Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 328 of 373
Found at i:110234673 original size:26 final size:26
Alignment explanation
Indices: 110234625--110234675 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
110234615 GAGGACATTT
* * **
110234625 CCGTGTTTATTGTCCCAGTGGACTAC
1 CCGTGTTTACTATCCCAACGGACTAC
110234651 CCGTGTTTACTATCCCAACGGACTA
1 CCGTGTTTACTATCCCAACGGACTA
110234676 TACTAGTTGC
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:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (26 bp):
CCGTGTTTACTATCCCAACGGACTAC
Found at i:110239798 original size:49 final size:51
Alignment explanation
Indices: 110239738--110239835 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 51
110239728 ACACACTTGG
* *
110239738 GCACTAAGTGCCAAGCCCGTAGGC-TAACATCC-CTCCGAAACACACCTCC
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
* * * *
110239787 GCACTGAGTGCCAAGTCCGAAGGCTTTACATCCACCCCGAACCACACCT
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCT
110239836 GAATCACTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 21 0.51
50 7 0.17
51 13 0.32
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.15
Consensus pattern (51 bp):
GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
Found at i:110249014 original size:18 final size:18
Alignment explanation
Indices: 110248993--110249034 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
110248983 TAATTTAAAG
110248993 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
110249011 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
110249029 TGTAAA
1 TATAAA
110249035 AACAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:110261975 original size:40 final size:40
Alignment explanation
Indices: 110261897--110262047 Score: 177
Period size: 40 Copynumber: 3.8 Consensus size: 40
110261887 TTTAGTGGCT
* *
110261897 TTAGCGGCGCTTTTT-AAAAATGCTGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
*
110261936 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
* * * *
110261976 TTAGCGGCGTTTTTTTAAAAACGCCGCTATATG-TAC-ACCT-
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTA-AAGAT-CGA-GTA
110262016 TTAGCGGCGCTTTTTGAAAAACGCCGC-AAAGA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGA
110262048 ATTTTGCAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 16 0.17
40 74 0.77
41 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
Found at i:110262506 original size:22 final size:22
Alignment explanation
Indices: 110262476--110262540 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
110262466 TTAATGGCTA
*
110262476 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
110262499 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
* *
110262521 GGGACAGGGGTTAAGGGTTA
1 GGGATAGGGGTTAAGCGTTA
110262541 GAGGTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.48, T:0.25
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:110262625 original size:15 final size:14
Alignment explanation
Indices: 110262610--110262658 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
110262600 GTGATGGGGT
*
110262610 TTAAGGTTTAGGGG
1 TTAAGGTTTAAGGG
110262624 TT-AGGTGTTAAGGG
1 TTAAGGT-TTAAGGG
*
110262638 TTTATGGTTTAAGGG
1 -TTAAGGTTTAAGGG
110262653 TTAAGG
1 TTAAGG
110262659 GATATGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 9 0.31
16 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
TTAAGGTTTAAGGG
Found at i:110262646 original size:29 final size:28
Alignment explanation
Indices: 110262606--110262726 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 28
110262596 TTATGTGATG
*
110262606 GGGTTTAAGGTTTAGGGGTTAGGTGTTAA
1 GGGTTTATGGTTTAGGGGTTAGG-GTTAA
* * *
110262635 GGGTTTATGGTTTAAGGGTTAAGGGATAT
1 GGGTTTATGGTTTAGGGGTT-AGGGTTAA
* *
110262664 GGG-TTATGAGTTTAGGGTTTAGGATTTAA
1 GGGTTTATG-GTTTAGGGGTTAGG-GTTAA
* *
110262693 -GATTTAGTGG--TAGGGGTTAGAGGTTTA
1 GGGTTTA-TGGTTTAGGGGTTAG-GGTTAA
110262720 GGGTTTA
1 GGGTTTA
110262727 GATTAATCAA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
27 12 0.17
28 15 0.21
29 39 0.55
30 5 0.07
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (28 bp):
GGGTTTATGGTTTAGGGGTTAGGGTTAA
Found at i:110262658 original size:43 final size:43
Alignment explanation
Indices: 110262618--110262727 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 43
110262608 GTTTAAGGTT
*
110262618 TAGGGGTTAGGTGTTAAGGGTTTATGG-TTTAAGGGTTAAGGGA
1 TAGGGGTTAGGAGTTAAGGGTTTA-GGATTTAAGGGTTAAGGGA
* * * * *
110262661 TATGGGTTATGAGTTTAGGGTTTAGGATTTAA-GATTTAGTGG-
1 TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAG-GGA
*
110262703 TAGGGGTTA-GAGGTTTAGGGTTTAG
1 TAGGGGTTAGGA-GTTAAGGGTTTAG
110262728 ATTAATCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 28 0.49
43 27 0.47
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (43 bp):
TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAGGGA
Found at i:110263164 original size:18 final size:18
Alignment explanation
Indices: 110263141--110263184 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
110263131 CCCAAAATAG
* *
110263141 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
110263159 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
110263177 ATTTCCCC
1 ATTTCCCC
110263185 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:110266998 original size:21 final size:21
Alignment explanation
Indices: 110266972--110267029 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
110266962 TGATTAGTAT
110266972 ACGACACATAAAGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
* * * * *
110266993 ACGACAC--GAGGTGCTTGAT
1 ACGACACATAAAGTGCCTAAA
110267012 ACGACACATAAAGTGCCT
1 ACGACACATAAAGTGCCT
110267030 GATCGATAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:110267032 original size:21 final size:21
Alignment explanation
Indices: 110266970--110267032 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
110266960 CTTGATTAGT
*
110266970 ATACGACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTG
* * * *
110266991 AAACGACAC--GAGGTGCTTG
1 ATACGACACATAAAGTGCCTG
110267010 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
110267031 AT
1 AT
110267033 CGATAAAGCC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:110267427 original size:15 final size:15
Alignment explanation
Indices: 110267402--110267459 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
110267392 TCATATATAT
110267402 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
110267418 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
110267433 AATAATTTCAATCAA
1 TATAAATTCAATCAA
110267448 TATAAATTCAAT
1 TATAAATTCAAT
110267460 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:110268744 original size:5 final size:5
Alignment explanation
Indices: 110268736--110268780 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
110268726 GTTTATATAC
110268736 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
110268781 TAAAACATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:110269901 original size:15 final size:15
Alignment explanation
Indices: 110269881--110269914 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
110269871 TAATTTGATG
*
110269881 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
110269896 TTTGGATGTACCATT
1 TTTGGATGTACCATT
110269911 TTTG
1 TTTG
110269915 TTCATCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:110274067 original size:90 final size:89
Alignment explanation
Indices: 110273908--110274155 Score: 250
Period size: 90 Copynumber: 2.8 Consensus size: 89
110273898 AGTTTCTTGT
* * * * *
110273908 TCTTAATTAGTTCATAGCCTAGAGTTTTGGTGGTCCTACTAAG-TGGACTTGATGAATTCACCGA
1 TCTTAATGAGTTCATATCCTA-AGGTTTGGTGGTTCTACTAAGATGGACTTGATGAACTCACCGA
* * * *
110273972 TTTTATAGGATGAACTACTAGATGC
65 ATTTATAGGATGAACCACTAAATAC
* * * *
110273997 TCTTAATGAGTTCATATCCTAAGGTTTGGATGGTTATATTGAGATGGACTTGATGAAC-CTACTG
1 TCTTAATGAGTTCATATCCTAAGGTTTGG-TGGTTCTACTAAGATGGACTTGATGAACTC-ACCG
* *
110274061 AATTTATAGGATGAGCCACTAAATAT
64 AATTTATAGGATGAACCACTAAATAC
* * * * *
110274087 TCTTAATGAATTCATATCC-CAGGCTTTGGGTGGTTCTAGTAAGACGGACTTGATGAATTCACCG
1 TCTTAATGAGTTCATATCCTAAGG-TTT-GGTGGTTCTACTAAGATGGACTTGATGAACTCACCG
110274151 AATTT
64 AATTT
110274156 TTAAACTGGG
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 7 0.05
89 32 0.25
90 88 0.68
91 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (89 bp):
TCTTAATGAGTTCATATCCTAAGGTTTGGTGGTTCTACTAAGATGGACTTGATGAACTCACCGAA
TTTATAGGATGAACCACTAAATAC
Found at i:110275944 original size:10 final size:10
Alignment explanation
Indices: 110275900--110275958 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
110275890 AATTTTAGCT
110275900 TTTATCTTTA
1 TTTATCTTTA
* *
110275910 TTTGTCCTTA
1 TTTATCTTTA
*
110275920 TTTATCTATA
1 TTTATCTTTA
*
110275930 ATTATCTTTA
1 TTTATCTTTA
110275940 TTTAT-TTGTA
1 TTTATCTT-TA
110275950 TTTATCTTT
1 TTTATCTTT
110275959 TAGAAATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:110277725 original size:40 final size:39
Alignment explanation
Indices: 110277648--110277866 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 39
110277638 AAACCAAGTA
* * * *
110277648 CCTTCGGGATTTAGCCAGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTATAG-TAACTCGCACAAATG
110277687 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
110277727 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * *
110277767 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
* * * *
110277807 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
110277847 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
110277867 TATCATCCGA
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 18 0.11
40 148 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:110283441 original size:3 final size:3
Alignment explanation
Indices: 110283427--110283480 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
110283417 GACAATAAAG
*
110283427 AAT AAT AGT AAT AAT AAT AAT -AT AGAT AAT AAT -AT ATAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT
110283471 AAT AAT AAT A
1 AAT AAT AAT A
110283481 GTTAGAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 32 0.73
4 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:110283699 original size:3 final size:3
Alignment explanation
Indices: 110283691--110283740 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
110283681 TATAAATATG
* * *
110283691 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA AT- ATA GT- ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
110283737 ATA A
1 ATA A
110283741 AAGTAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:110283700 original size:15 final size:16
Alignment explanation
Indices: 110283682--110283719 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
110283672 AAATATAAGT
110283682 ATAAAT-ATGATAATA
1 ATAAATAATGATAATA
110283697 AT-AATAATGATAATA
1 ATAAATAATGATAATA
110283712 AT-AATAAT
1 ATAAATAAT
110283720 AATATAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
ATAAATAATGATAATA
Found at i:110284141 original size:17 final size:17
Alignment explanation
Indices: 110284083--110284145 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
110284073 AAAATAATAT
110284083 TAAAATATATATACGAGTAA
1 TAAAA-ATATATAC-A-TAA
* * * *
110284103 TAAAAAATGTATCCGTAT
1 T-AAAAATATATACATAA
110284121 TAAAAATATATACATAA
1 TAAAAATATATACATAA
110284138 TAAAAATA
1 TAAAAATA
110284146 CAATATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 20 0.59
18 3 0.09
20 7 0.21
21 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
TAAAAATATATACATAA
Found at i:110284315 original size:22 final size:22
Alignment explanation
Indices: 110284273--110284315 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
110284263 GTACATAACA
*
110284273 TAAATATCATACATATAATATC
1 TAAATATCATACATACAATATC
110284295 TAAATAT-ATACATACATATAT
1 TAAATATCATACATACA-ATAT
110284316 ATAGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATCATACATACAATATC
Found at i:110284484 original size:15 final size:14
Alignment explanation
Indices: 110284459--110284494 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
110284449 TAATAATACT
110284459 ATATAATATATATA
1 ATATAATATATATA
110284473 ATATACATATATATA
1 ATATA-ATATATATA
110284488 AGTATAA
1 A-TATAA
110284495 CAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:110285214 original size:18 final size:21
Alignment explanation
Indices: 110285190--110285242 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
110285180 AAACAAATTC
110285190 GAAAATAA-AATAAAAAG-AA
1 GAAAATAATAATAAAAAGAAA
*
110285209 -AAAATAATAATAAATAGAAA
1 GAAAATAATAATAAAAAGAAA
110285229 GAAAATAATAATAA
1 GAAAATAATAATAA
110285243 TGTAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 2 0.07
21 13 0.43
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
GAAAATAATAATAAAAAGAAA
Found at i:110285238 original size:24 final size:23
Alignment explanation
Indices: 110285197--110285243 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
110285187 TTCGAAAATA
110285197 AAATAAAAAGAAAAAATAATAAT
1 AAATAAAAAGAAAAAATAATAAT
*
110285220 AAATAGAAAGAAAATAATAATAAT
1 AAATAAAAAGAAAA-AATAATAAT
110285244 GTAATATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
AAATAAAAAGAAAAAATAATAAT
Found at i:110285529 original size:6 final size:6
Alignment explanation
Indices: 110285518--110285544 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
110285508 TGATTTAGGG
110285518 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
110285545 TTTGTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:110287028 original size:41 final size:41
Alignment explanation
Indices: 110286983--110287124 Score: 110
Period size: 41 Copynumber: 3.5 Consensus size: 41
110286973 GAGCAGTAGC
*
110286983 GGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAATTGT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
* * * * *
110287024 GGCGTTTTT-GGCCTAAACGCCGC-AAAAAGTTGGTCAATAGT
1 GGCGTTTTTAGTCC-AAACGCAGCTAAAAACTTAG-CAATTGT
* * * * * * * * *
110287065 GGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCAATTAT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
110287106 GGCGTTTTTA-TCCAAACGC
1 GGCGTTTTTAGTCCAAACGC
110287125 CGCAAAAGGT
Statistics
Matches: 74, Mismatches: 23, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
40 18 0.24
41 48 0.65
42 8 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
Found at i:110287053 original size:82 final size:82
Alignment explanation
Indices: 110286956--110287137 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 82
110286946 GTTTGCAAGA
* * * * *
110286956 AAACGTCGCAAAAAGTTGAG-CAGTAGCGGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAA
1 AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
* *
110287020 TTGTGGCGTTTTTGGCC
66 TTATGGCGTTTTTAGCC
* * * ** * *
110287037 TAAACGCCGCAAAAAGTTG-GTCAATAGTGGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCA
1 -AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCA
*
110287101 ATTATGGCGTTTTTATCC
65 ATTATGGCGTTTTTAGCC
*
110287119 AAACGCCGCAAAAGGTTGA
1 AAACGCCGCAAAAAGTTGA
110287138 ACTATAATGC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (82 bp):
AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
TTATGGCGTTTTTAGCC
Found at i:110287724 original size:21 final size:21
Alignment explanation
Indices: 110287673--110287725 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
110287663 TAAGTTTATA
*
110287673 GTTTAAGATTTGTTAATTTGG
1 GTTTAAGGTTTGTTAATTTGG
** *
110287694 GTTTGGGGTTTGTTATTTTGG
1 GTTTAAGGTTTGTTAATTTGG
110287715 GTTTAAGGTTT
1 GTTTAAGGTTT
110287726 AGGGTATATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
GTTTAAGGTTTGTTAATTTGG
Found at i:110287730 original size:14 final size:14
Alignment explanation
Indices: 110287713--110287791 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
110287703 TTGTTATTTT
110287713 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
* * *
110287727 GGGTATATGATTTTA
1 GGGTTTAAG-GTTTA
*
110287742 GGCTTT-AGAGTTTA
1 GGGTTTAAG-GTTTA
*
110287756 GGGTTTAATGTTTA
1 GGGTTTAAGGTTTA
** *
110287770 GTATTTTAGGTTTA
1 GGGTTTAAGGTTTA
*
110287784 GGGGTTAA
1 GGGTTTAA
110287792 AATTTGTTAT
Statistics
Matches: 46, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 37 0.80
15 9 0.20
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:110287782 original size:28 final size:28
Alignment explanation
Indices: 110287639--110287791 Score: 80
Period size: 28 Copynumber: 5.4 Consensus size: 28
110287629 TTACTTATAA
*
110287639 TTTAGGGTTTAATGTTTAGTATTTTAAG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
** * *
110287667 TTTATAGTTTAA-GATTT-GTTAATTTGGG
1 TTTAGGGTTTAATG-TTTAG-TATTTTAGG
* ** * * ** *
110287695 TTTGGGGTTTGTTATTTTGGGTTTAAGG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
* **
110287723 TTTAGGGTAT-ATGATTTTAG-GCTTTAGAG
1 TTTAGGGTTTAATG--TTTAGTATTTTAG-G
110287752 TTTAGGGTTTAATGTTTAGTATTTTAGG
1 TTTAGGGTTTAATGTTTAGTATTTTAGG
*
110287780 TTTAGGGGTTAA
1 TTTAGGGTTTAA
110287792 AATTTGTTAT
Statistics
Matches: 89, Mismatches: 27, Indels: 18
0.66 0.20 0.13
Matches are distributed among these distances:
27 3 0.03
28 63 0.71
29 20 0.22
30 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.51
Consensus pattern (28 bp):
TTTAGGGTTTAATGTTTAGTATTTTAGG
Found at i:110287802 original size:28 final size:29
Alignment explanation
Indices: 110287745--110287810 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
110287735 GATTTTAGGC
* **
110287745 TTTAGAGTTTAGGGTTTAATGTTTAGTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAGTAT
110287774 TTTAG-GTTTAGGGGTTAAAATTT-GTTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAG-TAT
110287802 TTT-GAGTTT
1 TTTAGAGTTT
110287811 GGAGTTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.06
28 25 0.78
29 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (29 bp):
TTTAGAGTTTAGGGGTTAAAATTTAGTAT
Found at i:110288343 original size:40 final size:40
Alignment explanation
Indices: 110288287--110288375 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
110288277 GCACTAGCAC
*
110288287 AAAAACGCCGCAATAGATCGAGAATAAGCAGCTCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
* * * *
110288327 AAAAACGCCGCTATAGATTGAGAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
110288367 AAAAACGCC
1 AAAAACGCC
110288376 ACAAAAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
Found at i:110292013 original size:29 final size:27
Alignment explanation
Indices: 110291945--110292014 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 27
110291935 ATATTAGATG
*
110291945 GTTATGCCAGTTGTTCAATTGTCTTCT
1 GTTATGCCAGTTGTTCTATTGTCTTCT
* *
110291972 TTTTTG---GTTGTTCTATTGTTCATTCT
1 GTTATGCCAGTTGTTCTATTG-TC-TTCT
110291998 GTTATGCCAGTTGTTCT
1 GTTATGCCAGTTGTTCT
110292015 TGCAGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 11 0.33
25 2 0.06
26 8 0.24
27 4 0.12
29 8 0.24
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.54
Consensus pattern (27 bp):
GTTATGCCAGTTGTTCTATTGTCTTCT
Found at i:110293708 original size:9 final size:9
Alignment explanation
Indices: 110293659--110293752 Score: 93
Period size: 9 Copynumber: 10.3 Consensus size: 9
110293649 CTTTGGATCT
110293659 TAACTTA-A
1 TAACTTACA
*
110293667 TAACTTATA
1 TAACTTACA
*
110293676 TATATCATATCA
1 TA-A-CTTA-CA
*
110293688 TGACTTACA
1 TAACTTACA
*
110293697 TAACTCACA
1 TAACTTACA
*
110293706 TAACATACA
1 TAACTTACA
110293715 TAACTTA-A
1 TAACTTACA
*
110293723 TAACTCACA
1 TAACTTACA
110293732 TAACTTACA
1 TAACTTACA
110293741 TAACTTACA
1 TAACTTACA
110293750 TAA
1 TAA
110293753 TAAATAAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.20
9 46 0.66
10 4 0.06
11 4 0.06
12 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:110293726 original size:26 final size:27
Alignment explanation
Indices: 110293659--110293752 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 27
110293649 CTTTGGATCT
* *
110293659 TAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATA-A-CATA-CA
*
110293688 TGACTTACATAACTCACATAACATACA
1 TAACTTACATAACTCACATAACATACA
*
110293715 TAACTTA-ATAACTCACATAACTTACA
1 TAACTTACATAACTCACATAACATACA
110293741 TAACTTACATAA
1 TAACTTACATAA
110293753 TAAATAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 25 0.43
27 12 0.21
28 4 0.07
29 7 0.12
30 10 0.17
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (27 bp):
TAACTTACATAACTCACATAACATACA
Found at i:110298832 original size:13 final size:14
Alignment explanation
Indices: 110298816--110298844 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
110298806 TTTTAAATAT
110298816 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
110298829 TTATAATGGTTTAA
1 TTATAATGGTTTAA
110298843 TT
1 TT
110298845 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:110299777 original size:43 final size:42
Alignment explanation
Indices: 110299619--110299840 Score: 159
Period size: 43 Copynumber: 5.2 Consensus size: 42
110299609 AACGGTACTT
* * *
110299619 TTAGCGGTGCTTGTGATAAAAGCGCCGCTAAAGGT-ACTGTTTT
1 TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCA-TG-TTC
* * * * *
110299662 TTAGTGGTGTTTGTGA-AAAAACACCACTAAAAGTCATGCTC
1 TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
* * * *
110299703 TATAGCGGAGTTTGTTTG-TAAAA-CTCTGCTAATGGTCATGTTC
1 T-TAGCGGTGTTTG--TGATAAAAGCACCGCTAAAGGTCATGTTC
*
110299746 GTTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGATCATGTTC
1 -TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
* ** *
110299789 TATAGCGGCGATTATG-GA-AAAAGCGTCACTAAAGGTCATGTTC
1 T-TAGCGGTG-TT-TGTGATAAAAGCACCGCTAAAGGTCATGTTC
110299832 TTTAGCGGT
1 -TTAGCGGT
110299841 ATTTTTTCAC
Statistics
Matches: 140, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
41 4 0.03
42 32 0.23
43 90 0.64
44 12 0.09
45 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGGTCATGTTC
Found at i:110301177 original size:7 final size:7
Alignment explanation
Indices: 110301165--110301206 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
110301155 AATTATTTAA
110301165 AAAATAT
1 AAAATAT
110301172 AAAATAT
1 AAAATAT
110301179 AAAATAT
1 AAAATAT
110301186 AAAATAAT
1 AAAAT-AT
110301194 AAAATAGT
1 AAAATA-T
110301202 AAAAT
1 AAAAT
110301207 TATATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:110304894 original size:140 final size:140
Alignment explanation
Indices: 110304650--110305005 Score: 543
Period size: 140 Copynumber: 2.5 Consensus size: 140
110304640 CTTTTTTAAA
* *
110304650 TGTTGGAATAGACTTGTCGACATACGCTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* *
110304715 CCTAAGGCAACGCTTAAATAAAAGTCGGCTTTATCCAACACTATACT-GACACTTTCGGGCCGAC
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTAT-CTCGACACTTTCGGACCGAC
*
110304779 ACTTTCCTATG
130 ACTTTCCTAAG
* *
110304790 TGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* * * * *
110304855 CCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGACACTTTTGGACCGACA
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
110304920 CTTTCCTAAG
131 CTTTCCTAAG
** * *
110304930 TGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGAGTTGGGATATGCATC
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
*
110304995 CCTAAGACAAC
66 CCTAAGGCAAC
110305006 ACTTGTTCAA
Statistics
Matches: 196, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
139 1 0.01
140 195 0.99
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (140 bp):
TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
CTTTCCTAAG
Found at i:110305108 original size:109 final size:109
Alignment explanation
Indices: 110304915--110305118 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 109
110304905 ACTTTTGGAC
* **
110304915 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
*
110304980 GTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
66 GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * *** * ** *
110305024 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
* * *
110305089 GTAGGTATATGCATGCCTAAGGCAACACTT
66 GTAGGGATATGCATCCCTAAGACAACACTT
110305119 AAATAAGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (109 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:110305213 original size:249 final size:249
Alignment explanation
Indices: 110304775--110305242 Score: 632
Period size: 249 Copynumber: 1.9 Consensus size: 249
110304765 ACTTTCGGGC
* *
110304775 CGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
110304840 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGAC
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
* * ***
110304905 ACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCT
131 ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
* *
110304970 TTGTATAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
196 TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * * * *** * * * *
110305024 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* *
110305089 GTAGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATG-CGGA
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTC-GA
** * ** *
110305153 CACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTC
130 CACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCC
*
110305218 TTTGGACAAGGGTTGGGATATGCAT
195 TTTGGACAAGAGTTGGGATATGCAT
110305243 GTCTAAGGCA
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
248 1 0.01
249 185 0.99
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (249 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:110308197 original size:40 final size:40
Alignment explanation
Indices: 110308134--110308360 Score: 337
Period size: 40 Copynumber: 5.7 Consensus size: 40
110308124 CAATTGAGGA
* *
110308134 TTATATCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
110308174 CTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
110308214 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
110308254 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
110308294 CTATTTCTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
110308334 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
110308361 ATTGGGTTGG
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:110312293 original size:30 final size:30
Alignment explanation
Indices: 110312257--110312317 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
110312247 TGTTACAAGC
*
110312257 TTGATTGGTATTAGAGCTAATTAGGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
110312287 TTGATTGGTATTAGAGCTAATTACGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
110312317 T
1 T
110312318 CGGTTCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (30 bp):
TTGATTGGTATTAGAGCTAATTACGTTTAG
Found at i:110319628 original size:21 final size:21
Alignment explanation
Indices: 110319604--110319643 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
110319594 TATTTTAGTT
110319604 TTTAGAGTTTAG-GGTTTTGTG
1 TTTAG-GTTTAGAGGTTTTGTG
110319625 TTTAGGTTTAGAGGTTTTG
1 TTTAGGTTTAGAGGTTTTG
110319644 ATAAAAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.53
Consensus pattern (21 bp):
TTTAGGTTTAGAGGTTTTGTG
Found at i:110320443 original size:9 final size:9
Alignment explanation
Indices: 110320432--110320489 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
110320422 GGATGAGGAT
*
110320432 GAAGAAGAT
1 GAAGAAGAA
*
110320441 GAAGAAGAC
1 GAAGAAGAA
*
110320450 GAAGACGAA
1 GAAGAAGAA
110320459 GAAGAAGAA
1 GAAGAAGAA
*
110320468 GAAGACGAA
1 GAAGAAGAA
* *
110320477 GACGAAGAT
1 GAAGAAGAA
110320486 GAAG
1 GAAG
110320490 CCGACGCCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (9 bp):
GAAGAAGAA
Found at i:110320444 original size:6 final size:6
Alignment explanation
Indices: 110320432--110320489 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
110320422 GGATGAGGAT
* * * * *
110320432 GAAGAA GATGAA GAAGAC GAAGAC GAAGAA GAAGAA GAAGAC GAAGAC
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
*
110320480 GAAGAT GAAG
1 GAAGAA GAAG
110320490 CCGACGCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (6 bp):
GAAGAA
Found at i:110320462 original size:18 final size:18
Alignment explanation
Indices: 110320441--110320489 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
110320431 TGAAGAAGAT
*
110320441 GAAGAAGACGAAGACGAA
1 GAAGAAGAAGAAGACGAA
110320459 GAAGAAGAAGAAGACGAA
1 GAAGAAGAAGAAGACGAA
* *
110320477 GACGAAGATGAAG
1 GAAGAAGAAGAAG
110320490 CCGACGCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.35, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAGAAGACGAA
Found at i:110320468 original size:24 final size:24
Alignment explanation
Indices: 110320432--110320489 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
110320422 GGATGAGGAT
*
110320432 GAAGAAGATGAAGAAGACGAAGAC
1 GAAGAAGAAGAAGAAGACGAAGAC
110320456 GAAGAAGAAGAAGAAGACGAAGAC
1 GAAGAAGAAGAAGAAGACGAAGAC
*
110320480 GAAGATGAAG
1 GAAGAAGAAG
110320490 CCGACGCCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.34, T:0.03
Consensus pattern (24 bp):
GAAGAAGAAGAAGAAGACGAAGAC
Found at i:110322981 original size:34 final size:35
Alignment explanation
Indices: 110322918--110323102 Score: 99
Period size: 35 Copynumber: 5.2 Consensus size: 35
110322908 AGAAAATAAA
* *
110322918 TGCCTTAGACGTGTTTAT-TCCAACCTTTTT-AAGAT
1 TGCCTTAAACGGGTTTATCT-CAA-CTTTTTAAAGAT
** * *
110322953 TGTTTTAAATGGGTTTATCTCAACTTTTTAAAGGT
1 TGCCTTAAACGGGTTTATCTCAACTTTTTAAAGAT
* *
110322988 TGCCTTAAACGGGTTTATTTTAACTTTTTTAAA-AGT
1 TGCCTTAAACGGGTTTATCTCAAC-TTTTTAAAGA-T
* * * * * *
110323024 TGTCTTAGACAAGGTATATCTTAACCTTTTT-AAGGT
1 TGCCTTAAAC-GGGTTTATCTCAA-CTTTTTAAAGAT
** * * * *
110323060 TGTATTAGACGGTTTTATCTCAGCCTTTTTAAAGGT
1 TGCCTTAAACGGGTTTATCTCA-ACTTTTTAAAGAT
110323096 TGCCTTA
1 TGCCTTA
110323103 GACAAGGTCT
Statistics
Matches: 115, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
34 6 0.05
35 53 0.46
36 40 0.35
37 15 0.13
38 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (35 bp):
TGCCTTAAACGGGTTTATCTCAACTTTTTAAAGAT
Found at i:110323054 original size:37 final size:36
Alignment explanation
Indices: 110322964--110323106 Score: 139
Period size: 36 Copynumber: 4.0 Consensus size: 36
110322954 GTTTTAAATG
* * *
110322964 GGTTTATCTCAA-CTTTTTAAAGGTTGCCTTAAACG
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
* * * *
110322999 GGTTTATTTTAACTTTTTTAAAAGTTGTCTTAGACAA
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGAC-A
* **
110323036 GGTATATCTTAACCTTTTT-AAGGTTGTATTAGAC-
1 GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
* *
110323070 GGTTTTATCTCAGCCTTTTTAAAGGTTGCCTTAGACA
1 GG-TTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
110323107 AGGTCTATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
34 2 0.02
35 24 0.28
36 44 0.51
37 16 0.19
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (36 bp):
GGTTTATCTTAACCTTTTTAAAGGTTGCCTTAGACA
Found at i:110323069 original size:36 final size:37
Alignment explanation
Indices: 110322968--110323127 Score: 125
Period size: 36 Copynumber: 4.4 Consensus size: 37
110322958 TAAATGGGTT
* * * * *
110322968 TATCTCAA-CTTTTTAAAGGTTGCCTTAAAC-GGGTT
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
* * *
110323003 TATTTTAACTTTTTTAAAAGTTGTCTTAGACAAGGTA
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
* *
110323040 TATCTTAACCTTTTT-AAGGTTGTATTAGAC--GGTTT
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGG-TA
* * * *
110323075 TATCTCAGCCTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
*
110323112 TAT-TCTAGCCTTTTTA
1 TATCT-TAACCTTTTTA
110323128 GGGTTGCTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.02
35 20 0.20
36 45 0.45
37 30 0.30
38 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (37 bp):
TATCTTAACCTTTTTAAAGGTTGTCTTAGACAAGGTA
Found at i:110323077 original size:72 final size:72
Alignment explanation
Indices: 110322968--110323166 Score: 195
Period size: 72 Copynumber: 2.8 Consensus size: 72
110322958 TAAATGGGTT
* * * * * *
110322968 TATCTCAA-CTTTTTAAAGGTTGCCTTAAACGGGTTTATTTTAACTTTTTTAAAAGTTGTCTTAG
1 TATCTTAACCTTTTT-AAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAG
110323032 ACAAGGTA
65 ACAAGGTA
* * * * *
110323040 TATCTTAACCTTTTTAAGGTTGTATTAGACGGTTTTATCTCAGCCTTTTTAAAGGTTGCCTTAGA
1 TATCTTAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAGA
*
110323105 CAAGGTC
66 CAAGGTA
* * * * * * *
110323112 TAT-TCTAGCCTTTTTAGGGTTGCTTTAAATGGGTCTATCCCAACCTTTTTTAAAG
1 TATCT-TAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAG
110323167 GTCAGCATTG
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
71 1 0.01
72 94 0.93
73 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (72 bp):
TATCTTAACCTTTTTAAGGTTGCATTAAACGGGTTTATCTCAACCTTTTTAAAAGTTGCCTTAGA
CAAGGTA
Found at i:110326671 original size:19 final size:20
Alignment explanation
Indices: 110326639--110326677 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
110326629 AACATTTATC
* *
110326639 TTGTATTTTTATTAT-TTTA
1 TTGTATTGTAATTATGTTTA
110326658 TTGTATTGTAATTATGTTTA
1 TTGTATTGTAATTATGTTTA
110326678 AAGAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTGTATTGTAATTATGTTTA
Found at i:110327043 original size:11 final size:11
Alignment explanation
Indices: 110327029--110327102 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
110327019 TTTTGATACA
110327029 TTTTATAATTT
1 TTTTATAATTT
*
110327040 TTTTATGA--T
1 TTTTATAATTT
*
110327049 TTTTATAA--A
1 TTTTATAATTT
* *
110327058 ATTTACAATTT
1 TTTTATAATTT
110327069 TTTATATAA--T
1 TTT-TATAATTT
110327079 TTTTATAATTT
1 TTTTATAATTT
*
110327090 TTTTATAGTTT
1 TTTTATAATTT
110327101 TT
1 TT
110327103 AATATTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
9 19 0.39
10 4 0.08
11 22 0.45
12 4 0.08
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:110327081 original size:49 final size:48
Alignment explanation
Indices: 110327028--110327139 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 48
110327018 TTTTTGATAC
*
110327028 ATTTTATAATTTTTTTATGATTTTTATAAAATTTACA-ATTTTTTATATAA
1 ATTTTATAATTTTTTTAT-AGTTTT-TAAAATTTACATATTTTTTAT-TAA
* * **
110327078 TTTTTATAATTTTTTTATAGTTTTTAATATTTTTATATTTTTTATTAA
1 ATTTTATAATTTTTTTATAGTTTTTAAAATTTACATATTTTTTATTAA
110327126 ATTTTAATAATTTT
1 ATTTT-ATAATTTT
110327140 ATAACTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 15 0.28
49 22 0.41
50 17 0.31
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (48 bp):
ATTTTATAATTTTTTTATAGTTTTTAAAATTTACATATTTTTTATTAA
Found at i:110327087 original size:9 final size:9
Alignment explanation
Indices: 110327029--110327174 Score: 77
Period size: 9 Copynumber: 15.4 Consensus size: 9
110327019 TTTTGATACA
110327029 TTTTATAATTT
1 TTTTATAA--T
*
110327040 TTTTATGAT
1 TTTTATAAT
*
110327049 TTTTATAAA
1 TTTTATAAT
* *
110327058 ATTTACAATTT
1 TTTTATAA--T
110327069 TTTATATAAT
1 TTT-TATAAT
110327079 TTTTATAATTT
1 TTTTATAA--T
*
110327090 TTTTATAGT
1 TTTTATAAT
110327099 TTTTA-ATAT
1 TTTTATA-AT
*
110327108 TTTTATATT
1 TTTTATAAT
110327117 TTTTATTAAAT
1 TTTTA-T-AAT
*
110327128 TTTAATAA-
1 TTTTATAAT
*
110327136 TTTTATAAC
1 TTTTATAAT
110327145 TTTTAT--T
1 TTTTATAAT
110327152 TATTTAT-AT
1 T-TTTATAAT
110327161 TATTTATAAT
1 T-TTTATAAT
110327171 TTTT
1 TTTT
110327175 TTGCCACATG
Statistics
Matches: 107, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
7 1 0.01
8 13 0.12
9 56 0.52
10 10 0.09
11 23 0.21
12 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:110327101 original size:20 final size:20
Alignment explanation
Indices: 110327029--110327176 Score: 90
Period size: 20 Copynumber: 7.2 Consensus size: 20
110327019 TTTTGATACA
* *
110327029 TTTTATAATTTTT-TTATGAT
1 TTTTATAATTTTTATAAT-TT
** *
110327049 TTTTATAAAATTTACAATTT
1 TTTTATAATTTTTATAATTT
110327069 TTTATATAATTTTTATAATTT
1 TTT-TATAATTTTTATAATTT
* *
110327090 TTTTAT-AGTTTT-TAATAT
1 TTTTATAATTTTTATAATTT
* *
110327108 TTTTATATTTTTTATTAA-AT
1 TTTTATAATTTTTA-TAATTT
*
110327128 TTTAATAA-TTTTATAACTTT
1 TTTTATAATTTTTATAA-TTT
110327148 TATTTATTTATATTATTTATAATTT
1 T-TTTA--TA-ATT-TTTATAATTT
110327173 TTTT
1 TTTT
110327177 GCCACATGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.14
19 14 0.14
20 28 0.28
21 25 0.25
23 2 0.02
24 4 0.04
25 5 0.05
26 7 0.07
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTATAATTT
Found at i:110327110 original size:28 final size:27
Alignment explanation
Indices: 110327028--110327176 Score: 100
Period size: 28 Copynumber: 5.6 Consensus size: 27
110327018 TTTTTGATAC
*
110327028 ATTTTATAATTTTTTTATGATTTTTATAA
1 ATTTTATAATTTTTTTAT-ATTTTTA-AT
* *
110327057 AATTTACAA-TTTTTTATA----TAAT
1 ATTTTATAATTTTTTTATATTTTTAAT
110327079 -TTTTATAATTTTTTTATAGTTTTTAAT
1 ATTTTATAATTTTTTTATA-TTTTTAAT
* *
110327106 ATTTTTATATTTTTTATTA-AATTTTAAT
1 A-TTTTATAATTTTT-TTATATTTTTAAT
* * *
110327134 AATTTTATAACTTTTATT-TATTTATATT
1 -ATTTTATAA-TTTTTTTATATTTTTAAT
110327162 A-TTTATAATTTTTTT
1 ATTTTATAATTTTTTT
110327177 GCCACATGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
21 6 0.06
22 10 0.11
23 2 0.02
25 6 0.06
26 7 0.07
27 6 0.06
28 30 0.32
29 25 0.26
30 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (27 bp):
ATTTTATAATTTTTTTATATTTTTAAT
Found at i:110329350 original size:11 final size:11
Alignment explanation
Indices: 110329334--110329362 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
110329324 TGACACAAAC
110329334 ATTGCTCAATA
1 ATTGCTCAATA
110329345 ATTGCTCAATA
1 ATTGCTCAATA
110329356 ATTGCTC
1 ATTGCTC
110329363 GCTACACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (11 bp):
ATTGCTCAATA
Found at i:110329352 original size:52 final size:52
Alignment explanation
Indices: 110329290--110329451 Score: 176
Period size: 52 Copynumber: 3.2 Consensus size: 52
110329280 AAGAGCGTGC
110329290 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
* * ** * **
110329342 ATAATTGCTCAATAA-TT-GCTC-GCTA-CACAT-CAACATAAAC-TT-CAAAAA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCA-ATGTGACACAAACATTGC--TCA
*
110329390 ATAATTCCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
1 ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
110329442 ATAATTGCTC
1 ATAATTGCTC
110329452 GCTACACATC
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 24 0.29
49 7 0.08
50 6 0.07
51 7 0.08
52 34 0.40
53 2 0.02
54 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (52 bp):
ATAATTGCTCAATAATTTAGTTCAGTTATCAATGTGACACAAACATTGCTCA
Found at i:110329830 original size:23 final size:23
Alignment explanation
Indices: 110329787--110329831 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
110329777 GCTATATTTG
*
110329787 TTTAAAATTCATGTAATAAATTA
1 TTTAAAATTCATGTAAGAAATTA
110329810 TTTAAAATTCAT-TAAAGAAATT
1 TTTAAAATTCATGT-AAGAAATT
110329832 TACAGTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTAAAATTCATGTAAGAAATTA
Found at i:110333651 original size:14 final size:14
Alignment explanation
Indices: 110333634--110333664 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
110333624 AATTACATAA
110333634 ATGATATTAGAAGT
1 ATGATATTAGAAGT
110333648 ATGATATTAGAAGT
1 ATGATATTAGAAGT
110333662 ATG
1 ATG
110333665 CTTGACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
ATGATATTAGAAGT
Found at i:110336622 original size:27 final size:27
Alignment explanation
Indices: 110336591--110336647 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
110336581 CCCTCTTTTC
*
110336591 AAAGCTTCAAGGATAAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
*
110336618 AAAGCTTAAAGGATCAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
110336645 AAA
1 AAA
110336648 TAGACAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.25, T:0.14
Consensus pattern (27 bp):
AAAGCTTAAAGGATAAGATGAAAAGGA
Found at i:110339264 original size:29 final size:31
Alignment explanation
Indices: 110339226--110339294 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
110339216 AAATAATATT
110339226 TCAGTCACTAA-ACTTT-C-AAAAGTGACAAA
1 TCAGTCACTAACA-TTTACGAAAAGTGACAAA
*
110339255 TCAGTTACTAACATTTACGAAAAGTGACAAA
1 TCAGTCACTAACATTTACGAAAAGTGACAAA
*
110339286 TCAATCACT
1 TCAGTCACT
110339295 CGAGCCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.38
30 2 0.06
31 19 0.56
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.26
Consensus pattern (31 bp):
TCAGTCACTAACATTTACGAAAAGTGACAAA
Found at i:110344678 original size:189 final size:189
Alignment explanation
Indices: 110344358--110344739 Score: 633
Period size: 189 Copynumber: 2.0 Consensus size: 189
110344348 TTCACAAATA
110344358 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* *
110344423 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
*
110344488 GGTTTTCAGACTCAGATACTGCCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
131 GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
* * *
110344547 GCAGCATTCTCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACTGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* * *
110344612 T-TCAGATTCTCCTGAAACCTTCGTTTCACACTGAA-CTCTCTCTACAGAATCAGGCAATGATGC
66 TCT-AGATTCTCCTGAAAACTTCGTTTCACACTGAACCT-TATCTACACAATCAGGCAATGATGC
* *
110344675 TGGGTTTTCAGACTCGGATACTACCTGTCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
129 TGGGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
110344736 GCAG
1 GCAG
110344740 TCACCCTGCC
Statistics
Matches: 180, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 3 0.02
189 177 0.98
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (189 bp):
GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
Found at i:110346911 original size:25 final size:22
Alignment explanation
Indices: 110346868--110346913 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
110346858 ACTCATTAAA
*
110346868 AAATTAATAATTTATATGTAAT
1 AAATTAATAATTTACATGTAAT
110346890 AAATTAATAACATTTGACATGTAA
1 AAATTAAT-A-ATTT-ACATGTAA
110346914 CATCCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 1 0.05
24 4 0.20
25 7 0.35
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (22 bp):
AAATTAATAATTTACATGTAAT
Found at i:110357666 original size:3 final size:3
Alignment explanation
Indices: 110357658--110357727 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
110357648 TATATATATA
* * **
110357658 TAT TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT T-T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
*
110357703 TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
110357728 AATAAATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.11
3 41 0.77
4 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:110358237 original size:12 final size:12
Alignment explanation
Indices: 110358222--110358263 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
110358212 AAAACAGAGG
110358222 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
110358234 AGAAAAAGGGAA
1 AGAAAAAGAGAA
110358246 AG-AAAAGA-AA
1 AGAAAAAGAGAA
110358256 AGGAAAAA
1 A-GAAAAA
110358264 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 3 0.12
11 6 0.23
12 17 0.65
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:110359001 original size:21 final size:21
Alignment explanation
Indices: 110358975--110359042 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
110358965 TTGTTTTGAG
110358975 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
110358996 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* *
110359014 GTACTGCATTGAATTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
110359036 TACTGAA
1 TACTGAA
110359043 GTAATGAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 2 0.06
21 13 0.36
22 7 0.19
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:110359008 original size:40 final size:40
Alignment explanation
Indices: 110358936--110359042 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
110358926 TTGAGACTGA
* * * *
110358936 TACTGAACTGAATTATGGAA-TACTGAATATTGTTTTGAG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
* *
110358975 TACTGAATTGAATTGTGAAGTTACTGAATATTGTTATGTG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
*
110359015 TACTGCATTGAATTGTGAAATTACTGAA
1 TACTGAATTGAATTGTGAAATTACTGAA
110359043 GTAATGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (40 bp):
TACTGAATTGAATTGTGAAATTACTGAATATTGTTATGAG
Found at i:110362760 original size:45 final size:44
Alignment explanation
Indices: 110362654--110362760 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 44
110362644 TGACTACTGT
* *
110362654 TACTGTTATCGTTACTATTACCAATTCGACAATTTGTGTCTCGAA
1 TACTGTTATCGTTACTGTTACAAATTCGAC-ATTTGTGTCTCGAA
* * *
110362699 TACTGTTACCGTTACTGTTACAAATTCAGTAC-TTTGTGTGTTGAA
1 TACTGTTATCGTTACTGTTACAAATTC-G-ACATTTGTGTCTCGAA
*
110362744 TACTGTTATTGTTACTG
1 TACTGTTATCGTTACTG
110362761 CTATCGTTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 50 0.94
46 1 0.02
47 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (44 bp):
TACTGTTATCGTTACTGTTACAAATTCGACATTTGTGTCTCGAA
Found at i:110368806 original size:3 final size:3
Alignment explanation
Indices: 110368773--110368844 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
110368763 AGATTATATA
* * **
110368773 TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
*
110368818 T-T TA- TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
110368845 AATAAATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:110368812 original size:16 final size:15
Alignment explanation
Indices: 110368765--110368844 Score: 51
Period size: 16 Copynumber: 5.3 Consensus size: 15
110368755 TTTTATTTAG
110368765 ATTATATATATT-A-T
1 ATTATAT-TATTAATT
* *
110368779 ATTATATAATTGATT
1 ATTATATTATTAATT
110368794 ATTATAATTATTAATT
1 ATTAT-ATTATTAATT
*
110368810 ATTATGGTT-TTATATT
1 ATTAT-ATTATTA-ATT
*
110368826 ATTATTAGTATT-ATT
1 ATTA-TATTATTAATT
110368841 ATTA
1 ATTA
110368845 AATAAATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
13 3 0.06
14 8 0.15
15 16 0.30
16 23 0.43
17 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTATATTATTAATT
Found at i:110369346 original size:12 final size:12
Alignment explanation
Indices: 110369331--110369373 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
110369321 AAAACAGAGG
110369331 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
110369343 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
110369355 AG-AAAAGAAAA
1 AGAAAAAGAGAA
110369366 AGGAAAAA
1 A-GAAAAA
110369374 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 8 0.31
12 14 0.54
13 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:110369363 original size:17 final size:18
Alignment explanation
Indices: 110369335--110369368 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
110369325 CAGAGGAGAA
110369335 AAAGAGAAAGAAAAAGGG
1 AAAGAGAAAGAAAAAGGG
110369353 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
110369369 AAAAACTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:110370425 original size:45 final size:45
Alignment explanation
Indices: 110370361--110370473 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
110370351 TGACTACTGC
110370361 TACTGTTACCGTTACTGTTACCA-ATTCAACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAGATTCAACACTTTGTGTGTCGAA
** *
110370406 TACTGTTACCGTTACTGTTACAGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
** *
110370451 TACTGTTATTGTTACTGCTACAG
1 TACTGTTACCGTTACTGTTACAG
110370474 TTACTGATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:110370464 original size:51 final size:49
Alignment explanation
Indices: 110370346--110370465 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 49
110370336 GAGACACTTA
* *
110370346 TGTGCTGACTACTGCTACTGTTACCGTTACTGTTACCAATTCAACACTTTG
1 TGTGTTGAATACTG-TA-TGTTACCGTTACTGTTACCAATTCAACACTTTG
* **
110370397 TGTGTCGAATAC----TGTTACCGTTACTGTTA-CAGATTCAGTACTTTG
1 TGTGTTGAATACTGTATGTTACCGTTACTGTTACCA-ATTCAACACTTTG
110370442 TGTGTTGAATACTGTTATTGTTAC
1 TGTGTTGAATACTG-TA-TGTTAC
110370466 TGCTACAGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
44 2 0.04
45 39 0.70
51 15 0.27
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (49 bp):
TGTGTTGAATACTGTATGTTACCGTTACTGTTACCAATTCAACACTTTG
Found at i:110384914 original size:36 final size:36
Alignment explanation
Indices: 110384874--110384954 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
110384864 TATTCCAACC
* *
110384874 GAAACACATCAGATGCTCATAATAACTAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
* * *
110384910 GAAACACATCAGATGCTTATACGATCCAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
110384946 GATAACACA
1 GA-AACACA
110384955 CCAATGTCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 33 0.85
37 6 0.15
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (36 bp):
GAAACACATCAGATGCTCATAAGAACCAATCCATCT
Found at i:110388530 original size:31 final size:29
Alignment explanation
Indices: 110388456--110388534 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
110388446 GACAAAAACC
* *
110388456 TTTTTCCTACATTTAATGTCTTAATGGCT
1 TTTTTCATACATTTAATGTCTTAACGGCT
* *
110388485 TTTTCCATACATTTAATGTCTTAACACGGTT
1 TTTTTCATACATTTAATGTCTT-A-ACGGCT
* *
110388516 TTTTTCTTAAATTTAATGT
1 TTTTTCATACATTTAATGT
110388535 ATTTTCCTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 20 0.49
30 1 0.02
31 20 0.49
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTTCATACATTTAATGTCTTAACGGCT
Found at i:110391591 original size:25 final size:24
Alignment explanation
Indices: 110391547--110391645 Score: 65
Period size: 25 Copynumber: 4.0 Consensus size: 24
110391537 AGCTTCCCGA
110391547 TATTGGCTCGCTTGAACTTTCCTGT
1 TATTGGCTCGCTTGAACTTTCC-GT
* *
110391572 TATTGGCTCG-TATGATCTTTTCGT
1 TATTGGCTCGCT-TGAACTTTCCGT
* * * * * *
110391596 TAATGGCTCTCTAGAGCTTCCCGA
1 TATTGGCTCGCTTGAACTTTCCGT
* * *
110391620 TACATGGCTCGCATGAGCTTTCCGT
1 TA-TTGGCTCGCTTGAACTTTCCGT
110391645 T
1 T
110391646 TATATGCTCA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 20 0.35
25 37 0.65
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.39
Consensus pattern (24 bp):
TATTGGCTCGCTTGAACTTTCCGT
Found at i:110404378 original size:52 final size:52
Alignment explanation
Indices: 110404317--110404417 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
110404307 GCAGATGTAC
*
110404317 GTCTGCATATGTGTGCATGTGGATGCCCCAACTCAGAATACCAGTTCCATAT
1 GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCATAT
*
110404369 GTCTGCATATGTGTGCATGTGGATACCCCAACTTAGAATACCAGTTCCA
1 GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCA
110404418 AACATATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (52 bp):
GTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCATAT
Found at i:110410843 original size:42 final size:42
Alignment explanation
Indices: 110410795--110410876 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
110410785 CTTCCTCAGC
110410795 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
110410837 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTC
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTC
110410877 TCATCCATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.35
Consensus pattern (42 bp):
CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTTCGT
Found at i:110411149 original size:9 final size:9
Alignment explanation
Indices: 110411135--110411203 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
110411125 AATAAGTATA
110411135 AAATTAACC
1 AAATTAACC
110411144 AAATTAACC
1 AAATTAACC
*
110411153 GAATTAACC
1 AAATTAACC
*
110411162 AAATTACCC
1 AAATTAACC
110411171 AAATTAACC
1 AAATTAACC
*
110411180 AAATTAATC
1 AAATTAACC
*
110411189 GAATTAACC
1 AAATTAACC
*
110411198 GAATTA
1 AAATTA
110411204 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (9 bp):
AAATTAACC
Found at i:110411182 original size:36 final size:36
Alignment explanation
Indices: 110411135--110411203 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
110411125 AATAAGTATA
110411135 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
1 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
* *
110411171 AAATTAACCAAATTAATCGAATTAACCGAATTA
1 AAATTAACCAAATTAACCGAATTAACCAAATTA
110411204 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (36 bp):
AAATTAACCAAATTAACCGAATTAACCAAATTACCC
Found at i:110411239 original size:5 final size:6
Alignment explanation
Indices: 110411224--110411262 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
110411214 ATTATATGTT
*
110411224 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA T
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA T
110411263 ATATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:110413798 original size:42 final size:42
Alignment explanation
Indices: 110413751--110413837 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
110413741 GTCTAGAATA
110413751 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
110413793 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
110413835 AAC
1 AAC
110413838 GAGAGAGTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (42 bp):
AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
Found at i:110421853 original size:3 final size:3
Alignment explanation
Indices: 110421845--110421877 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
110421835 TATTCCAATG
110421845 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
110421878 GTTTATGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:110425862 original size:22 final size:21
Alignment explanation
Indices: 110425834--110425875 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
110425824 TTTAATTTAC
*
110425834 TTTTTAATTATTTTACAATAAT
1 TTTTTAAATATTTTA-AATAAT
110425856 TTTTTAAATATTTTAAATAA
1 TTTTTAAATATTTTAAATAA
110425876 AAAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTAAATATTTTAAATAAT
Found at i:110426790 original size:18 final size:20
Alignment explanation
Indices: 110426742--110426792 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
110426732 ATTTAAGGCT
*
110426742 TTTTAAAATTTTTTAAATAG
1 TTTTAATATTTTTTAAATAG
* *
110426762 TTTGAAT-TTTTTT-TATA-
1 TTTTAATATTTTTTAAATAG
110426779 TTTTAATATTTTTT
1 TTTTAATATTTTTT
110426793 GAGTTTGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 6 0.23
20 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTTTTAAATAG
Found at i:110427217 original size:27 final size:27
Alignment explanation
Indices: 110427179--110427234 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
110427169 GGGATTTATC
*
110427179 TATTTTTATAATTTAATGAATTTTTAA
1 TATTTTTATAATTTAATGAATTTTAAA
* **
110427206 TATTTTTCTAATTTTTTGAATTTTAAA
1 TATTTTTATAATTTAATGAATTTTAAA
110427233 TA
1 TA
110427235 AATTTTTTTA
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:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTTTTATAATTTAATGAATTTTAAA
Found at i:110428855 original size:31 final size:31
Alignment explanation
Indices: 110428797--110428855 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
110428787 ATGACCAAAT
* * *
110428797 TAAAGTACAATGACTAAAATCATAACTTTTG
1 TAAACTACAATGACTAAAAGCAGAACTTTTG
*
110428828 TAAACTACAATGACTAATAGCAGAACTT
1 TAAACTACAATGACTAAAAGCAGAACTT
110428856 AACCTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (31 bp):
TAAACTACAATGACTAAAAGCAGAACTTTTG
Found at i:110431386 original size:29 final size:29
Alignment explanation
Indices: 110431353--110431411 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
110431343 GGTATGATAG
110431353 ATCAATATCCATCGATCAGTCAAAAACAT
1 ATCAATATCCATCGATCAGTCAAAAACAT
110431382 ATCAATATCCATCGATCAGTCAAAAACAT
1 ATCAATATCCATCGATCAGTCAAAAACAT
110431411 A
1 A
110431412 CTTTAGATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (29 bp):
ATCAATATCCATCGATCAGTCAAAAACAT
Found at i:110431642 original size:22 final size:22
Alignment explanation
Indices: 110431616--110431666 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
110431606 CGATAACTTA
*
110431616 AATAATT-TTTTTTAAATATTTT
1 AATAATTATTTTATAAA-ATTTT
110431638 AATAATTATTTTATAAAATTTT
1 AATAATTATTTTATAAAATTTT
110431660 AA-AATTA
1 AATAATTA
110431667 AACAATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATAATTATTTTATAAAATTTT
Found at i:110434408 original size:22 final size:22
Alignment explanation
Indices: 110434375--110434416 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
110434365 TAAATACGTT
110434375 ATTTAGGAGCCTTTGTGGCTGA
1 ATTTAGGAGCCTTTGTGGCTGA
110434397 ATTT-GGATGCCTTTGTGGCT
1 ATTTAGGA-GCCTTTGTGGCT
110434417 ATCTTGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.40
Consensus pattern (22 bp):
ATTTAGGAGCCTTTGTGGCTGA
Found at i:110439657 original size:36 final size:36
Alignment explanation
Indices: 110439577--110439667 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 36
110439567 TCGGAGCCAT
* * * *
110439577 TGGTGTGTTATCGGGTGGACTGGCTCGTATGAGCATC
1 TGGTGTG-TATCAGTTGGACTAGCTCGTATAAGCATC
**
110439614 TAATGTGTATCAGTTGGACTAGCTC-TCATAAGCATC
1 TGGTGTGTATCAGTTGGACTAGCTCGT-ATAAGCATC
* *
110439650 TGGTGTGTTTTAGTTGGA
1 TGGTGTGTATCAGTTGGA
110439668 ATATCGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
35 1 0.02
36 37 0.86
37 5 0.12
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.36
Consensus pattern (36 bp):
TGGTGTGTATCAGTTGGACTAGCTCGTATAAGCATC
Found at i:110445211 original size:24 final size:24
Alignment explanation
Indices: 110445179--110445250 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
110445169 TTGGATGGGA
110445179 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
*
110445203 AATGATTAGAGGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
110445227 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
110445251 TTATTAGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.29
Consensus pattern (24 bp):
AATGATTAGAAGATGAATTCTAAC
Found at i:110448633 original size:20 final size:20
Alignment explanation
Indices: 110448562--110448633 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
110448552 AAATTCATGG
* *
110448562 TTATGATTAGGATATGAGTA
1 TTATGATTTGGATTTGAGTA
* *
110448582 TTATGATTTTAGATGATTGAGTT
1 TTATGA-TTTGGAT--TTGAGTA
110448605 TTATGATTTGGATTTGAGTA
1 TTATGATTTGGATTTGAGTA
110448625 TTATGATTT
1 TTATGATTT
110448634 TAGATTCGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 21 0.49
21 5 0.12
22 6 0.14
23 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (20 bp):
TTATGATTTGGATTTGAGTA
Found at i:110450450 original size:13 final size:13
Alignment explanation
Indices: 110450425--110450456 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
110450415 ATAGCACATT
110450425 TCAAAAC-ATGCA
1 TCAAAACTATGCA
110450437 TCAAAACTATGCA
1 TCAAAACTATGCA
110450450 T-AAAACT
1 TCAAAACT
110450457 TAATATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:110460891 original size:16 final size:17
Alignment explanation
Indices: 110460870--110460905 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
110460860 TTATTTTAAA
110460870 AAATTTATAAAAAT-AT
1 AAATTTATAAAAATAAT
110460886 AAATTTATAAAAATAAT
1 AAATTTATAAAAATAAT
110460903 AAA
1 AAA
110460906 AAGCATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTTATAAAAATAAT
Found at i:110460981 original size:8 final size:8
Alignment explanation
Indices: 110460945--110460997 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
110460935 AAAAGTTGCA
110460945 ATATAATAT
1 ATATAA-AT
110460954 ATATAAAT
1 ATATAAAT
*
110460962 TTA-AAAT
1 ATATAAAT
*
110460969 TTATAAAT
1 ATATAAAT
110460977 ATATAGAAAT
1 ATAT--AAAT
110460987 ATATAAAT
1 ATATAAAT
110460995 ATA
1 ATA
110460998 AATTTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.18
8 18 0.46
9 6 0.15
10 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:110461014 original size:33 final size:33
Alignment explanation
Indices: 110460944--110461019 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
110460934 AAAAAGTTGC
* *
110460944 AATATA-ATATATATAAATTTAAAATTTATAAA
1 AATATAGAAATATATAAATATAAAATTTATAAA
*
110460976 TATATAGAAATATATAAATAT-AAATTTATAAAA
1 AATATAGAAATATATAAATATAAAATTTAT-AAA
110461009 AATATATGAAA
1 AATATA-GAAA
110461020 GAATTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 13 0.35
33 20 0.54
34 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
AATATAGAAATATATAAATATAAAATTTATAAA
Found at i:110461082 original size:31 final size:32
Alignment explanation
Indices: 110461040--110461103 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
110461030 CACATCTATA
* * *
110461040 TTGAATATGAACACTGA-TTGTCTAGATGCAT
1 TTGAATATGAACAATCATTTGTCTAGATCCAT
*
110461071 TTGAATTTGAACAATCATTTGTCTAGATCCAT
1 TTGAATATGAACAATCATTTGTCTAGATCCAT
110461103 T
1 T
110461104 ATTTGATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (32 bp):
TTGAATATGAACAATCATTTGTCTAGATCCAT
Found at i:110463100 original size:21 final size:21
Alignment explanation
Indices: 110463075--110463114 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110463065 GTTTATATTT
*
110463075 ATTAATCATATTTACTTAATG
1 ATTAATCATATTTAATTAATG
*
110463096 ATTAATCTTATTTAATTAA
1 ATTAATCATATTTAATTAA
110463115 AGGTAAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTAATCATATTTAATTAATG
Found at i:110466105 original size:26 final size:26
Alignment explanation
Indices: 110466056--110466108 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
110466046 GTAAACCAAC
*
110466056 TAATTATCTAAAAAAAGACTAAAAAA
1 TAATTATCTAAAAAAAGACAAAAAAA
* *
110466082 TAATTATCTAAGAAAAGGAAAAAAAAA
1 TAATTATCTAA-AAAAAGACAAAAAAA
110466109 CACTAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.21
Consensus pattern (26 bp):
TAATTATCTAAAAAAAGACAAAAAAA
Found at i:110468937 original size:17 final size:16
Alignment explanation
Indices: 110468896--110468937 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
110468886 CTCTCCCACT
110468896 ACTAAAATAAAAATAA
1 ACTAAAATAAAAATAA
110468912 ACTAGAAATAAAATAATAA
1 ACTA-AAAT-AAA-AATAA
110468931 AC-AAAAT
1 ACTAAAAT
110468938 CTTTAATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 4 0.17
19 7 0.30
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (16 bp):
ACTAAAATAAAAATAA
Found at i:110474180 original size:49 final size:49
Alignment explanation
Indices: 110474098--110474256 Score: 221
Period size: 49 Copynumber: 3.3 Consensus size: 49
110474088 ATAAATTATG
* * ** *
110474098 TTATGCATTTCTAAACTGGGTCTTCCATTGTCTACACTCTCATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
* *
110474147 TTATACATTGCTAAACTTCGTCTTCCATTGTCTATACTCTTATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
* *
110474196 TTATACATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTAT
1 TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
*
110474245 TTATCCA-TGCTA
1 TTATACATTGCTA
110474257 GAATGTCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 5 0.05
49 94 0.95
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (49 bp):
TTATACATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTAT
Found at i:110479631 original size:22 final size:23
Alignment explanation
Indices: 110479614--110479690 Score: 90
Period size: 22 Copynumber: 3.4 Consensus size: 23
110479604 TGTATACACG
110479614 TACATAATAA-AATATATACTAA
1 TACATAATAATAATATATACTAA
*
110479636 TACATAATAATAATA-ATAATAA
1 TACATAATAATAATATATACTAA
*
110479658 TA-ATAATAATAATAATAATAGTAA
1 TACATAATAATAAT-AT-ATACTAA
110479682 TAC-TAATAA
1 TACATAATAA
110479691 CACTAATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.23
22 19 0.40
23 4 0.08
24 14 0.29
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.32
Consensus pattern (23 bp):
TACATAATAATAATATATACTAA
Found at i:110479647 original size:3 final size:3
Alignment explanation
Indices: 110479617--110479709 Score: 102
Period size: 3 Copynumber: 31.3 Consensus size: 3
110479607 ATACACGTAC
*
110479617 ATA ATA A-A ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
110479663 ATA ATA ATA ATA ATA GTA ATA CTA ATA ACA CTA ATA AT- ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
110479709 A
1 A
110479710 CAAGGATATT
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.08
3 63 0.84
4 6 0.08
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:110481677 original size:56 final size:55
Alignment explanation
Indices: 110481557--110481729 Score: 294
Period size: 56 Copynumber: 3.1 Consensus size: 55
110481547 TAAAAGCAGA
*
110481557 TTTTGAAAAACA-GAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
110481611 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* *
110481667 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
110481722 TTTTGAAA
1 TTTTGAAA
110481730 GGTAGAAATT
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
54 12 0.11
55 48 0.43
56 52 0.46
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (55 bp):
TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:110481739 original size:55 final size:55
Alignment explanation
Indices: 110481557--110481743 Score: 288
Period size: 55 Copynumber: 3.4 Consensus size: 55
110481547 TAAAAGCAGA
110481557 TTTTGAAAAACAGAAATT-AAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
110481611 TTTTGAAAAACATG-AATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTTTGAAAAACA-GAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
110481667 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
***
110481722 TTTTGAAAGGTAGAAATTGAAA
1 TTTTGAAAAACAGAAATTGAAA
110481744 AAAAATAAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
54 16 0.13
55 54 0.45
56 51 0.42
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (55 bp):
TTTTGAAAAACAGAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:110481975 original size:168 final size:170
Alignment explanation
Indices: 110481667--110481989 Score: 479
Period size: 168 Copynumber: 1.9 Consensus size: 170
110481657 TGAGTTGATT
* * * **
110481667 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGG
1 TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * * * *
110481732 TAGAAATTGAAAAAAAATAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTC
66 CAGAAACTG---AAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTC
110481797 GCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
128 GCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
110481840 TTTTGAAAAACAGAAATT-AAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
110481904 CAGAAACTG-AAAATAGAAATTGAAAATACCTCTGCATGCCCCGAGGCTCAACTCACCTCTCGCA
66 CAGAAACTGAAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCA
110481968 ATATGAGTTGATTTTTTTGAAA
131 ATATGAGTTGATTTTTTTGAAA
110481990 ACATGAATTG
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
168 70 0.51
172 49 0.36
173 17 0.12
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (170 bp):
TTTTGAAAAACAGAAATTGAAAAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAACTGAAAAATAAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGG
Found at i:110482051 original size:89 final size:86
Alignment explanation
Indices: 110481690--110482159 Score: 402
Period size: 89 Copynumber: 5.4 Consensus size: 86
110481680 AAATTGAAAG
** *
110481690 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGGTAGAAATTGAAAAAAAATAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAT-G-AATTG---AAAAATAGAA
*
110481754 ATTGAAATTACCTCAGCGTGTCCTGA
61 ATTGAAATTACCTCAGCGTGTCATGA
* * * * ***
110481780 GGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGGTTTTG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATGAATTGAAAAATAGAAATTG
* ** **
110481845 AAA--A--ACAGAAAT-T-AAAA
65 AAATTACCTCAG-CGTGTCATGA
* *
110481862 GACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACA-GAAACTG-AAAATAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAACATG-AATTGAAAAATAGAAAT
* * * * **
110481924 TGAAAATACCTCTGCATGCCCCGA
63 TGAAATTACCTCAGCGTGTCATGA
110481948 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATGAATTGAGAAAATAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAACATGAATTGA-AAAATAGAAAT
* * *
110482013 TGCAATTACCTCAACGGGTCATGA
63 TGAAATTACCTCAGCGTGTCATGA
* * * ** * *
110482037 GGCTCAACTTACCTCTCGCATTATGAGTTGACTTTTTGAAAGGTAGAATTTTGAAAAACAAAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAT-GAA--TTGAAAAATAGAAAT
*
110482102 TGAAATTACCTCAGCGTGTCGTGA
63 TGAAATTACCTCAGCGTGTCATGA
*
110482126 GGCTCAACTCAACTCTCGCAATATGAGTTGATTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
110482160 CTGAGAACAG
Statistics
Matches: 303, Mismatches: 57, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
80 6 0.02
81 13 0.04
82 37 0.12
83 5 0.02
84 3 0.01
85 3 0.01
86 31 0.10
87 26 0.09
88 16 0.05
89 114 0.38
90 38 0.13
91 1 0.00
92 10 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (86 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATGAATTGAAAAATAGAAATTGA
AATTACCTCAGCGTGTCATGA
Found at i:110482184 original size:89 final size:87
Alignment explanation
Indices: 110481946--110482184 Score: 219
Period size: 89 Copynumber: 2.7 Consensus size: 87
110481936 TGCATGCCCC
* ** * *
110481946 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATGAATTGA-GAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGAAAAAAT-ACGAAAACAGA
* * *
110482010 AATTGCAATTACCTCAACGGGTCAT
63 AATTGAAATTACCTCAGCGTGTCAT
* * * * * * ** *
110482035 GAGGCTCAACTTACCTCTCGCATTATGAGTTGACTTTTTGAAAGGTAGAATTTTGAAAAACAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGAAAAAATACG-AAAACAGAA
*
110482100 ATTGAAATTACCTCAGCGTGTCGT
64 ATTGAAATTACCTCAGCGTGTCAT
* * *
110482124 GAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTCTGAGAACAGAAAAAATACCAAAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AA-AGAAAAAATACGAAAAC
110482185 CTGTCATTTG
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
88 21 0.17
89 95 0.79
90 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGAAAAAATACGAAAACAGAAAT
TGAAATTACCTCAGCGTGTCAT
Found at i:110484520 original size:9 final size:9
Alignment explanation
Indices: 110484506--110484544 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
110484496 TTAATCTCTC
110484506 TTTTTGTTT
1 TTTTTGTTT
110484515 TTTTTGTTTTT
1 TTTTTG--TTT
110484526 TTTTTGTTT
1 TTTTTGTTT
*
110484535 TTTTTCTTT
1 TTTTTGTTT
110484544 T
1 T
110484545 CATGACTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:110484528 original size:11 final size:11
Alignment explanation
Indices: 110484512--110484539 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
110484502 TCTCTTTTTG
110484512 TTTTTTTTGTT
1 TTTTTTTTGTT
110484523 TTTTTTTTGTT
1 TTTTTTTTGTT
110484534 TTTTTT
1 TTTTTT
110484540 CTTTTCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:110484529 original size:20 final size:20
Alignment explanation
Indices: 110484506--110484544 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
110484496 TTAATCTCTC
*
110484506 TTTTTGTTTTTTTTGTTTTT
1 TTTTTGTTTTTTTTCTTTTT
110484526 TTTTTGTTTTTTTTCTTTT
1 TTTTTGTTTTTTTTCTTTT
110484545 CATGACTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.90
Consensus pattern (20 bp):
TTTTTGTTTTTTTTCTTTTT
Found at i:110486726 original size:93 final size:93
Alignment explanation
Indices: 110486567--110486753 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
110486557 CAAGACCTTA
110486567 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
1 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
110486632 TTCATTCTTTCAATTCTCTCATTGAATT
66 TTCATTCTTTCAATTCTCTCATTGAATT
*
110486660 CCATCAGATCTCTCGTTTCTTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
1 CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
110486725 TTCATTCTTTCAATTCTCTCATTGAATT
66 TTCATTCTTTCAATTCTCTCATTGAATT
110486753 C
1 C
110486754 GGCCTCCATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (93 bp):
CCATCAGATCTCTCGTTTCCTGCTGTGATTTAGCCAACTGTTCTTGCAATTCTCTTTGGGCCTTT
TTCATTCTTTCAATTCTCTCATTGAATT
Found at i:110489067 original size:21 final size:22
Alignment explanation
Indices: 110489024--110489067 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
110489014 AGATATATGT
* * *
110489024 ATATATATAATATAATATTAAA
1 ATATATATAATACAACATAAAA
110489046 ATATA-ATAATACAACATAAAA
1 ATATATATAATACAACATAAAA
110489067 A
1 A
110489068 AAATACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATATAATACAACATAAAA
Found at i:110489413 original size:3 final size:3
Alignment explanation
Indices: 110489382--110489455 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
110489372 ATACACGTAC
* * *
110489382 ATA ATA AAA AT- ATA A-A CTA ATA CATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * *
110489426 ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110489456 CAAGGATATT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 5 0.09
3 47 0.85
4 3 0.05
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Done.