
Alignment explanation
Indices: 1076758--1076806 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1076748 ATAAATTATT
* **
1076758 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1076780 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1076803 TAAA
1 TAAA
1076807 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1076939 original size:77 final size:79
Alignment explanation
Indices: 1076761--1077064 Score: 390
Period size: 77 Copynumber: 3.9 Consensus size: 79
1076751 AATTATTTAA
*
1076761 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AATCAAT
1 AATAAATCAATCCATATTTTAAAA-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1076825 TCATACAACTACAAT
65 CCATACAACTACAAT
* *
1076840 AATAAATCAATCTATATTTTAAAAAAATCAATCGATACTAATAAATTATTTAAAAT-AATC-ATC
1 AATAAATCAATCCATATTTTAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
1076903 CATACAACTACAAT
66 CATACAACTACAAT
*
1076917 AATAAATCAATCCATATTTTAAAATAATCAATCCATAC-AATAAATTATTTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAAAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAAT
* ** * *
1076981 CTATACTAAAAATTATTT
65 CCATAC-AACTA-CA-AT
* *
1076999 AAAATAATCAATCCATATTTT---AAAATCAATCCATACTAATAAATTA-TTAAAATAAATCAGT
1 AATA-AATCAATCCATATTTTAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1077060 CCATA
65 CCATA
1077065 TTTTAAAATA
Statistics
Matches: 203, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
76 9 0.04
77 59 0.29
78 39 0.19
79 49 0.24
80 17 0.08
81 10 0.05
82 4 0.02
83 16 0.08
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAAAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
CATACAACTACAAT
Found at i:1076960 original size:21 final size:21
Alignment explanation
Indices: 1076890--1076960 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
1076880 ATAAATTATT
1076890 TAAAATAATC-ATCCATACAA
1 TAAAATAATCAATCCATACAA
***
1076910 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AAT-AATCAATCCATACAA
1076936 TAAAATAATCAATCCATACAA
1 TAAAATAATCAATCCATACAA
1076957 TAAA
1 TAAA
1076961 TTATTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 17 0.44
22 3 0.08
23 4 0.10
24 3 0.08
25 5 0.13
26 7 0.18
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATAATCAATCCATACAA
Found at i:1076994 original size:32 final size:31
Alignment explanation
Indices: 1076931--1077015 Score: 129
Period size: 31 Copynumber: 2.7 Consensus size: 31
1076921 AATCAATCCA
1076931 TATTTTAAAATAATCAATCCATACAATAAAT
1 TATTTTAAAATAATCAATCCATACAATAAAT
*
1076962 TATTTTAAAATAAATCAATCTATACTAA-AAAT
1 TATTTTAAAAT-AATCAATCCATAC-AATAAAT
1076994 TA-TTTAAAATAATCAATCCATA
1 TATTTTAAAATAATCAATCCATA
1077016 TTTTAAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
30 11 0.22
31 19 0.38
32 18 0.36
33 2 0.04
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (31 bp):
TATTTTAAAATAATCAATCCATACAATAAAT
Found at i:1077086 original size:22 final size:22
Alignment explanation
Indices: 1076996--1077086 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
1076986 CTAAAAATTA
1076996 TTTAAAAT-AATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* * *
1077017 TTTAAAATCAATCCATACTAATAAAT
1 TTTAAAATAAATCAAT-C-CAT--AT
*
1077043 TATTAAAATAAATCAGTCCATAT
1 T-TTAAAATAAATCAATCCATAT
* *
1077066 TTTAAAATAAATTAATTCATA
1 TTTAAAATAAATCAATCCATA
1077087 CTAATAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
21 8 0.15
22 23 0.42
23 4 0.07
24 2 0.04
25 2 0.04
26 4 0.07
27 12 0.22
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1077116 original size:53 final size:53
Alignment explanation
Indices: 1076844--1077117 Score: 214
Period size: 53 Copynumber: 5.2 Consensus size: 53
1076834 TACAATAATA
*
1076844 AATCAATCTATATTTTAAAA-AAATCAA-TCGATACTAATAAATTATTTAAAAT
1 AATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAAT
* ** * ** * * *
1076896 AATC-ATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATA-AT-CAAT
1 AATCAATCCAT---ATTTTAA-AATAAATCAATTCATACTAATAAATTATTTAAAAT
* **
1076949 CCATACAATAAATTATTTTAAAATAAATCAA-TCTATACTAA-AAATTATTTAAAAT
1 -AAT-CAATCCA-TATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAAT
*
1077004 AATCAATCCATATTTT---A-AAATCAATCCATACTAATAAATTA-TTAAAAT
1 AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT
* *
1077052 AAATCAGTCCATATTTTAAAATAAATTAATTCATACTAATAAATTATTTAAAAT
1 -AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT
*
1077106 AATTAATCCATA
1 AATCAATCCATA
1077118 CAACTACAAT
Statistics
Matches: 169, Mismatches: 31, Indels: 43
0.70 0.13 0.18
Matches are distributed among these distances:
48 21 0.12
49 23 0.14
51 5 0.03
52 12 0.07
53 58 0.34
54 22 0.13
55 13 0.08
56 13 0.08
57 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (53 bp):
AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT
Found at i:1077228 original size:155 final size:156
Alignment explanation
Indices: 1077049--1077345 Score: 476
Period size: 155 Copynumber: 1.9 Consensus size: 156
1077039 AAATTATTAA
* * * *
1077049 AATAAATCAGTCCATATTTTAAAATAAATTAATTC-ATACTAATAAATTATTTAAAATAATTAAT
1 AATAAATCAATCCATATTTTAAAAT-AATCAA-TCAATACAAATAAATTATTTAAAATAATCAAT
*
1077113 CCATACAACTACAATAATAAATCAATCCATA-TTTTAAAT-AATCAATCGATACTAATAATTATT
64 CCATA-AACTACAATAATAAATCAATCCATATTTTTAAATAAATCAATCGATACAAATAATTATT
1077176 TAAAAT-AATCAATCAATACAACTACAAT
128 TAAAATAAATCAATCAATACAACTACAAT
1077204 AATAAATCAATCCATATTTTAAAATAATCAATCAATACAAATAAATTATTTAAAATAATCAATCC
1 AATAAATCAATCCATATTTTAAAATAATCAATCAATACAAATAAATTATTTAAAATAATCAATCC
* *
1077269 ATAAACTACAATAATAAATCAATCCATATTTTTCAATAAATCAATCTATACAAATAATTATTTAA
66 ATAAACTACAATAATAAATCAATCCATATTTTTAAATAAATCAATCGATACAAATAATTATTTAA
1077334 AATAAATCAATC
131 AATAAATCAATC
1077346 TATATTTAAA
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
153 27 0.21
154 44 0.34
155 52 0.40
156 8 0.06
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (156 bp):
AATAAATCAATCCATATTTTAAAATAATCAATCAATACAAATAAATTATTTAAAATAATCAATCC
ATAAACTACAATAATAAATCAATCCATATTTTTAAATAAATCAATCGATACAAATAATTATTTAA
AATAAATCAATCAATACAACTACAAT
Found at i:1077248 original size:22 final size:22
Alignment explanation
Indices: 1077176--1077248 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
1077166 AATAATTATT
*
1077176 TAAAATAATCAATCAATACAAC
1 TAAAATAATCAATCAATACAAA
* * * *
1077198 TACAATAATAAATCAATCCATATTT
1 TAAAATAATCAATCAATACA-A--A
1077223 TAAAATAATCAATCAATACAAA
1 TAAAATAATCAATCAATACAAA
1077245 TAAA
1 TAAA
1077249 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 21 0.52
23 1 0.03
24 1 0.03
25 17 0.43
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAATCAATCAATACAAA
Found at i:1077281 original size:77 final size:77
Alignment explanation
Indices: 1077049--1077345 Score: 431
Period size: 77 Copynumber: 3.8 Consensus size: 77
1077039 AAATTATTAA
* * * *
1077049 AATAAATCAGTCCATATTTTAAAATAAATTAATTCATACTAATAAATTATTTAAAATAATTAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACAAAT-AATTATTTAAAATAATCAATC
1077114 CATACAACTACAAT
64 CATACAACTACAAT
* *
1077128 AATAAATCAATCCATATTTT-AAAT-AATCAATCGATACTAATAATTATTTAAAATAATCAATCA
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACAAATAATTATTTAAAATAATCAATCC
1077191 ATACAACTACAAT
65 ATACAACTACAAT
1077204 AATAAATCAATCCATATTTTAAAAT-AATCAATCAATACAAATAAATTATTTAAAATAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACAAAT-AATTATTTAAAATAATCAATC
1077268 CATA-AACTACAAT
64 CATACAACTACAAT
**
1077281 AATAAATCAATCCATATTTTTCAATAAATCAATCTATACAAATAATTATTTAAAATAAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACAAATAATTATTTAAAAT-AATCAATC
1077346 TATATTTAAA
Statistics
Matches: 203, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
76 55 0.27
77 77 0.38
78 52 0.26
79 19 0.09
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (77 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACAAATAATTATTTAAAATAATCAATCCA
TACAACTACAAT
Found at i:1077305 original size:25 final size:25
Alignment explanation
Indices: 1077122--1077307 Score: 98
Period size: 25 Copynumber: 7.3 Consensus size: 25
1077112 TCCATACAAC
1077122 TACAATAATAAATCAATCCATATTT
1 TACAATAATAAATCAATCCATATTT
* * *
1077147 TA-AATAATCAATCGATACTAATAATTATT
1 TACAATAATAAATCAAT-C-CAT-A-T-TT
* * * *
1077176 TAAAATAATCAATCAATACA-A--C
1 TACAATAATAAATCAATCCATATTT
1077198 TACAATAATAAATCAATCCATATTT
1 TACAATAATAAATCAATCCATATTT
* * *
1077223 TAAAATAATCAATCAATACAAATAAATTAT
1 TACAATAATAAATCAAT-C-CAT--ATT-T
* ***
1077253 T-TAA-AAT-AATCAATCCATAAAC
1 TACAATAATAAATCAATCCATATTT
1077275 TACAATAATAAATCAATCCATATTT
1 TACAATAATAAATCAATCCATATTT
*
1077300 TTCAATAA
1 TACAATAA
1077308 ATCAATCTAT
Statistics
Matches: 120, Mismatches: 24, Indels: 34
0.67 0.13 0.19
Matches are distributed among these distances:
22 18 0.15
23 4 0.03
24 15 0.12
25 39 0.32
26 5 0.04
27 10 0.08
28 5 0.04
29 9 0.08
30 15 0.12
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.33
Consensus pattern (25 bp):
TACAATAATAAATCAATCCATATTT
Found at i:1077381 original size:53 final size:54
Alignment explanation
Indices: 1077281--1077497 Score: 322
Period size: 53 Copynumber: 4.1 Consensus size: 54
1077271 AAACTACAAT
** * *
1077281 AATAAATCAATCCATATTTTTCAATAAATCAATCTATACAAAT-AATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
*
1077334 AATAAATCAATCTATA-TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCGATACTAATAAATTATTTAA
1077387 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTA-TTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
*
1077440 AAT-AA-C-ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
1077491 AATAAAT
1 AATAAAT
1077498 TATTTTAAAA
Statistics
Matches: 151, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 39 0.26
51 8 0.05
52 24 0.16
53 51 0.34
54 29 0.19
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
Found at i:1077385 original size:32 final size:31
Alignment explanation
Indices: 1077348--1077444 Score: 106
Period size: 22 Copynumber: 3.4 Consensus size: 31
1077338 AATCAATCTA
1077348 TATTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTAAAATAAATCAA-TCATACTAATAAAT
1077380 TATTTAAAATAAATCAATC---C--AT--A-
1 TATTTAAAATAAATCAATCATACTAATAAAT
1077403 T-TTTAAAATAAATCAATCGATACTAATAAAT
1 TATTTAAAATAAATCAATC-ATACTAATAAAT
1077434 TA-TTAAAATAA
1 TATTTAAAATAA
1077445 CATCCATATT
Statistics
Matches: 55, Mismatches: 0, Indels: 21
0.72 0.00 0.28
Matches are distributed among these distances:
22 17 0.31
23 1 0.02
24 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 12 0.22
32 17 0.31
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (31 bp):
TATTTAAAATAAATCAATCATACTAATAAAT
Found at i:1077408 original size:22 final size:22
Alignment explanation
Indices: 1077382--1077474 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 22
1077372 TAATAAATTA
1077382 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1077404 TTTAAAATAAATCAATCGATACT
1 TTTAAAATAAATCAATCCATA-T
** *
1077427 AATAAATTATTAAAATAACATCCATAT
1 TTTAAA--A-T-AAATCA-ATCCATAT
1077454 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1077475 CTAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 27 0.47
23 10 0.18
24 1 0.02
25 2 0.04
26 1 0.02
27 10 0.18
28 6 0.11
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1077461 original size:50 final size:50
Alignment explanation
Indices: 1077290--1077495 Score: 265
Period size: 50 Copynumber: 4.0 Consensus size: 50
1077280 TAATAAATCA
** *
1077290 ATCCATATTTTTCAATAAATCAATCTATACAAAT-AATTATTTAAAATAA-
1 ATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAAAATAAC
*
1077339 ATCAATCTATATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATC
1 ATCCA--TAT-TTTAAAATAAATCAA-TCATACTAATAAATTATTTAAAAT-AA-C
1077395 AATCCATATTTTAAAATAAATCAATCGATACTAATAAATTA-TTAAAATAAC
1 -ATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAAAATAAC
1077446 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
1 ATCCATATTTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAA
1077496 ATTATTTTAA
Statistics
Matches: 140, Mismatches: 5, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
49 4 0.03
50 38 0.27
51 14 0.10
52 22 0.16
53 24 0.17
54 31 0.22
55 3 0.02
57 4 0.03
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.36
Consensus pattern (50 bp):
ATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAC
Found at i:1077496 original size:14 final size:15
Alignment explanation
Indices: 1077477--1077507 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1077467 AATCCATACT
1077477 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1077491 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1077506 AA
1 AA
1077508 CATGAGGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1095699 original size:21 final size:21
Alignment explanation
Indices: 1095675--1095719 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1095665 GCCCAAGATG
1095675 TGGAG-AATTTCATTTGGGGCA
1 TGGAGCAA-TTCATTTGGGGCA
* *
1095696 TGGAGCAATTCTTTTGGGGTA
1 TGGAGCAATTCATTTGGGGCA
1095717 TGG
1 TGG
1095720 GTATCGGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.36
Consensus pattern (21 bp):
TGGAGCAATTCATTTGGGGCA
Found at i:1100970 original size:20 final size:20
Alignment explanation
Indices: 1100945--1100993 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1100935 GTAAAGACTA
1100945 TAGAGAAAGGGGAAGAAATG
1 TAGAGAAAGGGGAAGAAATG
1100965 TAGAGAAAGGGGAAGAAATG
1 TAGAGAAAGGGGAAGAAATG
*
1100985 TGGAGAAAG
1 TAGAGAAAG
1100994 AAGAAAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.41, T:0.10
Consensus pattern (20 bp):
TAGAGAAAGGGGAAGAAATG
Found at i:1105938 original size:28 final size:28
Alignment explanation
Indices: 1105900--1105967 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
1105890 TGAAATATAA
*
1105900 CAAATTGAAATTTATGTGAAATAAATAT
1 CAAATTCAAATTTATGTGAAATAAATAT
1105928 CAAATTCAAATTTATGTGAAATAAATAT
1 CAAATTCAAATTTATGTGAAATAAATAT
1105956 CAAATTCAAATT
1 CAAATTCAAATT
1105968 CAAGAGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (28 bp):
CAAATTCAAATTTATGTGAAATAAATAT
Found at i:1105982 original size:28 final size:28
Alignment explanation
Indices: 1105917--1105974 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
1105907 AAATTTATGT
* * *
1105917 GAAATAAATATCAAATTCAAATTTATGT
1 GAAATAAATATCAAATTCAAATTCAAGA
1105945 GAAATAAATATCAAATTCAAATTCAAGA
1 GAAATAAATATCAAATTCAAATTCAAGA
1105973 GA
1 GA
1105975 TTAAAATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (28 bp):
GAAATAAATATCAAATTCAAATTCAAGA
Found at i:1106369 original size:21 final size:21
Alignment explanation
Indices: 1106338--1106532 Score: 152
Period size: 21 Copynumber: 9.3 Consensus size: 21
1106328 CGATTTACAT
*
1106338 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
1106359 GTTCGCGTTGCGATAGT-CAA
1 ATTCGCGTTGCGATAGTCCAA
**
1106379 AGTTCGCGTTGCGATTTTCCAA
1 A-TTCGCGTTGCGATAGTCCAA
*
1106401 ATTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
*
1106424 ATT--TGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* * *
1106443 GTTCGCGTTGCGATTTATTACAA
1 ATTCGCGTTGCGA--TAGTCCAA
*
1106466 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCCAA
* * *
1106485 GTTCGCATTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
1106508 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
1106527 AATCGC
1 ATTCGC
1106533 AACGACTGGT
Statistics
Matches: 136, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
19 25 0.18
20 3 0.02
21 78 0.57
22 4 0.03
23 26 0.19
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:1106443 original size:84 final size:83
Alignment explanation
Indices: 1106320--1106526 Score: 253
Period size: 84 Copynumber: 2.5 Consensus size: 83
1106310 ACTTCGACTA
*
1106320 TCGCATTGCGATTTA---CATATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGA-TAGT-CAAA
1 TCGCATTGCGATTTATTCCAAATTCG--TTGCGATAGTCCAAGTTCGCGTTGCGATTAGTACAAA
**
1106380 GTTCGCGTTGCGATTTTCCAAAT
64 -TT--CGTTGCGATAGTCCAAAT
* * *
1106403 TCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAAT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTAGTACAAAT
* *
1106468 TCGTTGCGATAGTCGAAGT
65 TCGTTGCGATAGTCCAAAT
1106487 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1106527 AATCGCAACG
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
83 14 0.13
84 79 0.73
86 11 0.10
87 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (83 bp):
TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTAGTACAAATT
CGTTGCGATAGTCCAAAT
Found at i:1106533 original size:42 final size:41
Alignment explanation
Indices: 1106320--1106526 Score: 224
Period size: 42 Copynumber: 5.0 Consensus size: 41
1106310 ACTTCGACTA
*
1106320 TCGCATTGCGATTTA--CATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTATTCAAATTCG--TTGCGATAGTCCAAGT
* * ** *
1106361 TCGCGTTGCGA--TAGTCAAAGTTCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTATTCAAA-TT--CGTTGCGATAGTCCAAGT
* *
1106403 TCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGT
1 TCGCATTGCGATTTATT-CAAATTCGTTGCGATAGTCCAAGT
* *
1106445 TCGCGTTGCGATTTATTACAAATTCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATT-CAAATTCGTTGCGATAGTCCAAGT
1106487 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TCGCATTGCGATTTATT-CAAATTCGTTGCGATAGTCCAA
1106527 AATCGCAACG
Statistics
Matches: 142, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.01
41 13 0.09
42 116 0.82
44 7 0.05
45 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (41 bp):
TCGCATTGCGATTTATTCAAATTCGTTGCGATAGTCCAAGT
Found at i:1106627 original size:6 final size:6
Alignment explanation
Indices: 1106616--1106648 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1106606 GACACGTATT
1106616 ACCACG ACCACG ACCACG ACCACG ACC-CG ACCA
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCA
1106649 GAGACGAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1107422 original size:21 final size:21
Alignment explanation
Indices: 1107396--1107507 Score: 124
Period size: 21 Copynumber: 5.3 Consensus size: 21
1107386 TAACGAATAA
1107396 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
1107417 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
1107436 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* *
1107459 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
1107478 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
1107501 ATCGCAA
1 ATCGCAA
1107508 TGAACTTGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
19 20 0.27
21 35 0.47
23 20 0.27
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1107525 original size:21 final size:21
Alignment explanation
Indices: 1107390--1107530 Score: 123
Period size: 21 Copynumber: 6.7 Consensus size: 21
1107380 CTACCATAAC
*
1107390 GAATAAATCGCAACGCGAACTTC
1 GAATAAATCGCAA--CGAACTTG
*
1107413 GACT--ATCGCAACGAACTTG
1 GAATAAATCGCAACGAACTTG
*
1107432 GAATAAATCGCAACGCGAACTTC
1 GAATAAATCGCAA--CGAACTTG
*
1107455 GACT--ATCGCAACGAACTTG
1 GAATAAATCGCAACGAACTTG
*
1107474 GAATAAATCGCAACGCGAACTTC
1 GAATAAATCGCAA--CGAACTTG
* *
1107497 GACT--ATCGCAATGAACTTG
1 GAATAAATCGCAACGAACTTG
1107516 GAATAAATCGCAACG
1 GAATAAATCGCAACG
1107531 CGAATTTGAA
Statistics
Matches: 95, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
19 29 0.31
21 43 0.45
23 23 0.24
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
GAATAAATCGCAACGAACTTG
Found at i:1107548 original size:42 final size:42
Alignment explanation
Indices: 1107390--1107534 Score: 281
Period size: 42 Copynumber: 3.5 Consensus size: 42
1107380 CTACCATAAC
1107390 GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
1 GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
1107432 GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
1 GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
*
1107474 GAATAAATCGCAACGCGAACTTCGACTATCGCAATGAACTTG
1 GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
1107516 GAATAAATCGCAACGCGAA
1 GAATAAATCGCAACGCGAA
1107535 TTTGAAAAAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 102 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (42 bp):
GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTG
Found at i:1107593 original size:21 final size:21
Alignment explanation
Indices: 1107544--1107596 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1107534 ATTTGAAAAA
*
1107544 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
1107565 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
*
1107586 TCGTGTTGCGA
1 TCGCGTTGCGA
1107597 ATCTGAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:1108194 original size:29 final size:31
Alignment explanation
Indices: 1108141--1108200 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1108131 CAATCTAAGG
1108141 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
1108172 CAAAAT-GTTTTTGGA-TTTAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1108201 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 13 0.46
30 9 0.32
31 6 0.21
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:1108686 original size:18 final size:18
Alignment explanation
Indices: 1108663--1108704 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
1108653 AAGAGAAGAG
1108663 TCTTTCATTATTATTTCA
1 TCTTTCATTATTATTTCA
1108681 TCTTTCATTATTATTTCA
1 TCTTTCATTATTATTTCA
1108699 TCTTTC
1 TCTTTC
1108705 TTTTGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTTCATTATTATTTCA
Found at i:1108835 original size:34 final size:32
Alignment explanation
Indices: 1108796--1108865 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
1108786 TTTTGTAAAG
* *
1108796 GGGAAATG-TTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAA-GATTCTAGCTTAGCCCG-G-AAAAACTA
*
1108830 GGGAAAGATTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
1108862 GGGA
1 GGGA
1108866 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 11 0.34
33 2 0.06
34 19 0.59
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
Found at i:1109420 original size:31 final size:33
Alignment explanation
Indices: 1109363--1109429 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
1109353 AAAAATTGAC
1109363 TTTATATTCTTTTTGTATTGAATTTTATTGAAT
1 TTTATATTCTTTTTGTATTGAATTTTATTGAAT
* *
1109396 TTTA-ATTCTTTTT-TATTGATTTTTATTGATT
1 TTTATATTCTTTTTGTATTGAATTTTATTGAAT
1109427 TTT
1 TTT
1109430 TAAAAAAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 19 0.59
32 9 0.28
33 4 0.12
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (33 bp):
TTTATATTCTTTTTGTATTGAATTTTATTGAAT
Found at i:1109428 original size:21 final size:21
Alignment explanation
Indices: 1109385--1109431 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1109375 TTGTATTGAA
*
1109385 TTTTATTGAATTTTAATTCTT
1 TTTTATTGAATTTTAATTATT
*
1109406 TTTTATTG-ATTTTTATTGATT
1 TTTTATTGAATTTTAATT-ATT
1109427 TTTTA
1 TTTTA
1109432 AAAAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTATTGAATTTTAATTATT
Found at i:1109429 original size:10 final size:10
Alignment explanation
Indices: 1109373--1109429 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
1109363 TTTATATTCT
1109373 TTTTGTATTGA
1 TTTT-TATTGA
*
1109384 ATTTTATTGAA
1 TTTTTATTG-A
* **
1109395 TTTTAATTCT
1 TTTTTATTGA
1109405 TTTTTATTGA
1 TTTTTATTGA
1109415 TTTTTATTGA
1 TTTTTATTGA
1109425 TTTTT
1 TTTTT
1109430 TAAAAAAGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 27 0.73
11 10 0.27
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:1109742 original size:32 final size:30
Alignment explanation
Indices: 1109682--1109751 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 30
1109672 TATAAATTAT
1109682 AATTAAAAGTATAAAAATGCAATAAAAAAG
1 AATTAAAAGTATAAAAATGCAATAAAAAAG
*
1109712 AATTAAAAGTGA-ATAAAATTCAATACAAAAAG
1 AATTAAAAGT-ATA-AAAATGCAATA-AAAAAG
1109744 AATATAAA
1 AAT-TAAA
1109752 GTCATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 11 0.31
31 11 0.31
32 9 0.26
33 4 0.11
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (30 bp):
AATTAAAAGTATAAAAATGCAATAAAAAAG
Found at i:1109797 original size:26 final size:27
Alignment explanation
Indices: 1109760--1109810 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
1109750 AAGTCATTTT
1109760 TTTTTTGAAATTATATAAA-ATTTATAA
1 TTTTTTGAAATTATA-AAATATTTATAA
1109787 TTTTTT-AAATTATAAAATATTTAT
1 TTTTTTGAAATTATAAAATATTTAT
1109811 TATAATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 3 0.13
26 14 0.61
27 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTTTTGAAATTATAAAATATTTATAA
Found at i:1110870 original size:23 final size:23
Alignment explanation
Indices: 1110844--1110901 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1110834 TAATTAATAA
1110844 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
1110867 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
1110890 TATA--ATGTAAAA
1 TATATTATGTAAAA
1110902 ATTATAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:1110944 original size:13 final size:13
Alignment explanation
Indices: 1110915--1110949 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1110905 ATAACTAATA
*
1110915 ATATTAAAT-ATT
1 ATATTAAATAAAT
1110927 ATATTAAATAAAT
1 ATATTAAATAAAT
1110940 ATATTAAATA
1 ATATTAAATA
1110950 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:1113952 original size:8 final size:8
Alignment explanation
Indices: 1113939--1113979 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1113929 CTCATTTTCA
1113939 GAGAATTT
1 GAGAATTT
1113947 GAGAATTT
1 GAGAATTT
*
1113955 -AGAGTTT
1 GAGAATTT
*
1113962 GGGAATTT
1 GAGAATTT
1113970 GAGAATTT
1 GAGAATTT
1113978 GA
1 GA
1113980 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1114333 original size:126 final size:126
Alignment explanation
Indices: 1114047--1114407 Score: 706
Period size: 126 Copynumber: 2.9 Consensus size: 126
1114037 CTATAATCGG
*
1114047 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1114112 TCATTGCCCTATTATGTCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1114172 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1114237 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1114298 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1114363 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATA
1114408 CACCTTGGAT
Statistics
Matches: 234, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
125 95 0.41
126 139 0.59
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:1115471 original size:34 final size:33
Alignment explanation
Indices: 1115433--1115532 Score: 119
Period size: 34 Copynumber: 3.0 Consensus size: 33
1115423 AAATTTAATG
*
1115433 TTAAATATCGAATACTATAATTTATATTTTAAAT
1 TTAAAT-TCGAATAATATAATTTATATTTTAAAT
* * * * *
1115467 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTCGAATAATATAATTTATATTTTAAAT
*
1115500 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAA-TTCGAATAATATAATTTATATTTTAAA
1115533 AACATTTATC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 26 0.48
34 28 0.52
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (33 bp):
TTAAATTCGAATAATATAATTTATATTTTAAAT
Found at i:1115494 original size:33 final size:33
Alignment explanation
Indices: 1115433--1115532 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
1115423 AAATTTAATG
* *
1115433 TTAAATATCGAATACTATAATTTATATTTTAAAT
1 TTAAAT-TTGAATAATATAATTTATATTTTAAAT
* * * *
1115467 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
*
1115500 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTT-GAATAATATAATTTATATTTTAAA
1115533 AACATTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTATATTTTAAAT
Found at i:1116073 original size:21 final size:20
Alignment explanation
Indices: 1116046--1116115 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
1116036 GGTATAAAAC
*
1116046 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
1116066 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
1116087 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
1116108 CCCTGCGG
1 -CCTGCGG
1116116 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:1116145 original size:21 final size:21
Alignment explanation
Indices: 1116119--1116166 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1116109 CCTGCGGAGA
*
1116119 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1116140 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1116161 GGGCAT
1 TGGCAT
1116167 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1117956 original size:30 final size:31
Alignment explanation
Indices: 1117888--1117962 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 31
1117878 TTAATAATTC
* *
1117888 TAAATAAATAATAATTATATAAATTATTTTAA
1 TAAA-AAATAATAATTACATAAATTATATTAA
*
1117920 TAAAAAA-AATATTTACATAAA-TATATTAA
1 TAAAAAATAATAATTACATAAATTATATTAA
1117949 TATAAAAATAATAA
1 TA-AAAAATAATAA
1117963 CTATTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 9 0.24
30 17 0.46
31 7 0.19
32 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAAAATAATAATTACATAAATTATATTAA
Found at i:1117986 original size:14 final size:14
Alignment explanation
Indices: 1117924--1117989 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
1117914 TTTTAATAAA
*
1117924 AAAAATATTTACAT
1 AAAAATATTAACAT
* *
1117938 AAATATATTAATAT
1 AAAAATATTAACAT
*
1117952 AAAAATAATAACTATT
1 AAAAATATTAAC-A-T
*
1117968 AAAAAATACTAACAT
1 -AAAAATATTAACAT
1117983 AAAAATA
1 AAAAATA
1117990 AATTTCTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 27 0.64
15 2 0.05
16 2 0.05
17 11 0.26
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATATTAACAT
Found at i:1129714 original size:3 final size:3
Alignment explanation
Indices: 1129706--1129741 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1129696 AAAATAGAAT
*
1129706 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1129742 AATTGAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1138443 original size:14 final size:14
Alignment explanation
Indices: 1138421--1138454 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1138411 ATAATTTTAA
1138421 TTAAAATTAAAACG
1 TTAAAATTAAAACG
* *
1138435 TTAATATTAAAATG
1 TTAAAATTAAAACG
1138449 TTAAAA
1 TTAAAA
1138455 AATATAGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (14 bp):
TTAAAATTAAAACG
Found at i:1142312 original size:30 final size:30
Alignment explanation
Indices: 1142278--1142354 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
1142268 ATCTTAGCCA
*
1142278 CAACGTCGTGGTATATAGTTAATATGGACC
1 CAACGTCATGGTATATAGTTAATATGGACC
1142308 CAACGTCATGGTATATAGTTAATATGGACC
1 CAACGTCATGGTATATAGTTAATATGGACC
*
1142338 CAACGCCATGGTATATA
1 CAACGTCATGGTATATA
1142355 TATATATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (30 bp):
CAACGTCATGGTATATAGTTAATATGGACC
Found at i:1143466 original size:37 final size:32
Alignment explanation
Indices: 1143395--1143458 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1143385 TCGAATTACA
1143395 TAGTCCAACAACCAAACATAATTAAAAAATGT
1 TAGTCCAACAACCAAACATAATTAAAAAATGT
*
1143427 TAGTCCAACATCCAAACATAATTAAAAAATGT
1 TAGTCCAACAACCAAACATAATTAAAAAATGT
1143459 CATGTTAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (32 bp):
TAGTCCAACAACCAAACATAATTAAAAAATGT
Found at i:1144087 original size:31 final size:31
Alignment explanation
Indices: 1144052--1144160 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 31
1144042 ATAATAATCG
1144052 AGTGACCAAAACATAAATTAGATAATATATA
1 AGTGACCAAAACATAAATTAGATAATATATA
*** *
1144083 AGTGACCAAATAGGCAGTTTGCTCTAAATAATA-ATCA
1 AGTGACCAAA-A--CA--TAAAT-TAGATAATATAT-A
*
1144120 AGTGACCAAAATATAAATTAGATAATATATA
1 AGTGACCAAAACATAAATTAGATAATATATA
*
1144151 AATGACCAAA
1 AGTGACCAAA
1144161 TATATAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
31 28 0.47
32 5 0.08
34 3 0.05
36 5 0.08
37 19 0.32
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (31 bp):
AGTGACCAAAACATAAATTAGATAATATATA
Found at i:1144114 original size:68 final size:68
Alignment explanation
Indices: 1144005--1144162 Score: 253
Period size: 68 Copynumber: 2.3 Consensus size: 68
1143995 CTATAAAAAA
* * *
1144005 ATAATATATAAGTGACCAAAGAGGTAGTTTACCCTAAATAATAATCGAGTGACCAAAACATAAAT
1 ATAATATATAAGTGACCAAATAGGCAGTTTACCCTAAATAATAATCAAGTGACCAAAACATAAAT
1144070 TAG
66 TAG
* * *
1144073 ATAATATATAAGTGACCAAATAGGCAGTTTGCTCTAAATAATAATCAAGTGACCAAAATATAAAT
1 ATAATATATAAGTGACCAAATAGGCAGTTTACCCTAAATAATAATCAAGTGACCAAAACATAAAT
1144138 TAG
66 TAG
*
1144141 ATAATATATAAATGACCAAATA
1 ATAATATATAAGTGACCAAATA
1144163 TATAATTTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 83 1.00
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (68 bp):
ATAATATATAAGTGACCAAATAGGCAGTTTACCCTAAATAATAATCAAGTGACCAAAACATAAAT
TAG
Found at i:1144123 original size:37 final size:36
Alignment explanation
Indices: 1144003--1144130 Score: 108
Period size: 37 Copynumber: 3.6 Consensus size: 36
1143993 TCCTATAAAA
* *
1144003 AAATAATATATAAGTGACCAAAGAGGTAGTTTACCCT
1 AAATAATATATAAGTGACCAAA-AGGCAGTTTACTCT
* * *
1144040 AAATAATA-ATCGAGTGACCAAAA--CA--TAAAT-T
1 AAATAATATAT-AAGTGACCAAAAGGCAGTTTACTCT
* *
1144071 AGATAATATATAAGTGACCAAATAGGCAGTTTGCTCT
1 AAATAATATATAAGTGACCAAA-AGGCAGTTTACTCT
1144108 AAATAATA-ATCAAGTGACCAAAA
1 AAATAATATAT-AAGTGACCAAAA
1144131 TATAAATTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
31 18 0.25
32 5 0.07
34 3 0.04
36 8 0.11
37 37 0.52
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (36 bp):
AAATAATATATAAGTGACCAAAAGGCAGTTTACTCT
Found at i:1144162 original size:16 final size:16
Alignment explanation
Indices: 1144122--1144167 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1144112 AATAATCAAG
1144122 TGACCAAA-ATATAAA
1 TGACCAAATATATAAA
* *
1144137 TTA-GATAATATATAAA
1 TGACCA-AATATATAAA
1144153 TGACCAAATATATAA
1 TGACCAAATATATAA
1144168 TTTACCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 18 0.75
17 1 0.04
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (16 bp):
TGACCAAATATATAAA
Found at i:1147105 original size:9 final size:9
Alignment explanation
Indices: 1147087--1147119 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1147077 TGATGGCGAA
1147087 GAAGAGGAG
1 GAAGAGGAG
*
1147096 GAAGAAGAG
1 GAAGAGGAG
1147105 GAAGAGGAG
1 GAAGAGGAG
1147114 GAAGAG
1 GAAGAG
1147120 CTTCAGCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
GAAGAGGAG
Found at i:1151351 original size:5 final size:5
Alignment explanation
Indices: 1151341--1151398 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
1151331 AACGGTCAAC
* * *
1151341 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTAG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
1151390 GGTCG GGTC
1 GGTCG GGTC
1151399 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.09, C:0.21, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:1151362 original size:22 final size:22
Alignment explanation
Indices: 1151334--1151398 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
1151324 AACGGTCAAC
1151334 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
1151356 GGTCAACGGTCGGGTCGGGTAG
1 GGTCAACGGTCGGGTCGGGTCG
1151378 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
1151399 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1151449 original size:10 final size:10
Alignment explanation
Indices: 1151401--1151492 Score: 81
Period size: 9 Copynumber: 9.7 Consensus size: 10
1151391 GTCGGGTCAG
1151401 ACCGG-TCAA
1 ACCGGTTCAA
1151410 ACC-GTT-AA
1 ACCGGTTCAA
1151418 ACCGG-TCAA
1 ACCGGTTCAA
* *
1151427 ATCGGTTCGA
1 ACCGGTTCAA
*
1151437 ACCGGTTGAA
1 ACCGGTTCAA
1151447 ACCGG-TCAA
1 ACCGGTTCAA
1151456 ACCGG-TCAGA
1 ACCGGTTCA-A
*
1151466 ACCGGTTGAAA
1 ACCGGTT-CAA
1151477 ACCGGTT-AA
1 ACCGGTTCAA
1151486 ACCGGTT
1 ACCGGTT
1151493 TCCAGCAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
8 7 0.10
9 31 0.45
10 21 0.30
11 9 0.13
12 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.18
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:1151451 original size:29 final size:30
Alignment explanation
Indices: 1151401--1151491 Score: 52
Period size: 29 Copynumber: 3.2 Consensus size: 30
1151391 GTCGGGTCAG
*
1151401 ACCGGTCAAACC-GTT-A-AACCGG-TCAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAA
* * * *
1151427 ATCGGTTCGAACCGGTTGA-AACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAGAACCGGTTGAA
* *
1151456 ACCGGTCAGAACCGGTTGAAAACCGGTT-AA
1 ACCGGTCA-AACCGGTTCAGAACCGGTTGAA
1151486 ACCGGT
1 ACCGGT
1151492 TTCCAGCAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.07
27 6 0.11
28 5 0.09
29 25 0.45
30 14 0.25
31 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (30 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAA
Found at i:1158616 original size:22 final size:22
Alignment explanation
Indices: 1158591--1158633 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1158581 GAAAGTCAAC
1158591 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
1158613 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
1158634 AGACCGGTCA
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:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1158679 original size:20 final size:21
Alignment explanation
Indices: 1158643--1158681 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1158633 CAGACCGGTC
*
1158643 AAACCGGTTCGAACCGGTTGA
1 AAACCGGTTCAAACCGGTTGA
1158664 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCAAACCGGTT
1158682 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (21 bp):
AAACCGGTTCAAACCGGTTGA
Found at i:1167362 original size:119 final size:121
Alignment explanation
Indices: 1167149--1167389 Score: 427
Period size: 119 Copynumber: 2.0 Consensus size: 121
1167139 TTTTGCAGGG
1167149 GCCCCATGCATCACAAGGCAACTCACTGCTCTACAAAAATTCAATTCGGGTGTTGTGCATGCCAA
1 GCCCCATGCATCACAAGGCAACTCACTGCTCTACAAAAATTCAATTCGGGTGTTGTGCATGCCAA
*
1167214 CACCTCCAAAGGATTCAATCCACGAAAGGACGTAAGCCTTCCCAAA-AAACCTCATA
66 CACCTCCAAAGGATTCAATCCACGAAAGGACGTAAG-CTTCCAAAATAAACCTCATA
1167270 GCCCCATGCATCACAAGGCAACTCACTGCTCTAC-AAAATTC-ATTCGGGTGTTGTGCAATGCCA
1 GCCCCATGCATCACAAGGCAACTCACTGCTCTACAAAAATTCAATTCGGGTGTTGTGC-ATGCCA
1167333 ACA-CTCCAAAGGATTCAATCCACGAAAGGACGTAAGCTTCCAAAATAAACCTCATA
65 ACACCTCCAAAGGATTCAATCCACGAAAGGACGTAAGCTTCCAAAATAAACCTCATA
1167389 G
1 G
1167390 GTGGCTATCT
Statistics
Matches: 117, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
118 8 0.07
119 59 0.50
120 16 0.14
121 34 0.29
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.20
Consensus pattern (121 bp):
GCCCCATGCATCACAAGGCAACTCACTGCTCTACAAAAATTCAATTCGGGTGTTGTGCATGCCAA
CACCTCCAAAGGATTCAATCCACGAAAGGACGTAAGCTTCCAAAATAAACCTCATA
Done.