Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008726.1 Hibiscus syriacus cultivar Beakdansim tig00111792_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1298898
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:914771 original size:73 final size:73
Alignment explanation
Indices: 914681--914825 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
914671 GCGTAATTGA
* *
914681 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACGTGTTAAGTGTAATGTTTTAGGGTTTTG
1 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
914746 GGTGGGTG
66 GGTGGGTG
914754 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
1 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
914819 GGTGGGT
66 GGTGGGT
914826 TCAGCACGTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (73 bp):
GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
GGTGGGTG
Found at i:915431 original size:368 final size:368
Alignment explanation
Indices: 914754--915466 Score: 1399
Period size: 368 Copynumber: 1.9 Consensus size: 368
914744 TGGGTGGGTG
914754 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
1 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
914819 GGTGGGTTCAGCACGTCTACACATGTTTTATAAGTATCTTATACATTAATTGATTATTATTTTTA
66 GGTGGGTTCAGCACGTCTACACATGTTTTATAAGTATCTTATACATTAATTGATTATTATTTTTA
*
914884 TAAGTATTGGTTGTGTTTTATTTCACTAATAAAATGATAAAATACAAAATAAAAGGGTGATAAAG
131 TAAGTATCGGTTGTGTTTTATTTCACTAATAAAATGATAAAATACAAAATAAAAGGGTGATAAAG
914949 ACCCAGTGGCAAAAGATCACAAACAGAGAGGAAATAAAAACACACAAAAGTAAAGACAGTAATGA
196 ACCCAGTGGCAAAAGATCACAAACAGAGAGGAAATAAAAACACACAAAAGTAAAGACAGTAATGA
915014 TACGGGTAATAATCAAAAGTGTTAGGGAAAGGGTTATTAATATCTCAGGCTTATCTATTCTCTTT
261 TACGGGTAATAATCAAAAGTGTTAGGGAAAGGGTTATTAATATCTCAGGCTTATCTATTCTCTTT
915079 GTTTACTAATTCCATAACCAGCGGAAGGTGGCAGCGTAATTGA
326 GTTTACTAATTCCATAACCAGCGGAAGGTGGCAGCGTAATTGA
* *
915122 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACGTGTTAAGTGTAATGTTTTAGGGTTTTG
1 GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
915187 GGTGGGTTCAGCACGTCTACACATGTTTTATAAGTATCTTATACATTAATTGATTATTATTTTTA
66 GGTGGGTTCAGCACGTCTACACATGTTTTATAAGTATCTTATACATTAATTGATTATTATTTTTA
915252 TAAGTATCGGTTGTGTTTTATTTCACTAATAAAATGATAAAATACAAAATAAAAGGGTGATAAAG
131 TAAGTATCGGTTGTGTTTTATTTCACTAATAAAATGATAAAATACAAAATAAAAGGGTGATAAAG
915317 ACCCAGTGGCAAAAGATCACAAACAGAGAGGAAATAAAAACACACAAAAGTAAAGACAGTAATGA
196 ACCCAGTGGCAAAAGATCACAAACAGAGAGGAAATAAAAACACACAAAAGTAAAGACAGTAATGA
915382 TACGGGTAATAATCAAAAGTGTTAGGGAAAGGGTTATTAATATCTCAGGCTTATCTATTCTCTTT
261 TACGGGTAATAATCAAAAGTGTTAGGGAAAGGGTTATTAATATCTCAGGCTTATCTATTCTCTTT
915447 GTTTACTAATTCCATAACCA
326 GTTTACTAATTCCATAACCA
915467 AAAACTTCAT
Statistics
Matches: 342, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
368 342 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (368 bp):
GTGACAGGTTTTAGCATCAATACCACGTGTTGGACACATGTTAAGTATAATGTTTTAGGGTTTTG
GGTGGGTTCAGCACGTCTACACATGTTTTATAAGTATCTTATACATTAATTGATTATTATTTTTA
TAAGTATCGGTTGTGTTTTATTTCACTAATAAAATGATAAAATACAAAATAAAAGGGTGATAAAG
ACCCAGTGGCAAAAGATCACAAACAGAGAGGAAATAAAAACACACAAAAGTAAAGACAGTAATGA
TACGGGTAATAATCAAAAGTGTTAGGGAAAGGGTTATTAATATCTCAGGCTTATCTATTCTCTTT
GTTTACTAATTCCATAACCAGCGGAAGGTGGCAGCGTAATTGA
Found at i:916619 original size:20 final size:20
Alignment explanation
Indices: 916594--916634 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
916584 ACCATAGGTA
916594 AAGGTAGTACCGATACCATC
1 AAGGTAGTACCGATACCATC
* *
916614 AAGGTAGTATCGATACTATC
1 AAGGTAGTACCGATACCATC
916634 A
1 A
916635 TGAAGGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
AAGGTAGTACCGATACCATC
Found at i:920682 original size:33 final size:32
Alignment explanation
Indices: 920629--920691 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
920619 AAGGGGTTTT
*
920629 GGTTCTAGCTGAGCCGTGAAAAGCTAGGGAAA
1 GGTTCTAGCTGAGCCGTGAAAAACTAGGGAAA
* *
920661 GGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 GGTTCTAGCTGAG-CCGTGAAAAACTAGGGA
920692 GTTTGTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (32 bp):
GGTTCTAGCTGAGCCGTGAAAAACTAGGGAAA
Found at i:923576 original size:20 final size:20
Alignment explanation
Indices: 923528--923579 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
923518 TGAGTGATGA
*
923528 ACAATATCAATATTATTCTT
1 ACAATATCGATATTATTCTT
*
923548 ACAATATCGATATTGTTCTT
1 ACAATATCGATATTATTCTT
923568 ACAATATCGATA
1 ACAATATCGATA
923580 CACCTACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (20 bp):
ACAATATCGATATTATTCTT
Found at i:925650 original size:978 final size:972
Alignment explanation
Indices: 923567--925500 Score: 3517
Period size: 978 Copynumber: 2.0 Consensus size: 972
923557 ATATTGTTCT
* * * **
923567 TACAATATCGATACACCTACTATGAGGTGCCCTGTTTTGACACAAAAAATCCTATCTTCTACCCC
1 TACAATA-CGATACACCTACTATAAAGTGCCATGTTTCCACACAAAAAATCC-ATCTTCTA-CCC
** * ** *
923632 CCAAAAGCCCCATTAAGGTCTCCAACTAATATTTAAGTGTTTTAACGGATATTATGGGTCATAAA
63 CCAAAAGCCCCA-TAACATCTCCAACTAAGATTTAAGTGAGTCAACGGATATTA-GGGTCATAAA
923697 GAGTCTGAAATCAATTTGAAAACACCCAAACAATGCAATCTACCGTGATCATGCTTCAAGCTTAT
126 GAGTCTGAAATCAATTTGAAAACACCCAAACAATGCAATCTACCGTGATCATGCTTCAAGCTTAT
923762 GCAACCTACAAAAATCACCTAATGAGCTACTTGTGGTATAGTTGAGTTAGAAGTGAGTTACCTGA
191 GCAACCTACAAAAATCACCTAATGAGCTACTTGTGGTATAGTTGAGTTAGAAGTGAGTTACCTGA
923827 TGATTCTAAGTTTTTAAGAGTTTCCAAATATCAACCCAATGTGAGCTTCTCCTTTCTCCTTGCTT
256 TGATTCTAAGTTTTTAAGAGTTTCCAAATATCAACCCAATGTGAGCTTCTCCTTTCTCCTTGCTT
923892 TGGAGTTTTCTCCAACTTCTCTCACTAAACAAGAACCAAAGAATGAATTACTAGTTGAATGTAGA
321 TGGAGTTTTCTCCAACTTCTCTCACTAAACAAGAACCAAAGAATGAATTACTAGTTGAATGTAGA
923957 GGCTAAGGAGGTTTTAAAAACACTTATTAAGGCTAGAAATCATTGAAAACAAATTAACTCTTCTG
386 GGCTAAGGAGGTTTTAAAAACACTTATTAAGGCTAGAAATCATTGAAAACAAATTAACTCTTCTG
924022 AATCTCTTAAACCCTCATAAAACATGTTTTTGAAAACCATGGTCAAAACTTACTCTTTCGGTCTC
451 AATCTCTTAAACCCTCATAAAACATGTTTTTGAAAACCATGGTCAAAACTTACTCTTTCGGTCTC
924087 AAATGGAAGCTCTAGAGGTGTTGAGTTTTGTTTTTACCTTTGAAATGCCAAACAAGGGTTGTAAA
516 AAATGGAAGCTCTAGAGGTGTTGAGTTTTGTTTTTACCTTTGAAATGCCAAACAAGGGTTGTAAA
924152 GTAACCAAGTTACTGTTTTAAGTTGCCCAACTTAAAGAAAGAAGAAAGAAAATGAGGATTTAGAG
581 GTAACCAAGTTACTGTTTTAAGTTGCCCAACTTAAAGAAAGAAGAAAGAAAATGAGGATTTAGAG
924217 AGGAAGAAGAGATAAAGAAGAGTTGAGAAAAAAAGGGAGCAGTCAGACATGAGATCACCTAAATT
646 AGGAAGAAGAGATAAAGAAGAGTTGAGAAAAAAAGGGAGCAGTCAGACATGAGATCACCTAAATT
924282 AATGGGTATTCAACCTTTCAAAATAAAATTGGTCTAATTACTCATGTGGTCCTCCTGATTTTAGT
711 AATGGGTATTCAACCTTTCAAAATAAAATTGGTCTAATTACTCATGTGGTCCTCCTGATTTTAGT
924347 TGCAAACTAAAAATAACATTTTTACTATATATTTAGCTTATTCTAAGCCAAAAAACCATTTCAAT
776 TGCAAACTAAAAATAACATTTTTACTATATATTTAGCTTATTCTAAGCCAAAAAACCATTTCAAT
924412 TTGAATCAAAGCTTTCTATAAGCTAAGGAATTAATTCAATTCCCATCTCAGGTTAGACCAAAACT
841 TTGAATCAAAGCTTTCTATAAGCTAAGGAATTAATTCAATTCCCATCTCAGGTTAGACCAAAACT
* *
924477 CTTAACCCAGAATCTAAGGCGTTACAACTCTCCCCTCCTGAAAAATTCTTACAATATCGATATTG
906 CTTAACCCAGAATCTAAGGCGTTACAACTCTCCCCTCCTGAAAAATTCTTAC-A-ATCAAAATTG
* *
924542 TTCT
969 TACC
* * * **
924546 TACAATATCGATACACCTACTATGAGGTGCCCTGTTTTGACACAAAAAATCCTATCTTCTACCCC
1 TACAATA-CGATACACCTACTATAAAGTGCCATGTTTCCACACAAAAAATCC-ATCTTCTACCCC
** * ** *
924611 CAAAAGCCCCATTAAGGTCTCCAACTAATATTTAAGTGTTTTAACGGATATTATGGGTCATAAAG
64 CAAAAGCCCCA-TAACATCTCCAACTAAGATTTAAGTGAGTCAACGGATATTA-GGGTCATAAAG
924676 AGTCTGAAATCAATTTGAAAACACCCAAACAATGCAATCTACCGTGATCATGCTTCAAGCTTATG
127 AGTCTGAAATCAATTTGAAAACACCCAAACAATGCAATCTACCGTGATCATGCTTCAAGCTTATG
924741 CAACCTACAAAAATCACCTAATGAGCTACTTGTGGTATAGTTGAGTTAGAAGTGAGTTACCTGAT
192 CAACCTACAAAAATCACCTAATGAGCTACTTGTGGTATAGTTGAGTTAGAAGTGAGTTACCTGAT
924806 GATTCTAAGTTTTTAAGAGTTTCCAAATATCAACCCAATGTGAGCTTCTCCTTTCTCCTTGCTTT
257 GATTCTAAGTTTTTAAGAGTTTCCAAATATCAACCCAATGTGAGCTTCTCCTTTCTCCTTGCTTT
924871 GGAGTTTTCTCCAACTTCTCTCACTAAACAAGAACCAAAGAATGAATTACTAGTTGAATGTAGAG
322 GGAGTTTTCTCCAACTTCTCTCACTAAACAAGAACCAAAGAATGAATTACTAGTTGAATGTAGAG
924936 GCTAAGGAGGTTTTAAAAACACTTATTAAGGCTAGAAATCATTGAAAACAAATTAACTCTTCTGA
387 GCTAAGGAGGTTTTAAAAACACTTATTAAGGCTAGAAATCATTGAAAACAAATTAACTCTTCTGA
925001 ATCTCTTAAACCCTCATAAAACATGTTTTTGAAAACCATGGTCAAAACTTACTCTTTCGGTCTCA
452 ATCTCTTAAACCCTCATAAAACATGTTTTTGAAAACCATGGTCAAAACTTACTCTTTCGGTCTCA
925066 AATGGAAGCTCTAGAGGTGTTGAGTTTTGTTTTTACCTTTGAAATGCCAAACAAGGGTTGTAAAG
517 AATGGAAGCTCTAGAGGTGTTGAGTTTTGTTTTTACCTTTGAAATGCCAAACAAGGGTTGTAAAG
925131 TAACCAAGTTACTGTTTTAAGTTGCCCAACTTAAAGAAAAAGAAGAAAGAAAATGAGGATTTAGA
582 TAACCAAGTTACTGTTTTAAGTTGCCCAACTTAAAG--AAAGAAGAAAGAAAATGAGGATTTAGA
925196 GAGGAAGAAGAGATAAAGAAGAGTTGAGAAAAAAAGGGAGCAGTCAGACATGAGATCACCTAAAT
645 GAGGAAGAAGAGATAAAGAAGAGTTGAGAAAAAAAGGGAGCAGTCAGACATGAGATCACCTAAAT
925261 TAATGGGTATTCAACCTTTCAAAATAAAATTGGTCTAATTACTCATGTGGTCCTCCTGATTTTAG
710 TAATGGGTATTCAACCTTTCAAAATAAAATTGGTCTAATTACTCATGTGGTCCTCCTGATTTTAG
925326 TTGCAAACTAAAAATAACATTTTTACTATATATTTAGCTTATTCTAAGCCAAAAAACCATTTCAA
775 TTGCAAACTAAAAATAACATTTTTACTATATATTTAGCTTATTCTAAGCCAAAAAACCATTTCAA
925391 TTTGAATCAAAGCTTTCTATAAGCTAAGGAATTAATTCAATTCCCATCTCAGGTTAGACCAAAAC
840 TTTGAATCAAAGCTTTCTATAAGCTAAGGAATTAATTCAATTCCCATCTCAGGTTAGACCAAAAC
925456 TCTTAACCCAGAATCTAAGGCGTTACAACTCTCCCCTCCTGAAAA
905 TCTTAACCCAGAATCTAAGGCGTTACAACTCTCCCCTCCTGAAAA
925501 GAAATTTTGT
Statistics
Matches: 953, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
978 560 0.59
979 61 0.06
980 332 0.35
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (972 bp):
TACAATACGATACACCTACTATAAAGTGCCATGTTTCCACACAAAAAATCCATCTTCTACCCCCA
AAAGCCCCATAACATCTCCAACTAAGATTTAAGTGAGTCAACGGATATTAGGGTCATAAAGAGTC
TGAAATCAATTTGAAAACACCCAAACAATGCAATCTACCGTGATCATGCTTCAAGCTTATGCAAC
CTACAAAAATCACCTAATGAGCTACTTGTGGTATAGTTGAGTTAGAAGTGAGTTACCTGATGATT
CTAAGTTTTTAAGAGTTTCCAAATATCAACCCAATGTGAGCTTCTCCTTTCTCCTTGCTTTGGAG
TTTTCTCCAACTTCTCTCACTAAACAAGAACCAAAGAATGAATTACTAGTTGAATGTAGAGGCTA
AGGAGGTTTTAAAAACACTTATTAAGGCTAGAAATCATTGAAAACAAATTAACTCTTCTGAATCT
CTTAAACCCTCATAAAACATGTTTTTGAAAACCATGGTCAAAACTTACTCTTTCGGTCTCAAATG
GAAGCTCTAGAGGTGTTGAGTTTTGTTTTTACCTTTGAAATGCCAAACAAGGGTTGTAAAGTAAC
CAAGTTACTGTTTTAAGTTGCCCAACTTAAAGAAAGAAGAAAGAAAATGAGGATTTAGAGAGGAA
GAAGAGATAAAGAAGAGTTGAGAAAAAAAGGGAGCAGTCAGACATGAGATCACCTAAATTAATGG
GTATTCAACCTTTCAAAATAAAATTGGTCTAATTACTCATGTGGTCCTCCTGATTTTAGTTGCAA
ACTAAAAATAACATTTTTACTATATATTTAGCTTATTCTAAGCCAAAAAACCATTTCAATTTGAA
TCAAAGCTTTCTATAAGCTAAGGAATTAATTCAATTCCCATCTCAGGTTAGACCAAAACTCTTAA
CCCAGAATCTAAGGCGTTACAACTCTCCCCTCCTGAAAAATTCTTACAATCAAAATTGTACC
Found at i:928208 original size:24 final size:23
Alignment explanation
Indices: 928176--928264 Score: 146
Period size: 22 Copynumber: 3.9 Consensus size: 23
928166 ATATGAGAAT
928176 GTTATAGGAACAAGGTGATAATAA
1 GTTATA-GAACAAGGTGATAATAA
928200 GTTATAGGAACAAGGTGATAATAA
1 GTTATA-GAACAAGGTGATAATAA
928224 GTTAT-GAACAAGGTGATAATAA
1 GTTATAGAACAAGGTGATAATAA
928246 GTTATA-AACAAGGTGATAA
1 GTTATAGAACAAGGTGATAA
928265 CTATGTGAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
22 35 0.55
24 29 0.45
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (23 bp):
GTTATAGAACAAGGTGATAATAA
Found at i:928959 original size:23 final size:22
Alignment explanation
Indices: 928902--928966 Score: 103
Period size: 22 Copynumber: 2.9 Consensus size: 22
928892 AGTCGAGGGT
* *
928902 TACATAGGTCGTTCGAGACATA
1 TACATAGGTCCTTCGGGACATA
928924 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
928946 TACATGAGGTCCTTCGGGACA
1 TACAT-AGGTCCTTCGGGACA
928967 AATTTCACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 25 0.62
23 15 0.38
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACATA
Found at i:929758 original size:21 final size:20
Alignment explanation
Indices: 929733--929810 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 20
929723 TTTATTTTTA
929733 TATTATTAAAATATATTATT
1 TATTATTAAAATATATTATT
** *
929753 TGATTATTAAAAATATAAAATA
1 T-ATTATT-AAAATATATTATT
929775 TATTA-TAAAATATATTAATT
1 TATTATTAAAATATATT-ATT
* *
929795 TAATAATTTAAATATA
1 T-ATTATTAAAATATA
929811 ATAAATACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 8 0.18
20 5 0.11
21 13 0.29
22 19 0.42
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTATTAAAATATATTATT
Found at i:929783 original size:12 final size:12
Alignment explanation
Indices: 929766--929791 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
929756 TTATTAAAAA
929766 TATAAAATATAT
1 TATAAAATATAT
929778 TATAAAATATAT
1 TATAAAATATAT
929790 TA
1 TA
929792 ATTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAAATATAT
Found at i:929789 original size:41 final size:41
Alignment explanation
Indices: 929731--929834 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 41
929721 TTTTTATTTT
* *
929731 TATATTATTAAAATATATTATTTGATTATTAAAAATATAA-AA
1 TATATTA-TAAAATATATTATTTAATAATT-AAAATATAATAA
*
929773 TATATTATAAAATATATTAATTTAATAATTTAAATATAATAA
1 TATATTATAAAATATATT-ATTTAATAATTAAAATATAATAA
929815 -ATACTTAT-AAATATATTATT
1 TATA-TTATAAAATATATTATT
929835 ATAAATAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
40 3 0.05
41 31 0.55
42 22 0.39
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (41 bp):
TATATTATAAAATATATTATTTAATAATTAAAATATAATAA
Found at i:929846 original size:14 final size:15
Alignment explanation
Indices: 929810--929846 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
929800 ATTTAAATAT
929810 AATAAA-TACTTATA
1 AATAAATTACTTATA
*
929824 AATATATTA-TTATA
1 AATAAATTACTTATA
929838 AATAAATTA
1 AATAAATTA
929847 ATTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAAATTACTTATA
Found at i:932538 original size:26 final size:26
Alignment explanation
Indices: 932507--932560 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
932497 GAGAACCAGA
*
932507 CAAAACCATGA-TCAAATCTAAAACCC
1 CAAAACCAT-ATTCAAATCCAAAACCC
*
932533 CAAAACCATATTCAAATCCAAAGCCC
1 CAAAACCATATTCAAATCCAAAACCC
932559 CA
1 CA
932561 TCTTTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.48, C:0.33, G:0.04, T:0.15
Consensus pattern (26 bp):
CAAAACCATATTCAAATCCAAAACCC
Found at i:934059 original size:3 final size:3
Alignment explanation
Indices: 934044--934097 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
934034 GTAATTTGTA
*
934044 AAT AAT GAAT AAT AAT AAT -AT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
934089 AAT CAT AAT
1 AAT AAT AAT
934098 TTAATAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:934360 original size:90 final size:90
Alignment explanation
Indices: 934250--934418 Score: 259
Period size: 90 Copynumber: 1.9 Consensus size: 90
934240 AATTGTTAGA
* *
934250 TTGAACAAGTTTTTCTCATTATGAACTTATTCTCTCT-TGTTGGATAAGTTTTTCTCATTATTAA
1 TTGAACAAGTTCTTCTCATTATAAACTTATTCTCTCTCT-TTGGATAAGTTTTTCTCATTATTAA
* *
934314 CTCTTCATTGGAAATATGATACAAGG
65 CTCTCCACTGGAAATATGATACAAGG
* * *
934340 TTGAACAAGTTCTTCTCATTATAAACTTCTTCTTTCTCTTTGGATAAGTTTTTCTTATTATTAAC
1 TTGAACAAGTTCTTCTCATTATAAACTTATTCTCTCTCTTTGGATAAGTTTTTCTCATTATTAAC
934405 TCTCCACTGGAAAT
66 TCTCCACTGGAAAT
934419 GTTGATCCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
90 70 0.99
91 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (90 bp):
TTGAACAAGTTCTTCTCATTATAAACTTATTCTCTCTCTTTGGATAAGTTTTTCTCATTATTAAC
TCTCCACTGGAAATATGATACAAGG
Found at i:934982 original size:105 final size:105
Alignment explanation
Indices: 934459--934979 Score: 722
Period size: 105 Copynumber: 4.9 Consensus size: 105
934449 AACCAAGGTT
*
934459 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGACGAGTTCTTCTCATTATGAACT
* * * * * * *
934523 CTCCACTGAAAATGTTGATCCACCTCATTCTGTGATGGACTTGAAAA
61 CT--TCTGAAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
* * *
934570 GAACAAGTTCTTCTCATTATAAACTTTCTCCTTTAGAACGAGTTCTTCTCATTATGAACTATTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
*
934635 GAAAATCTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
66 GAAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
*
934675 GAACAAGTTCTTCTCATTATGAACTATCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
934740 GAAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
66 GAAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
* *
934780 GAACAATTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTGTGAACTCTT-T
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
* * * * * * *
934844 CAGAAATGTTGGTTCACCTCATTTTGTGATGAATTTGAAAG
66 GA-AAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
* *
934885 GAACAAGTTCTTCTCATTGTGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
* *
934950 GGAAATGTTGGTTCACCTCCTTCTGGGGTG
66 GAAAATGTTGGTTCACCTCCTTCTGCGGTG
934980 AATCATAATC
Statistics
Matches: 370, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
104 2 0.01
105 310 0.84
106 3 0.01
107 24 0.06
108 4 0.01
109 3 0.01
110 1 0.00
111 23 0.06
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
GAAAATGTTGGTTCACCTCCTTCTGCGGTGGACTTGAAAG
Found at i:935272 original size:42 final size:41
Alignment explanation
Indices: 935186--935286 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
935176 GGTCTTATGA
* * ** * *
935186 ATGACCCGAAGGACTTATCATTTTGCTCGAAAGGCTTACAG
1 ATGACCCGAAGGATTTAACATCATGCTCAAAAGACTTACAG
*
935227 ATGACCCGAAGGATTTACACATCATGCTCAAAAGACTTACTG
1 ATGACCCGAAGGATTTA-ACATCATGCTCAAAAGACTTACAG
935269 ATGACCCGAAGGATTTAA
1 ATGACCCGAAGGATTTAA
935287 AAAAAAACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 17 0.33
42 35 0.67
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (41 bp):
ATGACCCGAAGGATTTAACATCATGCTCAAAAGACTTACAG
Found at i:935546 original size:177 final size:177
Alignment explanation
Indices: 935302--935667 Score: 567
Period size: 177 Copynumber: 2.1 Consensus size: 177
935292 AACCCAAAGA
* * *** *
935302 CTTAGTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGACTTAGCTTCCTTTAACAACTCTTTTGAG
1 CTTAGTTTCTTAGTTGTAAAAGAACCCCTTTAAAAGACTTAACTTCCTTTAACAACTCTTTTGAG
*
935367 ATAATTAAGAAACCCATAAAAGGCTT-AGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAA
66 ATAATTAAGAAACCCATAAAAGGCTTCA-TTTCTAAAATCTCATTTGAAAACATCATGCACTGAA
* * *
935431 GGTCTTATTA-ATGGCCCAAATGACTTACAAATCAAGAAACCCCCGAAGG
130 AGTCTTA-TAGATGACCCAAAGGACTTACAAATCAAGAAA-CCCCGAAGG
*
935480 CTTAGTTTCTTAGTTGTAAAAGAACCCC-TTAAAAGGCTTAACTTCCTTTAACAACTCTTTTGAG
1 CTTAGTTTCTTAGTTGTAAAAGAACCCCTTTAAAAGACTTAACTTCCTTTAACAACTCTTTTGAG
* *
935544 ATAATTAAGAAACCCCTAAAAGGCTTCATTTCTAAAATCTCATTTGAAAACATCATGTACTGAAA
66 ATAATTAAGAAACCCATAAAAGGCTTCATTTCTAAAATCTCATTTGAAAACATCATGCACTGAAA
935609 GTCTTATAGATGACCCAAAGGACTTACAAATCAAGAAACCCCGAAGG
131 GTCTTATAGATGACCCAAAGGACTTACAAATCAAGAAACCCCGAAGG
935656 CTTAGTTTCTTA
1 CTTAGTTTCTTA
935668 AAACTCACTT
Statistics
Matches: 173, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
176 23 0.13
177 123 0.71
178 27 0.16
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (177 bp):
CTTAGTTTCTTAGTTGTAAAAGAACCCCTTTAAAAGACTTAACTTCCTTTAACAACTCTTTTGAG
ATAATTAAGAAACCCATAAAAGGCTTCATTTCTAAAATCTCATTTGAAAACATCATGCACTGAAA
GTCTTATAGATGACCCAAAGGACTTACAAATCAAGAAACCCCGAAGG
Found at i:936279 original size:262 final size:261
Alignment explanation
Indices: 935808--936332 Score: 978
Period size: 262 Copynumber: 2.0 Consensus size: 261
935798 GATTCTGCCA
935808 CTCGGAATATAATTCCCTTCATTCAAGGCTTGAATTTTATCTTTTCATTCTCTTTTTTTCATGAA
1 CTCGGAATATAATTCCCTTCATTCAAGGCTTGAATTTTATCTTTTCATTCTCTTTTTTTCATGAA
935873 AAATCTATAAAATTATGCTTTGATGCATGAATGCAATAGATATGTATCTAAATGTATTGTATGAT
66 AAATCTATAAAATTATGCTTTGATGCATGAATGCAATAGATATGTATCTAAATGTATTGTATGAT
* * *
935938 TTATTATGCAAGTGATGTTCTTATTAATGCAAAAATATTTATGCAATATTCATTTGACTTTAAAG
131 TTATTATACAAGTGACGTTCTTATTAATGCAAAAATATTGATGCAATATTCATTTGACTTTAAAG
936003 TGGCGAACCGGGTCTTCCTTCACTTACTCAAAATGTCATTTCAAACTGGCATTTCTGATGAACCA
196 TGGCGAACCGGGTCTTCCTTCACTTACTCAAAATGTCATTTCAAACTGGCATTTCTGATGAACCA
936068 T
261 T
*
936069 CTCGGAATATAATTCCCTTCATTCAAGGCTTGAATTTTATCTTTTTATTCTCTTTTTTTCATGAA
1 CTCGGAATATAATTCCCTTCATTCAAGGCTTGAATTTTATCTTTTCATTCTCTTTTTTTCATG-A
*
936134 AAAATCTGTAAAATTATGCTTTGATGCATGAATGCAATAGATATGTATCTAAATGTATTGTATGA
65 AAAATCTATAAAATTATGCTTTGATGCATGAATGCAATAGATATGTATCTAAATGTATTGTATGA
*
936199 TTTATTATACAAGTGACGTTCTTATTAATGCAAAAATATTGATGCAATCTTCATTTGACTTTAAA
130 TTTATTATACAAGTGACGTTCTTATTAATGCAAAAATATTGATGCAATATTCATTTGACTTTAAA
*
936264 GTGGCGAATCGGGTCTTCCTTCACTTACTCAAAATGTCATTTCAAACTGGCATTTCTGATGAACC
195 GTGGCGAACCGGGTCTTCCTTCACTTACTCAAAATGTCATTTCAAACTGGCATTTCTGATGAACC
936329 AT
260 AT
936331 CT
1 CT
936333 GATCCACTTG
Statistics
Matches: 256, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
261 62 0.24
262 194 0.76
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (261 bp):
CTCGGAATATAATTCCCTTCATTCAAGGCTTGAATTTTATCTTTTCATTCTCTTTTTTTCATGAA
AAATCTATAAAATTATGCTTTGATGCATGAATGCAATAGATATGTATCTAAATGTATTGTATGAT
TTATTATACAAGTGACGTTCTTATTAATGCAAAAATATTGATGCAATATTCATTTGACTTTAAAG
TGGCGAACCGGGTCTTCCTTCACTTACTCAAAATGTCATTTCAAACTGGCATTTCTGATGAACCA
T
Found at i:936996 original size:54 final size:54
Alignment explanation
Indices: 936901--937008 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
936891 ATAATCATTG
*
936901 GTTCATAAAACATTTGACAACAAATTCATCATTTCATGTGGCTTCTGCACAGAT
1 GTTCATAAAACATTTGACAACAAATTCATCATTTCAGGTGGCTTCTGCACAGAT
* * * * * *
936955 GTTCGTAAAATATTTGACAACATATTCATCCTTTCCGGTGGCTTCTGCCCAGAT
1 GTTCATAAAACATTTGACAACAAATTCATCATTTCAGGTGGCTTCTGCACAGAT
937009 TTCCCAATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACAAATTCATCATTTCAGGTGGCTTCTGCACAGAT
Found at i:941272 original size:27 final size:27
Alignment explanation
Indices: 941242--941313 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
941232 GCAAAGATGC
* * *
941242 AAATGCAAATGCAAAGATGTGAATGTA
1 AAATGAAAATGTAAAGATGTAAATGTA
941269 AAATGAAAATGTAAAGATGTAAATGTA
1 AAATGAAAATGTAAAGATGTAAATGTA
941296 AAATGAAAATGTAAAGAT
1 AAATGAAAATGTAAAGAT
941314 ACAAATGCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATGAAAATGTAAAGATGTAAATGTA
Found at i:941277 original size:6 final size:7
Alignment explanation
Indices: 941263--941310 Score: 66
Period size: 7 Copynumber: 7.1 Consensus size: 7
941253 CAAAGATGTG
941263 AATGTAA
1 AATGTAA
941270 AATG-AA
1 AATGTAA
941276 AATGTAA
1 AATGTAA
941283 AGATGT-A
1 A-ATGTAA
941290 AATGTAA
1 AATGTAA
941297 AATG-AA
1 AATGTAA
941303 AATGTAA
1 AATGTAA
941310 A
1 A
941311 GATACAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 16 0.43
7 17 0.46
8 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (7 bp):
AATGTAA
Found at i:941281 original size:13 final size:13
Alignment explanation
Indices: 941263--941310 Score: 78
Period size: 13 Copynumber: 3.6 Consensus size: 13
941253 CAAAGATGTG
941263 AATGTAAAATGAA
1 AATGTAAAATGAA
*
941276 AATGTAAAGATGTA
1 AATGTAAA-ATGAA
941290 AATGTAAAATGAA
1 AATGTAAAATGAA
941303 AATGTAAA
1 AATGTAAA
941311 GATACAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 20 0.62
14 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (13 bp):
AATGTAAAATGAA
Found at i:941331 original size:27 final size:27
Alignment explanation
Indices: 941263--941320 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
941253 CAAAGATGTG
**
941263 AATGTAAAATGAAAATGTAAAGATGTA
1 AATGTAAAATGAAAATGTAAAGATACA
941290 AATGTAAAATGAAAATGTAAAGATACA
1 AATGTAAAATGAAAATGTAAAGATACA
941317 AATG
1 AATG
941321 CAGATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (27 bp):
AATGTAAAATGAAAATGTAAAGATACA
Found at i:943391 original size:17 final size:17
Alignment explanation
Indices: 943366--943405 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
943356 TTAAAGAAAA
*
943366 ATATATATAATAATAAT
1 ATATTTATAATAATAAT
943383 ATATTTATAATAATAAT
1 ATATTTATAATAATAAT
943400 AT-TTTA
1 ATATTTA
943406 AATCCTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTTATAATAATAAT
Found at i:943498 original size:23 final size:23
Alignment explanation
Indices: 943468--943520 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
943458 ATACAAAAAT
943468 TATATTAACATGTGATAAACAAA
1 TATATTAACATGTGATAAACAAA
*
943491 TATATTAACATGTGATACACAAA
1 TATATTAACATGTGATAAACAAA
943514 TATATTA
1 TATATTA
943521 CCAGGCCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (23 bp):
TATATTAACATGTGATAAACAAA
Found at i:944180 original size:26 final size:26
Alignment explanation
Indices: 944139--944189 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
944129 GAACCAGACG
*
944139 AAACCATGATCAAATCTAAAACCCCA
1 AAACCATGATCAAATCCAAAACCCCA
* * *
944165 AAACCATGCTCGAATCCAAAGCCCC
1 AAACCATGATCAAATCCAAAACCCC
944190 CTCTTTTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.35, G:0.08, T:0.14
Consensus pattern (26 bp):
AAACCATGATCAAATCCAAAACCCCA
Found at i:947465 original size:21 final size:21
Alignment explanation
Indices: 947441--947483 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
947431 AGCCACTTCA
*
947441 ACTAATAAATCAACAACATCG
1 ACTAAGAAATCAACAACATCG
* *
947462 ACTAAGAAGTCAACCACATCG
1 ACTAAGAAATCAACAACATCG
947483 A
1 A
947484 AGAAACTAAC
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:0.49, C:0.26, G:0.09, T:0.16
Consensus pattern (21 bp):
ACTAAGAAATCAACAACATCG
Found at i:947756 original size:24 final size:24
Alignment explanation
Indices: 947706--947757 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
947696 AGTTAATTAT
*
947706 TTGTCTGAGATTGTGGAAATGATC
1 TTGTCTGAGATTGTGGAAATGAGC
*
947730 TTGTCTG-GAATTGTGGAAATTAGC
1 TTGTCTGAG-ATTGTGGAAATGAGC
947754 TTGT
1 TTGT
947758 TGAAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.23, C:0.08, G:0.29, T:0.40
Consensus pattern (24 bp):
TTGTCTGAGATTGTGGAAATGAGC
Found at i:947814 original size:59 final size:59
Alignment explanation
Indices: 947722--947941 Score: 218
Period size: 59 Copynumber: 3.8 Consensus size: 59
947712 GAGATTGTGG
* * *
947722 AAATGATCTTGTCTGGAATTGTGGAAATTAGCTTGTTGAAATTTATAAACATATCTATA
1 AAATGATCTTGTCTGGAATTGTGAAAATTAGCTTGTTGAAAATTATGAACATATCTATA
* * * *
947781 AAATGATCTTGTCTGGAATTGTGAAAATTAGCTTGTTGAAAACTATGAACATATATGTG
1 AAATGATCTTGTCTGGAATTGTGAAAATTAGCTTGTTGAAAATTATGAACATATCTATA
* * * * ** *
947840 AAATGATATTCTCTTAGAATTGTAAAAATTAAATTGTTG-AAATATGTGAAC--ATCTATCA
1 AAATGATCTTGTC-TGGAATTGTGAAAATTAGCTTGTTGAAAAT-TATGAACATATCTAT-A
* * *
947899 ACAT-ATCTTGTCTTGAATTGTG-ACATTAGCTTG-TGAAAATTAT
1 AAATGATCTTGTCTGGAATTGTGAAAATTAGCTTGTTGAAAATTAT
947942 TTTGGAGAAA
Statistics
Matches: 130, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
55 4 0.03
56 12 0.09
57 8 0.06
58 10 0.08
59 69 0.53
60 27 0.21
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (59 bp):
AAATGATCTTGTCTGGAATTGTGAAAATTAGCTTGTTGAAAATTATGAACATATCTATA
Found at i:948257 original size:27 final size:27
Alignment explanation
Indices: 948200--948257 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
948190 TTTTGGTCTG
* **
948200 TTTTGTATGAAACAAGCAGACCTTTTG
1 TTTTGTATAAAACAAGCAGACCTTTCA
*
948227 TTTTGTATAAAACAAGCTAG-TCTTTCA
1 TTTTGTATAAAACAAGC-AGACCTTTCA
948254 TTTT
1 TTTT
948258 ACATGTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (27 bp):
TTTTGTATAAAACAAGCAGACCTTTCA
Found at i:951392 original size:25 final size:25
Alignment explanation
Indices: 951358--951405 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
951348 ATCTAATTAA
951358 TTTGATTCAAACATTTGCATTTAGT
1 TTTGATTCAAACATTTGCATTTAGT
*
951383 TTTGTTTCAAACATTTGCATTTA
1 TTTGATTCAAACATTTGCATTTA
951406 TCCACTACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (25 bp):
TTTGATTCAAACATTTGCATTTAGT
Found at i:952645 original size:31 final size:31
Alignment explanation
Indices: 952609--952669 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
952599 AGATATAGTA
*
952609 TTTAATCATTTTCATTTTATTTTAATTAAGT
1 TTTAATCATTTTCATTTCATTTTAATTAAGT
* *
952640 TTTAATTATTTTCATTTCGTTTTAATTAAG
1 TTTAATCATTTTCATTTCATTTTAATTAAG
952670 ATGTGATCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTAATCATTTTCATTTCATTTTAATTAAGT
Found at i:952648 original size:20 final size:20
Alignment explanation
Indices: 952625--952667 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
952615 CATTTTCATT
952625 TTATTTTAATTAAGTTTTAA
1 TTATTTTAATTAAGTTTTAA
* **
952645 TTATTTTCATTTCGTTTTAA
1 TTATTTTAATTAAGTTTTAA
952665 TTA
1 TTA
952668 AGATGTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
TTATTTTAATTAAGTTTTAA
Found at i:955301 original size:31 final size:31
Alignment explanation
Indices: 955265--955341 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
955255 CAGTTACGTT
955265 GGGACCATATTGCAAACGGACTAAATGTTGG
1 GGGACCATATTGCAAACGGACTAAATGTTGG
*
955296 GGGACCATATTACAAACGGACTAAATGTTGG
1 GGGACCATATTGCAAACGGACTAAATGTTGG
**
955327 GGGACTGTATTGCAA
1 GGGACCATATTGCAA
955342 GTTTTAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGCAAACGGACTAAATGTTGG
Found at i:955509 original size:45 final size:45
Alignment explanation
Indices: 955436--955521 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
955426 TGATAGTTTA
* * *
955436 ATTCAAATATTATTTATTTTATATTTTATTTTAT-AATATATCAT
1 ATTCAAATATTATTAATCTTATATTTTATGTTATAAATATATCAT
*
955480 ATTCAAGTATTAATTAATCTTATATTTTATGTTATAAATATA
1 ATTCAAATATT-ATTAATCTTATATTTTATGTTATAAATATA
955522 ATTATAGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 10 0.28
45 20 0.56
46 6 0.17
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (45 bp):
ATTCAAATATTATTAATCTTATATTTTATGTTATAAATATATCAT
Found at i:955677 original size:2 final size:2
Alignment explanation
Indices: 955672--955715 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
955662 TTTTACACAC
955672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
955714 AT
1 AT
955716 TATTATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956972 original size:20 final size:21
Alignment explanation
Indices: 956947--957030 Score: 57
Period size: 22 Copynumber: 3.8 Consensus size: 21
956937 TCTTTCTGTT
956947 TTTTTATCATC-TATTAT-TAC
1 TTTTTAT-ATCTTATTATATAC
*
956967 TTTTTAGTATCTTATTATATAT
1 TTTTTA-TATCTTATTATATAC
* *
956989 TTTTTATTATATATATATATATAG
1 TTTTTA-TATCT-TAT-TATATAC
957013 TTATTTATTAT-TTATTAT
1 TT-TTTA-TATCTTATTAT
957031 TATTGATGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 15 0.28
23 6 0.11
24 9 0.17
25 8 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTATATCTTATTATATAC
Found at i:956977 original size:23 final size:22
Alignment explanation
Indices: 956958--957030 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
956948 TTTTATCATC
956958 TATTAT-TACTTTTTAGTATCT
1 TATTATATACTTTTTAGTATCT
* * *
956979 TATTATATATTTTTTATTATAT
1 TATTATATACTTTTTAGTATCT
* *
957001 ATATATATATAGTTATTTATTAT-T
1 -TAT-TATATACTT-TTTAGTATCT
957025 TATTAT
1 TATTAT
957031 TATTGATGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.14
22 15 0.34
23 6 0.14
24 9 0.20
25 8 0.18
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTATATACTTTTTAGTATCT
Found at i:957108 original size:18 final size:18
Alignment explanation
Indices: 957087--957134 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
957077 TTATACATAC
*
957087 TCTTTTGTTTATCTCATT
1 TCTTTTATTTATCTCATT
*
957105 TCTTTTATTTATCTTATT
1 TCTTTTATTTATCTCATT
957123 T-TATTTATTTAT
1 TCT-TTTATTTAT
957135 TTTTCCTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (18 bp):
TCTTTTATTTATCTCATT
Found at i:957124 original size:14 final size:13
Alignment explanation
Indices: 957102--957137 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
957092 TGTTTATCTC
*
957102 ATTTCTTTTATTT
1 ATTTATTTTATTT
957115 ATCTTATTTTATTT
1 AT-TTATTTTATTT
957129 ATTTATTTT
1 ATTTATTTT
957138 TCCTGTCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:957138 original size:14 final size:14
Alignment explanation
Indices: 957107--957137 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
957097 ATCTCATTTC
957107 TTTTATTTATCTTA
1 TTTTATTTATCTTA
957121 TTTTATTTAT-TTA
1 TTTTATTTATCTTA
957134 TTTT
1 TTTT
957138 TCCTGTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTATCTTA
Found at i:958455 original size:31 final size:31
Alignment explanation
Indices: 958409--958491 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
958399 CCAACGTAAC
* * *
958409 TGTTGGGGGATCATATTGCAAACATACTAAA
1 TGTTGGGGGACCATATTACAAACAGACTAAA
* *
958440 TGTTAGGGGACCATATTACAAACGGACTAAA
1 TGTTGGGGGACCATATTACAAACAGACTAAA
**
958471 TGTTGGGGGACTGTATTACAA
1 TGTTGGGGGACCATATTACAA
958492 GTTTTAAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (31 bp):
TGTTGGGGGACCATATTACAAACAGACTAAA
Found at i:959615 original size:2 final size:2
Alignment explanation
Indices: 959608--959645 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
959598 GTGTTTTATT
959608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
959646 ATTTTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:961435 original size:20 final size:20
Alignment explanation
Indices: 961418--961456 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
961408 ATATATTATA
961418 AAAATTTAAAAAATATTAAT
1 AAAATTTAAAAAATATTAAT
961438 AAAATTTAAAAAATATTAA
1 AAAATTTAAAAAATATTAA
961457 ATTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAAATATTAAT
Found at i:961436 original size:10 final size:10
Alignment explanation
Indices: 961410--961457 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
961400 ATGAAACAAT
961410 ATATTATAAAA
1 ATATTA-AAAA
961421 AT-TTAAAAA
1 ATATTAAAAA
961430 ATATTAATAAA
1 ATATTAA-AAA
961441 AT-TTAAAAA
1 ATATTAAAAA
961450 ATATTAAA
1 ATATTAAA
961458 TTTTCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 11 0.32
10 16 0.47
11 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATTAAAAA
Found at i:962179 original size:65 final size:64
Alignment explanation
Indices: 962065--962263 Score: 203
Period size: 65 Copynumber: 3.1 Consensus size: 64
962055 TCTCTTGATT
* * *
962065 CATCAAGTGCATTCGATGTTTCAA-AATAGTCA-GAGTGCATCGATGCATGGTTGGTGCATCGAT
1 CATCAAATGCATTCGATG-TTCAATAAAATTCATG-GTGCATCGATGCATGGTTGGTGCATCGAT
962128 G
64 G
*
962129 CATCAAATGCATTCGATGTTTTC-ATAAAATCCTC-T-GTGCATCGGTGCATGGTAT-GTGCATC
1 CATCAAATGCATTCGATG--TTCAATAAAAT--TCATGGTGCATCGATGCATGGT-TGGTGCATC
*
962190 GATA
61 GATG
* ** *
962194 CATGAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGGATTGGTGCATCGGTG
1 CATCAAATGCATTCGATGTTCAATAAAATTCATGGTGCATCGATGCATGG-TTGGTGCATCGATG
962259 CATCA
1 CATCA
962264 CTTTGATAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 21
0.77 0.08 0.14
Matches are distributed among these distances:
62 2 0.02
63 4 0.04
64 39 0.35
65 64 0.57
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
CATCAAATGCATTCGATGTTCAATAAAATTCATGGTGCATCGATGCATGGTTGGTGCATCGATG
Found at i:964930 original size:23 final size:22
Alignment explanation
Indices: 964900--964979 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
964890 GCATGACCCT
964900 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
964922 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
964944 GTGTATCGATGCACGTTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
964966 ATGCATCAATGCAC
1 GTGCATCGATGCAC
964980 TGTTAGGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.33
22 15 0.33
23 16 0.35
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:970899 original size:65 final size:63
Alignment explanation
Indices: 970800--970991 Score: 185
Period size: 65 Copynumber: 3.0 Consensus size: 63
970790 GCACTAAGAG
* **
970800 TGCATTCGATGTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAA
1 TGCATTCGATGTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-TGGTGCATCGATGCATCAAA
* * * *
970864 TGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTATGTGCAACGATGCATGAAA
1 TGCATTCGATG-TTTCATAAAATCCTCAGTGCATCGATGCATGGT-GGTGCATCGATGCATCAAA
** *
970929 TGCATTCGATG-TTCAATTTAAT--TCATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATC
1 TGCATTCGATGTTTC-ATAAAATCCTCA--GTGCATCGATGCATGG--TGGTGCATCGATGCATC
970991 A
61 A
970992 CTTTGATAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 32 0.30
65 64 0.60
66 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (63 bp):
TGCATTCGATGTTTCATAAAATCCTCAGTGCATCGATGCATGGTGGTGCATCGATGCATCAAA
Found at i:971424 original size:34 final size:35
Alignment explanation
Indices: 971386--971460 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
971376 ATATCACACT
* *
971386 TAAAAAAAA-CCTGACCCGA-ACCTAATTTTTTTTA
1 TAAAAAAAATCC-GACCCGATACCGAATTGTTTTTA
*
971420 TAAAAAAAATCCGACCCGATCCCGAATTGTTTTTA
1 TAAAAAAAATCCGACCCGATACCGAATTGTTTTTA
971455 -AAAAAA
1 TAAAAAA
971461 TTTGACCCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (35 bp):
TAAAAAAAATCCGACCCGATACCGAATTGTTTTTA
Found at i:972049 original size:28 final size:29
Alignment explanation
Indices: 972016--972075 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
972006 ATTATGTTAA
* *
972016 TTATTTATTAAAA-TAATAA-TATTATATT
1 TTATTT-TAAAAAGTAATAATTAATATATT
*
972044 TTATTTTAAAAAGTATTAATTAATATATT
1 TTATTTTAAAAAGTAATAATTAATATATT
972073 TTA
1 TTA
972076 AATATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 11 0.41
29 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATTTTAAAAAGTAATAATTAATATATT
Found at i:972088 original size:23 final size:23
Alignment explanation
Indices: 972045--972116 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
972035 TATTATATTT
* *
972045 TATTTTAAAAAGTATTAATTAATA
1 TATTTTAAATA-TATTTATTAATA
*
972069 TATTTTAAATATATTTATTAAAA
1 TATTTTAAATATATTTATTAATA
*
972092 TATTATTAGAT-TATTATATTAATA
1 TATT-TTAAATATATT-TATTAATA
972116 T
1 T
972117 TAAATGCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 18 0.44
24 23 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTTTAAATATATTTATTAATA
Found at i:973567 original size:15 final size:15
Alignment explanation
Indices: 973547--973576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
973537 TTCACCTTCA
973547 CTTTCCTCTCCCTCG
1 CTTTCCTCTCCCTCG
*
973562 CTTTCCTCTTCCTCG
1 CTTTCCTCTCCCTCG
973577 TCACTCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.50, G:0.07, T:0.43
Consensus pattern (15 bp):
CTTTCCTCTCCCTCG
Found at i:973573 original size:21 final size:21
Alignment explanation
Indices: 973524--973575 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
973514 CCCTTCCCTC
*
973524 TCCTC-TCCTCTCCTTCACCT
1 TCCTCTTCCTCTCCCTCACCT
* *
973544 TCACT-TTCCTCTCCCTCGCTT
1 TC-CTCTTCCTCTCCCTCACCT
973565 TCCTCTTCCTC
1 TCCTCTTCCTC
973576 GTCACTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.04, C:0.52, G:0.02, T:0.42
Consensus pattern (21 bp):
TCCTCTTCCTCTCCCTCACCT
Found at i:974029 original size:19 final size:18
Alignment explanation
Indices: 974007--974042 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
973997 ACAATTTATT
*
974007 GTTAGTTTGTTAGCTTGCG
1 GTTAGTTGGTTAG-TTGCG
974026 GTTAGTTGGTTAGTTGC
1 GTTAGTTGGTTAGTTGC
974043 CACAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.08, G:0.33, T:0.47
Consensus pattern (18 bp):
GTTAGTTGGTTAGTTGCG
Found at i:977065 original size:20 final size:21
Alignment explanation
Indices: 977036--977083 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
977026 ATTTATGGAT
* *
977036 AAAT-TATAAAATATATTTA-
1 AAATATATAAAATAAAATTAG
977055 AAATATAT-AAATAAAATTAG
1 AAATATATAAAATAAAATTAG
977075 AAATATATA
1 AAATATATA
977084 CAACCATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATATATAAAATAAAATTAG
Found at i:985950 original size:14 final size:14
Alignment explanation
Indices: 985931--985964 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
985921 TTAAGAGAGA
*
985931 ATCAAAGAGAAAGC
1 ATCAAAGAGAAAAC
985945 ATCAAAGAGAAAAC
1 ATCAAAGAGAAAAC
985959 ATCAAA
1 ATCAAA
985965 CCTCAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.09
Consensus pattern (14 bp):
ATCAAAGAGAAAAC
Found at i:990031 original size:20 final size:20
Alignment explanation
Indices: 990002--990040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
989992 ATTTCACCAC
*
990002 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
990022 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
990041 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:991378 original size:95 final size:94
Alignment explanation
Indices: 991212--991467 Score: 307
Period size: 95 Copynumber: 2.7 Consensus size: 94
991202 GGCTAGCTAG
* * * ** * * *
991212 ATCCATAAAGTTGAGGCGTTTAACCAATTGCTCTAGAGTTACAACTCAA-ATGTATATATATATA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTAT-TGTATAT-
*
991276 ATTATCACATTTATCAGGCTAGCTGAATATT
64 ATAATCACATTTATCAGGCTAGCTGAATATT
* *
991307 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATAGTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATA-TA
* * *
991372 TAATCACCTTTATCAGGCTAGCTGACTCTT
65 TAATCACATTTATCAGGCTAGCTGAATATT
* * ** *
991402 ATCCATAAAGCTAGGGCGTTTAACCAATTGGTTTAGAGGGACATTTTAAGCTTTATTGTATATAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
991467 A
66 A
991468 TATAATATTA
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
94 4 0.03
95 129 0.93
96 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (94 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
AATCACATTTATCAGGCTAGCTGAATATT
Found at i:992023 original size:28 final size:29
Alignment explanation
Indices: 991966--992023 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
991956 CCATATAAAA
* * *
991966 AGAAAATTCAAAAATAAGTTCCAAATATG
1 AGAAAATTCAAAAACAAATTCCAAACATG
*
991995 AGAAAGTTCAAAAACAAATT-CAAACATG
1 AGAAAATTCAAAAACAAATTCCAAACATG
992023 A
1 A
992024 TGCCACGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (29 bp):
AGAAAATTCAAAAACAAATTCCAAACATG
Found at i:995184 original size:20 final size:19
Alignment explanation
Indices: 995137--995191 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
995127 AAAGTGTTAG
995137 ATAAAATAAATAATAAGATA
1 ATAAAATAAATAA-AAGATA
*
995157 AAATAAATAAATAAAAGATA
1 ATA-AAATAAATAAAAGATA
*
995177 GGTAAAATAAATAAA
1 -ATAAAATAAATAAA
995192 TTATAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
ATAAAATAAATAAAAGATA
Found at i:995377 original size:27 final size:27
Alignment explanation
Indices: 995347--995408 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
995337 ATATATATAT
*
995347 ATATATAAAAACAAATAAATAAAAATA
1 ATATATAAAAACAAAAAAATAAAAATA
* * *
995374 ATATATATACATAAAAAAATAAAAATA
1 ATATATAAAAACAAAAAAATAAAAATA
995401 A-A-ATAAAA
1 ATATATAAAA
995409 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 4 0.14
26 1 0.03
27 24 0.83
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (27 bp):
ATATATAAAAACAAAAAAATAAAAATA
Found at i:995388 original size:33 final size:33
Alignment explanation
Indices: 995341--995403 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
995331 AAGAATATAT
* *
995341 ATATATATATATAAAAACAA-ATAAATAAAAATA
1 ATATATATACATAAAAA-AATAAAAATAAAAATA
995374 ATATATATACATAAAAAAATAAAAATAAAA
1 ATATATATACATAAAAAAATAAAAATAAAA
995404 TAAAAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.25
Consensus pattern (33 bp):
ATATATATACATAAAAAAATAAAAATAAAAATA
Found at i:995760 original size:101 final size:99
Alignment explanation
Indices: 995564--995761 Score: 219
Period size: 97 Copynumber: 2.0 Consensus size: 99
995554 ATATATATAT
995564 ATATATATACATAAACGTAAAAACAAATAAATAAAAAATATATAATAAGATATAAAATAAAAAAA
1 ATATATATACATAAACGTAAAAACAAATAAATAAAAAATATATAATAAGATATAAAATAAAAAAA
* * *
995629 ATAAAAGGACAAAAACAAATAGAAATAAATAAAA
66 ATAAAAGAACAAAAAAAAATAGAAACAAATAAAA
* * *
995663 ATATATATA-AT-AACGTATAGACAAA-ATAATAAAATAATA-ATAATAATA-ATAGGAAATAAG
1 ATATATATACATAAACGTAAAAACAAATA-AATAAAA-AATATATAATAAGATATA--AAAT-A-
*
995723 AAAAAAATAAAATGAACAAATAAAAAATA-ATACAAATAA
60 AAAAAAATAAAA-GAACAAA-AAAAAATAGAAACAAATAA
995762 TAAAATGACT
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
96 4 0.05
97 27 0.32
98 10 0.12
99 10 0.12
100 12 0.14
101 14 0.17
102 7 0.08
ACGTcount: A:0.69, C:0.05, G:0.06, T:0.21
Consensus pattern (99 bp):
ATATATATACATAAACGTAAAAACAAATAAATAAAAAATATATAATAAGATATAAAATAAAAAAA
ATAAAAGAACAAAAAAAAATAGAAACAAATAAAA
Found at i:996704 original size:11 final size:11
Alignment explanation
Indices: 996690--996746 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
996680 AAATAATAAT
*
996690 AATATTTATAC
1 AATATATATAC
*
996701 AATATATATAT
1 AATATATATAC
*
996712 ATATATATATAT
1 A-ATATATATAC
*
996724 ATATATATATAT
1 A-ATATATATAC
996736 ATATATATATA
1 A-ATATATATA
996747 TATATGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
11 10 0.23
12 33 0.77
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
AATATATATAC
Found at i:996709 original size:2 final size:2
Alignment explanation
Indices: 996702--996751 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
996692 TATTTATACA
996702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
996744 AT AT AT AT
1 AT AT AT AT
996752 GTTTATTTCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1011936 original size:26 final size:26
Alignment explanation
Indices: 1011876--1011926 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1011866 AAAAATCATT
**
1011876 CAGTTCTTGCATTCTTTGATGATTTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
1011902 CAGTTCTTGCATTCTTTGAT-AGCTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
1011927 AGCTATCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (26 bp):
CAGTTCTTGCATTCTTTGATGAGCTC
Found at i:1014724 original size:16 final size:16
Alignment explanation
Indices: 1014703--1014736 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1014693 TTACTATTCA
*
1014703 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
1014719 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
1014735 CG
1 CG
1014737 GTCGACGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:1021449 original size:18 final size:19
Alignment explanation
Indices: 1021426--1021464 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1021416 TGAAAGAATT
*
1021426 AAAACTT-AAGAAGAAAGA
1 AAAACTTGAAAAAGAAAGA
*
1021444 AAAACTTGAAAAAGATAGA
1 AAAACTTGAAAAAGAAAGA
1021463 AA
1 AA
1021465 TGTTGAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.67, C:0.05, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAACTTGAAAAAGAAAGA
Found at i:1032251 original size:3 final size:3
Alignment explanation
Indices: 1032240--1032284 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
1032230 AAAAATAAAA
* *
1032240 AAT ATAT AAT AAT AAT AAT AAT AAT AAAT TAT AAT AAT AAA AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
1032285 TAAATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1032273 original size:22 final size:20
Alignment explanation
Indices: 1032237--1032293 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
1032227 CAAAAAAATA
1032237 AAAAATATATAATAATAATAAT
1 AAAAATATA-AAT-ATAATAAT
* *
1032259 AATAATA-AATTATAATAAT
1 AAAAATATAAATATAATAAT
1032278 AAAAATATAAATATAA
1 AAAAATATAAATATAA
1032294 AATTCGGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 14 0.47
20 9 0.30
21 1 0.03
22 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATATAAATATAATAAT
Found at i:1033951 original size:23 final size:21
Alignment explanation
Indices: 1033925--1033976 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1033915 TATATAATTA
1033925 TAAATTAGTTAAAAAATAAAAGG
1 TAAATTA-TT-AAAAATAAAAGG
* *
1033948 TAAATTATTTAAAATAAAGGG
1 TAAATTATTAAAAATAAAAGG
1033969 TAAATTAT
1 TAAATTAT
1033977 ATCAGTGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
22 2 0.07
23 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAATTATTAAAAATAAAAGG
Found at i:1033963 original size:21 final size:21
Alignment explanation
Indices: 1033937--1033976 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1033927 AATTAGTTAA
1033937 AAAATAAAAGGTAAATTATTT
1 AAAATAAAAGGTAAATTATTT
*
1033958 AAAATAAAGGGTAAATTAT
1 AAAATAAAAGGTAAATTAT
1033977 ATCAGTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAATAAAAGGTAAATTATTT
Found at i:1035241 original size:4 final size:4
Alignment explanation
Indices: 1035212--1035276 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
1035202 TTAAATAGTA
* ** *
1035212 AAAT AAAAT AAAT ATAAA AAATT AAAT AAA- AAGG AAAG A-AT AAAT AAAT
1 AAAT -AAAT AAAT A-AAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1035261 AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT
1035277 CGAAGAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
3 4 0.08
4 37 0.73
5 10 0.20
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1035364 original size:15 final size:15
Alignment explanation
Indices: 1035340--1035382 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
1035330 AATTTCAAGG
1035340 AAAAATGAAAAATAAT
1 AAAAA-GAAAAATAAT
**
1035356 AAAAAGAAAAAATCTT
1 AAAAAG-AAAAATAAT
1035372 AAAAAGAAAAA
1 AAAAAGAAAAA
1035383 ATAGAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAAGAAAAATAAT
Found at i:1035366 original size:16 final size:16
Alignment explanation
Indices: 1035347--1035385 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1035337 AGGAAAAATG
1035347 AAAAATAATAAAAAGA
1 AAAAATAATAAAAAGA
**
1035363 AAAAATCTTAAAAAGA
1 AAAAATAATAAAAAGA
1035379 AAAAATA
1 AAAAATA
1035386 GAATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAAATAATAAAAAGA
Found at i:1037348 original size:64 final size:64
Alignment explanation
Indices: 1037258--1037378 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
1037248 CCATCTAATG
* **
1037258 CATCGATGCACCCTTGAATAAATTGAATTTCAAATGCATTTTGTGTACCGATGCACAAGGCATA
1 CATCGATGCACCCTTAAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACAAGGCATA
** *
1037322 CATCGATGCACTCC-TAAATATTTTGAACATCGAATGCATTTTGTGTACCGATGCACA
1 CATCGATGCAC-CCTTAAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACA
1037379 GACCATGCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 48 0.96
65 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (64 bp):
CATCGATGCACCCTTAAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACAAGGCATA
Found at i:1045915 original size:34 final size:34
Alignment explanation
Indices: 1045875--1045946 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
1045865 AAATATTAAT
* *
1045875 TTTTC-AAAGTCATTCGCAAAACTATATATATATA
1 TTTTCAAAAATCATTCACAAAACTATATA-ATATA
* *
1045909 TTTTCAAAAATTATTTACAAAACTATATAATATA
1 TTTTCAAAAATCATTCACAAAACTATATAATATA
1045943 TTTT
1 TTTT
1045947 TTAAAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 14 0.42
35 19 0.58
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (34 bp):
TTTTCAAAAATCATTCACAAAACTATATAATATA
Found at i:1045930 original size:35 final size:35
Alignment explanation
Indices: 1045891--1046046 Score: 110
Period size: 35 Copynumber: 4.4 Consensus size: 35
1045881 AAGTCATTCG
1045891 CAAAACTATATATATATATTTTCAAAAATTATTTA
1 CAAAACTATATATATATATTTTCAAAAATTATTTA
* *
1045926 CAAAACTATATAATATATTTTTTAAAACCAATT-TTTA
1 CAAAACTATAT-ATATATATTTTCAAA--AATTATTTA
* * * *
1045963 -AACAGTATAT-TATATGTTTTC-AAAATCGTTTTCTA
1 CAAAACTATATATATATATTTTCAAAAAT--TATT-TA
* *
1045998 -AAAATTATATAT-TATATCTTTCAAAAA-TATTTT
1 CAAAACTATATATATATAT-TTTCAAAAATTATTTA
*
1046031 CAAAATTATACTATAT
1 CAAAACTATA-TATAT
1046047 TAATATATGT
Statistics
Matches: 97, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
31 3 0.03
33 4 0.04
34 23 0.24
35 28 0.29
36 27 0.28
37 8 0.08
38 4 0.04
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (35 bp):
CAAAACTATATATATATATTTTCAAAAATTATTTA
Found at i:1046031 original size:36 final size:35
Alignment explanation
Indices: 1045968--1046040 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 35
1045958 TTTTAAACAG
* *
1045968 TATATTATATGTTTTCAAAATCGTTTTCTAAAAATTA
1 TATATTATATGCTTTCAAAATCATTTTC--AAAATTA
1046005 TATATTATAT-CTTTCAAAAAT-ATTTTCAAAATTA
1 TATATTATATGCTTTC-AAAATCATTTTCAAAATTA
1046039 TA
1 TA
1046041 CTATATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 9 0.27
36 9 0.27
37 15 0.45
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (35 bp):
TATATTATATGCTTTCAAAATCATTTTCAAAATTA
Found at i:1046076 original size:12 final size:12
Alignment explanation
Indices: 1046059--1046088 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1046049 ATATATGTAC
1046059 ATATAAATAAAT
1 ATATAAATAAAT
1046071 ATATAAATAAAT
1 ATATAAATAAAT
*
1046083 AAATAA
1 ATATAA
1046089 TAATTCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAAATAAAT
Found at i:1048836 original size:21 final size:22
Alignment explanation
Indices: 1048786--1048834 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1048776 ATTAGATACG
*
1048786 ATAAAATTTTATGGTGAACACC
1 ATAAAATTTCATGGTGAACACC
*
1048808 ATAAAATTTCA-GGTGAGCACAC
1 ATAAAATTTCATGGTGAACAC-C
1048830 ATAAA
1 ATAAA
1048835 TTAAAGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (22 bp):
ATAAAATTTCATGGTGAACACC
Found at i:1050705 original size:161 final size:161
Alignment explanation
Indices: 1050435--1050830 Score: 605
Period size: 161 Copynumber: 2.5 Consensus size: 161
1050425 TCTCAACCAG
* * *
1050435 TAAATATTACCCGACAATCCACTTATCTTTGATTCAGAAGTTCGTTTGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
*** * *
1050500 AATATTTTTAATATATAATATTTTTTGTATATGATTATTTGAAAAAAATGTTGTACTAATTATTT
66 AATATTTTTAATATATAATAAAATTTATATATGATTATTTGAAAAAAATATTGTACTAATTATTT
1050565 TCAATTAATTTTTATGGTTATAAAATTGGAC
131 TCAATTAATTTTTATGGTTATAAAATTGGAC
* *
1050596 TAAACATTACCCGGCAATCCACATATCTTTAATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
1050661 AATATTTTTAAATATATAA-AAAATTTATATATGATTATTTGAAAAAAATATTGTACTAATTATT
66 AATATTTTT-AATATATAATAAAATTTATATATGATTATTTGAAAAAAATATTGTACTAATTATT
* * *
1050725 TTTAATTAATTTTTGTGGTTGTAAAATTGGAC
130 TTCAATTAATTTTTATGGTTATAAAATTGGAC
* * * * *
1050757 TAAACATTACTCGGCAATCCATTTATCTTTGATTAAGAAGTTCGTTCGATATTTCGTTTTAAGAT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
*
1050822 ATTATTTTT
66 AATATTTTT
1050831 TTATATACGT
Statistics
Matches: 213, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 204 0.96
162 9 0.04
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (161 bp):
TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
AATATTTTTAATATATAATAAAATTTATATATGATTATTTGAAAAAAATATTGTACTAATTATTT
TCAATTAATTTTTATGGTTATAAAATTGGAC
Found at i:1054324 original size:22 final size:22
Alignment explanation
Indices: 1054293--1054371 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
1054283 GTAGCAGTAT
*
1054293 TGTAGCAAGGGTATCGGTACAC
1 TGTAGTAAGGGTATCGGTACAC
*
1054315 TGTAGTAAGGGTATCGGTGCAC
1 TGTAGTAAGGGTATCGGTACAC
*
1054337 TGTAGTAAGGGTATCGATACAC
1 TGTAGTAAGGGTATCGGTACAC
1054359 TGTAGT-AGGGTAT
1 TGTAGTAAGGGTAT
1054372 TGATACCCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 7 0.13
22 46 0.87
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.28
Consensus pattern (22 bp):
TGTAGTAAGGGTATCGGTACAC
Found at i:1054388 original size:44 final size:44
Alignment explanation
Indices: 1054299--1054388 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
1054289 GTATTGTAGC
* * * *
1054299 AAGGGTATCGGTACACTGTAGTAAGGGTATCGGTGCACTGTAGT
1 AAGGGTATCGATACACTGTAGTAAGGGTATCGATCCACTGCAGT
* *
1054343 AAGGGTATCGATACACTGTAGT-AGGGTATTGATACCCCTGCAGT
1 AAGGGTATCGATACACTGTAGTAAGGGTATCGAT-CCACTGCAGT
1054387 AA
1 AA
1054389 TATGGGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (44 bp):
AAGGGTATCGATACACTGTAGTAAGGGTATCGATCCACTGCAGT
Found at i:1054478 original size:22 final size:22
Alignment explanation
Indices: 1054414--1054479 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
1054404 TAGCATTCGG
* *
1054414 TACTGTTCACGGCACTATTCGT
1 TACTGTTCACGGTACTATTCAT
* * *
1054436 TACTATTCACAGTATTATTCAT
1 TACTGTTCACGGTACTATTCAT
1054458 TACTGTTCACGGTACTATTCAT
1 TACTGTTCACGGTACTATTCAT
1054480 ATCGTATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (22 bp):
TACTGTTCACGGTACTATTCAT
Found at i:1057901 original size:75 final size:76
Alignment explanation
Indices: 1057812--1057988 Score: 230
Period size: 75 Copynumber: 2.3 Consensus size: 76
1057802 CCGTTGAACA
* ** *
1057812 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAAATGTTTAAGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCAAGGGGGAATCG
1057877 GTTCCTCCTAT
66 GTTCCTCCTAT
* * * * * *
1057888 -GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTTGGAGCCAAACCATTCAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCAAGGGGGAATCG
*
1057952 GTTTCTCCTAT
66 GTTCCTCCTAT
*
1057963 GGGGGGGAATCGGTTCCCTCTGAGCA
1 -GGGGGGAATCGGTTCCCTCCGAGCA
1057989 ATCTGAAATT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
75 64 0.74
77 23 0.26
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (76 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCAAGGGGGAATCG
GTTCCTCCTAT
Found at i:1060605 original size:22 final size:22
Alignment explanation
Indices: 1060580--1060662 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
1060570 ACAGAACCCC
*
1060580 AGGGGGGTATCGATTCCCCTGT
1 AGGGGGGAATCGATTCCCCTGT
*
1060602 AGGGGGGAATCGGTTCCCCT-T
1 AGGGGGGAATCGATTCCCCTGT
* * *
1060623 CAAAGGGGGAATCGGTT-CCCT-C
1 --AGGGGGGAATCGATTCCCCTGT
*
1060645 AGGGGGGGATCGATTCCC
1 AGGGGGGAATCGATTCCC
1060663 TCTGCACCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.24
21 3 0.06
22 22 0.43
23 14 0.27
ACGTcount: A:0.17, C:0.24, G:0.37, T:0.22
Consensus pattern (22 bp):
AGGGGGGAATCGATTCCCCTGT
Found at i:1066532 original size:75 final size:76
Alignment explanation
Indices: 1066429--1066628 Score: 269
Period size: 75 Copynumber: 2.6 Consensus size: 76
1066419 GACCGTTGAA
* * *
1066429 CAGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
**
1066493 ACAAAAATGTT
66 ACAAAAACATT
* * *
1066504 TAGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
* * *
1066568 GCCAAACCATT
66 ACAAAAACATT
*
1066579 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCA
1066629 ATCTGAAATT
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
75 85 0.79
76 6 0.06
77 17 0.16
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
ACAAAAACATT
Found at i:1069324 original size:15 final size:16
Alignment explanation
Indices: 1069296--1069353 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 16
1069286 CAAAAATAAA
1069296 TAAATAAATAAAATAC
1 TAAATAAATAAAATAC
*
1069312 TAAA-AAATTAAATA-
1 TAAATAAATAAAATAC
*
1069326 T--TTAAATAAAATAC
1 TAAATAAATAAAATAC
1069340 TAAAAATAAATAAA
1 T--AAATAAATAAA
1069354 TTAAAATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 9 0.28
16 4 0.12
18 8 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAATAAATAAAATAC
Found at i:1069360 original size:28 final size:28
Alignment explanation
Indices: 1069287--1069358 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
1069277 TTATAACTGC
1069287 AAAAATAAATAAA-TAAATAAAATACTA
1 AAAAATAAATAAATTAAATAAAATACTA
*
1069314 AAAAATTAAAT-ATTTAAATAAAATACT-
1 AAAAA-TAAATAAATTAAATAAAATACTA
1069341 AAAAATAAATAAATTAAA
1 AAAAATAAATAAATTAAA
1069359 ATTTCATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 5 0.12
27 17 0.43
28 18 0.45
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATAAATAAATTAAATAAAATACTA
Found at i:1070316 original size:8 final size:8
Alignment explanation
Indices: 1070301--1070343 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
1070291 AAGAATTTAA
1070301 AATATTTT
1 AATATTTT
1070309 -ATATTTTT
1 AATA-TTTT
1070317 AATA-TTT
1 AATATTTT
1070324 AATATTTT
1 AATATTTT
1070332 AATATTTAT
1 AATATTT-T
1070341 AAT
1 AAT
1070344 TTTATGGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 10 0.32
8 14 0.45
9 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATATTTT
Found at i:1070331 original size:15 final size:16
Alignment explanation
Indices: 1070301--1070339 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
1070291 AAGAATTTAA
*
1070301 AATATTTTATATTTTT
1 AATATTTAATATTTTT
1070317 AATATTTAATA-TTTT
1 AATATTTAATATTTTT
1070332 AATATTTA
1 AATATTTA
1070340 TAATTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATATTTAATATTTTT
Found at i:1070345 original size:15 final size:15
Alignment explanation
Indices: 1070301--1070347 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
1070291 AAGAATTTAA
*
1070301 AATATTTTATATTTTT
1 AATA-TTTATAATTTT
1070317 AATATTTA-ATATTTT
1 AATATTTATA-ATTTT
1070332 AATATTTATAATTTT
1 AATATTTATAATTTT
1070347 A
1 A
1070348 TGGGATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.04
15 22 0.79
16 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTATAATTTT
Found at i:1070391 original size:16 final size:17
Alignment explanation
Indices: 1070356--1070392 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1070346 TATGGGATGA
1070356 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
1070373 AAAAATA-TAATTATT-T
1 AAAAATAGT-ATTATTGT
1070389 AAAA
1 AAAA
1070393 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:1072004 original size:19 final size:19
Alignment explanation
Indices: 1071982--1072019 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1071972 TTAAAAATAG
1071982 GTATTCAAATTATTTTTTA
1 GTATTCAAATTATTTTTTA
*
1072001 GTATTTAAATTATTTTTTA
1 GTATTCAAATTATTTTTTA
1072020 TCATATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (19 bp):
GTATTCAAATTATTTTTTA
Found at i:1072028 original size:20 final size:20
Alignment explanation
Indices: 1071983--1072028 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
1071973 TAAAAATAGG
1071983 TATTCAAATTATTTTTTAGTA
1 TATT-AAATTATTTTTTAGTA
1072004 T-TTAAATTATTTTTTA-TCA
1 TATTAAATTATTTTTTAGT-A
1072023 TATTAA
1 TATTAA
1072029 GTCCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 6 0.26
21 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTAAATTATTTTTTAGTA
Found at i:1073173 original size:21 final size:21
Alignment explanation
Indices: 1073122--1073174 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1073112 ATTCTGACTA
1073122 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
1073143 CCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1073164 TCGCAATGCGA
1 TCGCATTGCGA
1073175 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1073189 original size:20 final size:20
Alignment explanation
Indices: 1073164--1073277 Score: 174
Period size: 20 Copynumber: 5.7 Consensus size: 20
1073154 TTTTCCTAAT
1073164 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1073184 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1073205 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1073225 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1073245 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1073265 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1073278 CTGACTATCG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 67 0.81
21 16 0.19
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1073288 original size:40 final size:39
Alignment explanation
Indices: 1073164--1073295 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 39
1073154 TTTTCCTAAT
* **
1073164 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAA-TT-GACTA
1073205 TCGCAATGCGAATACGTAAATCGCAATGCG-ATT-ACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTGAC-T--A
1073245 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-TGACTA
1073285 TCGCAATGCGA
1 TCGCAATGCGA
1073296 TTTACATAGC
Statistics
Matches: 82, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
37 1 0.01
39 2 0.02
40 44 0.54
41 31 0.38
42 2 0.02
43 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTGACTA
Found at i:1073497 original size:22 final size:22
Alignment explanation
Indices: 1073472--1073533 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
1073462 GGCGACATCC
1073472 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
1073494 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
1073512 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
1073534 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:1073882 original size:20 final size:20
Alignment explanation
Indices: 1073857--1073925 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
1073847 CAACGAGTGA
* **
1073857 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAATTTGACT
*
1073877 ATCGCAATACGAATTTGACT
1 ATCGCAATGCGAATTTGACT
1073897 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
1073917 ATCGCAATG
1 ATCGCAATG
1073926 GGATTTTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATTTGACT
Found at i:1073978 original size:20 final size:20
Alignment explanation
Indices: 1073953--1074002 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1073943 TGCGATTCTT
1073953 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
1073973 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
1073993 GTGTTGCGAT
1 GCGTTGCGAT
1074003 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:1074008 original size:20 final size:20
Alignment explanation
Indices: 1073970--1074024 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1073960 GATAGTCAAA
* **
1073970 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
1073990 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
1074010 TTCGTTTTGCGATTT
1 TTCGTGTTGCGATTT
1074025 AAAGTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.16, G:0.22, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:1074032 original size:20 final size:20
Alignment explanation
Indices: 1073989--1074032 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1073979 CGATAGTCAT
** *
1073989 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
*
1074009 TTTCGTTTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
1074029 TTTC
1 TTTC
1074033 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:1075920 original size:20 final size:20
Alignment explanation
Indices: 1075891--1075999 Score: 104
Period size: 20 Copynumber: 5.8 Consensus size: 20
1075881 ATAATAGTTT
*
1075891 ACTATGGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1075911 GCTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1075931 ACTATCTCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
1075947 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1075965 ACTATCGCAATACAAAAATG
1 ACTATCGCAATGCGAAAATG
*
1075985 ACTATCGCATTGCGA
1 ACTATCGCAATGCGA
1076000 TAGTCATTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
14 6 0.09
16 4 0.06
17 4 0.06
18 4 0.06
20 52 0.74
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1076019 original size:20 final size:19
Alignment explanation
Indices: 1075989--1076091 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
1075979 AAAATGACTA
1075989 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCA-TT
* * **
1076009 TCACGTTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
1076028 TCGCATTGCGAT--TC---
1 TCGCATTGCGATAGTCATT
* *
1076042 TCTCATTGCGATAGTCAAAT
1 TCGCATTGCGATAGTC-ATT
1076062 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCA-TT
*
1076082 TCGCGTTGCG
1 TCGCATTGCG
1076092 CTTTTAAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.17
16 2 0.03
17 2 0.03
19 13 0.20
20 38 0.58
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.39
Consensus pattern (19 bp):
TCGCATTGCGATAGTCATT
Found at i:1078058 original size:14 final size:14
Alignment explanation
Indices: 1078039--1078074 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1078029 ATTGTTTAAT
1078039 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1078053 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1078067 TGATTTGT
1 TGATTTGT
1078075 TTAATTGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1078264 original size:20 final size:19
Alignment explanation
Indices: 1078238--1078326 Score: 89
Period size: 20 Copynumber: 4.8 Consensus size: 19
1078228 AATCGCAACG
*
1078238 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1078257 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
* *
1078275 A-CTAG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1078291 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
1078310 ATTTTTGCATTGCGATT
1 A-TTTCGCATTGCGATT
1078327 CTCTCGTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
14 6 0.11
16 6 0.11
17 2 0.04
18 4 0.07
19 13 0.23
20 26 0.46
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:1078273 original size:33 final size:33
Alignment explanation
Indices: 1078236--1078307 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
1078226 AAAATCGCAA
*
1078236 CGATTTCGC-GTTGCGATTTTCATTTTCGCATTG
1 CGATTTCACAGTTGCGATTTTCA-TTTCGCATTG
1078269 CGA-TTCACTAGTTGCGATTTTCATTTCGCATTG
1 CGATTTCAC-AGTTGCGATTTTCATTTCGCATTG
1078302 CGATTT
1 CGATTT
1078308 TCATTTTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
32 4 0.11
33 16 0.46
34 15 0.43
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.44
Consensus pattern (33 bp):
CGATTTCACAGTTGCGATTTTCATTTCGCATTG
Found at i:1078303 original size:53 final size:53
Alignment explanation
Indices: 1078238--1078379 Score: 176
Period size: 53 Copynumber: 2.7 Consensus size: 53
1078228 AATCGCAACG
**
1078238 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTAGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTAGTTGCGATAGTC
* * * * *
1078291 ATTTCGCATTGCGATTTTCATTTTTGCATTGCGATTCTCTCGTTGTGATAGTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTAGTTGCGATAGTC
** * *
1078344 ATTTTCGCGTTGCGATAGTCAATTCCGCATTGCGAT
1 A-TTTCGCGTTGCGATTTTCATTTTCGCATTGCGAT
1078380 AGTCATTTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 47 0.63
54 28 0.37
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (53 bp):
ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTAGTTGCGATAGTC
Found at i:1078360 original size:20 final size:20
Alignment explanation
Indices: 1078331--1078419 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
1078321 GCGATTCTCT
* *
1078331 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
1078351 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
1078371 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1078391 TGTTGCGACAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1078411 CGTTGCGAT
1 CGTTGCGAT
1078420 TTCCGCGTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1080907 original size:24 final size:24
Alignment explanation
Indices: 1080856--1080907 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1080846 AATCGAGTAT
** *
1080856 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
1080880 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
1080904 TGAC
1 TGAC
1080908 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:1081768 original size:20 final size:20
Alignment explanation
Indices: 1081745--1081901 Score: 76
Period size: 20 Copynumber: 7.8 Consensus size: 20
1081735 TTGCGATAGT
* *
1081745 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
1081765 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
* * *
1081785 C-GTATTCTCATTGCAATTTA
1 CAG-AATCGCATTGCGATTTA
* *
1081805 C-GTAA-CTTCATTGTGATTTA
1 CAG-AATC-GCATTGCGATTTA
*
1081825 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
* *
1081845 C-GTAACCGCATTGCGATTTTC
1 CAG-AATCGCATTGCGA-TTTA
*
1081866 CA-AATTCGCGTTGCGATTTA
1 CAGAA-TCGCATTGCGATTTA
*
1081886 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
1081902 ATTAGGAAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.02
20 93 0.85
21 15 0.14
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:1081804 original size:40 final size:40
Alignment explanation
Indices: 1081750--1081901 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
1081740 ATAGTCAGAA
*
1081750 TCTCGTTGCGATTTACAG-ATTCGCATTGCGATTTACGTAT
1 TCTCATTGCGATTTAC-GTATTCGCATTGCGATTTACGTAT
* *
1081790 TCTCATTGCAATTTACGTAACTT--CATTGTGATTTACGTAT
1 TCTCATTGCGATTTACGT-A-TTCGCATTGCGATTTACGTAT
* ** * **
1081830 TCGCATTGCGATTTACGTAACCGCATTGCGATTTTCCAAAT
1 TCTCATTGCGATTTACGTATTCGCATTGCGA-TTTACGTAT
* *
1081871 TCGCGTTGCGATTTACGTATTCGCATTGCGA
1 TCTCATTGCGATTTACGTATTCGCATTGCGA
1081902 ATTAGGAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 53 0.58
41 35 0.38
42 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (40 bp):
TCTCATTGCGATTTACGTATTCGCATTGCGATTTACGTAT
Found at i:1081832 original size:60 final size:60
Alignment explanation
Indices: 1081755--1081901 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 60
1081745 CAGAATCTCG
** * * *
1081755 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCTCATTGCAATTTACGTAACTT-CA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGTAACCGCATTGCAATTTAC-CAAATTCCA
* * * *
1081815 TTGTGATTTACGTATTCGCATTGCGATTTACGTAACCGCATTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTAACCGCATTGCAATTTACCAAATTC-CA
1081876 TTGCGATTTACGTATTCGCATTGCGA
1 TTGCGATTTACGTATTCGCATTGCGA
1081902 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 5 0.07
60 43 0.58
61 26 0.35
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (60 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTAACCGCATTGCAATTTACCAAATTCCA
Found at i:1081934 original size:20 final size:21
Alignment explanation
Indices: 1081898--1081942 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1081888 TATTCGCATT
1081898 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1081919 GCGAATTTGG-AAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1081939 GCGA
1 GCGA
1081943 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1081942 original size:61 final size:61
Alignment explanation
Indices: 1081819--1081943 Score: 135
Period size: 61 Copynumber: 2.0 Consensus size: 61
1081809 ACTTCATTGT
* * ** * **
1081819 GATTTACGTATTCGCATTGCGATTTACGTAACCGCATTGCGATTTTCCAAATTCGCGTTGC
1 GATTTACGTATTCGCATTGCGAATTACGAAACCGCAACGCGAATTTCCAAATTCGCAATGC
* * **
1081880 GATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTTGGAAA-TCGCAATGC
1 GATTTACGTATTCGCATTGCGAATTACG-AAACCGCAACGCGAATTTCCAAATTCGCAATGC
1081941 GAT
1 GAT
1081944 AGTCAGAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 36 0.69
62 16 0.31
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (61 bp):
GATTTACGTATTCGCATTGCGAATTACGAAACCGCAACGCGAATTTCCAAATTCGCAATGC
Found at i:1083951 original size:18 final size:19
Alignment explanation
Indices: 1083904--1083960 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 19
1083894 ATGTTTAATG
*
1083904 AAAAAGATACCAATTGTTA
1 AAAAAGATATCAATTGTTA
1083923 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
1083943 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
1083961 GGAAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 5 0.14
21 12 0.34
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:1085997 original size:33 final size:34
Alignment explanation
Indices: 1085960--1086030 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
1085950 CATTTACAAC
*
1085960 TCCCTAG-TTTTTCATGGGATAAACTAGAACATT
1 TCCCTAGCTTTTACATGGGATAAACTAGAACATT
* * *
1085993 TCCCTAGCTTTTACATGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACATGGGATAAACTAGAACATT
1086027 TCCC
1 TCCC
1086031 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (34 bp):
TCCCTAGCTTTTACATGGGATAAACTAGAACATT
Done.