Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 140 of 226
Found at i:43469600 original size:79 final size:78
Alignment explanation
Indices: 43469511--43469735 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 78
43469501 GCTCCTCGTT
* * *
43469511 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
43469576 TTTAATAACTCGCA
66 CTT-ATAACTCGCA
* * * * *
43469590 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGACA-AAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC-ACACAAAGCCTTCGGGACTTAACCCGG
* *
43469654 AACTTGTATCTCGCA
65 -ACTTATAACTCGCA
* * * * * *
43469669 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
43469733 GAC
64 GAC
43469736 AGCATTCAAT
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
78 4 0.03
79 90 0.75
80 26 0.22
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
CTTATAACTCGCA
Found at i:43469604 original size:40 final size:39
Alignment explanation
Indices: 43469513--43469734 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
43469503 TCCTCGTTCA
* * * *
43469513 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
43469552 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
43469591 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCG-AC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
43469630 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
43469670 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
43469711 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43469735 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 69 0.45
40 76 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:43469743 original size:41 final size:41
Alignment explanation
Indices: 43469666--43469743 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43469656 CTTGTATCTC
* * *
43469666 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43469707 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43469744 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43475779 original size:40 final size:39
Alignment explanation
Indices: 43475695--43475880 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 39
43475685 TTGAATGATG
* * * *
43475695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43475735 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
43475775 TCCGGGCTAAGCCCGAAGGCATTTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTT-GTGCGAGTTACTAAA
*
43475815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
43475856 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43475881 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.10
40 92 0.73
41 22 0.17
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43475832 original size:80 final size:82
Alignment explanation
Indices: 43475695--43475880 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 82
43475685 TTGAATGATG
*
43475695 TCCGGGCTAAGTCCCGAAGGC-TTT-GTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAT
43475758 TTGTGCGAGATACTA-A
66 TTGTGCGAGATACTATA
* * * **
43475774 TTCCGGGCTAAG-CCCGAAGGCATTTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGC
*
43475836 ATTTGTGCGAGTTACTATA
64 ATTTGTGCGAGATACTATA
* *
43475855 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43475881 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
79 10 0.11
80 63 0.68
81 19 0.21
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAT
TTGTGCGAGATACTATA
Found at i:43475898 original size:80 final size:79
Alignment explanation
Indices: 43475748--43475913 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
43475738 GGACTAAGAT
* ** *
43475748 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGGAACGAGTGACTA
*
43475813 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
43475828 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTT-GAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGGAACGAGTGA-
* *
43475890 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
43475907 CCGAAGG
1 CCGAAGG
43475914 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 44 0.59
81 13 0.18
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGGAACGAGTGACTA
AATCCGGTTAAATC
Found at i:43477611 original size:27 final size:27
Alignment explanation
Indices: 43477581--43477642 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43477571 TGTTAGGACG
* * *
43477581 GTAAACATAAGGTAGTCTACTGGGATA
1 GTAAACACAAGGTAGCCCACTGGGATA
* *
43477608 GTAAACACGAGGTAGCCCATTGGGATA
1 GTAAACACAAGGTAGCCCACTGGGATA
*
43477635 GAAAACAC
1 GTAAACAC
43477643 GGAGAGTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (27 bp):
GTAAACACAAGGTAGCCCACTGGGATA
Found at i:43479237 original size:21 final size:21
Alignment explanation
Indices: 43479213--43479255 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43479203 AAATATTTAG
* *
43479213 TTAAAATTTAACAATAAAATT
1 TTAAAATTTAAAAACAAAATT
*
43479234 TTAAATTTTAAAAACAAAATT
1 TTAAAATTTAAAAACAAAATT
43479255 T
1 T
43479256 GATTAGTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTTAAAAACAAAATT
Found at i:43479476 original size:18 final size:18
Alignment explanation
Indices: 43479418--43479484 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
43479408 ATGGTTGGAT
* **
43479418 AAAATGTTTTTAATGTAA
1 AAAATTTTTTTAAAATAA
*
43479436 AAAGTATTTTTTTAAACT-A
1 AAA--ATTTTTTTAAAATAA
43479455 AAAATTTTTTTAAAATAA
1 AAAATTTTTTTAAAATAA
*
43479473 AAAATATTTTTA
1 AAAATTTTTTTA
43479485 TGAAATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 12 0.29
18 15 0.37
19 4 0.10
20 10 0.24
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (18 bp):
AAAATTTTTTTAAAATAA
Found at i:43479492 original size:20 final size:19
Alignment explanation
Indices: 43479433--43479483 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
43479423 GTTTTTAATG
* *
43479433 TAAAAAGTATTTTTTTAAAC
1 TAAAAAATA-TTTTTTAAAA
43479453 T-AAAAAT-TTTTTTAAAA
1 TAAAAAATATTTTTTAAAA
43479470 TAAAAAATATTTTT
1 TAAAAAATATTTTT
43479484 ATGAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 10 0.37
20 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
TAAAAAATATTTTTTAAAA
Found at i:43479501 original size:20 final size:19
Alignment explanation
Indices: 43479454--43479492 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
43479444 TTTTTAAACT
*
43479454 AAAAATTTTTTTAAAATAA
1 AAAAATTTTTATAAAATAA
*
43479473 AAAATATTTTTATGAAATAA
1 AAAA-ATTTTTATAAAATAA
43479493 TATAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAAATTTTTATAAAATAA
Found at i:43480653 original size:45 final size:45
Alignment explanation
Indices: 43480589--43480779 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
43480579 ACCCGCAACG
43480589 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43480634 AAACCACCCCCCTCTCCTACTATGGCACCACCATCACCTGCTAAT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43480679 AAACCACCTCCCTCTCCTACTGCGGCACCACCATCACCTGCTACT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
* *
43480724 AAACCACCTCCCTCTCCTAC--TGGTA-CACCACCACCTGCT-AT
1 AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
*
43480765 AAAACCACCACCCTC
1 -AAACCACCTCCCTC
43480780 GCCATTTGTG
Statistics
Matches: 134, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 26 0.19
43 3 0.02
45 104 0.78
ACGTcount: A:0.26, C:0.47, G:0.07, T:0.20
Consensus pattern (45 bp):
AAACCACCTCCCTCTCCTACTGTGGCACCACCATCACCTGCTAAT
Found at i:43480731 original size:21 final size:21
Alignment explanation
Indices: 43480615--43480731 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 21
43480605 CTACTGTGGC
*
43480615 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTACTAA
* * * *
43480636 ACCACC-CCCCTCTCCTACTATGGC
1 ACCACCATCAC-CTGCTACTA---A
*
43480660 ACCACCATCACCTGCTAATAA
1 ACCACCATCACCTGCTACTAA
* * **
43480681 ACCACC-TCCCTCTCCTACTGCGGC
1 ACCACCATCAC-CTGCTACT---AA
43480705 ACCACCATCACCTGCTACTAA
1 ACCACCATCACCTGCTACTAA
43480726 ACCACC
1 ACCACC
43480732 TCCCTCTCCT
Statistics
Matches: 67, Mismatches: 19, Indels: 20
0.63 0.18 0.19
Matches are distributed among these distances:
20 5 0.07
21 31 0.46
24 26 0.39
25 5 0.07
ACGTcount: A:0.27, C:0.47, G:0.07, T:0.19
Consensus pattern (21 bp):
ACCACCATCACCTGCTACTAA
Found at i:43480731 original size:24 final size:24
Alignment explanation
Indices: 43480614--43480731 Score: 61
Period size: 24 Copynumber: 5.2 Consensus size: 24
43480604 CCTACTGTGG
*
43480614 CACCACCATCACCTGCTAATAAAC
1 CACCACCATCACCTGCTACTAAAC
* ***
43480638 CACC-CC--C-CTCTCCTACTATGG
1 CACCACCATCAC-CTGCTACTAAAC
*
43480659 CACCACCATCACCTGCTAATAAAC
1 CACCACCATCACCTGCTACTAAAC
* * * ****
43480683 CACCTCC--C-TCTCCTACTGCGG
1 CACCACCATCACCTGCTACTAAAC
43480704 CACCACCATCACCTGCTACTAAAC
1 CACCACCATCACCTGCTACTAAAC
43480728 CACC
1 CACC
43480732 TCCCTCTCCT
Statistics
Matches: 61, Mismatches: 25, Indels: 16
0.60 0.25 0.16
Matches are distributed among these distances:
20 1 0.02
21 24 0.39
22 3 0.05
23 3 0.05
24 29 0.48
25 1 0.02
ACGTcount: A:0.27, C:0.47, G:0.07, T:0.19
Consensus pattern (24 bp):
CACCACCATCACCTGCTACTAAAC
Found at i:43480753 original size:24 final size:24
Alignment explanation
Indices: 43480681--43480755 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
43480671 CTGCTAATAA
*
43480681 ACCACCTCCCTCTCCTACTGCG-GC
1 ACCACCTCCCTCTCCTACTG-GTAC
* * *
43480705 ACCACCATCAC-CTGCTAC---TAA
1 ACCACC-TCCCTCTCCTACTGGTAC
43480726 ACCACCTCCCTCTCCTACTGGTAC
1 ACCACCTCCCTCTCCTACTGGTAC
43480750 ACCACC
1 ACCACC
43480756 ACCTGCTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 3 0.08
21 12 0.32
24 20 0.53
25 3 0.08
ACGTcount: A:0.21, C:0.51, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCACCTCCCTCTCCTACTGGTAC
Found at i:43497155 original size:22 final size:22
Alignment explanation
Indices: 43497127--43497195 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
43497117 TTACTGATTA
*
43497127 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
43497149 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* ** *
43497171 ATAGCATTTTAGTGTTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
43497193 TTA
1 TTA
43497196 ATAGTGCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:43497650 original size:51 final size:49
Alignment explanation
Indices: 43497527--43497721 Score: 221
Period size: 51 Copynumber: 3.9 Consensus size: 49
43497517 GAAGTTGCTA
*
43497527 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGAT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GAT
* * * * *
43497576 AGGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGCTT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-AT
* * * *
43497627 CGATCACATGTGTAGTACCATGTGCAGGCTACTACGTGTATCGGATGGAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT--AGAT
* *
43497679 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
43497722 GTACCATTGA
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 40 0.33
51 78 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGAT
Found at i:43505325 original size:279 final size:279
Alignment explanation
Indices: 43504825--43505362 Score: 844
Period size: 279 Copynumber: 1.9 Consensus size: 279
43504815 GATTATTATA
* ** *
43504825 TCGTCTACAATTCCAATTGGGGAGATGACTAGTCTTAGCTATCGGAGCTGTTGACTCCATGAGTA
1 TCGTCTACAATTCCAATTGGGGAGATGACTAGTCTTAGCTATCAGAGCAATTGACTCCATAAGTA
* * *
43504890 GAGACATAGATGTATTCATTGGTAGAATGATACATTGGACTGGACCTAAGATGAATTAATTCTGA
66 GAGACATAGATGTATTCATTGGTAGAATGATACATTGGACTAGACCCAAGATAAATTAATTCTGA
* * *
43504955 ATTCGTTTGTTAATTAATTCACTTGTGACGTTCATGGTGTAATTTACCTAAATCTTGAGTTAGTC
131 ATCCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTAATTTACCTAAATCTCGAGTTAGTC
* ** * * * *
43505020 ACTACCCATTTGTATGCAACTCATGTGCTTTGATATAAGTGGGGGCTTATACTTTAAAGGTGATC
196 AATACCCATGCGTATGCAACTCATGTGCTTCGATATAAGTGGAGGCTTATACTCTAAAGATGATC
43505085 AAGCCCATAACCGGTATTG
261 AAGCCCATAACCGGTATTG
* *
43505104 TCGTCTACAATTCCAATTGGGGAGATGACTAGTCTTGGCTATCAGAGCAATTGACTCTATAAGTA
1 TCGTCTACAATTCCAATTGGGGAGATGACTAGTCTTAGCTATCAGAGCAATTGACTCCATAAGTA
*
43505169 GAGACATAGATGTATTCATTGGTAGAATGATACATTGGACTAGACCCAAGATAAATTAATTTTGA
66 GAGACATAGATGTATTCATTGGTAGAATGATACATTGGACTAGACCCAAGATAAATTAATTCTGA
* *
43505234 ATCCGTTTGTGAATTAATTTACTTGTGACGTTCATGGTGTGATTTACCTAAATCTCGAGTTAGTC
131 ATCCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTAATTTACCTAAATCTCGAGTTAGTC
* *
43505299 AATGA-CCATGCGTATGCAACTCATGTGCTTCGGTATAAGTGGAGGCTTATCCTCTAAAGATGAT
196 AAT-ACCCATGCGTATGCAACTCATGTGCTTCGATATAAGTGGAGGCTTATACTCTAAAGATGAT
43505363 TGAGTAAATA
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
279 233 1.00
280 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (279 bp):
TCGTCTACAATTCCAATTGGGGAGATGACTAGTCTTAGCTATCAGAGCAATTGACTCCATAAGTA
GAGACATAGATGTATTCATTGGTAGAATGATACATTGGACTAGACCCAAGATAAATTAATTCTGA
ATCCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTAATTTACCTAAATCTCGAGTTAGTC
AATACCCATGCGTATGCAACTCATGTGCTTCGATATAAGTGGAGGCTTATACTCTAAAGATGATC
AAGCCCATAACCGGTATTG
Found at i:43506541 original size:37 final size:36
Alignment explanation
Indices: 43506490--43506600 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 36
43506480 ATTCCAAAAA
*
43506490 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATAGTTTAATATTAAATTTAATT
*
43506526 TAATACTTATATTAATTGTTT--T-TT--A-TTAATT
1 TAATA-TTATATTAATAGTTTAATATTAAATTTAATT
* * *
43506557 TAATATTAAAGTGATTA-TCTTAATATTAAATTTAATT
1 TAATATTATA-TTAATAGT-TTAATATTAAATTTAATT
43506594 TAATATT
1 TAATATT
43506601 TATCTTGTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
30 5 0.08
31 16 0.27
32 1 0.02
33 1 0.02
34 4 0.07
35 1 0.02
36 6 0.10
37 26 0.43
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (36 bp):
TAATATTATATTAATAGTTTAATATTAAATTTAATT
Found at i:43508796 original size:11 final size:11
Alignment explanation
Indices: 43508782--43508819 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
43508772 ATTTTTTTAA
43508782 TTTTAAAATAT
1 TTTTAAAATAT
*
43508793 TTTTAAAATAC
1 TTTTAAAATAT
43508804 TTTTAAAATACT
1 TTTTAAAATA-T
43508816 TTTT
1 TTTT
43508820 TAGTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:43509140 original size:46 final size:45
Alignment explanation
Indices: 43509068--43509198 Score: 210
Period size: 46 Copynumber: 2.8 Consensus size: 45
43509058 AGTGTGGAAC
43509068 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGATAAA
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGTTGTGA-AAA
43509115 -TAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAA-GAAAACCATACTGAGTTGTGAAAA
*
43509160 GTAGGTATGGTATTTCAGTGAAAAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGTT
43509199 ATAGCATTGT
Statistics
Matches: 80, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
45 5 0.06
46 73 0.91
47 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (45 bp):
GTAGGTATGGTATTTCAGTAAGAAAACCATACTGAGTTGTGAAAA
Found at i:43512615 original size:26 final size:26
Alignment explanation
Indices: 43512579--43512632 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
43512569 TAACCAAGGG
43512579 TTCCATAGGGCAAATCTATCCCTTTT
1 TTCCATAGGGCAAATCTATCCCTTTT
*
43512605 TTCCATAGGGCAAATCTATCCTTTTT
1 TTCCATAGGGCAAATCTATCCCTTTT
43512631 TT
1 TT
43512633 TCTCTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (26 bp):
TTCCATAGGGCAAATCTATCCCTTTT
Found at i:43512812 original size:11 final size:12
Alignment explanation
Indices: 43512788--43512817 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43512778 AAGAAGAAGC
43512788 AAAAAGCGCAAA
1 AAAAAGCGCAAA
*
43512800 AAAAATCGCAAA
1 AAAAAGCGCAAA
43512812 AAAAAG
1 AAAAAG
43512818 TTGCCTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.70, C:0.13, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:43521592 original size:35 final size:35
Alignment explanation
Indices: 43521496--43521623 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 35
43521486 TATCCAACCC
* * *
43521496 TTTTAAGGTTTTCTTAGATGGGTTTATTTCAATCTT
1 TTTTAAGGTTGTCTTAGACGTGTTTATTT-AATCTT
* *
43521532 TTTTAAGGTTGCCTTAGACAATGTTTATCTTAA-CTT
1 TTTTAAGGTTGTCTTAGAC-GTGTTTAT-TTAATCTT
* *
43521568 TTTTAAGGTTATCTTAAACGTGTTTATTTTAACTCTTT
1 TTTTAAGGTTGTCTTAGACGTGTTTA-TTTAA-TC-TT
43521606 TTTTAAGGTTGTCTTAGA
1 TTTTAAGGTTGTCTTAGA
43521624 TAATGTCTAG
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
35 10 0.13
36 36 0.48
37 9 0.12
38 20 0.27
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (35 bp):
TTTTAAGGTTGTCTTAGACGTGTTTATTTAATCTT
Found at i:43521645 original size:74 final size:71
Alignment explanation
Indices: 43521470--43521730 Score: 208
Period size: 72 Copynumber: 3.6 Consensus size: 71
43521460 TAGAAAAAAA
* * * * * *
43521470 TTGCTTTAGAC-ATGTCTATCCAACCCTTTTAAGGTTTTCTTAGATGGGTTTATTTCAATCTTTT
1 TTGCCTTAGACAATGTCTATCTAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAATCTTTT
43521534 TTAAGG
66 TTAAGG
* * * *
43521540 TTGCCTTAGACAATGTTTATCTTAACTTTTTTAAGGTTATCTTAAACGTGTTTATTTTAACTCTT
1 TTGCCTTAGACAATGTCTATC-TAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAA-TC-T
43521605 TTTTTAAGG
63 TTTTTAAGG
* * * * ** *
43521614 TTGTCTTAGATAATGTCTAGTCTAACCTTTTT-AGGATTGTCTTAGAC-AATATCTATCTCAA-C
1 TTGCCTTAGACAATGTCTA-TCTAACCTTTTTAAGG-TTATCTTAAACGGGT-T-TATTTCAATC
*
43521676 TTTTTTAAGA
62 TTTTTTAAGG
* * * * *
43521686 TTTCCTTAGACGAGGT-TATCTCAACCCTTTTAAGGTTGTCTTAAA
1 TTGCCTTAGACAATGTCTATCT-AACCTTTTTAAGGTTATCTTAAA
43521731 TAAGGCTATT
Statistics
Matches: 153, Mismatches: 28, Indels: 19
0.76 0.14 0.09
Matches are distributed among these distances:
70 13 0.08
71 27 0.18
72 53 0.35
73 7 0.05
74 45 0.29
75 8 0.05
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (71 bp):
TTGCCTTAGACAATGTCTATCTAACCTTTTTAAGGTTATCTTAAACGGGTTTATTTCAATCTTTT
TTAAGG
Found at i:43521654 original size:36 final size:36
Alignment explanation
Indices: 43521605--43521728 Score: 105
Period size: 36 Copynumber: 3.5 Consensus size: 36
43521595 TTTAACTCTT
* *
43521605 TTTTTAAGG-TTGTCTTAGATAATGTCTAGTCT-AACC
1 TTTTT-AGGATTGTCTTAGACAATATCTA-TCTCAACC
*
43521641 TTTTTAGGATTGTCTTAGACAATATCTATCTCAACT
1 TTTTTAGGATTGTCTTAGACAATATCTATCTCAACC
* * **
43521677 TTTTTAAGATT-TCCTTAGACGAGGT-TATCTCAACCC
1 TTTTTAGGATTGT-CTTAGACAATATCTATCTCAA-CC
*
43521713 TTTTAAGG-TTGTCTTA
1 TTTTTAGGATTGTCTTA
43521729 AATAAGGCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
35 21 0.29
36 52 0.71
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (36 bp):
TTTTTAGGATTGTCTTAGACAATATCTATCTCAACC
Found at i:43521716 original size:110 final size:106
Alignment explanation
Indices: 43521531--43521765 Score: 258
Period size: 110 Copynumber: 2.2 Consensus size: 106
43521521 ATTTCAATCT
* * * * * * * *
43521531 TTTTTAAGGTTGCCTTAGACAATGTTTATCTTAACTTTTTTAAGGTTATCTTAAACGTGTTTATT
1 TTTTTAAGGTTGTCTTAGACAATATCTATCTCAACTTTTTTAAGATTATCTTAAACGAGGTTATC
* * * * *
43521596 TTAACTCTTTTTTTAAGGTTGTCTTAGATAATGTCTAGTCTAACC
66 TCAAC-C--CTTTTAAGGTTGTCTTAAATAA-GGCTAGTCTAAAC
*
43521641 TTTTT-AGGATTGTCTTAGACAATATCTATCTCAACTTTTTTAAGATT-TCCTTAGACGAGGTTA
1 TTTTTAAGG-TTGTCTTAGACAATATCTATCTCAACTTTTTTAAGATTAT-CTTAAACGAGGTTA
*
43521704 TCTCAACCCTTTTAAGGTTGTCTTAAATAAGGCTATTCTAAAC
64 TCTCAACCCTTTTAAGGTTGTCTTAAATAAGGCTAGTCTAAAC
*
43521747 TTTTTAAGGTTGTTTTAGA
1 TTTTTAAGGTTGTCTTAGA
43521766 TGGGGTTGCC
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
106 24 0.23
107 23 0.22
109 5 0.05
110 54 0.51
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (106 bp):
TTTTTAAGGTTGTCTTAGACAATATCTATCTCAACTTTTTTAAGATTATCTTAAACGAGGTTATC
TCAACCCTTTTAAGGTTGTCTTAAATAAGGCTAGTCTAAAC
Found at i:43522060 original size:31 final size:31
Alignment explanation
Indices: 43522025--43522090 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
43522015 AATAGAAGCA
*
43522025 AAGAAAGTTGAAATAAATGAAAACTTAAACT
1 AAGAAAATTGAAATAAATGAAAACTTAAACT
43522056 AAGAAAATTGAAATAAATGAAAACTTAAACT
1 AAGAAAATTGAAATAAATGAAAACTTAAACT
43522087 AAGA
1 AAGA
43522091 GTAAAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (31 bp):
AAGAAAATTGAAATAAATGAAAACTTAAACT
Found at i:43527763 original size:12 final size:12
Alignment explanation
Indices: 43527746--43527770 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43527736 GTATCTATTG
43527746 TTGTGAAGAAAT
1 TTGTGAAGAAAT
43527758 TTGTGAAGAAAT
1 TTGTGAAGAAAT
43527770 T
1 T
43527771 ATGCAAAGAG
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGTGAAGAAAT
Found at i:43529731 original size:25 final size:26
Alignment explanation
Indices: 43529682--43529742 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
43529672 ATAAAAAATA
43529682 ACCAAAATATTATATTTTTTTTATTT
1 ACCAAAATATTATATTTTTTTTATTT
43529708 ACCAAAATATTATA-TTTTTTTATTT
1 ACCAAAATATTATATTTTTTTTATTT
*
43529733 ATCAAAATAT
1 ACCAAAATAT
43529743 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 20 0.59
26 14 0.41
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (26 bp):
ACCAAAATATTATATTTTTTTTATTT
Found at i:43530379 original size:19 final size:19
Alignment explanation
Indices: 43530355--43530413 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
43530345 TCTAATTAAG
*
43530355 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
43530374 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
43530392 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
43530411 TAA
1 TAA
43530414 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:43530579 original size:82 final size:82
Alignment explanation
Indices: 43530485--43530646 Score: 315
Period size: 82 Copynumber: 2.0 Consensus size: 82
43530475 ATTAAAATAA
43530485 TCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTTT
1 TCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTTT
43530550 ATGTTTCCATTATTTAG
66 ATGTTTCCATTATTTAG
43530567 TCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTTT
1 TCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTTT
*
43530632 ATGTTTCTATTATTT
66 ATGTTTCCATTATTT
43530647 TTTTCCTTTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (82 bp):
TCTAACATGTTTATGTTATAAGTCTATTAAGAATATATTAAATTTATAAATAGATAAAATAGTTT
ATGTTTCCATTATTTAG
Found at i:43530791 original size:19 final size:19
Alignment explanation
Indices: 43530730--43530793 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
43530720 AATTTTTTAA
43530730 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
43530749 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
43530767 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
43530786 AAATTAAA
1 AAATTAAA
43530794 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:43531254 original size:27 final size:28
Alignment explanation
Indices: 43531201--43531262 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
43531191 TTTCTTTAGT
*
43531201 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
43531229 ATATTTTGGTAAATAAAAAAA-GTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
43531256 ATATTTT
1 ATATTTT
43531263 AGTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAATGTTATA
Found at i:43540562 original size:7 final size:7
Alignment explanation
Indices: 43540550--43540619 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
43540540 TAAAGAGGTG
43540550 TTAGGGT
1 TTAGGGT
43540557 TTAGGGT
1 TTAGGGT
43540564 TTAGGGTTT
1 TTAGGG--T
*
43540573 TTAGGAT
1 TTAGGGT
**
43540580 TTAAAGT
1 TTAGGGT
*
43540587 TTAAGGTT
1 TT-AGGGT
43540595 TTAGGGT
1 TTAGGGT
*
43540602 TTAAGGT
1 TTAGGGT
*
43540609 TTAAGGT
1 TTAGGGT
43540616 TTAG
1 TTAG
43540620 CCCCGATACA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 40 0.80
8 4 0.08
9 6 0.12
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:43540599 original size:22 final size:22
Alignment explanation
Indices: 43540562--43540617 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
43540552 AGGGTTTAGG
*
43540562 GTTTAGGGTTTTTAGGATTTAAA
1 GTTTAAGG-TTTTAGGATTTAAA
* *
43540585 GTTTAAGGTTTTAGGGTTTAAG
1 GTTTAAGGTTTTAGGATTTAAA
43540607 GTTTAAGGTTT
1 GTTTAAGGTTT
43540618 AGCCCCGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
GTTTAAGGTTTTAGGATTTAAA
Found at i:43540603 original size:15 final size:15
Alignment explanation
Indices: 43540545--43540610 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
43540535 GGGATTAAAG
*
43540545 AGGTGTTAGGGTTT-
1 AGGTTTTAGGGTTTA
* *
43540559 AGGGTTTAGGGTTTTT
1 AGGTTTTAGGG-TTTA
* **
43540575 AGGATTTAAAGTTTA
1 AGGTTTTAGGGTTTA
43540590 AGGTTTTAGGGTTTA
1 AGGTTTTAGGGTTTA
43540605 AGGTTT
1 AGGTTT
43540611 AAGGTTTAGC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 9 0.22
15 24 0.59
16 8 0.20
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (15 bp):
AGGTTTTAGGGTTTA
Found at i:43540664 original size:21 final size:21
Alignment explanation
Indices: 43540638--43540677 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43540628 CATTCTAACC
*
43540638 TTAAAC-CTTAAATCTTAAACA
1 TTAAACTC-TAAATCCTAAACA
43540659 TTAAACTCTAAATCCTAAA
1 TTAAACTCTAAATCCTAAA
43540678 TCCTAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAACTCTAAATCCTAAACA
Found at i:43542616 original size:23 final size:23
Alignment explanation
Indices: 43542589--43542634 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43542579 TTTGTTACTG
43542589 TAATAATGAAATTAATTAAAATA
1 TAATAATGAAATTAATTAAAATA
43542612 TAATAATGAAATTAATTAAAATA
1 TAATAATGAAATTAATTAAAATA
43542635 ATCTCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATAATGAAATTAATTAAAATA
Found at i:43543114 original size:27 final size:27
Alignment explanation
Indices: 43543084--43543139 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
43543074 TAGAGAGGAA
* *
43543084 AGAGAGGATGGTGAATTAGAAGTAGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
* *
43543111 AGAGAGGATAGTGGATGAGAAGTGGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
43543138 AG
1 AG
43543140 GGAAAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (27 bp):
AGAGAGGATAGTGAATGAGAAGTAGAT
Found at i:43543361 original size:42 final size:42
Alignment explanation
Indices: 43543313--43543453 Score: 167
Period size: 42 Copynumber: 3.3 Consensus size: 42
43543303 TTGCTTCCAC
** * * *
43543313 GTTGCTTTTTTTTTTGTTTGAACCTGAATGTTGCTTTCTCAA
1 GTTGCTTCCTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
* * *
43543355 GTTGCTTCCTTTTTTGTATGAACTTGGTTGTTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTGTTTGAACATGGATG-TTGCTTTCCCAA
* *
43543398 ATTGCTTCCTTTTTTGTTT-ACACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTGTTTGA-ACATGGATGTTGCTTTCCCAA
43543440 GTTGCTTCCTTTTT
1 GTTGCTTCCTTTTT
43543454 GATAATTTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 49 0.58
43 35 0.42
ACGTcount: A:0.12, C:0.18, G:0.16, T:0.53
Consensus pattern (42 bp):
GTTGCTTCCTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
Found at i:43545655 original size:78 final size:78
Alignment explanation
Indices: 43545526--43545683 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
43545516 ACATATTCTT
*
43545526 TACATGCTTTATTAGATACCGGAGTTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
1 TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
43545591 AAATGGGAACCTA
66 AAATGGGAACCTA
*
43545604 TACATGCTTTATTAGATACTGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
1 TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
43545669 AAATGGGAACCTA
66 AAATGGGAACCTA
43545682 TA
1 TA
43545684 AAGCATCCAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (78 bp):
TACATGCTTTATTAGATACCGGAGCTACAACTAGTAGTTGCAGAAAAAATGTCATTCCTTTAGAA
AAATGGGAACCTA
Found at i:43546200 original size:14 final size:14
Alignment explanation
Indices: 43546173--43546212 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
43546163 CATATAAATT
*
43546173 AAAGAATTATTAGAA
1 AAAG-ATTAATAGAA
43546188 AAAGATTAATAGAA
1 AAAGATTAATAGAA
43546202 AAA-ATTAATAG
1 AAAGATTAATAG
43546213 TCCACATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 12 0.50
15 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAGATTAATAGAA
Found at i:43546204 original size:15 final size:15
Alignment explanation
Indices: 43546173--43546212 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
43546163 CATATAAATT
*
43546173 AAAGAATTATTAGAA
1 AAAGAATTAATAGAA
43546188 AAAG-ATTAATAG-A
1 AAAGAATTAATAGAA
43546201 AAA-AATTAATAG
1 AAAGAATTAATAG
43546213 TCCACATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 12 0.52
14 7 0.30
15 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AAAGAATTAATAGAA
Found at i:43552640 original size:41 final size:41
Alignment explanation
Indices: 43552593--43552680 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
43552583 AGTAAAGTTA
* *
43552593 GAAACCTTCTAATAATGTTAAAGAAATTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
* * *
43552634 GGAACCTTTTAATTATGTTAAAAAAAGTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
43552675 GAAACC
1 GAAACC
43552681 ATGTTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (41 bp):
GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
Found at i:43558834 original size:40 final size:40
Alignment explanation
Indices: 43558779--43558859 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
43558769 AGGTTAAGAC
43558779 CAAAAAGGGTAATGAAATTTGGATTAATCAATAATGTTAT
1 CAAAAAGGGTAATGAAATTTGGATTAATCAATAATGTTAT
43558819 CAAAAAGGGTAATGAAATTTGGATTAATCAATAATGTTAT
1 CAAAAAGGGTAATGAAATTTGGATTAATCAATAATGTTAT
43558859 C
1 C
43558860 TTCGATAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.32
Consensus pattern (40 bp):
CAAAAAGGGTAATGAAATTTGGATTAATCAATAATGTTAT
Found at i:43567589 original size:20 final size:20
Alignment explanation
Indices: 43567564--43567625 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
43567554 TTGAAATAAA
43567564 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
* *
43567584 ATTAAAATAATAAAT--TAT
1 ATTAAAATATTAAATAATTT
*
43567602 ATTAACTATATT-AATAATTT
1 ATTAA-AATATTAAATAATTT
43567622 ATTA
1 ATTA
43567626 TATGATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 10 0.29
19 4 0.12
20 20 0.59
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Found at i:43568629 original size:14 final size:14
Alignment explanation
Indices: 43568606--43568636 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43568596 TTAAGTTTTG
*
43568606 AATTATTCGAATCA
1 AATTAATCGAATCA
43568620 AATTAATCGAATCA
1 AATTAATCGAATCA
43568634 AAT
1 AAT
43568637 CAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
AATTAATCGAATCA
Found at i:43573719 original size:55 final size:55
Alignment explanation
Indices: 43573653--43573762 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
43573643 ATTGGCAAAG
43573653 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
43573708 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
43573763 TTGCACAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (55 bp):
ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
Found at i:43592461 original size:47 final size:47
Alignment explanation
Indices: 43592383--43592776 Score: 619
Period size: 47 Copynumber: 8.3 Consensus size: 47
43592373 CCCTTCGGGA
* * * * * *
43592383 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43592430 CCTGTCACATATATACACTTTCACATTCATCACATCCGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43592477 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43592524 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43592571 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
*
43592620 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43592667 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43592714 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43592763 CTTATCACATATAT
1 CTTATCACATATAT
43592777 GAACATTCAC
Statistics
Matches: 321, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 228 0.71
49 91 0.28
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43592622 original size:96 final size:96
Alignment explanation
Indices: 43592383--43592776 Score: 604
Period size: 96 Copynumber: 4.1 Consensus size: 96
43592373 CCCTTCGGGA
* * * * * * *
43592383 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43592446 ACTTTCACATTCATCACATCCGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43592477 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43592540 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43592571 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATA
*
43592635 CACTTTCACATTCATCACATCGGCTATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
43592667 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
43592730 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
43592763 CTTATCACATATAT
1 CTTATCACATATAT
43592777 GAACATTCAC
Statistics
Matches: 274, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
93 2 0.01
94 132 0.48
96 135 0.49
97 1 0.00
98 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43592788 original size:143 final size:143
Alignment explanation
Indices: 43592383--43592776 Score: 659
Period size: 143 Copynumber: 2.8 Consensus size: 143
43592373 CCCTTCGGGA
* * * * * * * *
43592383 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
43592446 ACTTTCACATTCATCACATCCGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43592511 TCGGCTATTAGGC
131 TCGGCTATTAGGC
43592524 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43592589 ACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCAC
43592653 ATCGGCTATTAGGC
130 ATCGGCTATTAGGC
43592667 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43592732 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
43592777 GAACATTCAC
Statistics
Matches: 237, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 47 0.20
142 1 0.00
143 188 0.79
144 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:43598976 original size:27 final size:27
Alignment explanation
Indices: 43598908--43598983 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
43598898 ACAACCAATA
*
43598908 TAGTCTGCCAAGACAGTAAACACAGGG
1 TAGTCTGCCGAGACAGTAAACACAGGG
** * *
43598935 TAGTCTATCGGGACAGTAAACACATGG
1 TAGTCTGCCGAGACAGTAAACACAGGG
*
43598962 TAGTCTGCCGAGACATTAAACA
1 TAGTCTGCCGAGACAGTAAACA
43598984 TAGTGATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
TAGTCTGCCGAGACAGTAAACACAGGG
Found at i:43600279 original size:18 final size:18
Alignment explanation
Indices: 43600256--43600303 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
43600246 AAACCCTAGA
43600256 ATTCTTTTGAATCTGATT
1 ATTCTTTTGAATCTGATT
43600274 ATTCTTTGTG-ATCTGATT
1 ATTCTTT-TGAATCTGATT
43600292 -TT-TTTT-AATCTG
1 ATTCTTTTGAATCTG
43600304 TTTTGGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 2 0.07
18 15 0.54
19 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.58
Consensus pattern (18 bp):
ATTCTTTTGAATCTGATT
Found at i:43616641 original size:22 final size:22
Alignment explanation
Indices: 43616599--43616641 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43616589 CATCATGTAT
*
43616599 TGATTTATTTGTTATATTATTG
1 TGATTTATTTGTTATACTATTG
43616621 TGATTTATTTGGTTAT-CTATT
1 TGATTTATTT-GTTATACTATT
43616642 TTGAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (22 bp):
TGATTTATTTGTTATACTATTG
Found at i:43622056 original size:75 final size:75
Alignment explanation
Indices: 43621821--43622175 Score: 568
Period size: 75 Copynumber: 4.7 Consensus size: 75
43621811 CTGTTATCGA
*
43621821 TGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
* *
43621886 TAAGTTACCG
66 TAAGATACGG
* * * *
43621896 TGGGATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTA-CAACCCCTCTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
43621960 TAAGATATGG
66 TAAGATACGG
* *
43621970 TGGAATCAGCACTTAGTAACCACCAATGAGTCGGGGAATCAGCCCTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
43622035 TAAGATACGG
66 TAAGATACGG
*
43622045 TGGAATTAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
43622110 TAAGATACGG
66 TAAGATACGG
* * * *
43622120 TGGAATCAGCACTTAGCAACCACCAATGAATCGAGGAATCATCACTTAACAACCCC
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
43622176 CTTTATATTC
Statistics
Matches: 256, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
74 65 0.25
75 191 0.75
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
TAAGATACGG
Found at i:43622063 original size:42 final size:42
Alignment explanation
Indices: 43622004--43622140 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
43621994 AATGAGTCGG
*
43622004 GGAATCAGCCCTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
* * *
43622046 GGAATTAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
43622079 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
43622121 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
43622141 ACCAATGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 20 0.25
34 3 0.04
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 3 0.04
42 39 0.49
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
Found at i:43634874 original size:40 final size:40
Alignment explanation
Indices: 43634818--43635138 Score: 435
Period size: 40 Copynumber: 8.0 Consensus size: 40
43634808 ATAGTTTTTA
* *
43634818 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* *
43634858 TTTGGCGTGTTACGGTTGAATCAGCTCTTATGAGCTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43634898 TTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
43634938 TTTGGTGTGTTATGGTTGGATCAGCTCTTATGATCTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* ** *
43634978 TTTGGCGTGTTACGGTTGGATTAGCTCTTATGATTTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43635018 TTTGGCGTGTTATGGTTGGATTAGCTTTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43635058 TTTGGCATGTTACGGTTGGATCAGATCTTATGAGCTTCTA
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* *
43635098 TTTGGCTTGTTACAGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
43635138 T
1 T
43635139 CAGGTGTACT
Statistics
Matches: 248, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 248 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.45
Consensus pattern (40 bp):
TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
Found at i:43634955 original size:80 final size:80
Alignment explanation
Indices: 43634813--43635170 Score: 423
Period size: 80 Copynumber: 4.5 Consensus size: 80
43634803 GTGTTATAGT
* * * *
43634813 TTTTATTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTGTTTGGCGTGTTACGGTTGAA
1 TTTTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGTTACGGTTGGA
43634878 TCAGCTCTTATGAGC
66 TCAGCTCTTATGAGC
* * *
43634893 TTTTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGTGTGTTATGGTTGGA
1 TTTTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGTTACGGTTGGA
*
43634958 TCAGCTCTTATGATC
66 TCAGCTCTTATGAGC
* * ** ** *
43634973 TTTTGTTTGGCGTGTTACGGTTGGATTAGCTCTTATGATTTTTTGTTTGGCGTGTTATGGTTGGA
1 TTTTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGTTACGGTTGGA
* *
43635038 TTAGCTTTTATGAGC
66 TCAGCTCTTATGAGC
* * * * * *
43635053 TTCTGTTTGGCATGTTACGGTTGGATCAGATCTTATGAGCTTCTA-TTTGGCTTGTTACAGTTGG
1 TTTTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC-AGTTTGGCGTGTTACGGTTGG
43635117 ATCAGCTCTTATGAGC
65 ATCAGCTCTTATGAGC
* ** * **
43635133 TTCTGTCAGGTGTACTTCAGG-TGGATCAGCTCTTATGA
1 TTTTGTTTGGCGTGTTTC-GGTTGGATCAGCTCTTATGA
43635171 CTTTCTATCT
Statistics
Matches: 236, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
80 234 0.99
81 2 0.01
ACGTcount: A:0.15, C:0.14, G:0.27, T:0.44
Consensus pattern (80 bp):
TTTTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGTTACGGTTGGA
TCAGCTCTTATGAGC
Found at i:43635900 original size:20 final size:20
Alignment explanation
Indices: 43635851--43635906 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
43635841 AGTTTATGCT
* * *
43635851 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
43635871 AAGTAAATGGACTGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
43635891 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
43635907 TCATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:43638500 original size:12 final size:12
Alignment explanation
Indices: 43638472--43638512 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
43638462 GGCACATGGT
43638472 CGTG-CCTCAGCC
1 CGTGTCCTCA-CC
43638484 CGTGTCCTCACC
1 CGTGTCCTCACC
*
43638496 TGTGTCCTCACC
1 CGTGTCCTCACC
43638508 CGTGT
1 CGTGT
43638513 AACTCACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.07, C:0.44, G:0.22, T:0.27
Consensus pattern (12 bp):
CGTGTCCTCACC
Found at i:43649404 original size:50 final size:47
Alignment explanation
Indices: 43649315--43649506 Score: 170
Period size: 50 Copynumber: 3.9 Consensus size: 47
43649305 CCCCAGGTGA
* * *
43649315 TGCAGTGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACAT
1 TGCAGT-AAA-AGATTAAAGCCACAACAGCGAATCTTGC-TTCCCGACAT
* * * **
43649365 TGCAGCTAAAAGGATTAAAGCTACAACAGCGAATTTTGCTTCCTCGGCGG
1 TGCAG-TAAAA-GATTAAAGCCACAACAGCGAATCTTGCTTCC-CGACAT
* * *
43649415 TGCAG-AAATAAATTAACGCCACAACGGCGAATCTTGCTTCCCTGACAT
1 TGCAGTAAA-AGATTAAAGCCACAACAGCGAATCTTGCTTCCC-GACAT
* *
43649463 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCC
1 TGCAG-T-AAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCC
43649507 AGGCGGTGTA
Statistics
Matches: 113, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
47 1 0.01
48 36 0.32
49 6 0.05
50 66 0.58
51 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (47 bp):
TGCAGTAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCGACAT
Found at i:43649505 original size:98 final size:98
Alignment explanation
Indices: 43649328--43649562 Score: 280
Period size: 98 Copynumber: 2.4 Consensus size: 98
43649318 AGTGAAACAG
* * *
43649328 ATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACA
1 ATTAAAGCCACAACGGCGAATCTTGCTTTCCCGACATTGCAGCTAAAAAGATTAAAGCTACAACA
* *
43649393 GCGAATTTTGCTTCCTC-GGCGGTGCAGAAATAA
66 GCGAATCTTACTTCC-CAGGCGGTGCAGAAATAA
* *
43649426 ATTAACGCCACAACGGCGAATCTTGC-TTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAAC
1 ATTAAAGCCACAACGGCGAATCTTGCTTTCCC-GACATTGCAGCTAAAAAGATTAAAGCTACAAC
* * *
43649490 AGCGAATCTTACTTCCCAGGCGGTGTAGTGGAACT-G
65 AGCGAATCTTACTTCCCAGGCGGTGCA---GAAATAA
* *
43649526 ATTGAAGCCACAACGACGAATCTTGC-TTCCACGACAT
1 ATTAAAGCCACAACGGCGAATCTTGCTTTCC-CGACAT
43649563 CACAGTCAAG
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
97 6 0.05
98 75 0.64
100 32 0.27
101 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (98 bp):
ATTAAAGCCACAACGGCGAATCTTGCTTTCCCGACATTGCAGCTAAAAAGATTAAAGCTACAACA
GCGAATCTTACTTCCCAGGCGGTGCAGAAATAA
Found at i:43661765 original size:33 final size:33
Alignment explanation
Indices: 43661717--43661782 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
43661707 AATCAAAATC
*
43661717 AAAATCAGAGACAAAA-GAAGAA-AAAGAAAAAGA
1 AAAATCAAAGACAAAATGAA-AATAAA-AAAAAGA
*
43661750 AAAATCAAAGTCAAAATGAAAATAAAAAAAAGA
1 AAAATCAAAGACAAAATGAAAATAAAAAAAAGA
43661783 GAGAAGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.73, C:0.06, G:0.14, T:0.08
Consensus pattern (33 bp):
AAAATCAAAGACAAAATGAAAATAAAAAAAAGA
Found at i:43661818 original size:30 final size:29
Alignment explanation
Indices: 43661762--43661818 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
43661752 AATCAAAGTC
*
43661762 AAAATGAAAATAAAAAAAAGAGAGAAGGA
1 AAAATGAAAATAAAAAAAAGAAAGAAGGA
43661791 AAAATGAAAA-AAGAAAAAAGAAAAGAAG
1 AAAATGAAAATAA-AAAAAAG-AAAGAAG
43661819 AGGCCAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 17 0.68
30 6 0.24
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (29 bp):
AAAATGAAAATAAAAAAAAGAAAGAAGGA
Found at i:43662698 original size:14 final size:14
Alignment explanation
Indices: 43662664--43662698 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43662654 AAAAAAATGT
43662664 GAAAAAATGAAAAA
1 GAAAAAATGAAAAA
*
43662678 GAGAAAATGAAAAA
1 GAAAAAATGAAAAA
*
43662692 TAAAAAA
1 GAAAAAA
43662699 ATGATGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (14 bp):
GAAAAAATGAAAAA
Found at i:43664268 original size:50 final size:49
Alignment explanation
Indices: 43664202--43664555 Score: 261
Period size: 50 Copynumber: 7.1 Consensus size: 49
43664192 GTGAACCTTG
*
43664202 CTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
1 CTTCC-CGGCATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
* * * * * * * *
43664252 CTCCCCAGGCAATGCAGTGAAACAGATTAAAGCTACATCGGTGAATCTTG
1 CTTCCC-GGCATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
* * *
43664302 CTTTCCCGACATTGCAGCT-AAAAGAATTAAAGCTACAATAGCGAATCTTA
1 C-TTCCCGGCATTGCAGTTAAAAAG-ATTAAAGCTACAACAGCGAATCTTA
* * * * * * * *
43664352 CTCCCCAGGCGA-TGCAGTGAAACAGATTAAAGCCACATCGGTGAATCTTG
1 CTTCCC-GGC-ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
* * * **
43664402 CTTTCCCGACGTTGCAGCT-AAAAGAATTAAAGCTACAACAATGAATCTTA
1 C-TTCCCGGCATTGCAGTTAAAAAG-ATTAAAGCTACAACAGCGAATCTTA
* ** * * * *
43664452 CTTTCCTGGCGGTGCA---AAAATAGATTAACGCCACAACGGCGAATCTTG
1 C-TTCCCGGCATTGCAGTTAAAA-AGATTAAAGCTACAACAGCGAATCTTA
* *
43664500 CTTCCCCGACATTGCAGTTAAAAACATTAAAGCTACAACAGCGAATCTTA
1 CTT-CCCGGCATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
43664550 CTTCCC
1 CTTCCC
43664556 AGGCGGTGTA
Statistics
Matches: 229, Mismatches: 60, Indels: 31
0.72 0.19 0.10
Matches are distributed among these distances:
47 2 0.01
48 31 0.14
49 18 0.08
50 161 0.70
51 17 0.07
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (49 bp):
CTTCCCGGCATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTA
Found at i:43664324 original size:100 final size:100
Alignment explanation
Indices: 43664164--43664611 Score: 557
Period size: 100 Copynumber: 4.5 Consensus size: 100
43664154 TCCCTGAGGG
* * * * *
43664164 TGCAGTGGAACAGGTTAATGCCACAACGGTGAACCTTGC-TTCCTCGACATTGCAGTTAAAA-AG
1 TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCC-CGACATTGCAGCTAAAAGA-
*
43664227 ATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCAA
64 ATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* *
43664264 TGCAGTGAAACAGATTAAAGCTACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGAAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGAAT
*
43664329 TAAAGCTACAATAGCGAATCTTACTCCCCAGGCGA
66 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* *
43664364 TGCAGTGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACGTTGCAGCTAAAAGAAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGAAT
** ** * *
43664429 TAAAGCTACAACAATGAATCTTACTTTCCTGGCGG
66 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* * * * * *
43664464 TGCA--AAAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA-ACA
1 TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGA-A
* *
43664526 TTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGG
65 TTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* * * *
43664562 TGTAGTGGAACAAATTGAAA-CCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAACAGATT-AAAGCCACAACGGTGAATCTTGCTTTCCCGACAT
43664612 CACAGTCAAG
Statistics
Matches: 305, Mismatches: 37, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
97 1 0.00
98 83 0.27
100 214 0.70
101 7 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGAAT
TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
Found at i:43664631 original size:198 final size:198
Alignment explanation
Indices: 43664164--43664636 Score: 540
Period size: 198 Copynumber: 2.4 Consensus size: 198
43664154 TCCCTGAGGG
* ** * * * *
43664164 TGCAGTGGAACAGGTTAATGCCACAACGGTGAACCTTGCTTCCTCGACATTGCAGTTAAAAAGAT
1 TGCAGTGAAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG-TCAAAAGAT
* * * * *
43664229 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCAATGCAGTGAAACAGATTAAAGCTACATCGGT
65 TAAAGCTACAACAACGAATCTTACTCCCCAGGCAATGCAG-AAAACAGATTAAAGCCACAACGGC
* *
43664294 GAATCTTGCTTTCCCGACATTGCAGCTAAAAGAATTAAAGCTACAATAGCGAATCTTACTCCCCA
129 GAATCTTGCTTCCCCGACATTGCAGCTAAAAGAATTAAAGCTACAACAGCGAATCTTACTCCCCA
43664359 GGCGA
194 GGCGA
* * * *
43664364 TGCAGTGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACGTTGCAG-CTAAAAGAA
1 TGCAGTGAAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTC-AAAAG-A
* ** * ** * *
43664428 TTAAAGCTACAACAATGAATCTTACTTTCCTGGCGGTGCA-AAAATAGATTAACGCCACAACGGC
64 TTAAAGCTACAACAACGAATCTTACTCCCCAGGCAATGCAGAAAACAGATTAAAGCCACAACGGC
* *
43664492 GAATCTTGCTTCCCCGACATTGCAGTTAAAA-ACATTAAAGCTACAACAGCGAATCTTACTTCCC
129 GAATCTTGCTTCCCCGACATTGCAGCTAAAAGA-ATTAAAGCTACAACAGCGAATCTTACTCCCC
*
43664556 AGGCGG
193 AGGCGA
* * ** *
43664562 TGTAGTGGAACAAATTGAAA-CCACAACGGTGAATCTTGCTTCCCCGACATCACAGTCAAGCAGA
1 TGCAGTGAAACAAATT-AAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAA-AAGA
*
43664626 TTAAAGTTACA
64 TTAAAGCTACA
43664637 GTTACGAACC
Statistics
Matches: 230, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
197 1 0.00
198 137 0.60
199 11 0.05
200 81 0.35
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (198 bp):
TGCAGTGAAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAGATT
AAAGCTACAACAACGAATCTTACTCCCCAGGCAATGCAGAAAACAGATTAAAGCCACAACGGCGA
ATCTTGCTTCCCCGACATTGCAGCTAAAAGAATTAAAGCTACAACAGCGAATCTTACTCCCCAGG
CGA
Found at i:43675091 original size:18 final size:20
Alignment explanation
Indices: 43675070--43675115 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
43675060 AAAGGAAGAC
43675070 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
* *
43675088 AGAAAAAAAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
43675108 AGAAAAAG
1 AGAAAAAG
43675116 GAGATTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:43675105 original size:19 final size:21
Alignment explanation
Indices: 43675072--43675114 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
43675062 AGGAAGACAG
43675072 AAAAAGAAATCAAAAA-AGAA
1 AAAAAGAAATCAAAAAGAGAA
*
43675092 AAAAAG-AATGAAAAAGAGAA
1 AAAAAGAAATCAAAAAGAGAA
43675112 AAA
1 AAA
43675115 GGAGATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAAGAAATCAAAAAGAGAA
Found at i:43682603 original size:16 final size:17
Alignment explanation
Indices: 43682572--43682605 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43682562 CAATTTAGTC
*
43682572 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
43682589 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
43682605 C
1 C
43682606 CCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:43686781 original size:20 final size:20
Alignment explanation
Indices: 43686756--43686795 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43686746 AAAGCTGACG
*
43686756 AACGACCATGTTATTCTTTT
1 AACGACCATGATATTCTTTT
43686776 AACGACCATGATATTCTTTT
1 AACGACCATGATATTCTTTT
43686796 GACTTCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (20 bp):
AACGACCATGATATTCTTTT
Found at i:43694126 original size:19 final size:19
Alignment explanation
Indices: 43694095--43694132 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43694085 TTTCAATTGA
*
43694095 AAGAAAAGATAAAAGAGTG
1 AAGAAAAGATAAAACAGTG
43694114 AAGAAAA-ATTAAAACAGTG
1 AAGAAAAGA-TAAAACAGTG
43694133 GAGGAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.13
Consensus pattern (19 bp):
AAGAAAAGATAAAACAGTG
Found at i:43695459 original size:14 final size:13
Alignment explanation
Indices: 43695440--43695491 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
43695430 AAAGCTCAGA
43695440 AAAACATAGCTTAT
1 AAAACATAGCTT-T
43695454 AAAACAATA-CTTTT
1 AAAAC-ATAGC-TTT
*
43695468 AAAACA-AGCTTG
1 AAAACATAGCTTT
43695480 AAAACATAGCTT
1 AAAACATAGCTT
43695492 GTATAGGAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 9 0.27
13 7 0.21
14 12 0.36
15 5 0.15
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAACATAGCTTT
Found at i:43696190 original size:27 final size:27
Alignment explanation
Indices: 43696119--43696190 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
43696109 CCTTAGTTTT
* *
43696119 CCAAATAGACTAGCAAACCCTAGGTTG
1 CCAAATAGACTAGCGAACCCTAGGTCG
*
43696146 CCAAATAGACTAGTGAACCCTAGGTCG
1 CCAAATAGACTAGCGAACCCTAGGTCG
*
43696173 CCAAACAGACTAGCGAAC
1 CCAAATAGACTAGCGAAC
43696191 ACAACTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (27 bp):
CCAAATAGACTAGCGAACCCTAGGTCG
Found at i:43700563 original size:119 final size:120
Alignment explanation
Indices: 43700387--43700609 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 120
43700377 TACTCGTTCA
* * *
43700387 AATGCCTTCGGGACATAGCCCGATTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGAATATAGTGACTCGCACAAATGCCTTCGGAACTTAGCCCGGAT
*
43700452 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
* *
43700507 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTC-GAATCTTAGTCCG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTGA-CTCGCACAAATGCCTTCGGAA-CTTAGCCCG
* * *
43700568 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
43700610 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 3 0.03
119 64 0.71
120 23 0.26
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTGACTCGCACAAATGCCTTCGGAACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
Found at i:43700569 original size:79 final size:80
Alignment explanation
Indices: 43700385--43700607 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 80
43700375 GCTACTCGTT
* * * * * *
43700385 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAACTTAACCCGGATT-TAGTAACTTGCACCAATGCCTTCGGGACTTAGCCCG
**
43700449 GTTATAGTAACTCGCA
65 AATATAGTAACTCGCA
*
43700465 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACCAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAGCCC-G
*
43700529 AAT-TAGTATCTCGCA
65 AATATAGTAACTCGCA
** * * * *
43700544 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGAA-CTTAACCCGGATTTAGTAACTT-GCACCAATGCCTTCGGGACTTAGCCC
43700607 G
64 G
43700608 GACATCATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.49
80 57 0.46
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAGCCCGA
ATATAGTAACTCGCA
Found at i:43700603 original size:40 final size:41
Alignment explanation
Indices: 43700385--43700609 Score: 243
Period size: 40 Copynumber: 5.6 Consensus size: 41
43700375 GCTACTCGTT
* *
43700385 CAAATGCCTTCGGGACATAGCCC-GATTATAGTGAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTCGCA
*
43700425 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
43700465 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
43700505 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * * *
43700544 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
43700585 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43700610 CATCATTCAA
Statistics
Matches: 155, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 28 0.18
40 112 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:43712537 original size:31 final size:31
Alignment explanation
Indices: 43712501--43712610 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 31
43712491 CAGAGAATTT
43712501 CCACAAAGGCATCCTTTTCATTCAATACTCA
1 CCACAAAGGCATCCTTTTCATTCAATACTCA
* * * * *
43712532 CCACAAGGGCTTTCC-TTTC--T-AGAGATTCT
1 CCACAAAGGC-ATCCTTTTCATTCA-ATACTCA
* *
43712561 CCACAAAGGCATCATTTTCATTCAGTACTCA
1 CCACAAAGGCATCCTTTTCATTCAATACTCA
* *
43712592 CCACAAAGGCTTTCTTTTC
1 CCACAAAGGCATCCTTTTC
43712611 CAAAGATTTG
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
28 3 0.05
29 18 0.31
31 33 0.57
32 4 0.07
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (31 bp):
CCACAAAGGCATCCTTTTCATTCAATACTCA
Found at i:43712547 original size:60 final size:59
Alignment explanation
Indices: 43712473--43712701 Score: 309
Period size: 60 Copynumber: 3.8 Consensus size: 59
43712463 AGCACTATGG
*
43712473 CCACAAAGG-TTTCCTTTCCAGAGAATTTCCACAAAGGCATCCTTTTCATTCAATACTCA
1 CCACAAAGGCTTTCCTTTCCAGAG-ATTTCCACAAAGGCATCCTTTTCATTCAGTACTCA
* * *
43712532 CCACAAGGGCTTTCCTTTCTAGAGATTCTCCACAAAGGCATCATTTTCATTCAGTACTCA
1 CCACAAAGGCTTTCCTTTCCAGAGATT-TCCACAAAGGCATCCTTTTCATTCAGTACTCA
* * * *
43712592 CCACAAAGGCTTTCTTTTCCAAAGATTTGCCACAAAGTCATCCTTTTCATTCAGTACTCG
1 CCACAAAGGCTTTCCTTTCCAGAGATTT-CCACAAAGGCATCCTTTTCATTCAGTACTCA
* *
43712652 CCA-AACAGGCTTTCCTTTCCATAGATTTTCCATAAAGGCATCCTTTTCAT
1 CCACAA-AGGCTTTCCTTTCCAGAGA-TTTCCACAAAGGCATCCTTTTCAT
43712702 ACATTTTCAC
Statistics
Matches: 150, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
59 14 0.09
60 133 0.89
61 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (59 bp):
CCACAAAGGCTTTCCTTTCCAGAGATTTCCACAAAGGCATCCTTTTCATTCAGTACTCA
Found at i:43721277 original size:22 final size:23
Alignment explanation
Indices: 43721232--43721279 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
43721222 ATCGATACCC
43721232 AGCTCGGAGGAGCTTACTGTTATTT
1 AGCTCGGAGGAGCTTAC--TTATTT
*
43721257 AGCTCGGAGGAGTTTAC-TATTT
1 AGCTCGGAGGAGCTTACTTATTT
43721279 A
1 A
43721280 TAGCTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
25 16 0.73
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (23 bp):
AGCTCGGAGGAGCTTACTTATTT
Found at i:43721304 original size:25 final size:25
Alignment explanation
Indices: 43721275--43721322 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43721265 GGAGTTTACT
*
43721275 ATTTATAGCTTGTAAGAGCATACCA
1 ATTTAGAGCTTGTAAGAGCATACCA
*
43721300 ATTTAGAGCTTGTATGAGCATAC
1 ATTTAGAGCTTGTAAGAGCATAC
43721323 ATGTACAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
ATTTAGAGCTTGTAAGAGCATACCA
Found at i:43727492 original size:40 final size:40
Alignment explanation
Indices: 43727437--43727542 Score: 212
Period size: 40 Copynumber: 2.6 Consensus size: 40
43727427 ATAGCTTTAG
43727437 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
43727477 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
43727517 TAAAAGAAGCTACTTGGGAACCCGAG
1 TAAAAGAAGCTACTTGGGAACCCGAG
43727543 GAAGCTGTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (40 bp):
TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
Found at i:43734113 original size:16 final size:15
Alignment explanation
Indices: 43734088--43734118 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
43734078 TGATTAATTT
43734088 TAAAGGTTAAATAAG
1 TAAAGGTTAAATAAG
43734103 TAAATGGTTAAATAAG
1 TAAA-GGTTAAATAAG
43734119 GATAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (15 bp):
TAAAGGTTAAATAAG
Found at i:43735106 original size:25 final size:25
Alignment explanation
Indices: 43735072--43735120 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
43735062 CCACAGATCG
*
43735072 TGAGAGCATACCGATTTATAGCTCA
1 TGAGAGCATACCGATTCATAGCTCA
43735097 TGAGAGCATACCGATTCATAGCTC
1 TGAGAGCATACCGATTCATAGCTC
43735121 GTATCAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCGATTCATAGCTCA
Found at i:43738240 original size:6 final size:6
Alignment explanation
Indices: 43738229--43738259 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
43738219 GTCGAAACCA
43738229 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
43738260 ACATCATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:43747037 original size:4 final size:4
Alignment explanation
Indices: 43747022--43747051 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
43747012 CGTGTTAAAA
43747022 AAAG AGAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG A-AAG AAAG AAAG AAAG AAAG AAAG A
43747052 GCATGTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:43753599 original size:24 final size:22
Alignment explanation
Indices: 43753558--43753601 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
43753548 CATTATTCAA
*
43753558 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
43753580 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
43753602 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:43769674 original size:18 final size:19
Alignment explanation
Indices: 43769635--43769675 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
43769625 TTTTGTTATT
*
43769635 TTTGA-TTAAATGATTGAA
1 TTTGATTTAAATGATTAAA
43769653 -TTGATTTAAATG-TTAAA
1 TTTGATTTAAATGATTAAA
43769670 TTTGAT
1 TTTGAT
43769676 AGAGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTGATTTAAATGATTAAA
Found at i:43786911 original size:27 final size:27
Alignment explanation
Indices: 43786872--43786923 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
43786862 CAGTATATAT
* *
43786872 CCACAACCCTCTAGGAATTGGGACTGC
1 CCACAACCCTCTAGAAATTGAGACTGC
* *
43786899 CCACGACCTTCTAGAAATTGAGACT
1 CCACAACCCTCTAGAAATTGAGACT
43786924 AAATAAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (27 bp):
CCACAACCCTCTAGAAATTGAGACTGC
Found at i:43799292 original size:34 final size:34
Alignment explanation
Indices: 43799249--43799316 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
43799239 TGGAAAACAA
*
43799249 AATTTGGGTTGGGTTGAGTTTAGTTGAGTTAAAT
1 AATTTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
43799283 AATTTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
1 AATTTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
43799317 TATAAAGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (34 bp):
AATTTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
Found at i:43804279 original size:171 final size:170
Alignment explanation
Indices: 43803989--43804298 Score: 433
Period size: 170 Copynumber: 1.8 Consensus size: 170
43803979 CAGTTAAGAG
* * ** *
43803989 CGTAGGTTCGTGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTGTTTCGGAGTAGCAGGCTTAA
1 CGTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTGTCCCAGAGTAGCAGGCTTAA
* *
43804054 CACAGCTTACTCAAATAAATAAGGTTGTGAGTATAACTCATCTAACCATTAAACATCAGCTGGGA
66 CACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGA
43804119 GCGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAACAGAAA
131 GCGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAACAGAAA
* * * * *
43804159 CGTAGGTCCATGAGCTGTCAGTTGAGAGCGTAGGTTCGCGAGTTGTCCCAGAGTAG-TGAGCTTA
1 CGTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTGTCCCAGAGTAGCAG-GCTTA
* * * * *
43804223 ACTCAACTTACTGAAATAAATGAAGGTTGTAAGTATAATTCATCTAACCTTTAAACATCAGCTTG
65 ACACAACTTACTCAAATAAAT-AAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGG
*
43804288 GAGTGTAGGTC
129 GAGCGTAGGTC
43804299 CTCAAGTTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
169 1 0.01
170 70 0.58
171 49 0.41
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (170 bp):
CGTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTGTCCCAGAGTAGCAGGCTTAA
CACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGA
GCGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAACAGAAA
Found at i:43807076 original size:35 final size:35
Alignment explanation
Indices: 43807037--43807108 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
43807027 CAAATGTATG
*
43807037 TATATACTCATCAAATAATCATAACCGAATGCATA
1 TATATACTAATCAAATAATCATAACCGAATGCATA
* * * *
43807072 TATATACTAATCAACTACTTATAATCGAATGCATA
1 TATATACTAATCAAATAATCATAACCGAATGCATA
43807107 TA
1 TA
43807109 CACATCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (35 bp):
TATATACTAATCAAATAATCATAACCGAATGCATA
Found at i:43807116 original size:31 final size:31
Alignment explanation
Indices: 43807038--43807305 Score: 186
Period size: 33 Copynumber: 8.3 Consensus size: 31
43807028 AAATGTATGT
* * * *
43807038 ATATACTCATCAAATAATCATAACCGAATGC
1 ATATACACATCAAATACTTATAATCGAATGC
* *
43807069 ATATATATACTAATCAACTACTTATAATCGAATGC
1 --ATATACAC--ATCAAATACTTATAATCGAATGC
43807104 ATATACACATCAAATA--TATACATTCGAATGC
1 ATATACACATCAAATACTTATA-A-TCGAATGC
* *
43807135 ATATACACCTATCCAATACTTATAATTGAATGC
1 ATATACA-C-ATCAAATACTTATAATCGAATGC
* * *
43807168 ATATACACATCAAAT-GTATACAACCGAATGC
1 ATATACACATCAAATACT-TATAATCGAATGC
* * *
43807199 ATATATACCTATCAAATACTTAAAATCAAATGC
1 ATATACA-C-ATCAAATACTTATAATCGAATGC
*
43807232 ATATACACATCAAAGGTA--TATAACCGAATGC
1 ATATACACATCAAA--TACTTATAATCGAATGC
* * *
43807263 ATATATATATCTATCAAATACTTATAATCAAAAGC
1 --ATATACA-C-ATCAAATACTTATAATCGAATGC
43807298 ATATACAC
1 ATATACAC
43807306 TGCAAAGGTA
Statistics
Matches: 186, Mismatches: 29, Indels: 41
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 60 0.32
32 5 0.03
33 73 0.39
34 3 0.02
35 39 0.21
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (31 bp):
ATATACACATCAAATACTTATAATCGAATGC
Found at i:43807140 original size:16 final size:17
Alignment explanation
Indices: 43807095--43807203 Score: 65
Period size: 14 Copynumber: 6.8 Consensus size: 17
43807085 ACTACTTATA
43807095 ATCGAATGCATATACAC
1 ATCGAATGCATATACAC
*
43807112 ATCAAAT--ATATACA-
1 ATCGAATGCATATACAC
*
43807126 TTCGAATGCATATACACC
1 ATCGAATGCATATACA-C
* * *
43807144 TATCCAATAC-T-TATA-
1 -ATCGAATGCATATACAC
*
43807159 ATTGAATGCATATACAC
1 ATCGAATGCATATACAC
*
43807176 ATCAAATG--TATACA-
1 ATCGAATGCATATACAC
*
43807190 ACCGAATGCATATA
1 ATCGAATGCATATA
43807204 TACCTATCAA
Statistics
Matches: 67, Mismatches: 15, Indels: 21
0.65 0.15 0.20
Matches are distributed among these distances:
14 17 0.25
15 14 0.21
16 14 0.21
17 15 0.22
18 1 0.01
19 6 0.09
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (17 bp):
ATCGAATGCATATACAC
Found at i:43807279 original size:35 final size:34
Alignment explanation
Indices: 43807168--43807346 Score: 94
Period size: 33 Copynumber: 5.4 Consensus size: 34
43807158 AATTGAATGC
* * *
43807168 ATATACAC-ATCAAATGTATACAACCGAATGCAT
1 ATATATACTATCAAAGGTATATAACCGAATGCAT
* * * *
43807201 ATATA-CCTATCAAA--TACTTAAAATCAAATGC--
1 ATATATACTATCAAAGGTA--TATAACCGAATGCAT
*
43807232 ATATACAC-ATCAAAGGTATATAACCGAATGCAT
1 ATATATACTATCAAAGGTATATAACCGAATGCAT
* * *
43807265 ATATATATCTATCAAA--TACTTATAATCAAAAGC--
1 ATATATA-CTATCAAAGGTA--TATAACCGAATGCAT
* *
43807298 ATATACACT-GCAAAGGTATATAACCGAATGCAT
1 ATATATACTATCAAAGGTATATAACCGAATGCAT
*
43807331 ATAAATACTTATCAAA
1 ATATATAC-TATCAAA
43807347 TAAGATATAA
Statistics
Matches: 108, Mismatches: 20, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
31 37 0.34
32 4 0.04
33 45 0.42
34 2 0.02
35 20 0.19
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (34 bp):
ATATATACTATCAAAGGTATATAACCGAATGCAT
Found at i:43807305 original size:66 final size:65
Alignment explanation
Indices: 43807057--43807348 Score: 369
Period size: 64 Copynumber: 4.5 Consensus size: 65
43807047 TCAAATAATC
* *
43807057 ATAACCGAATGCATATATATACTAATCAACTACTTATAATCGAATGCATATACACATCAAA--TA
1 ATAACCGAATGCATATATATACT-ATCAAATACTTATAATCAAATGCATATACACATCAAAGGTA
43807120 T
65 T
* * * * ** *
43807121 ATACATTCGAATGCATATACA-CCTATCCAATACTTATAATTGAATGCATATACACATCAAATGT
1 ATA-A-CCGAATGCATATATATACTATCAAATACTTATAATCAAATGCATATACACATCAAAGGT
43807185 AT
64 AT
* * *
43807187 ACAACCGAATGCATATATA-CCTATCAAATACTTAAAATCAAATGCATATACACATCAAAGGTAT
1 ATAACCGAATGCATATATATACTATCAAATACTTATAATCAAATGCATATACACATCAAAGGTAT
*
43807251 ATAACCGAATGCATATATATATCTATCAAATACTTATAATCAAAAGCATATACAC-TGCAAAGGT
1 ATAACCGAATGCATATATATA-CTATCAAATACTTATAATCAAATGCATATACACAT-CAAAGGT
43807315 AT
64 AT
*
43807317 ATAACCGAATGCATATAAATACTTATCAAATA
1 ATAACCGAATGCATATATATAC-TATCAAATA
43807349 AGATATAATA
Statistics
Matches: 201, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
64 108 0.54
65 6 0.03
66 87 0.43
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (65 bp):
ATAACCGAATGCATATATATACTATCAAATACTTATAATCAAATGCATATACACATCAAAGGTAT
Found at i:43807331 original size:31 final size:29
Alignment explanation
Indices: 43807091--43807333 Score: 98
Period size: 31 Copynumber: 7.6 Consensus size: 29
43807081 ATCAACTACT
*
43807091 TATAATCGAATGCATATACACATCAAA-TA
1 TATAACCGAATGCATATACAC-TCAAAGTA
* *
43807120 TATACATTCGAATGCATATACACCTATCCAA-TA
1 TATA-A-CCGAATGCATATACA-C--TCAAAGTA
**
43807153 CTTATAATTGAATGCATATACACATCAAATGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
* *
43807186 TACAACCGAATGCATATATACCTATCAAA-TA
1 TATAACCGAATGCATATACA-C--TCAAAGTA
* * *
43807217 CTTAAAATCAAATGCATATACACATCAAAGGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
*
43807250 TATAACCGAATGCATATATATATCTATCAAA-TA
1 TATAACCGAATGC--ATATACA-C--TCAAAGTA
* * *
43807283 CTTATAATCAAAAGCATATACACTGCAAAGGTA
1 --TATAACCGAATGCATATACACT-CAAA-GTA
43807316 TATAACCGAATGCATATA
1 TATAACCGAATGCATATA
43807334 AATACTTATC
Statistics
Matches: 169, Mismatches: 22, Indels: 44
0.72 0.09 0.19
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 73 0.43
32 5 0.03
33 63 0.37
34 2 0.01
35 20 0.12
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (29 bp):
TATAACCGAATGCATATACACTCAAAGTA
Found at i:43807854 original size:78 final size:78
Alignment explanation
Indices: 43807692--43807945 Score: 370
Period size: 78 Copynumber: 3.3 Consensus size: 78
43807682 AAGTATTTAC
* * * * * * *
43807692 AATTCATACTTTTAATTCAACTCAAGT-ACTTGTATATGTATATAC--ATCTATTCGAATCACAC
1 AATTCATACCTTTAATTCAATTCAA-TAACTTATACATGTATATACATATATATTCGAACCTCAC
* * *
43807754 ACATACATATGTAA
65 ATATACATATATAT
*
43807768 AATTCATACCTTTAATTTAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
43807833 TATACATATATAT
66 TATACATATATAT
*
43807846 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
43807911 TATACATATATAT
66 TATACATATATAT
43807924 AATTCATACCTTTAATTCAATT
1 AATTCATACCTTTAATTCAATT
43807946 TATATACTTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
75 1 0.01
76 38 0.23
78 123 0.76
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (78 bp):
AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
TATACATATATAT
Found at i:43810952 original size:80 final size:79
Alignment explanation
Indices: 43810815--43811039 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 79
43810805 TTGAATGCTG
* * * * * *
43810815 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
43810879 TGTGCGAGATA-CAAA
64 TGTGCGAGATATCAAA
* *
43810894 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* * *
43810959 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * * *
43810975 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
43811040 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 39 0.32
80 70 0.57
81 14 0.11
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:43811019 original size:39 final size:39
Alignment explanation
Indices: 43810815--43811037 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
43810805 TTGAATGCTG
* * * * * *
43810815 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
43810855 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
43810894 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
43810935 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
43810975 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
43811014 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43811038 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 39 0.25
40 105 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:43811057 original size:79 final size:80
Alignment explanation
Indices: 43810895--43811072 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
43810885 AGATACAAAT
* * * *
43810895 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
43810960 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
43810975 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
43811039 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
43811054 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
43811073 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:43815440 original size:94 final size:94
Alignment explanation
Indices: 43815256--43815426 Score: 234
Period size: 94 Copynumber: 1.8 Consensus size: 94
43815246 CAGTGAAACC
* * * * *
43815256 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
*
43815321 TTGAAGTTGCAGCAGAGCAAAATGAAGAT
66 TTGAAGTTGCAACAGAGCAAAATGAAGAT
* ** * * *
43815350 ACAAATCCTATACCCTTGAAGTTGTATTGGGTCGGCTTGAAACTACAACAACAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
43815415 TTGAAGTTGCAA
66 TTGAAGTTGCAA
43815427 TGGAGTAAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
TTGAAGTTGCAACAGAGCAAAATGAAGAT
Found at i:43826111 original size:179 final size:179
Alignment explanation
Indices: 43825811--43826175 Score: 649
Period size: 179 Copynumber: 2.0 Consensus size: 179
43825801 TGTAAATATT
*
43825811 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTATGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
* *
43825876 TAGCACATCTAGAAGGAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTTTCTTGCT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTGCT
* *
43825941 GACTTTGTTATTCTAGAATTTAAAGTAGACAAATAACTGTCAATCATCC
131 GACTTTGTTATTCTAGAATTTAAAGCAGACAAATAACTATCAATCATCC
43825990 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
*
43826055 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTGTT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTGCT
* * *
43826120 GACTTTGTTATTCTAGACTTTGAAGCAGACAAATAAGTATCAATCATCC
131 GACTTTGTTATTCTAGAATTTAAAGCAGACAAATAACTATCAATCATCC
43826169 TAGGAAG
1 TAGGAAG
43826176 GCATTTCCTA
Statistics
Matches: 177, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (179 bp):
TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTGCT
GACTTTGTTATTCTAGAATTTAAAGCAGACAAATAACTATCAATCATCC
Found at i:43829712 original size:16 final size:15
Alignment explanation
Indices: 43829685--43829718 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
43829675 AAGATGATAA
*
43829685 TATAATTATATTTAT
1 TATAATTATATTAAT
43829700 TATAATATATATTAAT
1 TATAAT-TATATTAAT
43829716 TAT
1 TAT
43829719 TATAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:43829720 original size:19 final size:20
Alignment explanation
Indices: 43829681--43829723 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
43829671 AAATAAGATG
43829681 ATAATATAATTATATTTATT
1 ATAATATAATTATATTTATT
43829701 ATAATATATATTA-A-TTATT
1 ATAATATA-ATTATATTTATT
43829720 ATAA
1 ATAA
43829724 ACTTTGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATATAATTATATTTATT
Found at i:43830211 original size:21 final size:20
Alignment explanation
Indices: 43830174--43830215 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
43830164 TCACACCGCA
*
43830174 CCTTGCCACTCGTACCAACAC
1 CCTTGCCACTCGCACC-ACAC
43830195 CCTTGCCTA-TCGCACCACAC
1 CCTTGCC-ACTCGCACCACAC
43830215 C
1 C
43830216 ATCAAGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 13 0.68
22 1 0.05
ACGTcount: A:0.21, C:0.50, G:0.10, T:0.19
Consensus pattern (20 bp):
CCTTGCCACTCGCACCACAC
Found at i:43830367 original size:25 final size:25
Alignment explanation
Indices: 43830333--43830392 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
43830323 AATTTCAATT
*
43830333 TTATTTAATTATTTAAT-TTTTCA-AA
1 TTATTAAATTA-TTAATATTTT-ATAA
*
43830358 TTATTAAATTATTAATATTTTATAC
1 TTATTAAATTATTAATATTTTATAA
43830383 TTATTAAATT
1 TTATTAAATT
43830393 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATTAAATTATTAATATTTTATAA
Found at i:43830371 original size:8 final size:8
Alignment explanation
Indices: 43830333--43830392 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
43830323 AATTTCAATT
*
43830333 TTATTTAA
1 TTATTAAA
*
43830341 TTATTTAA
1 TTATTAAA
*
43830349 TTTTTCAAA
1 TTATT-AAA
43830358 TTATTAAA
1 TTATTAAA
43830366 TTATTAATA
1 TTATTAA-A
*
43830375 TT-TTATAC
1 TTATTA-AA
43830383 TTATTAAA
1 TTATTAAA
43830391 TT
1 TT
43830393 TTTGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 30 0.70
9 13 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTAAA
Found at i:43836242 original size:17 final size:16
Alignment explanation
Indices: 43836220--43836253 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43836210 GGGGATGGCA
43836220 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
43836237 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
43836253 T
1 T
43836254 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:43844460 original size:21 final size:22
Alignment explanation
Indices: 43844431--43844481 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
43844421 TCTCTCTCGC
*
43844431 TTTCCTTTTCTCCTTTATCA-T
1 TTTCATTTTCTCCTTTATCACT
* *
43844452 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCTCCTTTATCACT
43844474 TTT-ATTTT
1 TTTCATTTT
43844482 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCTCCTTTATCACT
Found at i:43844487 original size:21 final size:20
Alignment explanation
Indices: 43844431--43844487 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
43844421 TCTCTCTCGC
*
43844431 TTTCCTTTTCTCCTTTATCAT
1 TTTCATTTTCT-CTTTATCAT
*
43844452 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTC-TCTTTATCA-T
43844474 TTT-ATTTTTCTCTT
1 TTTCA-TTTTCTCTT
43844488 CTCCTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCATTTTCTCTTTATCAT
Found at i:43853098 original size:359 final size:359
Alignment explanation
Indices: 43852437--43853147 Score: 1111
Period size: 359 Copynumber: 2.0 Consensus size: 359
43852427 TTCTCTCCCA
* * *
43852437 AAATTGGTTTGTTGATGCTCGTAACTGAGATCCAATGCGCCTTAGCTGCAAGATTCGGTTTCTTG
1 AAATTGGTTCGTTGATGCTCGTAACGGAGATCCAATGCACCTTAGCTGCAAGATTCGGTTTCTTG
*
43852502 TACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAAACGCTCAAAACAGAAAA
66 TACCAAGATTTCCAAGATTTCAAATCTTGATTTTCTTGATTCTTGAAAACGCTCAAAACAGAAAA
* *
43852567 ATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTAATCTTGGTTTTCTTTTTC
131 ATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTAATCTTGATTTTCTCTTTC
* * ** * *
43852632 CTCCGTGTACGCATCTAAGGCCTTGCTAATAAATTCTTGAATGGTTTCATTTAGTTTTGAATGCA
196 CTCCGTGTACGCATCTAAGGCCTTGCTAACAAATTCCTGAATGGTCCCATTTAGTTTGGAACGCA
* * * *
43852697 TTTGTCAGGCTTTTGACTTCGTTATTGGGCCTTGTGGTAATTTGAGCCCGTCACGTCCTTGAGCT
261 TTTGTCAGGCCTTTGACCTCGTTATTGGGCCTTGTAGTAATTTGAGCCCATCACGTCCTTGAGCT
*
43852762 TGAATTGGGCCTTTGTGACTCATATCACCTACCG
326 TGAATTGGGCCTTTATGACTCATATCACCTACCG
* *
43852796 AAATTGGTTCGTTGATGCTCGTAACGGAGATCCAATGCACTTTGGCTGCAAGATTCGG-TTCTTA
1 AAATTGGTTCGTTGATGCTCGTAACGGAGATCCAATGCACCTTAGCTGCAAGATTCGGTTTCTT-
* * *
43852860 G-ACCAAGATTTCCAAGATTTCAAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAA
65 GTACCAAGATTTCCAAGATTTCAAATCTTGATTTTCTTGATTCTTGAAAACGCTCAAAACAGAAA
*
43852924 AATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTCTT
130 AATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGT-AATCTTGATTTTCTCTT
* * *
43852989 TCTTTCGTGTACGTATCTAAGGCCTTGCTAACAAATTCCTGAATGGTCCCATTTAGTTTGGAACG
194 TCCTCCGTGTACGCATCTAAGGCCTTGCTAACAAATTCCTGAATGGTCCCATTTAGTTTGGAACG
* *
43853054 CATTTGTCTGGCCTTTGACCTCGTTATTGGGCCTTGTAGTAATTTGAGCCCATCACGTTCTTGAG
259 CATTTGTCAGGCCTTTGACCTCGTTATTGGGCCTTGTAGTAATTTGAGCCCATCACGTCCTTGAG
** *
43853119 CTTGGGTTGGGCCTTTATGACTCGTATCA
324 CTTGAATTGGGCCTTTATGACTCATATCA
43853148 TTGTAAATTA
Statistics
Matches: 319, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
358 110 0.34
359 209 0.66
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (359 bp):
AAATTGGTTCGTTGATGCTCGTAACGGAGATCCAATGCACCTTAGCTGCAAGATTCGGTTTCTTG
TACCAAGATTTCCAAGATTTCAAATCTTGATTTTCTTGATTCTTGAAAACGCTCAAAACAGAAAA
ATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTAATCTTGATTTTCTCTTTC
CTCCGTGTACGCATCTAAGGCCTTGCTAACAAATTCCTGAATGGTCCCATTTAGTTTGGAACGCA
TTTGTCAGGCCTTTGACCTCGTTATTGGGCCTTGTAGTAATTTGAGCCCATCACGTCCTTGAGCT
TGAATTGGGCCTTTATGACTCATATCACCTACCG
Found at i:43853727 original size:58 final size:58
Alignment explanation
Indices: 43853601--43853740 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
43853591 TGATTATTTT
* * * *
43853601 AATATTAAATTTAATTTAATATTTATCTTATAAATAAATATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATCTATCTTATAAAT--ATATTATATTAATTTAATA-ATTA
43853662 AATATTAAATTTAATCTAATATCTATCTTGATAAAT-T-TTATATTAATTTAAT-ATTAA
1 AATATTAAATTTAATCTAATATCTATCTT-ATAAATATATTATATTAATTTAATAATT-A
43853719 AATGATTAAATTTAATCATAAT
1 AAT-ATTAAATTTAATC-TAAT
43853741 TGAACTCTCT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
56 3 0.04
57 3 0.04
58 27 0.38
59 5 0.07
61 27 0.38
62 6 0.08
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (58 bp):
AATATTAAATTTAATCTAATATCTATCTTATAAATATATTATATTAATTTAATAATTA
Found at i:43857792 original size:37 final size:36
Alignment explanation
Indices: 43857688--43857816 Score: 136
Period size: 37 Copynumber: 3.5 Consensus size: 36
43857678 TCTATTGAGC
* *
43857688 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAG
1 CAAATCTTACTGTTATACTGAATG-AGTTTAATCGAG
* *
43857725 CAAATCATACTGTTATACTGAATAGAGTTTAA-CATAG
1 CAAATCTTACTGTTATACTGAAT-GAGTTTAATC-GAG
* * *
43857762 CAAATCTTACTGTTATACTGACTGATGTTTAATTGAT
1 CAAATCTTACTGTTATACTGAATGA-GTTTAATCGAG
43857799 CAAAT-TCTACTGTTATAC
1 CAAATCT-TACTGTTATAC
43857817 CGAGTGAAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
36 4 0.05
37 73 0.94
38 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (36 bp):
CAAATCTTACTGTTATACTGAATGAGTTTAATCGAG
Found at i:43875190 original size:45 final size:45
Alignment explanation
Indices: 43875095--43875211 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
43875085 TTCTAATCCA
* * ** *
43875095 CTCCACTACAACTTTAGGGAGACAGGA-TTTTTTTATTTAGTCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * *
43875139 CCCCACTACAATTTTAGGGGGATAAGACTTGCTTTATTGAGTCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
43875184 CTCCACTACAACTTTAGGGAGATAAGAC
1 CTCCACTACAACTTTAGGGAGATAAGAC
43875212 CCGATGTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 22 0.36
45 39 0.64
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
CTCCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTG
Found at i:43875820 original size:44 final size:44
Alignment explanation
Indices: 43875767--43875909 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 44
43875757 GCTGCTGGTA
43875767 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
* * * * * * ** **
43875811 CAGGGAGGCAAGGT-TGGT-GTCTTAGATCTGCT-CGCTGTC-GGT
1 CAGGAAGGCAAGATCTGCTATTTTTA-ACCTGCTCCGC-AACAACT
* *
43875853 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 -CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
*
43875898 CAGGGAGGCAAG
1 CAGGAAGGCAAG
43875910 GCTGGTGTCT
Statistics
Matches: 70, Mismatches: 22, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
42 8 0.11
43 22 0.31
44 33 0.47
45 7 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACT
Found at i:43876191 original size:43 final size:43
Alignment explanation
Indices: 43875968--43876288 Score: 159
Period size: 44 Copynumber: 7.3 Consensus size: 43
43875958 ATAATTTTTA
* * * * * *
43875968 ATCTGCTCCGCTGCAACCCAGAGAGGCAAGGCTGGTCTCCTT-G
1 ATCTGCTTCACTGCAACCTAGGGAGGCAAGACTGGTAT-CTTCG
* **** * *
43876011 ATCTACTTCACTGTCGGTATAGGAAGGCAAGATCTAGTATCTTC-
1 ATCTGCTTCACTG-CAACCTAGGGAGGCAAGA-CTGGTATCTTCG
* *
43876055 AGTCTGCTTCACTGTAACCTAGGGAGGCAAGACTGGTGTCTTCG
1 A-TCTGCTTCACTGCAACCTAGGGAGGCAAGACTGGTATCTTCG
* * * * *
43876099 ATCTACTTCACTGTCAGTA-C-AAGAAGGCAAGATCTGCTATCTTCA
1 ATCTGCTTCACTG-CA--ACCTAGGGAGGCAAGA-CTGGTATCTTCG
* *
43876144 ATCTGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCG
1 ATCTGCTTCACTGCAACCTAGGGAGGCAAGACTGGTATCTTCG
** * * * * *
43876187 ATCTGCTTTGCTATCAGTA-C-AGGAAGGCAAGATCTGCTATTTTCA
1 ATCTGCTTCACT-GCA--ACCTAGGGAGGCAAGA-CTGGTATCTTCG
* * * * * * * *
43876232 ACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGTGTCTTTG
1 ATCTGCTTCACTGCAACCTAGGGAGGCAAGACTGGTATCTTCG
43876275 ATCTGCTTCACTGC
1 ATCTGCTTCACTGC
43876289 CGGTACAAGA
Statistics
Matches: 203, Mismatches: 58, Indels: 34
0.69 0.20 0.12
Matches are distributed among these distances:
42 2 0.01
43 68 0.33
44 76 0.37
45 55 0.27
46 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (43 bp):
ATCTGCTTCACTGCAACCTAGGGAGGCAAGACTGGTATCTTCG
Found at i:43876242 original size:439 final size:440
Alignment explanation
Indices: 43875424--43876317 Score: 1141
Period size: 439 Copynumber: 2.0 Consensus size: 440
43875414 ATGGGAAGAT
* * * *
43875424 AAGATCTGCTATCTTTAACCTGCTCTGCTACCACCGAGGAAGGCAAGGCTAGTGTCTTCAATCTA
1 AAGATCTGCTATCTTTAACCTGCTCCGCTACAACCCAGGAAGGCAAGGCTAGTGTCTTCAAGCTA
* * * * *
43875489 CTTTGCTACCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAG
66 CTTTACTACCAGTACAGGAAGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCAACCCAGAGAG
* * * * *
43875554 TCAAGGCTAGTGTCTTCAATCAACTTCACTGTTAGTACAGGAAGGCAAGATTTGCTATCTTTAAC
131 GCAAGGCTAGTCTCTTCAATCAACTTCACTGTCAGTACAGGAAGGCAAGATTAGCTATCTTCAAC
* * * * * *
43875619 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAATCTACTTCACTTTCAGTACAGGA
196 CTGCTCCACTGCAACCGAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACAAGA
* * * *
43875684 AGGCAAGATCTGCTATTTTCAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGA
261 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGACTGGTGTCTTCGA
* * *
43875749 TCTGCTTCGCTGCTGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCAACAACTCAG
326 TCTGCTTCGCTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCAACAACCCAG
* * * * * *
43875814 GGAGGCAAGGTTGGTGTCTTAGATCTGC-TCGCTGTCGGTGCAGGAAGGC
391 GAAGGCAAGGCTGGTGTCTTAGATCTGCTTCACTGCCGGTACAAGAAGGC
* * * * *
43875863 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGAGCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTACAACCCAGGAAGGCAAGGCTAGTGTCTTCAAGCTA
* * * * *
43875928 CTTTACTATCGGTGCAGGAAGGCAAGATCT-ATAATTTTTAATCTGCTCCGCTGCAACCCAGAGA
66 CTTTACTACCAGTACAGGAAGGCAAGATCTGAT-ATCTTTAACCTGCTCCGCTGCAACCCAGAGA
* * * * *
43875992 GGCAAGGCTGGTCTCCTT-GATCTACTTCACTGTCGGTATAGGAAGGCAAGATCTAG-TATCTTC
130 GGCAAGGCTAGTCT-CTTCAATCAACTTCACTGTCAGTACAGGAAGGCAAGAT-TAGCTATCTTC
** * * * * *
43876055 AGTCTGCTTCACTGTAACCTAGGGAGGCAAGACTGGTGTCTTCGATCTACTTCACTGTCAGTACA
193 AACCTGCTCCACTGCAACCGAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACA
* * * *
43876120 AGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTT
258 AGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGACTGGTGTCTT
* * **
43876185 CGATCTGCTTTGCT-ATCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAAC
323 CGATCTGCTTCGCTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCAACAAC
*
43876249 CCAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAAGAAGGC
387 CCAGGAAGGCAAGGCTGGTGTCTTAGATCTGCTTCACTGCCGGTACAAGAAGGC
43876303 AAGATCTGCTATCTT
1 AAGATCTGCTATCTT
43876318 CAATGATCTG
Statistics
Matches: 385, Mismatches: 65, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
438 2 0.01
439 347 0.90
440 36 0.09
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (440 bp):
AAGATCTGCTATCTTTAACCTGCTCCGCTACAACCCAGGAAGGCAAGGCTAGTGTCTTCAAGCTA
CTTTACTACCAGTACAGGAAGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCAACCCAGAGAG
GCAAGGCTAGTCTCTTCAATCAACTTCACTGTCAGTACAGGAAGGCAAGATTAGCTATCTTCAAC
CTGCTCCACTGCAACCGAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACAAGA
AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAAGGAGGCAAGACTGGTGTCTTCGA
TCTGCTTCGCTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCAACAACCCAG
GAAGGCAAGGCTGGTGTCTTAGATCTGCTTCACTGCCGGTACAAGAAGGC
Done.