Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 347 of 349
Found at i:114522991 original size:17 final size:17
Alignment explanation
Indices: 114522969--114523002 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114522959 ATCCACTAAT
*
114522969 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
114522986 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
114523003 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:114527630 original size:17 final size:17
Alignment explanation
Indices: 114527608--114527641 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114527598 ATCCACTAAT
*
114527608 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
114527625 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
114527642 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:114529785 original size:4 final size:4
Alignment explanation
Indices: 114529770--114529805 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
114529760 AGAAAAAAAC
*
114529770 GTAT GCAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
114529806 TGATATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:114542777 original size:39 final size:38
Alignment explanation
Indices: 114542734--114542827 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
114542724 ACCAATATGG
**
114542734 CACCCAGTACCTCATCGG-ATAGTTTGAAGTAATAGTTGA
1 CACCCAGTACCTCATCGGCATAG-CCGAAGTAA-AGTTGA
** * *
114542773 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTTGG
1 CACCCAGTACCTCATCGGCATAGCCGAAGTAAAGTTGA
*
114542811 TACCCAGTACCTCATCG
1 CACCCAGTACCTCATCG
114542828 AATCTATCCG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 19 0.42
39 23 0.51
40 3 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTACCTCATCGGCATAGCCGAAGTAAAGTTGA
Found at i:114546774 original size:21 final size:22
Alignment explanation
Indices: 114546745--114546791 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
114546735 CAGAAGGAGT
*
114546745 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
114546767 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
114546788 GAGT
1 GAGT
114546792 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:114548093 original size:5 final size:5
Alignment explanation
Indices: 114548075--114548105 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
114548065 TTTCTTTTAT
114548075 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
114548106 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:114550568 original size:14 final size:14
Alignment explanation
Indices: 114550549--114550578 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
114550539 TACTTGATTG
114550549 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
114550563 TTAGTCCATTATTT
1 TTAGTCCATCATTT
114550577 TT
1 TT
114550579 GTGTCGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:114551163 original size:131 final size:132
Alignment explanation
Indices: 114550916--114551198 Score: 406
Period size: 131 Copynumber: 2.2 Consensus size: 132
114550906 TCATTCATTC
** * **
114550916 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGTGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCACGGAATCGTGCCCTAACGTG
* *
114550981 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCACATCTT
66 TAGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTT
114551046 -T
131 CT
* *
114551047 TAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCACGGAATCGTGCTCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCACGGAATCGTGCCCTAACGTG
* * * * * *
114551112 TAGGGTTGCAATTTCGCGTTTGCTCAAAGTAATTGAGTATCCCTTCAAAATTTCATTCATATCTT
66 TAGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTT
114551177 CT
131 CT
* *
114551179 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
114551199 GCAATATTTG
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
131 115 0.86
132 18 0.14
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCACGGAATCGTGCCCTAACGTG
TAGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTT
CT
Found at i:114551229 original size:131 final size:129
Alignment explanation
Indices: 114550916--114551271 Score: 311
Period size: 131 Copynumber: 2.7 Consensus size: 129
114550906 TCATTCATTC
* * *** * * ** *
114550916 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGTGGAATCGTGCCCTAACGTG
1 AAAAATTATTCAAAACGAAGACAAGATTCGACACTTAGAAATTC-ACGAATCGTGCACTAACGTG
*
114550981 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCACATCTT
65 -TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTT
114551046 T
129 T
* * * * * *
114551047 TAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCACGGAATCGTGCTCTAACGTG
1 AAAAATTATTCAAAACGAAGACAAGATTCGACACTTAGAAATTCAC-GAATCGTGCACTAACGTG
* * * * * *
114551112 TAGGGTTGCAATTTCGCGTTTGCTCAAAGTAATTGAGTATCCCTTCAAAATTTCATTCATATCTT
65 T-GGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTT
114551177 CT
129 -T
* * * * * * * *
114551179 AAAAATTATTTAAAACGAAGGCAATATTTGGCA-TTTGAAAATTCGA-GAATCATGCACTATCGT
1 AAAAATTATTCAAAACGAAGACAAGATTCGACACTTAG-AAATTC-ACGAATCGTGCACTAACGT
** * *
114551242 GCTGGGTTGTGATTTCTCATTTGCTCAAAA
64 G-TGGGTTGCAATTTCGCGTTTGCTCAAAA
114551272 CGATCGAACA
Statistics
Matches: 186, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
130 1 0.01
131 153 0.82
132 31 0.17
133 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (129 bp):
AAAAATTATTCAAAACGAAGACAAGATTCGACACTTAGAAATTCACGAATCGTGCACTAACGTGT
GGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACATCTTT
Found at i:114551393 original size:131 final size:130
Alignment explanation
Indices: 114551223--114551549 Score: 336
Period size: 130 Copynumber: 2.5 Consensus size: 130
114551213 TTGAAAATTC
* * * * * * *
114551223 GAGAATCATGCACTATCGTGCTGGGTTGTGATTTCTCATTTGCTCAAAACGATCGAACATTCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCAAAACAATCGAACATCCCTT
* * ** *
114551288 TATA-TCCTCACTCATGTTTATAAAAAATGC-TTAAAAACGAAGACGATGTTCAATGTTTGGCGA
66 CAGAGT-CTCACTCACATTT-TAAAAAAT-CTTTAAAAACGAAGACGATGTTCAATGTTTGACGA
114551351 TTT
128 TTT
* * * * *
114551354 GAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTGGTTCGAAACAATTGAAGATCCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCAAAACAATCGAACATCCCTT
* * ** * * * *
114551419 CGGAGTTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGCGATGTTCGATGTTTGACGATTT
66 CAGAGTCTCACTCACATTTTAAAAAATCTTTAAAAACGAAGACGATGTTCAATGTTTGACGATTT
* * *
114551484 GAGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTG-TCCAAAATAATCGAATATCTCC
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCT-CAAAACAATCGAACATC-CC
114551548 TT
64 TT
114551550 GGAATTTCGC
Statistics
Matches: 161, Mismatches: 31, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
129 2 0.01
130 90 0.56
131 68 0.42
132 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (130 bp):
GAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCAAAACAATCGAACATCCCTT
CAGAGTCTCACTCACATTTTAAAAAATCTTTAAAAACGAAGACGATGTTCAATGTTTGACGATTT
Found at i:114551568 original size:130 final size:130
Alignment explanation
Indices: 114551321--114551557 Score: 341
Period size: 130 Copynumber: 1.8 Consensus size: 130
114551311 AAAATGCTTA
* *
114551321 AAAACGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * * *
114551386 TTTTCATTGGTTCGAAACAATTGAAGATCCCTTCGGAGTTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGGAATTTCACACACATTTTCTAAAATCTTTC
* * *
114551451 AAAATGAAGGCGATGTTCGATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * *
114551516 TTTTCATTTGTCCAAAATAATCGAATATCTCCTT-GGAATTTC
66 TTTTCATTGGTCCAAAACAATCGAAGATC-CCTTCGGAATTTC
114551558 GCACGTATTT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
130 90 0.96
131 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (130 bp):
AAAACGAAGACGATGTTCAATGTTTGACGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGGTCCAAAACAATCGAAGATCCCTTCGGAATTTCACACACATTTTCTAAAATCTTTC
Found at i:114554723 original size:21 final size:22
Alignment explanation
Indices: 114554679--114554723 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
114554669 AGTATAAATA
*
114554679 TATATACATATATCATATAAGTT
1 TATATACA-ATATCATACAAGTT
*
114554702 TATATAC-ATATCATACATGTT
1 TATATACAATATCATACAAGTT
114554723 T
1 T
114554724 CCTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (22 bp):
TATATACAATATCATACAAGTT
Found at i:114567160 original size:54 final size:54
Alignment explanation
Indices: 114567078--114567186 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
114567068 TATTTTGATG
114567078 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
114567132 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
114567186 T
1 T
114567187 CGAGACATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (54 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:114567480 original size:90 final size:90
Alignment explanation
Indices: 114567309--114567562 Score: 208
Period size: 102 Copynumber: 2.7 Consensus size: 90
114567299 GGTCTGTTTT
* * **
114567309 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGTTTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTCAAATTCTGTACT
** *
114567374 TTCAGTTTATATTTTTTTCAAAAAC
66 TTCAAATTATAGTTTTTTCAAAAAC
* *
114567399 CAACTCATATTGCGAGAGGTGAGTTGAGCC-CTGGGCCACATGCCAAGGTATTTTCAAATTCTG-
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGG--ACACGCCAAGGTATTTTCAAATTCTGT
* * *
114567462 ACTTTCAAATTCTGTTTTTAATTTCTACTTGTCAAAAAT
63 ACTTTCAAA------TTAT-AGTT-T--TT-TCAAAAAC
** **
114567501 CAACTCATATTGCGAGAGGTGAGTTGAGTTTCAGGACACGCTGAGGTATTTT-AAATTTCTGT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTCAAA-TTCTGT
114567563 TTGTCAAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
89 1 0.01
90 32 0.24
91 5 0.04
92 23 0.18
97 3 0.02
98 4 0.03
99 4 0.03
100 19 0.15
101 2 0.02
102 37 0.28
103 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCAAGGTATTTTCAAATTCTGTACT
TTCAAATTATAGTTTTTTCAAAAAC
Found at i:114567808 original size:81 final size:81
Alignment explanation
Indices: 114567569--114567808 Score: 223
Period size: 85 Copynumber: 2.9 Consensus size: 81
114567559 CTGTTTGTCA
* * * * * *
114567569 AAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCCACTTTCAATTT
1 AAAATAAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATTT
*
114567634 CTGTTTTTAATGTCCGTTTT
66 CTGTTTTTAA----CGTTTC
* * * * ** * * **
114567654 TAAATAAACTCATTTTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGTCGAGGTATTTTCAAAAT
1 AAAATAAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATTT
*
114567719 CTGCTTTTAA-GTTTC
66 CTGTTTTTAACGTTTC
* *
114567734 AAAAGCT-AACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCATGTGTTGAGCTATTTTCAAT
1 AAAA--TAAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAAT
*
114567798 TTCTATTTTTA
64 TTCTGTTTTTA
114567809 CTTTCTGTTT
Statistics
Matches: 121, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
80 7 0.06
81 55 0.45
82 1 0.01
85 58 0.48
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (81 bp):
AAAATAAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATTT
CTGTTTTTAACGTTTC
Found at i:114569784 original size:22 final size:24
Alignment explanation
Indices: 114569751--114569808 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
114569741 CATACTTTTG
114569751 TTGTTATGTATATAT-TT-TAATA
1 TTGTTATGTATATATATTGTAATA
114569773 TTGTTA-GATATATATATTGTAATA
1 TTGTTATG-TATATATATTGTAATA
114569797 TTG-TATGTATAT
1 TTGTTATGTATAT
114569809 TTCTAATACC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 9 0.28
24 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (24 bp):
TTGTTATGTATATATATTGTAATA
Found at i:114570184 original size:24 final size:23
Alignment explanation
Indices: 114570130--114570188 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
114570120 TTCTCAATGT
* *
114570130 GTATATACTATGTAAATGTTTTA
1 GTATATAATATATAAATGTTTTA
*
114570153 GTACTATAATATATATATGTTTTTA
1 GTA-TATAATATATAAATG-TTTTA
*
114570178 TTATAT-ATATA
1 GTATATAATATA
114570189 CATTATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 8 0.27
24 15 0.50
25 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.51
Consensus pattern (23 bp):
GTATATAATATATAAATGTTTTA
Found at i:114572086 original size:20 final size:20
Alignment explanation
Indices: 114572061--114572110 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
114572051 TAAGCTTAAA
*
114572061 TTTAGGTTTGGGGTATAAGG
1 TTTAGGTTTGAGGTATAAGG
* *
114572081 TTTAGGTTTGAGGTTTGAGG
1 TTTAGGTTTGAGGTATAAGG
114572101 TTTAGAGTTT
1 TTTAG-GTTT
114572111 ATGATTGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (20 bp):
TTTAGGTTTGAGGTATAAGG
Found at i:114572166 original size:35 final size:35
Alignment explanation
Indices: 114572079--114572166 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
114572069 TGGGGTATAA
*
114572079 GGTTT-AGGTTTGAGG-TTTGAGGTTTAGAGTTTAT
1 GGTTTGAGGTTT-AGGATTTGAGGTTTAGAGTTCAT
* * * * * *
114572113 GATTGGATGTTCAAGATTTGAGGTTTAGGGTTCAT
1 GGTTTGAGGTTTAGGATTTGAGGTTTAGAGTTCAT
114572148 GGTTTGAGGTTTAGGATTT
1 GGTTTGAGGTTTAGGATTT
114572167 TGGATTTTGG
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
34 5 0.12
35 35 0.88
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.44
Consensus pattern (35 bp):
GGTTTGAGGTTTAGGATTTGAGGTTTAGAGTTCAT
Found at i:114572393 original size:14 final size:14
Alignment explanation
Indices: 114572374--114572411 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
114572364 TCGAACCCTA
114572374 AACCCCAAACTTTG
1 AACCCCAAACTTTG
114572388 AACCCCAAACTTTG
1 AACCCCAAACTTTG
*
114572402 AACCTCAAAC
1 AACCCCAAAC
114572412 CCAAATCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.37, G:0.05, T:0.18
Consensus pattern (14 bp):
AACCCCAAACTTTG
Found at i:114572416 original size:20 final size:21
Alignment explanation
Indices: 114572391--114572445 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
114572381 AACTTTGAAC
*
114572391 CCCAAACT-TTGAACCTCAAA
1 CCCAAACTCTCGAACCTCAAA
114572411 CCCAAA-TCTCGAACCTCAAA
1 CCCAAACTCTCGAACCTCAAA
* *
114572431 CACAAACACT-GAACC
1 CCCAAACTCTCGAACC
114572446 ATGAGCCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.15
Consensus pattern (21 bp):
CCCAAACTCTCGAACCTCAAA
Found at i:114572502 original size:7 final size:7
Alignment explanation
Indices: 114572440--114572512 Score: 78
Period size: 7 Copynumber: 10.7 Consensus size: 7
114572430 ACACAAACAC
*
114572440 TGAACCA
1 TGAACCT
* *
114572447 TGAGCCA
1 TGAACCT
*
114572454 TGAACCC
1 TGAACCT
114572461 TGAACC-
1 TGAACCT
114572467 TGAACC-
1 TGAACCT
114572473 TGAACCT
1 TGAACCT
114572480 TGAACCT
1 TGAACCT
114572487 TGAACCT
1 TGAACCT
*
114572494 TGAAACT
1 TGAACCT
*
114572501 TGAACTT
1 TGAACCT
114572508 TGAAC
1 TGAAC
114572513 ACGAACCCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
6 12 0.20
7 47 0.80
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (7 bp):
TGAACCT
Found at i:114572600 original size:81 final size:81
Alignment explanation
Indices: 114572489--114572644 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
114572479 TTGAACCTTG
* * *
114572489 AACCTTGAAACTTGAACTTTGAACACGAACCCAAACCTTGAACCCTAAAC-CTAAAACTTCAAGC
1 AACCTTGAAACTTGAACCTTGAACACGAACCCAAACCTTGAACCCCAAACTC-AAAACTTCAAAC
114572553 TCCAAACCCCGAATCTA
65 TCCAAACCCCGAATCTA
* * * *
114572570 AACCTTGAACCTCT-AACCTTGCACACGAACCCAAACCTTGAACCCCGAACTCAAAACTTTAAAC
1 AACCTTGAAACT-TGAACCTTGAACACGAACCCAAACCTTGAACCCCAAACTCAAAACTTCAAAC
114572634 TCCAAACCCCG
65 TCCAAACCCCG
114572645 GACCTTAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 64 0.97
82 2 0.03
ACGTcount: A:0.38, C:0.35, G:0.08, T:0.19
Consensus pattern (81 bp):
AACCTTGAAACTTGAACCTTGAACACGAACCCAAACCTTGAACCCCAAACTCAAAACTTCAAACT
CCAAACCCCGAATCTA
Found at i:114572736 original size:27 final size:27
Alignment explanation
Indices: 114572690--114572759 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
114572680 AACCATGAAC
*
114572690 TTGAGTTTAGAGTTTAAGGTTCGAGGT
1 TTGAGTTTTGAGTTTAAGGTTCGAGGT
114572717 TTGAGATTTTGAGTTT-AGGTTCGAGGT
1 TTGAG-TTTTGAGTTTAAGGTTCGAGGT
*
114572744 TTAGGGTTTTGAGTTT
1 TT-GAGTTTTGAGTTT
114572760 CGGATAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.46
Consensus pattern (27 bp):
TTGAGTTTTGAGTTTAAGGTTCGAGGT
Found at i:114572815 original size:22 final size:22
Alignment explanation
Indices: 114572790--114572831 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
114572780 ATTATGTGTT
114572790 AATGACATGAAAAAATTGTAGA
1 AATGACATGAAAAAATTGTAGA
* * *
114572812 AATGTCATTAAATAATTGTA
1 AATGACATGAAAAAATTGTA
114572832 AAGGAACCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (22 bp):
AATGACATGAAAAAATTGTAGA
Found at i:114577901 original size:31 final size:30
Alignment explanation
Indices: 114577859--114577950 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 30
114577849 AAATTGTTGT
* *
114577859 TAAGCCCTTCAAAATTTATGAAAATTTTAGC
1 TAAGCCTTTCAAAATTTTTGAAAATTTTA-C
* * * *
114577890 TAGGTCTTTCAAAATTTTTAGAAATTTTTAT
1 TAAGCCTTTCAAAATTTTT-GAAAATTTTAC
*
114577921 TAAGCCTCTCAAAATTTTTGAAAAATTTTA
1 TAAGCCTTTCAAAATTTTTG-AAAATTTTA
114577951 ATTAAACCGC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.02
31 39 0.80
32 9 0.18
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAGCCTTTCAAAATTTTTGAAAATTTTAC
Found at i:114577975 original size:30 final size:31
Alignment explanation
Indices: 114577898--114578044 Score: 133
Period size: 31 Copynumber: 4.8 Consensus size: 31
114577888 GCTAGGTCTT
* * *
114577898 TCAAAATTTTTAGAAATTTTTATTAAGCCTC
1 TCAAAATTTTTAAAAATTTTAATTAAACCTC
*
114577929 TCAAAATTTTTGAAAAATTTTAATTAAACCGC
1 TCAAAATTTTT-AAAAATTTTAATTAAACCTC
*
114577961 -C-AAATTTTATAAAAATTTTCATTAAACC-C
1 TCAAAATTTT-TAAAAATTTTAATTAAACCTC
* * *
114577990 TCCAAAAGTTTTGAAAGTTTTAATTAAACC-C
1 T-CAAAATTTTTAAAAATTTTAATTAAACCTC
* **
114578021 T-TAAATTTTTTGAAATTTTAATTA
1 TCAAAATTTTTAAAAATTTTAATTA
114578045 GCCCCTCAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
29 19 0.20
30 24 0.25
31 32 0.33
32 22 0.23
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (31 bp):
TCAAAATTTTTAAAAATTTTAATTAAACCTC
Found at i:114578016 original size:31 final size:30
Alignment explanation
Indices: 114577899--114578044 Score: 129
Period size: 30 Copynumber: 4.8 Consensus size: 30
114577889 CTAGGTCTTT
* *
114577899 CAAAATTTTTAGAAATTTTTATT-AAGCCTC
1 CAAAATTTTT-GAAATTTTAATTAAACCCTC
*
114577929 TCAAAATTTTTGAAAAATTTTAATTAAA-CCGC
1 -CAAAATTTTTG--AAATTTTAATTAAACCCTC
* *
114577961 C-AAATTTTATAAAAATTTTCATTAAACCCTC
1 CAAAATTTT-T-GAAATTTTAATTAAACCCTC
*
114577992 CAAAAGTTTTGAAAGTTTTAATTAAACCCT-
1 CAAAATTTTTGAAA-TTTTAATTAAACCCTC
* *
114578022 TAAATTTTTTGAAATTTTAATTA
1 CAAAATTTTTGAAATTTTAATTA
114578045 GCCCCTCAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
29 9 0.09
30 35 0.36
31 31 0.32
32 19 0.20
33 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (30 bp):
CAAAATTTTTGAAATTTTAATTAAACCCTC
Found at i:114578019 original size:61 final size:61
Alignment explanation
Indices: 114577901--114578055 Score: 165
Period size: 61 Copynumber: 2.6 Consensus size: 61
114577891 AGGTCTTTCA
* * * *
114577901 AAATTTTTAGAAATTTTTATTAAGCCTCTCAAAATTTTTGAAAAATTTTAATTAAACCGCC
1 AAATTTTTAAAAATTTTCATTAACCCTCTCAAAAGTTTTGAAAAATTTTAATTAAACCGCC
* *
114577962 AAATTTTATAAAAATTTTCATTAAACCCTC-CAAAAGTTTTG-AAAGTTTTAATTAAACC-CTT
1 AAATTTT-TAAAAATTTTCATT-AACCCTCTCAAAAGTTTTGAAAAATTTTAATTAAACCGC-C
** * *
114578023 AAATTTTTTGAAATTTTAATTAGCCC-CTCAAAA
1 AAATTTTTAAAAATTTTCATTAACCCTCTCAAAA
114578056 AGACAAACCT
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
58 1 0.01
59 9 0.11
60 12 0.15
61 30 0.38
62 22 0.28
63 6 0.08
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (61 bp):
AAATTTTTAAAAATTTTCATTAACCCTCTCAAAAGTTTTGAAAAATTTTAATTAAACCGCC
Found at i:114585609 original size:18 final size:18
Alignment explanation
Indices: 114585588--114585622 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
114585578 TTTTTCTTTT
114585588 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
114585606 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
114585623 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:114586561 original size:14 final size:13
Alignment explanation
Indices: 114586518--114586554 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
114586508 ATATACTTCG
114586518 ATTTTTTTTTTGA
1 ATTTTTTTTTTGA
*
114586531 ATTTTTTTTTTGG
1 ATTTTTTTTTTGA
114586544 ATTTTTTTTTT
1 ATTTTTTTTTT
114586555 CAAATTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTTTGA
Found at i:114590085 original size:18 final size:18
Alignment explanation
Indices: 114590064--114590098 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
114590054 TTTTTCTTTT
114590064 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
114590082 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
114590099 TTTCTATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:114591036 original size:14 final size:13
Alignment explanation
Indices: 114590995--114591029 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
114590985 TATACTTCGA
114590995 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
114591008 TTTTTTTTTGGAT
1 TTTTTTTTTGAAT
114591021 TTTTTTTTT
1 TTTTTTTTT
114591030 CAAATTTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:114596042 original size:8 final size:8
Alignment explanation
Indices: 114596029--114596070 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
114596019 CTTATATTGA
114596029 ACATACAC
1 ACATACAC
114596037 ACATACAC
1 ACATACAC
*
114596045 ACAT--AT
1 ACATACAC
*
114596051 ACATACAT
1 ACATACAC
114596059 ACATACAC
1 ACATACAC
114596067 ACAT
1 ACAT
114596071 GCATGCATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
8 25 0.83
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (8 bp):
ACATACAC
Found at i:114596054 original size:22 final size:22
Alignment explanation
Indices: 114596029--114596070 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
114596019 CTTATATTGA
114596029 ACATACACACATACACACATAT
1 ACATACACACATACACACATAT
*
114596051 ACATACATACATACACACAT
1 ACATACACACATACACACAT
114596071 GCATGCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (22 bp):
ACATACACACATACACACATAT
Found at i:114597604 original size:21 final size:21
Alignment explanation
Indices: 114597580--114597630 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
114597570 GAAATGGTAG
*
114597580 CAAAACAGTGAAAAATAACAA
1 CAAAACAATGAAAAATAACAA
* *
114597601 CAAAACAATGAGAAATAGCAA
1 CAAAACAATGAAAAATAACAA
*
114597622 GAAAACAAT
1 CAAAACAAT
114597631 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.65, C:0.14, G:0.12, T:0.10
Consensus pattern (21 bp):
CAAAACAATGAAAAATAACAA
Found at i:114604568 original size:18 final size:18
Alignment explanation
Indices: 114604531--114604569 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
114604521 TAAATTATTT
* *
114604531 AATATTTATTTTTATAAA
1 AATATTTATATTCATAAA
114604549 AATATTTATATTCATTAAA
1 AATATTTATATTCA-TAAA
114604568 AA
1 AA
114604570 GTTGGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTATATTCATAAA
Found at i:114608676 original size:34 final size:35
Alignment explanation
Indices: 114608610--114608677 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
114608600 AAATAGACAT
*
114608610 TTATATTTAATAACATAAAATAATTAATATTTTTA
1 TTATATTTAATAAAATAAAATAATTAATATTTTTA
* * *
114608645 TTAT-TTTAATAAAATTAATTAA-TAATAATTTTA
1 TTATATTTAATAAAATAAAATAATTAATATTTTTA
114608678 AATTCTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 10 0.34
34 15 0.52
35 4 0.14
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (35 bp):
TTATATTTAATAAAATAAAATAATTAATATTTTTA
Found at i:114609289 original size:3 final size:3
Alignment explanation
Indices: 114609281--114609308 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
114609271 CCTCGAAATT
114609281 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
114609309 GGAGACGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:114611636 original size:18 final size:18
Alignment explanation
Indices: 114611602--114611639 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
114611592 GCCTCCGTGG
*
114611602 TACTTTTACCTTTTTTTT
1 TACTTTTACCTTATTTTT
114611620 TACTTTT-CCTTGATTTTT
1 TACTTTTACCTT-ATTTTT
114611638 TA
1 TA
114611640 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (18 bp):
TACTTTTACCTTATTTTT
Found at i:114612717 original size:12 final size:12
Alignment explanation
Indices: 114612700--114612725 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114612690 TATAGCTTGC
114612700 AATGATGTTTTG
1 AATGATGTTTTG
114612712 AATGATGTTTTG
1 AATGATGTTTTG
114612724 AA
1 AA
114612726 CTTTGGGCAG
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (12 bp):
AATGATGTTTTG
Found at i:114617505 original size:4 final size:4
Alignment explanation
Indices: 114617496--114617532 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
114617486 CAAAAATAAC
*
114617496 CATA CATA CATA CATA CATA CAT- -ATA TATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
114617533 TGAATGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (4 bp):
CATA
Found at i:114619647 original size:47 final size:47
Alignment explanation
Indices: 114619578--114619671 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
114619568 GGGTAACATG
114619578 ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGT
1 ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGT
114619625 ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGT
1 ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGT
114619672 TTGGAGGGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.34
Consensus pattern (47 bp):
ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGT
Found at i:114619728 original size:131 final size:131
Alignment explanation
Indices: 114619494--114619755 Score: 497
Period size: 131 Copynumber: 2.0 Consensus size: 131
114619484 AGGTAACATG
114619494 ATCCGAAATGTGTTAGGTATAGCCAGTGGCAGATCTTGGGATTATGTTTGGAGGGCCTAATTAAA
1 ATCCGAAATGTGTTAGGTATAGCCAGTGGCAGATCTTGGGATTATGTTTGGAGGGCCTAATTAAA
*
114619559 ATTTTTGAAGGGTAACATGATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATG
66 ATTTTTGAAGGCTAACATGATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATG
114619624 T
131 T
*
114619625 ATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATGTTTGGAGGGCCTAATTAAA
1 ATCCGAAATGTGTTAGGTATAGCCAGTGGCAGATCTTGGGATTATGTTTGGAGGGCCTAATTAAA
*
114619690 ATTTTTGAAGGCTAACATGATTCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATG
66 ATTTTTGAAGGCTAACATGATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATG
114619755 T
131 T
114619756 TTGGAGGGCC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.34
Consensus pattern (131 bp):
ATCCGAAATGTGTTAGGTATAGCCAGTGGCAGATCTTGGGATTATGTTTGGAGGGCCTAATTAAA
ATTTTTGAAGGCTAACATGATCCGAAATGTGTTAGGTATAGCTAGTGGCAGATCTTGGGATTATG
T
Found at i:114623327 original size:42 final size:42
Alignment explanation
Indices: 114623238--114623332 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
114623228 TCCTAATTGG
* * * **
114623238 GAAAATAATTCCCTTATTTTAATAAATTACTAAAACATTAGG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
* * *
114623280 GAAAATAGTTCCTTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
114623322 TAAAATAATTC
1 GAAAATAATTC
114623333 TAGAATATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:114624029 original size:3 final size:3
Alignment explanation
Indices: 114624021--114624059 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
114624011 CGCAGCAACT
* * *
114624021 GCA GCA GCA GCA ACA ACA CCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
114624060 AAGGCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.36, G:0.26, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:114624032 original size:15 final size:15
Alignment explanation
Indices: 114624012--114624059 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
114624002 AGCAACAAAC
*
114624012 GCAGCAACTGCAGCA
1 GCAGCAACAGCAGCA
* *
114624027 GCAGCAACAACACCA
1 GCAGCAACAGCAGCA
*
114624042 GCAGCAGCAGCAGCA
1 GCAGCAACAGCAGCA
114624057 GCA
1 GCA
114624060 AAGGCAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.35, G:0.25, T:0.02
Consensus pattern (15 bp):
GCAGCAACAGCAGCA
Found at i:114624032 original size:27 final size:27
Alignment explanation
Indices: 114624001--114624060 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
114623991 ACCATCTCCT
*
114624001 CAGCAACAA-ACGCAGCAACTGCAGCAG
1 CAGCAACAACAC-CAGCAACAGCAGCAG
*
114624028 CAGCAACAACACCAGCAGCAGCAGCAG
1 CAGCAACAACACCAGCAACAGCAGCAG
114624055 CAGCAA
1 CAGCAA
114624061 AGGCAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.42, C:0.35, G:0.22, T:0.02
Consensus pattern (27 bp):
CAGCAACAACACCAGCAACAGCAGCAG
Found at i:114627927 original size:6 final size:6
Alignment explanation
Indices: 114627916--114627948 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
114627906 TTCATGCATG
*
114627916 CATATA CATATA CATATA CATAGA CATATA CAT
1 CATATA CATATA CATATA CATATA CATATA CAT
114627949 GTATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (6 bp):
CATATA
Found at i:114628675 original size:28 final size:28
Alignment explanation
Indices: 114628634--114628687 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
114628624 AACGTGCCAT
114628634 TTTTATAACCCATGGGATTATAATAAGG
1 TTTTATAACCCATGGGATTATAATAAGG
* *
114628662 TTTTATCACTCATGGGATTATAATAA
1 TTTTATAACCCATGGGATTATAATAA
114628688 AGATTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTTATAACCCATGGGATTATAATAAGG
Found at i:114628694 original size:28 final size:28
Alignment explanation
Indices: 114628635--114628695 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
114628625 ACGTGCCATT
* *
114628635 TTTATAACCCATGGGATTATAATAAGGT
1 TTTATAACCCATGGGATTATAATAAAGA
* *
114628663 TTTATCACTCATGGGATTATAATAAAGA
1 TTTATAACCCATGGGATTATAATAAAGA
114628691 TTTAT
1 TTTAT
114628696 GATGAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTATAACCCATGGGATTATAATAAAGA
Found at i:114629492 original size:22 final size:24
Alignment explanation
Indices: 114629440--114629492 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 24
114629430 TTAGCGATTA
114629440 TGAAATTGATGCTATAAATAAGTG
1 TGAAATTGATGCTATAAATAAGTG
** * *
114629464 TTTAATTG-TGCTA-ATATTAGTG
1 TGAAATTGATGCTATAAATAAGTG
114629486 TGAAATT
1 TGAAATT
114629493 TTATGGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 12 0.52
23 5 0.22
24 6 0.26
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.42
Consensus pattern (24 bp):
TGAAATTGATGCTATAAATAAGTG
Found at i:114641692 original size:11 final size:11
Alignment explanation
Indices: 114641644--114641696 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
114641634 AAAAATATTT
*
114641644 ATTTTATTTAG
1 ATTTAATTTAG
114641655 AGGTTTAATTTAG
1 A--TTTAATTTAG
*
114641668 -TGTAATTCTAG
1 ATTTAATT-TAG
114641679 ATTTAATTTAG
1 ATTTAATTTAG
114641690 ATTTAAT
1 ATTTAAT
114641697 GTAATTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 14 0.40
12 6 0.17
13 9 0.26
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (11 bp):
ATTTAATTTAG
Found at i:114643557 original size:29 final size:29
Alignment explanation
Indices: 114643525--114643588 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
114643515 TAGTCCCTTT
* *
114643525 TATTTTAT-TTTTCTTTCAATTTCGCCCTA
1 TATTTTATGTTTTATTTCAATTTAGCCC-A
*
114643554 TATTTT-TGTTTTATTTCGATTTAGCCCA
1 TATTTTATGTTTTATTTCAATTTAGCCCA
114643582 TATTTTA
1 TATTTTA
114643589 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.59
Consensus pattern (29 bp):
TATTTTATGTTTTATTTCAATTTAGCCCA
Found at i:114643608 original size:3 final size:3
Alignment explanation
Indices: 114643600--114643667 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
114643590 CAATTTTATG
* * *
114643600 TTA TTA TTA TTA TTA TTA TT- TTAA ATA TTA TTA TTA GT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
**
114643644 TTA TTA TTA TGG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
114643668 CTGTTGACAC
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.06
3 48 0.92
4 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:114644979 original size:36 final size:36
Alignment explanation
Indices: 114644939--114645018 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
114644929 ATACATATAA
* *
114644939 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
114644975 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
114645011 ATATATAT
1 ATATATAT
114645019 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATACGT
Found at i:114645146 original size:3 final size:3
Alignment explanation
Indices: 114645140--114645188 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
114645130 AAGTAACAAC
114645140 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
114645188 A
1 A
114645189 GCAAAAGTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:114646218 original size:16 final size:17
Alignment explanation
Indices: 114646199--114646232 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
114646189 ATTAATGTTT
114646199 TGGGCT-ATTTGGGCTG
1 TGGGCTAATTTGGGCTG
*
114646215 TGGGTTAATTTGGGCTG
1 TGGGCTAATTTGGGCTG
114646232 T
1 T
114646233 TAATTTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.09, C:0.09, G:0.41, T:0.41
Consensus pattern (17 bp):
TGGGCTAATTTGGGCTG
Found at i:114653572 original size:34 final size:34
Alignment explanation
Indices: 114653534--114653607 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
114653524 TTTAGTCCCT
114653534 TAAAA-AAAAGATGAAATCATAAGTTCATACATGA
1 TAAAATAAAA-ATGAAATCATAAGTTCATACATGA
* *
114653568 TAAAATTACAATGAAATCATAAGTTCATACATGA
1 TAAAATAAAAATGAAATCATAAGTTCATACATGA
114653602 TAAAAT
1 TAAAAT
114653608 TACACTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.27
Consensus pattern (34 bp):
TAAAATAAAAATGAAATCATAAGTTCATACATGA
Found at i:114653608 original size:34 final size:34
Alignment explanation
Indices: 114653544--114653611 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
114653534 TAAAAAAAAG
114653544 ATGAAATCATAAGTTCATACATGATAAAATTACA
1 ATGAAATCATAAGTTCATACATGATAAAATTACA
114653578 ATGAAATCATAAGTTCATACATGATAAAATTACA
1 ATGAAATCATAAGTTCATACATGATAAAATTACA
114653612 CTTTAACCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (34 bp):
ATGAAATCATAAGTTCATACATGATAAAATTACA
Found at i:114654763 original size:4 final size:4
Alignment explanation
Indices: 114654754--114654778 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
114654744 AAATCAAAGG
114654754 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
114654779 ATATGAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:114658293 original size:20 final size:20
Alignment explanation
Indices: 114658268--114658306 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
114658258 ACCAAGTGGG
*
114658268 GGGTCAACACGCCCTTGTGA
1 GGGTCAACACGCCCGTGTGA
114658288 GGGTCAACACGCCCGTGTG
1 GGGTCAACACGCCCGTGTG
114658307 GATGAGGTAC
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:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (20 bp):
GGGTCAACACGCCCGTGTGA
Found at i:114671490 original size:23 final size:23
Alignment explanation
Indices: 114671419--114671494 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
114671409 ATTTGATACT
114671419 TTTTTTCTAATTTGGTAC-TAAA
1 TTTTTTCTAATTTGGTACTTAAA
* * *
114671441 CCTTTTTTGT-ATCT-GAACTTGACAA
1 --TTTTTTCTAATTTGGTACTT-A-AA
114671466 TTTTTTCTAATTTGGTACTTAAA
1 TTTTTTCTAATTTGGTACTTAAA
114671489 TTTTTT
1 TTTTTT
114671495 TGGACCCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
22 3 0.07
23 19 0.46
24 12 0.29
25 7 0.17
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTTTCTAATTTGGTACTTAAA
Found at i:114672059 original size:31 final size:31
Alignment explanation
Indices: 114672014--114672092 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
114672004 GACCCCCAAA
* * *
114672014 AAGTTTAGGCACCAACTTAAGAAAAAGTATC
1 AAGTTGAGGTACCAAATTAAGAAAAAGTATC
* * *
114672045 AAGTTGAGGTACCAAATTAGGACAAAGTGTC
1 AAGTTGAGGTACCAAATTAAGAAAAAGTATC
114672076 AAGTTGAGGTACCAAAT
1 AAGTTGAGGTACCAAAT
114672093 GTTATATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (31 bp):
AAGTTGAGGTACCAAATTAAGAAAAAGTATC
Found at i:114681398 original size:27 final size:28
Alignment explanation
Indices: 114681357--114681414 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
114681347 TTGTCCTCTC
114681357 TACTAGAAAACGAGCAAATTAATCTTTA
1 TACTAGAAAACGAGCAAATTAATCTTTA
*
114681385 TACTA-AAAATGAGCAAATTAATCTTTA
1 TACTAGAAAACGAGCAAATTAATCTTTA
114681412 TAC
1 TAC
114681415 GTTAGATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (28 bp):
TACTAGAAAACGAGCAAATTAATCTTTA
Found at i:114697424 original size:22 final size:24
Alignment explanation
Indices: 114697385--114697439 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
114697375 GGTTTAGTGT
114697385 AAAAAATTATGTATTAATAATATA
1 AAAAAATTATGTATTAATAATATA
* *
114697409 AAAAAATTAT-TA-TAATATTATT
1 AAAAAATTATGTATTAATAATATA
*
114697431 AAATAATTA
1 AAAAAATTA
114697440 AAAACAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 16 0.57
23 2 0.07
24 10 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAAAATTATGTATTAATAATATA
Found at i:114701109 original size:18 final size:19
Alignment explanation
Indices: 114701055--114701112 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
114701045 AAATTAGAAA
114701055 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
114701074 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
*
114701094 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
114701112 A
1 A
114701113 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 7 0.19
19 15 0.42
20 14 0.39
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:114702429 original size:29 final size:29
Alignment explanation
Indices: 114702396--114702452 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
114702386 ATTATTTAAG
114702396 TTAGAAAAATTGTGAAGCAATGAAATGAT
1 TTAGAAAAATTGTGAAGCAATGAAATGAT
*
114702425 TTAGAAACATTGTGAAGCAATGAAATGA
1 TTAGAAAAATTGTGAAGCAATGAAATGA
114702453 AATTACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (29 bp):
TTAGAAAAATTGTGAAGCAATGAAATGAT
Found at i:114708116 original size:19 final size:19
Alignment explanation
Indices: 114708094--114708147 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 19
114708084 TATTTTTATG
114708094 ATTTAAAAATAAATATTTT
1 ATTTAAAAATAAATATTTT
114708113 ATTTATAAAAAAATAAATATTTT
1 A-TT-T--AAAAATAAATATTTT
*
114708136 ATATTTAAAATA
1 AT-TTAAAAATA
114708148 TTGAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 1 0.03
20 8 0.28
21 1 0.03
22 2 0.07
23 17 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAAAAATAAATATTTT
Found at i:114708124 original size:23 final size:23
Alignment explanation
Indices: 114708098--114708145 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
114708088 TTTATGATTT
114708098 AAAAATAAATATTTTAT-TTATAA
1 AAAAATAAATATTTTATATT-TAA
114708121 AAAAATAAATATTTTATATTTAA
1 AAAAATAAATATTTTATATTTAA
114708144 AA
1 AA
114708146 TATTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATAAATATTTTATATTTAA
Found at i:114708252 original size:16 final size:18
Alignment explanation
Indices: 114708221--114708253 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
114708211 TATTAATTTT
114708221 TATTTATTTGAAAATATA
1 TATTTATTTGAAAATATA
114708239 TATTT-TTT-AAAATAT
1 TATTTATTTGAAAATAT
114708254 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTATTTGAAAATATA
Found at i:114708276 original size:20 final size:21
Alignment explanation
Indices: 114708253--114708292 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
114708243 TTTTAAAATA
114708253 TTTATAAAAAAAT-TTTAAAC
1 TTTATAAAAAAATATTTAAAC
* *
114708273 TTTATTAAATAATATTTAAA
1 TTTATAAAAAAATATTTAAA
114708293 AAATTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTATAAAAAAATATTTAAAC
Found at i:114708348 original size:14 final size:15
Alignment explanation
Indices: 114708329--114708369 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
114708319 AAATAAGTTC
114708329 AAAAATCCAAAAT-A
1 AAAAATCCAAAATGA
*
114708343 AAAAAT-CAATATGA
1 AAAAATCCAAAATGA
*
114708357 AAAAATCGAAAAT
1 AAAAATCCAAAAT
114708370 TAAATCCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.23
14 13 0.59
15 4 0.18
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (15 bp):
AAAAATCCAAAATGA
Found at i:114710350 original size:15 final size:15
Alignment explanation
Indices: 114710322--114710365 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
114710312 AGATTGGAAA
*
114710322 AAAAATATTAAATTTT
1 AAAAATAAT-AATTTT
114710338 AAAAATAATAATTTT
1 AAAAATAATAATTTT
* *
114710353 AATAATCATAATT
1 AAAAATAATAATT
114710366 ACAAGTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAATAATAATTTT
Found at i:114716678 original size:21 final size:21
Alignment explanation
Indices: 114716649--114716689 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
114716639 ATTAACACAT
114716649 AATAATAATGATAATAATAAC
1 AATAATAATGATAATAATAAC
* *
114716670 AATATTAATGATATTAATAA
1 AATAATAATGATAATAATAA
114716690 TTCAAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
AATAATAATGATAATAATAAC
Found at i:114718186 original size:31 final size:31
Alignment explanation
Indices: 114718114--114718188 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
114718104 TGGTTTTGTG
* * * * *
114718114 CAATTATACACCTTAAAGTTTGATTTTGGTT
1 CAATTATATACATAAAACTTTGATTTTGATT
* * *
114718145 TAAATGTATACATAAAACTTTGATTTTGATT
1 CAATTATATACATAAAACTTTGATTTTGATT
114718176 CAATTATATACAT
1 CAATTATATACAT
114718189 TTAATTAAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (31 bp):
CAATTATATACATAAAACTTTGATTTTGATT
Found at i:114718864 original size:17 final size:17
Alignment explanation
Indices: 114718812--114718864 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
114718802 TTGAACTGAG
114718812 TTTT-ATTATTTTTTAAT
1 TTTTAATTATTTTTT-AT
**
114718829 TTTTAATT-TGTTTGAAT
1 TTTTAATTAT-TTTTTAT
114718846 TTTTAATTATTTTTTAT
1 TTTTAATTATTTTTTAT
114718863 TT
1 TT
114718865 AAACTAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTAATTATTTTTTAT
Found at i:114719555 original size:15 final size:15
Alignment explanation
Indices: 114719535--114719567 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
114719525 GTCCGATCAT
114719535 ATTTT-ATAACAATTG
1 ATTTTAATAACAA-TG
114719550 ATTTTAATAACAATG
1 ATTTTAATAACAATG
114719565 ATT
1 ATT
114719568 CGAAAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (15 bp):
ATTTTAATAACAATG
Found at i:114719687 original size:14 final size:14
Alignment explanation
Indices: 114719668--114719694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114719658 ATTAAAAGTT
114719668 TATAAATTTTTATA
1 TATAAATTTTTATA
114719682 TATAAATTTTTAT
1 TATAAATTTTTAT
114719695 TTGGAGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAAATTTTTATA
Found at i:114720388 original size:31 final size:31
Alignment explanation
Indices: 114720353--114720421 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
114720343 ATTAACTACC
*
114720353 CAATGACTTAAATAAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
* * *
114720384 CAATGTCTTAAATGAAATCTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
*
114720415 TAATGAC
1 CAATGAC
114720422 CAAATTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:114722706 original size:24 final size:24
Alignment explanation
Indices: 114722679--114722730 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
114722669 TCAGTAAGTC
*
114722679 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
114722703 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
114722727 AAAT
1 AAAT
114722731 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:114724667 original size:24 final size:24
Alignment explanation
Indices: 114724640--114724691 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
114724630 TTAGTAAGTC
*
114724640 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
114724664 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
114724688 AAAT
1 AAAT
114724692 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:114732590 original size:30 final size:30
Alignment explanation
Indices: 114732534--114732590 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
114732524 TTAAGCTCGC
* **
114732534 TTATATTATTTTTATTTTTTAAAATTTATA
1 TTATATTATTTTTAGTAATTAAAATTTATA
114732564 TTATATTA-TTTTAGTAATTAATAATTT
1 TTATATTATTTTTAGTAATTAA-AATTT
114732591 TATGCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTATATTATTTTTAGTAATTAAAATTTATA
Found at i:114737800 original size:5 final size:5
Alignment explanation
Indices: 114737790--114737822 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
114737780 ATCAGTCCCT
114737790 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
114737823 GGCAGTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:114740918 original size:25 final size:26
Alignment explanation
Indices: 114740890--114740962 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
114740880 TATTCAAGCA
* *
114740890 AAATGGATGAAATTTTTAACGGAA-G
1 AAATGGATGGAATTTTTAACGAAAGG
* *
114740915 AAATTGATGGAATTTTTAATAGAAAGTG
1 AAATGGATGGAATTTTTAA-CGAAAG-G
114740943 AAATGGATGGAATTTTTAAC
1 AAATGGATGGAATTTTTAAC
114740963 ATGGAGGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 17 0.44
26 3 0.08
28 19 0.49
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (26 bp):
AAATGGATGGAATTTTTAACGAAAGG
Found at i:114746542 original size:43 final size:43
Alignment explanation
Indices: 114746484--114746590 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
114746474 GTTTATTTGA
* * *
114746484 AAAAATGCCACTAAAGATCATGACCTTTAGCGGCGCTTTTTTC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCTC
* *
114746527 ACAAACGCCGCTAAAGATTATGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCTC
114746570 AAAAACGCCGCT-AAG-TCATGA
1 AAAAACGCCGCTAAAGATCATGA
114746591 AATTCAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 5 0.09
42 3 0.05
43 49 0.86
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCTC
Found at i:114746862 original size:31 final size:32
Alignment explanation
Indices: 114746788--114746873 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
114746778 TCAAGTTATC
*
114746788 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATATAAAAATAAAAATAAAAATTTAGAA
* *
114746820 TCAAA-ACAAAAATAAATAATAAAAA-TTAG-A
1 TTAAATATAAAAATAAA-AATAAAAATTTAGAA
**
114746850 TTAAATATAAAAATATCAATAAAA
1 TTAAATATAAAAATAAAAATAAAA
114746874 TAAGATATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 12 0.27
31 21 0.47
32 12 0.27
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (32 bp):
TTAAATATAAAAATAAAAATAAAAATTTAGAA
Found at i:114756637 original size:61 final size:60
Alignment explanation
Indices: 114756567--114756744 Score: 170
Period size: 61 Copynumber: 3.0 Consensus size: 60
114756557 TTGTTAAATT
*
114756567 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAATA
* * * * *
114756628 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAATA
* * *
114756688 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
114756745 TTTTATCAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 18 0.19
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAATA
Found at i:114756697 original size:26 final size:25
Alignment explanation
Indices: 114756659--114756717 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
114756649 ATTAAATTAT
*
114756659 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
114756685 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
114756711 ATATTAT
1 ATATTAT
114756718 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:114756716 original size:15 final size:15
Alignment explanation
Indices: 114756672--114756727 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
114756662 TTTTTGTTAA
*
114756672 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
114756687 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
114756698 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
114756713 ATTATATATTATAAT
1 ATTATATTTTATAAT
114756728 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:114756743 original size:24 final size:22
Alignment explanation
Indices: 114756698--114756766 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
114756688 ATTATTTTAA
114756698 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
114756720 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
114756739 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
114756761 ATTATA
1 ATTATA
114756767 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:114756745 original size:41 final size:40
Alignment explanation
Indices: 114756583--114756767 Score: 129
Period size: 41 Copynumber: 4.6 Consensus size: 40
114756573 AATAATAATA
* * *
114756583 ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 ATTTTATAATATTATATATTATAATTTTATTAAATT-ATAT
* *
114756624 A----ATAATATT-TAATACTAAGAATTTTATTAAATTATAT
1 ATTTTATAATATTAT-ATA-TTATAATTTTATTAAATTATAT
* *
114756661 ATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-TAT
1 A-TTTT-ATAATATTATATATT-ATAAT--TT-TATTAAATTATAT
*
114756703 ATTTTATAATATTATATATTATAATTTTAATAAATTCATAT
1 ATTTTATAATATTATATATTATAATTTTATTAAATT-ATAT
114756744 ATTTTATCAA-ATTATATATTATAA
1 ATTTTAT-AATATTATATATTATAA
114756768 AAAAATATAT
Statistics
Matches: 113, Mismatches: 12, Indels: 38
0.69 0.07 0.23
Matches are distributed among these distances:
36 1 0.01
37 15 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 45 0.40
42 13 0.12
43 7 0.06
44 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
ATTTTATAATATTATATATTATAATTTTATTAAATTATAT
Found at i:114756762 original size:17 final size:17
Alignment explanation
Indices: 114756644--114756784 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
114756634 AATACTAAGA
*
114756644 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
114756661 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
114756677 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
114756691 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
114756710 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
114756726 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
114756744 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
* *
114756761 ATTATAA-AAA-AATAT
1 ATTTTAATAAATTATAT
114756776 A-TTTAATAA
1 ATTTTAATAA
114756785 TAATTATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:114757033 original size:16 final size:16
Alignment explanation
Indices: 114757012--114757063 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
114757002 GATTTGCTAT
114757012 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
114757028 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
114757044 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
114757060 TACA
1 TACA
114757064 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:114757439 original size:15 final size:15
Alignment explanation
Indices: 114757417--114757452 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
114757407 AATCATAGAC
114757417 CCCT-AACCCATAAT
1 CCCTAAACCCATAAT
114757431 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
*
114757446 CCATAAA
1 CCCTAAA
114757453 ACTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:114757864 original size:42 final size:41
Alignment explanation
Indices: 114757739--114757877 Score: 190
Period size: 41 Copynumber: 3.4 Consensus size: 41
114757729 GTTATATGAC
* *
114757739 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCTGT
*
114757780 TTTTAGCGGCGTTATACCAAAAGCGCCGCTAATGCTCCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCTGT
* * * *
114757821 TTTTAGCGGCGCTTTTAACAAAAAACACCGCTATTGCT-CTGT
1 TTTTAGCGGCG-TTTT-ACCAAAAGCGCCGCTAATGCTCCTGT
114757863 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
114757878 TGGTAAAACG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 53 0.60
42 18 0.20
43 17 0.19
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCTGT
Found at i:114760871 original size:29 final size:29
Alignment explanation
Indices: 114760810--114760877 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
114760800 TATTCAAAAG
* *
114760810 TTTTTATTTAAGTTACTGAACTATTCAAG
1 TTTTTATTTAAGTTACTGAACTATTAAAC
* * * *
114760839 TTTTTATTTAAGTTATTGGATTGTTAAAC
1 TTTTTATTTAAGTTACTGAACTATTAAAC
114760868 TTTTT-TTTAA
1 TTTTTATTTAA
114760878 AGTCTAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.28, C:0.06, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTTTATTTAAGTTACTGAACTATTAAAC
Found at i:114765438 original size:24 final size:24
Alignment explanation
Indices: 114765405--114765456 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
114765395 TTTATTATTA
*
114765405 TTTTCATTTTC-CTCTGTTTTTTC
1 TTTTCATTTTCTCTCTGTTTTCTC
114765428 TTTTCTATTTTCTTCTCTGTTTTCTC
1 TTTTC-ATTTTC-TCTCTGTTTTCTC
114765454 TTT
1 TTT
114765457 ATTGGCCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 6 0.24
26 14 0.56
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTCATTTTCTCTCTGTTTTCTC
Found at i:114773865 original size:22 final size:23
Alignment explanation
Indices: 114773818--114773866 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
114773808 TTGTACATTG
*
114773818 ATAT-TATAATGCTATTGCTATT
1 ATATATATAATGCTATTGATATT
*
114773840 -TATATATAATGTTATT-ATATT
1 ATATATATAATGCTATTGATATT
114773861 ATATAT
1 ATATAT
114773867 TCTATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (23 bp):
ATATATATAATGCTATTGATATT
Found at i:114777318 original size:19 final size:20
Alignment explanation
Indices: 114777294--114777331 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114777284 AAGGTCAAAT
114777294 AAAACTAAG-AATAAAGCAA
1 AAAACTAAGCAATAAAGCAA
*
114777313 AAAACTACGCAATAAAGCA
1 AAAACTAAGCAATAAAGCA
114777332 TTGACCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.16, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAACTAAGCAATAAAGCAA
Found at i:114777395 original size:95 final size:95
Alignment explanation
Indices: 114777232--114777421 Score: 326
Period size: 95 Copynumber: 2.0 Consensus size: 95
114777222 TAGAACCAGT
114777232 AAGCATTGACCATTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
1 AAGCATTGACCATTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
*
114777297 ACTAAGAATAAAGCAAAAAACTACGCAATA
66 ACTAAGAATAAAGCAAAAAACTACACAATA
* ** *
114777327 AAGCATTGACCATTATCACTTATCAGCTCTGTTTTAAGACTTTTAAGAGCCGAAGGTCAAATAAA
1 AAGCATTGACCATTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
*
114777392 ACTAAGACTAAAGCAAAAAACTACACAATA
66 ACTAAGAATAAAGCAAAAAACTACACAATA
114777422 GCAACTCTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (95 bp):
AAGCATTGACCATTAACACTTATCAGCTCTGTAATAAGACTTTTAAGAGCCAAAGGTCAAATAAA
ACTAAGAATAAAGCAAAAAACTACACAATA
Found at i:114777854 original size:160 final size:148
Alignment explanation
Indices: 114777448--114777901 Score: 509
Period size: 148 Copynumber: 3.0 Consensus size: 148
114777438 AGCCAAAGTT
* * *
114777448 TAATTCAACAAATAGCTAACAGTTCACCTAAATATTCAAGAAACAGTACGATTCAGCTTCGAACT
1 TAATTCATCAAATAGCTAACAGTTCACATAAAGATTCAA-AAACAGTACGATTCAGCTTCGAACT
* * * * *
114777513 AGGATCTAAAAACAAGCTAAAGT-TGTCCTCCCTACGTAAATCTTATAAAACTTAGCTCGTAAAC
65 AGAATCTAAAAACAAGCTAAA-TCTGTTCTTCCTACGTAAAGCTCATAAAACTTAGCTCGTAAAC
114777577 TTCAGATCTGTATTTTTTTG
129 TTCAGATCTGTATTTTTTTG
* *
114777597 TAATTCATCAAACAGCT-ACAGTTCACATAAGGATTCAAAAAACAGTACGATTCAGCTTCGAACT
1 TAATTCATCAAATAGCTAACAGTTCACATAAAGATTC-AAAAACAGTACGATTCAGCTTCGAACT
* * *
114777661 ATAATCTAAAACCAAGCTAAAGCTGTTCTTCCTACGCTAGTCATAGGCTCATAGCAAACTTAGCT
65 AGAATCTAAAAACAAGCTAAATCTGTTCTTCCTACG-TA---A-A-GCTCATA--AAACTTAGCT
* *
114777726 CGTAAACTTCAGTTTTGTATTTTTTTTTG
122 CGTAAACTTCAGATCTGTA--TTTTTTTG
* * * *
114777755 TAATTCATCAAATAGATAATAGTTCACGTAAAGATTCAAAAACCGGTATC-ATTCAAGCTTCGAA
1 TAATTCATCAAATAGCTAACAGTTCACATAAAGATTCAAAAA-CAGTA-CGATTC-AGCTTCGAA
* * * *** *
114777819 CTAGAATCTAAAAACAAGTTAAATCTGTTCTTCCTACGTAAATCTTAGCGATCTTAGCTCGTAAA
63 CTAGAATCTAAAAACAAGCTAAATCTGTTCTTCCTACGTAAAGCTCATAAAACTTAGCTCGTAAA
114777884 CTTCAGATCTGTATTTTT
128 CTTCAGATCTGTATTTTT
114777902 AAGCAAAACA
Statistics
Matches: 256, Mismatches: 33, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
148 70 0.27
149 19 0.07
150 5 0.02
152 26 0.10
153 1 0.00
154 8 0.03
155 1 0.00
156 28 0.11
158 28 0.11
159 26 0.10
160 44 0.17
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (148 bp):
TAATTCATCAAATAGCTAACAGTTCACATAAAGATTCAAAAACAGTACGATTCAGCTTCGAACTA
GAATCTAAAAACAAGCTAAATCTGTTCTTCCTACGTAAAGCTCATAAAACTTAGCTCGTAAACTT
CAGATCTGTATTTTTTTG
Found at i:114783612 original size:21 final size:21
Alignment explanation
Indices: 114783586--114783626 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
114783576 AGACGAGCAA
* *
114783586 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
114783607 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
114783627 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:114788135 original size:12 final size:12
Alignment explanation
Indices: 114788110--114788146 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
114788100 TAATTATAAA
114788110 TTTTTAA-A-TT
1 TTTTTAATATTT
114788120 TTTTTAATATTT
1 TTTTTAATATTT
114788132 TTTTTAATAATTT
1 TTTTTAAT-ATTT
114788145 TT
1 TT
114788147 AATTTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 1 0.04
12 10 0.42
13 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTAATATTT
Found at i:114789155 original size:93 final size:93
Alignment explanation
Indices: 114789041--114789226 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
114789031 CAAGTTGGGA
114789041 AGTCATATTTTACTTTCTTATTTTATAATTCATTGAAGATTACATTGGAAATATATTAGGTACAT
1 AGTCATATTTTACTTTCTTATTTTATAATTCATTGAAGATTACATTGGAAATATATTAGGTACAT
114789106 CACCTTTTTGTGTATCAAATTTGAGGCT
66 CACCTTTTTGTGTATCAAATTTGAGGCT
114789134 AGTCATATTTTACTTTCTTATTTTATAATTCATTGAAGATTACATTGGAAATATATTAGGTACAT
1 AGTCATATTTTACTTTCTTATTTTATAATTCATTGAAGATTACATTGGAAATATATTAGGTACAT
114789199 CACCTTTTTGTGTATCAAATTTGAGGCT
66 CACCTTTTTGTGTATCAAATTTGAGGCT
114789227 TACATTCCAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (93 bp):
AGTCATATTTTACTTTCTTATTTTATAATTCATTGAAGATTACATTGGAAATATATTAGGTACAT
CACCTTTTTGTGTATCAAATTTGAGGCT
Found at i:114794338 original size:16 final size:15
Alignment explanation
Indices: 114794298--114794339 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
114794288 GCTTGAGTGT
114794298 CAAATCTG-AATGAC
1 CAAATCTGAAATGAC
* *
114794312 AAAACCTGAAATGACC
1 CAAATCTGAAATGA-C
114794328 CAAATCTGAAAT
1 CAAATCTGAAAT
114794340 TATCCGACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (15 bp):
CAAATCTGAAATGAC
Found at i:114799464 original size:144 final size:146
Alignment explanation
Indices: 114799235--114799518 Score: 452
Period size: 144 Copynumber: 2.0 Consensus size: 146
114799225 AATATTAAAA
114799235 TTTGAAAAGTAAAGGGACTAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATTCAGTGT
1 TTTGAAAAGTAAAGGGA-TAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATTCAGTGT
114799300 GGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTACAA
65 GGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTACAA
114799365 CCACAACTTGTTAAAGT
130 CCACAACTTGTTAAAGT
* * **
114799382 TTTGAAAAGTAAAGCTG-TAATATCTAAAATTAACCAAAACATATT-AA-AA-AAAAAATT-TTT
1 TTTGAAAAGTAAAG-GGATAATAGCTAAAATTAACC-AAACAT-TTAAAGAACAAAAAATTCAGT
114799442 GTGGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTAC
63 GTGGCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTAC
*
114799507 AGCCACAACTTG
128 AACCACAACTTG
114799519 AGAACCTTAG
Statistics
Matches: 129, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
144 77 0.60
145 8 0.06
146 19 0.15
147 22 0.17
148 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (146 bp):
TTTGAAAAGTAAAGGGATAATAGCTAAAATTAACCAAACATTTAAAGAACAAAAAATTCAGTGTG
GCTGCTGGGATTCGAGCCCAGGTCTCCACGGCCACAACGTGGAATTCTTACCACTAAACTACAAC
CACAACTTGTTAAAGT
Found at i:114811743 original size:114 final size:109
Alignment explanation
Indices: 114811540--114811760 Score: 316
Period size: 114 Copynumber: 2.0 Consensus size: 109
114811530 TTTCTGGCCT
* *
114811540 TTTGTTTTGGTATTAAATCTAGCATTTGAGGGTTTAAGTTGTTACTTTTATGTTGTTTCTCGAAA
1 TTTGTTTTGGTATTAAATCTAGCATTTGAGGGTTTAAGGTGTTACTTTTATGCTGTTTCTCGAAA
* *
114811605 GAATTTCGGGTCATTCGAGATTGTTTAGTGTGTGTTTATGTGCC
66 GAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCC
* *
114811649 TTTGTTTTGGTTTTGAAATGTAGCATTTGGATTAGGGTTTAAGGTGTTACTTTTATGCTGTTTCT
1 TTTGTTTTGGTATT-AAATCTAGCATTT-G---AGGGTTTAAGGTGTTACTTTTATGCTGTTTCT
* * *
114811714 CGAAAGAATTTCAGGTCATTCGAGTTTGTTTGGGGTGTGTTTTTGTG
61 CGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTG
114811761 TTACAAAGTT
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
109 13 0.13
110 12 0.12
111 1 0.01
114 72 0.73
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.48
Consensus pattern (109 bp):
TTTGTTTTGGTATTAAATCTAGCATTTGAGGGTTTAAGGTGTTACTTTTATGCTGTTTCTCGAAA
GAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCC
Found at i:114811955 original size:155 final size:154
Alignment explanation
Indices: 114811646--114811980 Score: 451
Period size: 156 Copynumber: 2.2 Consensus size: 154
114811636 GTGTTTATGT
** * * *
114811646 GCCTTTGTTTTGGTTTTGAAATGTAGCATTTGGATTAGGGTTTAAGGTGTTACTTTTATGCTGTT
1 GCCTTTGTTTTGGTACTGAAATGTAGCACTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTCTT
* * * **
114811711 TCTCGAAAGAATTTCAGGTCATTCGAGTTTGTTTGGGGTGTGTTTTTGTGTTACAAAGTTCAAGT
66 TCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCAAGT
*
114811776 ATACTTAATTATGTTCATTTTCTG
131 ATACTTAATTATGTTCATTATCTG
*
114811800 GCCTTCTGTTTTGGTACTGAAATGTAGCACTTGAATTAGGGTTTAAGTTGTTACTTTTACT-CTC
1 GCCTT-TGTTTTGGTACTGAAATGTAGCACTTGAATTAGGGTTTAAGGTGTTACTTTTA-TGCTC
* * *
114811864 TTTTTCGAAAGAATTTCAGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGCATTACAAAGTTCA
64 TTTCTCGAAAGAATTTCA-GGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCA
114811929 AGTATACTTAATTATAG-TCA-TATCTG
128 AGTATACTTAATTAT-GTTCATTATCTG
*
114811955 GCCTTTTTATTTTGGTACTGAAATGT
1 GCC--TTTGTTTTGGTACTGAAATGT
114811981 GCATTTTGCT
Statistics
Matches: 159, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
154 5 0.03
155 75 0.47
156 76 0.48
157 3 0.02
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.45
Consensus pattern (154 bp):
GCCTTTGTTTTGGTACTGAAATGTAGCACTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTCTT
TCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCATTACAAAGTTCAAGT
ATACTTAATTATGTTCATTATCTG
Found at i:114825855 original size:13 final size:14
Alignment explanation
Indices: 114825827--114825855 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
114825817 AGTTATTGAG
114825827 ATAAGTTTTGATAT
1 ATAAGTTTTGATAT
114825841 ATAAGTTTT-ATAT
1 ATAAGTTTTGATAT
114825854 AT
1 AT
114825856 TGTTATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
ATAAGTTTTGATAT
Found at i:114827430 original size:46 final size:46
Alignment explanation
Indices: 114827380--114827476 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
114827370 AATTGTGTTT
114827380 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
1 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
*
114827426 AATTTTAAACATAAAATTTCTTTTTGAGTAGCTTAACTCATCAACA
1 AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
114827472 AATTT
1 AATTT
114827477 AATTGTAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (46 bp):
AATTTTAAACATAAAATTTATTTTTGAGTAGCTTAACTCATCAACA
Found at i:114830066 original size:39 final size:39
Alignment explanation
Indices: 114830012--114830115 Score: 190
Period size: 39 Copynumber: 2.7 Consensus size: 39
114830002 AGCTTCAGTT
114830012 CTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGG
1 CTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGG
*
114830051 CTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGG
1 CTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGG
*
114830090 CTGCCGTTTAGCACTTATGTGCTTCA
1 CTTCCGTTTAGCACTTATGTGCTTCA
114830116 ACTAGATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (39 bp):
CTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGG
Found at i:114831056 original size:14 final size:14
Alignment explanation
Indices: 114831037--114831063 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114831027 TATCCATAAT
114831037 TTAAAAATACCTTG
1 TTAAAAATACCTTG
114831051 TTAAAAATACCTT
1 TTAAAAATACCTT
114831064 AAGACGTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
TTAAAAATACCTTG
Found at i:114833111 original size:31 final size:31
Alignment explanation
Indices: 114833043--114833111 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
114833033 TAGTTTTTAA
114833043 CAAGTCCCTTTACTCTTCACCAATTCAAAATT
1 CAAGTCCCTTTACTCTTCA-CAATTCAAAATT
* * *
114833075 -TAGTCCCTTTACTTTTCA-AATTTTAAAATT
1 CAAGTCCCTTTACTCTTCACAA-TTCAAAATT
114833105 CAAGTCC
1 CAAGTCC
114833112 AATTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
29 2 0.06
30 8 0.26
31 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (31 bp):
CAAGTCCCTTTACTCTTCACAATTCAAAATT
Found at i:114834764 original size:13 final size:13
Alignment explanation
Indices: 114834746--114834770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114834736 TAGTGTTGTA
114834746 AATATTAGATTAT
1 AATATTAGATTAT
114834759 AATATTAGATTA
1 AATATTAGATTA
114834771 AATGCTTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AATATTAGATTAT
Found at i:114836029 original size:28 final size:25
Alignment explanation
Indices: 114835986--114836040 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 25
114835976 CATAAAACAT
*
114835986 TTATTTTATATCATAAAAATTAAAA
1 TTATTTTATATCATAAAAAATAAAA
114836011 TTATTTATATATTCAATAAAAAATAAAA
1 TTATTT-TATA-TC-ATAAAAAATAAAA
114836039 TT
1 TT
114836041 TAATTCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 4 0.15
27 2 0.08
28 14 0.54
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTATTTTATATCATAAAAAATAAAA
Found at i:114836283 original size:16 final size:17
Alignment explanation
Indices: 114836252--114836284 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
114836242 TGAAGTTGGT
114836252 ATAGCTAATGAATGATA
1 ATAGCTAATGAATGATA
*
114836269 ATAGTTAAT-AATGATA
1 ATAGCTAATGAATGATA
114836285 GTAACAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATAGCTAATGAATGATA
Found at i:114837890 original size:22 final size:22
Alignment explanation
Indices: 114837804--114837905 Score: 73
Period size: 22 Copynumber: 4.6 Consensus size: 22
114837794 AGAGTCTTAC
*
114837804 CAGAGTACGCCAC-CAGAGCTAGA
1 CAGAATACGCCACACAG-GCTA-A
* * *
114837827 CATATTACGCCACAAAGGCT-A
1 CAGAATACGCCACACAGGCTAA
*** * *
114837848 CAGAATACATTATACAAGCTAA
1 CAGAATACGCCACACAGGCTAA
114837870 CAGAATACGCCACACAGGCTAA
1 CAGAATACGCCACACAGGCTAA
* *
114837892 AAGAATAAGCCACA
1 CAGAATACGCCACA
114837906 AGAGCTAGAT
Statistics
Matches: 59, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
21 13 0.22
22 30 0.51
23 14 0.24
24 2 0.03
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.14
Consensus pattern (22 bp):
CAGAATACGCCACACAGGCTAA
Found at i:114837912 original size:22 final size:23
Alignment explanation
Indices: 114837864--114837912 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
114837854 ACATTATACA
* *
114837864 AGCTAACAGAATACGCCACACAG
1 AGCTAAAAGAATAAGCCACACAG
114837887 -GCTAAAAGAATAAGCCACA-AG
1 AGCTAAAAGAATAAGCCACACAG
114837908 AGCTA
1 AGCTA
114837913 GATCAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.10
Consensus pattern (23 bp):
AGCTAAAAGAATAAGCCACACAG
Found at i:114839021 original size:46 final size:47
Alignment explanation
Indices: 114838946--114839085 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
114838936 TTATCTTTGG
* * * * *
114838946 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACAATGGTCTTACTCATTTTCATAT
**
114838992 CATGTTGCCATGGTATCTTTCAACAATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACAATGGTCTTACTCATTTTCATAT
* *
114839038 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACAATGGTCTTACTCATTTTCATAT
114839084 CA
1 CA
114839086 CTTTCAACCA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACAATGGTCTTACTCATTTTCATAT
Done.