Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 371 of 425
Found at i:114370380 original size:5 final size:5
Alignment explanation
Indices: 114370372--114370411 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
114370362 GTTTATATAC
114370372 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
114370412 TAAAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:114371542 original size:15 final size:15
Alignment explanation
Indices: 114371522--114371555 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
114371512 TAATTTGATG
*
114371522 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
114371537 TTTGGATGTACCATT
1 TTTGGATGTACCATT
114371552 TTTG
1 TTTG
114371556 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:114375715 original size:90 final size:89
Alignment explanation
Indices: 114375553--114375803 Score: 224
Period size: 90 Copynumber: 2.8 Consensus size: 89
114375543 ATGAGTTTCT
* * * * *
114375553 TGCTCTTAATTAGTTCATAGCCTAGAGTTTTGGTGGTCCTACTAAGTGGACTTGATGAATTCACC
1 TGCTCTTAATGAGTTCATATCCTAGAGGTTTGGTGGTCATACTAAGTGGACTTGATGAACTCACC
* * *
114375618 GATTTTATAGGATGAA-CTACTAGA
66 GAATTTATAGGAT-AAGCCACTAAA
* * *
114375642 TGCTCTTAATGAGTTCATATCCTA-AGGTTTGGATGGTTATATTGAGATGGACTTGATGAAC-CT
1 TGCTCTTAATGAGTTCATATCCTAGAGGTTTGG-TGGTCATACTAAG-TGGACTTGATGAACTC-
*
114375705 ACTGAATTTATAGGATAAGCCACTAAA
63 ACCGAATTTATAGGATAAGCCACTAAA
** * * * * * *
114375732 TATTCTTAATGAATTCATATCCCAG-GCTTTAGGTGGTTC-TAGTAAGACGGACTTGATGAATTC
1 TGCTCTTAATGAGTTCATATCCTAGAGGTTT-GGTGG-TCATACTAAG-TGGACTTGATGAACTC
114375795 ACCGAATTT
63 ACCGAATTT
114375804 TTAAACTGGG
Statistics
Matches: 131, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
88 7 0.05
89 34 0.26
90 86 0.66
91 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (89 bp):
TGCTCTTAATGAGTTCATATCCTAGAGGTTTGGTGGTCATACTAAGTGGACTTGATGAACTCACC
GAATTTATAGGATAAGCCACTAAA
Found at i:114377590 original size:10 final size:10
Alignment explanation
Indices: 114377546--114377604 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
114377536 AATTTTAGCT
114377546 TTTATCTTTA
1 TTTATCTTTA
* *
114377556 TTTGTCCTTA
1 TTTATCTTTA
*
114377566 TTTATCTATA
1 TTTATCTTTA
*
114377576 ATTATCTTTA
1 TTTATCTTTA
114377586 TTTAT-TTGTA
1 TTTATCTT-TA
114377596 TTTATCTTT
1 TTTATCTTT
114377605 TAGAATTTAA
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:114379370 original size:40 final size:39
Alignment explanation
Indices: 114379293--114379511 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 39
114379283 AAACCAAGTA
* *
114379293 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTCGCACAAATG
114379332 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
114379372 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * *
114379412 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
* * * *
114379452 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
114379492 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
114379512 TATCATCCGA
Statistics
Matches: 167, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:114385092 original size:3 final size:3
Alignment explanation
Indices: 114385078--114385131 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
114385068 GACAATAAAG
*
114385078 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
114385122 AAT AAT AAT A
1 AAT AAT AAT A
114385132 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:114385353 original size:3 final size:3
Alignment explanation
Indices: 114385345--114385397 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
114385335 TATAAATATG
* * *
114385345 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA AT- ATA GT- ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114385391 ATA ATA A
1 ATA ATA A
114385398 AAGTAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:114385804 original size:17 final size:17
Alignment explanation
Indices: 114385746--114385808 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
114385736 AAAATAATAT
114385746 TAAAATATATATACGAGTAA
1 TAAAA-ATATATAC-A-TAA
* * * *
114385766 TAAAAAATGTATCCGTAT
1 T-AAAAATATATACATAA
114385784 TAAAAATATATACATAA
1 TAAAAATATATACATAA
114385801 TAAAAATA
1 TAAAAATA
114385809 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:114385978 original size:22 final size:22
Alignment explanation
Indices: 114385936--114385978 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
114385926 GTACATAACA
*
114385936 TAAATATCATACATATAATATC
1 TAAATATCATACATACAATATC
114385958 TAAATAT-ATACATACATATAT
1 TAAATATCATACATACA-ATAT
114385979 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:114386147 original size:15 final size:14
Alignment explanation
Indices: 114386122--114386157 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
114386112 TAATAATACT
114386122 ATATAATATATATA
1 ATATAATATATATA
114386136 ATATACATATATATA
1 ATATA-ATATATATA
114386151 AGTATAA
1 A-TATAA
114386158 CAAAATATAA
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:114386757 original size:13 final size:13
Alignment explanation
Indices: 114386739--114386768 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
114386729 ATATGCCCCG
*
114386739 CCGGTCGCTGTCA
1 CCGGTCGCCGTCA
114386752 CCGGTCGCCGTCA
1 CCGGTCGCCGTCA
114386765 CCGG
1 CCGG
114386769 CCACCGCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.33, T:0.17
Consensus pattern (13 bp):
CCGGTCGCCGTCA
Found at i:114386880 original size:18 final size:21
Alignment explanation
Indices: 114386856--114386908 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
114386846 AAGCAAATTC
114386856 GAAAATAA-AATAAAAAG-AA
1 GAAAATAATAATAAAAAGAAA
*
114386875 -AAAATAATAATAAATAGAAA
1 GAAAATAATAATAAAAAGAAA
114386895 GAAAATAATAATAA
1 GAAAATAATAATAA
114386909 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:114386887 original size:24 final size:24
Alignment explanation
Indices: 114386863--114386909 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
114386853 TTCGAAAATA
114386863 AAATAAAAAGAAAA-AATAATAAT
1 AAATAAAAAGAAAATAATAATAAT
*
114386886 AAATAGAAAGAAAATAATAATAAT
1 AAATAAAAAGAAAATAATAATAAT
114386910 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 (24 bp):
AAATAAAAAGAAAATAATAATAAT
Found at i:114387256 original size:11 final size:11
Alignment explanation
Indices: 114387240--114387280 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
114387230 TGATTTAGGG
114387240 TTTCTTTTTCT
1 TTTCTTTTTCT
114387251 TTTCTTTTTCTT
1 TTTCTTTTTC-T
114387263 TTTCTTTTTCT
1 TTTCTTTTTCT
114387274 TTT-TTTT
1 TTTCTTTT
114387281 GTTTTGGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.14
11 14 0.48
12 11 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:114387285 original size:6 final size:6
Alignment explanation
Indices: 114387240--114387277 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
114387230 TGATTTAGGG
114387240 TTTCTT TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
114387278 TTTGTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:114388756 original size:41 final size:41
Alignment explanation
Indices: 114388711--114388852 Score: 119
Period size: 41 Copynumber: 3.5 Consensus size: 41
114388701 GAGCAGTAGC
*
114388711 GGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAATTGT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
* * * *
114388752 GGCGTTTTTAG-CCTAAACGCCGC-AAAAAGTTGGTCAATAGT
1 GGCGTTTTTAGTCC-AAACGCAGCTAAAAACTTAG-CAATTGT
* * * * * * * * *
114388793 GGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCAATTAT
1 GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
114388834 GGCGTTTTTA-TCCAAACGC
1 GGCGTTTTTAGTCCAAACGC
114388853 CGCAAAAGGT
Statistics
Matches: 75, Mismatches: 22, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
40 17 0.23
41 51 0.68
42 7 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
GGCGTTTTTAGTCCAAACGCAGCTAAAAACTTAGCAATTGT
Found at i:114388781 original size:82 final size:82
Alignment explanation
Indices: 114388684--114388865 Score: 206
Period size: 82 Copynumber: 2.2 Consensus size: 82
114388674 GTTTGCAAGA
* * * * *
114388684 AAACGTCGCAAAAAGTTGAG-CAGTAGCGGCGTTTTTAGACCAAACGCAGCTAAAAACTTAGCAA
1 AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
*
114388748 TTGTGGCGTTTTTAGCC
66 TTATGGCGTTTTTAGCC
* * * ** * *
114388765 TAAACGCCGCAAAAAGTTG-GTCAATAGTGGTGCTTTTGGTTCAAGCGCAACTAAAAGCTGAGCA
1 -AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCA
*
114388829 ATTATGGCGTTTTTATCC
65 ATTATGGCGTTTTTAGCC
*
114388847 AAACGCCGCAAAAGGTTGA
1 AAACGCCGCAAAAAGTTGA
114388866 ACTATAATGC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (82 bp):
AAACGCCGCAAAAAGTTGAGTCAATAGCGGCGCTTTTAGACCAAACGCAACTAAAAACTGAGCAA
TTATGGCGTTTTTAGCC
Found at i:114389453 original size:21 final size:21
Alignment explanation
Indices: 114389401--114389453 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
114389391 TAAGTTTATA
*
114389401 GTTTAAGGTTGGTTAATTTGG
1 GTTTAAGGTTTGTTAATTTGG
**
114389422 GTTTGGGGTTTGTTAATTTGG
1 GTTTAAGGTTTGTTAATTTGG
114389443 GTTTAAGGTTT
1 GTTTAAGGTTT
114389454 AGGGTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (21 bp):
GTTTAAGGTTTGTTAATTTGG
Found at i:114389458 original size:14 final size:14
Alignment explanation
Indices: 114389441--114389519 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
114389431 TTGTTAATTT
114389441 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
* * *
114389455 GGGTATATGATTTTA
1 GGGTTTAAG-GTTTA
*
114389470 GGCTTT-AGAGTTTA
1 GGGTTTAAG-GTTTA
*
114389484 GGGTTTAATGTTTA
1 GGGTTTAAGGTTTA
** *
114389498 GTATTTTAGGTTTA
1 GGGTTTAAGGTTTA
*
114389512 GGGGTTAA
1 GGGTTTAA
114389520 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:114389530 original size:28 final size:29
Alignment explanation
Indices: 114389473--114389538 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
114389463 GATTTTAGGC
* **
114389473 TTTAGAGTTTAGGGTTTAATGTTTAGTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAGTAT
114389502 TTTAG-GTTTAGGGGTTAAAATTT-GTTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAG-TAT
114389530 TTT-GAGTTT
1 TTTAGAGTTT
114389539 GGAGTTTAAG
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:114390071 original size:40 final size:40
Alignment explanation
Indices: 114390015--114390099 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
114390005 GCACTAGCAC
*
114390015 AAAAACGCCGCAATAGATCGAGAATAAGCAGCTCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
* * * *
114390055 AAAAACGCCGCTATAGATTGAGAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
114390095 AAAAA
1 AAAAA
114390100 TGCCACAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
Found at i:114393739 original size:29 final size:27
Alignment explanation
Indices: 114393672--114393740 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 27
114393662 TATTAGATGC
* *
114393672 TTATGCCAGTTGTTCAATTGTCTTCTT
1 TTATGCCAGTTGTTCTATTGTCTTCTG
*
114393699 TTTTG---GTTGTTCTATTGTTCATTCTG
1 TTATGCCAGTTGTTCTATTG-TC-TTCTG
114393725 TTATGCCAGTTGTTCT
1 TTATGCCAGTTGTTCT
114393741 TGTAGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
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:0.12, C:0.16, G:0.17, T:0.55
Consensus pattern (27 bp):
TTATGCCAGTTGTTCTATTGTCTTCTG
Found at i:114395435 original size:9 final size:9
Alignment explanation
Indices: 114395386--114395479 Score: 93
Period size: 9 Copynumber: 10.3 Consensus size: 9
114395376 CTTTGGATCT
114395386 TAACTTA-A
1 TAACTTACA
*
114395394 TAACTTATA
1 TAACTTACA
*
114395403 TATATCATATCA
1 TA-A-CTTA-CA
*
114395415 TGACTTACA
1 TAACTTACA
*
114395424 TAACTCACA
1 TAACTTACA
*
114395433 TAACATACA
1 TAACTTACA
114395442 TAACTTA-A
1 TAACTTACA
*
114395450 TAACTCACA
1 TAACTTACA
114395459 TAACTTACA
1 TAACTTACA
114395468 TAACTTACA
1 TAACTTACA
114395477 TAA
1 TAA
114395480 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:114395453 original size:26 final size:27
Alignment explanation
Indices: 114395386--114395479 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 27
114395376 CTTTGGATCT
* *
114395386 TAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATA-A-CATA-CA
*
114395415 TGACTTACATAACTCACATAACATACA
1 TAACTTACATAACTCACATAACATACA
*
114395442 TAACTTA-ATAACTCACATAACTTACA
1 TAACTTACATAACTCACATAACATACA
114395468 TAACTTACATAA
1 TAACTTACATAA
114395480 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:114400558 original size:13 final size:14
Alignment explanation
Indices: 114400542--114400570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
114400532 TTTTAAATAT
114400542 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
114400555 TTATAATGGTTTAA
1 TTATAATGGTTTAA
114400569 TT
1 TT
114400571 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:114401500 original size:43 final size:43
Alignment explanation
Indices: 114401342--114401563 Score: 190
Period size: 43 Copynumber: 5.2 Consensus size: 43
114401332 AACGGTACTT
*
114401342 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTACTAT-TT-T
1 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGT-C-ATGTTCG
* * * * *
114401385 TTAGTGGTGTTTGTGA-AAAAACGCCACTAAAAGTCATGCTC-
1 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCG
* * * *
114401426 TATAGCGGAGTTTGTTTG-TAAAA-CTCTGCTAATGGTCATGTTCG
1 T-TAGCGGTGTTTG--TGATAAAAGCGCCGCTAAAGGTCATGTTCG
* *
114401470 TTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGATCATGTTCG
1 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCG
* * *
114401513 TTAGCGGCGATTATG-GA-AAAAGCGTCGCTAAAGGTCATGTTCT
1 TTAGCGGTG-TT-TGTGATAAAAGCGCCGCTAAAGGTCATGTTCG
114401556 TTAGCGGT
1 TTAGCGGT
114401564 ATTTTTTCAC
Statistics
Matches: 144, Mismatches: 24, Indels: 22
0.76 0.13 0.12
Matches are distributed among these distances:
40 2 0.01
41 5 0.03
42 30 0.21
43 94 0.65
44 11 0.08
45 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCG
Found at i:114402913 original size:7 final size:7
Alignment explanation
Indices: 114402901--114402935 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
114402891 AATTATTTAA
114402901 AAAATAT
1 AAAATAT
114402908 AAAATAT
1 AAAATAT
114402915 AAAATAAT
1 AAAAT-AT
114402923 AAAATAGT
1 AAAATA-T
114402931 AAAAT
1 AAAAT
114402936 TATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:114402924 original size:15 final size:15
Alignment explanation
Indices: 114402901--114402935 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
114402891 AATTATTTAA
114402901 AAAATATAAAATA-T
1 AAAATATAAAATAGT
114402915 AAAATAATAAAATAGT
1 AAAAT-ATAAAATAGT
114402931 AAAAT
1 AAAAT
114402936 TATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 8 0.42
16 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATATAAAATAGT
Found at i:114406601 original size:140 final size:140
Alignment explanation
Indices: 114406348--114406732 Score: 531
Period size: 140 Copynumber: 2.8 Consensus size: 140
114406338 ATGCCTAATG
* * ** * * *
114406348 CGACACTTTTGGGGCAACACTTTTTTAAGTGTTGGAATAGACTT-ATCAACATACGCTTTGGCCA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGA-CGACATACACTTTGGCCA
* *
114406412 ACTCTTTGTATAAGAGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAAAGTCGGCTTTATC
65 ACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAAAGTCGACTTTATC
114406477 CAACACTATACT
130 CAACACTAT-CT
* *
114406489 -GACACTTTCGGGCCGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
* * * *
114406553 CTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCC
*
114406618 AACACTATGT
131 AACACTATCT
* * **
114406628 CGACACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
* * *
114406693 CCCTTTGTATAAGAGTTGGGATATGCATCCCTAAGACAAC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAAC
114406733 ACTTGTTCAA
Statistics
Matches: 216, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
139 1 0.00
140 214 0.99
141 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCC
AACACTATCT
Found at i:114406835 original size:109 final size:109
Alignment explanation
Indices: 114406642--114406845 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 109
114406632 ACTTTTGGAC
* **
114406642 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
*
114406707 GTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
66 GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * *** * ** *
114406751 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
* * *
114406816 GTAGGTATATGCATGCCTAAGGCAACACTT
66 GTAGGGATATGCATCCCTAAGACAACACTT
114406846 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:114406940 original size:249 final size:249
Alignment explanation
Indices: 114406502--114406969 Score: 632
Period size: 249 Copynumber: 1.9 Consensus size: 249
114406492 ACTTTCGGGC
* *
114406502 CGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
114406567 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGAC
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
* * ***
114406632 ACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCT
131 ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
* *
114406697 TTGTATAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
196 TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * * * *** * * * *
114406751 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* *
114406816 GTAGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATG-CGGA
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTC-GA
** * ** *
114406880 CACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTC
130 CACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCC
*
114406945 TTTGGACAAGGGTTGGGATATGCAT
195 TTTGGACAAGAGTTGGGATATGCAT
114406970 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:114409924 original size:40 final size:40
Alignment explanation
Indices: 114409866--114410099 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
114409856 GAGGATTATA
*
114409866 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTACTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
114409906 TCTGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
114409946 TCCGGGTTAAGTCCCGAAGGCAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGG-T---T-----A---AGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
114409998 TCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * **
114410038 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
114410078 TCCGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
114410100 ATTGGGTTGG
Statistics
Matches: 165, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
40 123 0.75
41 1 0.01
43 1 0.01
44 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
52 36 0.22
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:114409972 original size:12 final size:12
Alignment explanation
Indices: 114409955--114409979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114409945 TTCCGGGTTA
114409955 AGTCCCGAAGGC
1 AGTCCCGAAGGC
114409967 AGTCCCGAAGGC
1 AGTCCCGAAGGC
114409979 A
1 A
114409980 TTCGTGCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.32, T:0.08
Consensus pattern (12 bp):
AGTCCCGAAGGC
Found at i:114409982 original size:52 final size:52
Alignment explanation
Indices: 114409915--114410019 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
114409905 TTCTGGGTTA
* *
114409915 AGTCTCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGC
1 AGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGCCCCGAAGGC
114409967 AGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGCCCCGAAGGC
1 AGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGCCCCGAAGGC
114410019 A
1 A
114410020 TTCGTGCTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (52 bp):
AGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGCCCCGAAGGC
Found at i:114410038 original size:92 final size:92
Alignment explanation
Indices: 114409875--114410059 Score: 307
Period size: 92 Copynumber: 2.0 Consensus size: 92
114409865 ATCCGGGTTA
* * * *
114409875 AGTCCCGAAGGCATTCGTGCTGGTTACTATTTCTGGGTTAAGTCTCGAAGGCATTCGTGCTGGTT
1 AGTCCCGAAGGCATTCGTGCTGGTTACTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTC
*
114409940 GTTATTTCCGGGTTAAGTCCCGAAGGC
66 GCTATTTCCGGGTTAAGTCCCGAAGGC
**
114409967 AGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTC
1 AGTCCCGAAGGCATTCGTGCTGGTTACTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTC
114410032 GCTATTTCCGGGTTAAGTCCCGAAGGC
66 GCTATTTCCGGGTTAAGTCCCGAAGGC
114410059 A
1 A
114410060 TTTGTGCTGG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (92 bp):
AGTCCCGAAGGCATTCGTGCTGGTTACTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTC
GCTATTTCCGGGTTAAGTCCCGAAGGC
Found at i:114411522 original size:14 final size:14
Alignment explanation
Indices: 114411504--114411537 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
114411494 AGGGTCTATA
114411504 ATTTATGATTTAAG
1 ATTTATGATTTAAG
* *
114411518 GTTTAAGATTTAAG
1 ATTTATGATTTAAG
114411532 ATTTAT
1 ATTTAT
114411538 TGTAATGAAC
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (14 bp):
ATTTATGATTTAAG
Found at i:114421319 original size:21 final size:21
Alignment explanation
Indices: 114421294--114421333 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
114421284 GTTTTAGTTT
114421294 TTTAGAGTTTA-GGGTTTTGTG
1 TTTAG-GTTTAGGGGTTTTGTG
114421315 TTTAGGTTTAGGGGTTTTG
1 TTTAGGTTTAGGGGTTTTG
114421334 ATAAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (21 bp):
TTTAGGTTTAGGGGTTTTGTG
Found at i:114422133 original size:9 final size:9
Alignment explanation
Indices: 114422122--114422162 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
114422112 GGATGAGGAT
*
114422122 GAAGAAGAT
1 GAAGAAGAC
114422131 GAAGAAGAC
1 GAAGAAGAC
*
114422140 GAAGAAGAA
1 GAAGAAGAC
114422149 GAAGAAGAC
1 GAAGAAGAC
114422158 GAAGA
1 GAAGA
114422163 CGAAGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02
Consensus pattern (9 bp):
GAAGAAGAC
Found at i:114422134 original size:6 final size:6
Alignment explanation
Indices: 114422122--114422173 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
114422112 GGATGAGGAT
* * * * *
114422122 GAAGAA GATGAA GAAGAC GAAGAA GAAGAA GAAGAC GAAGAC GAAGAT
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
114422170 GAAG
1 GAAG
114422174 CCGACGCCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.56, C:0.06, G:0.35, T:0.04
Consensus pattern (6 bp):
GAAGAA
Found at i:114424706 original size:36 final size:36
Alignment explanation
Indices: 114424604--114424788 Score: 162
Period size: 35 Copynumber: 5.2 Consensus size: 36
114424594 AAATAAATGC
* * * *
114424604 CTTAGACGTGTTTAT-TCCAACCTTTTT-AAGATTGT
1 CTTAAACGGGTTTATCT-CAACTTTTTTAAAGGTTGT
* *
114424639 CTTAAATGGGTTTATCTCAA-TTTTTTAAAGGTTGC
1 CTTAAACGGGTTTATCTCAACTTTTTTAAAGGTTGT
* *
114424674 CTTAAACGGGTTTATTTTAACTTTTTTAAAGGTTGT
1 CTTAAACGGGTTTATCTCAACTTTTTTAAAGGTTGT
* ** * *
114424710 CTTAGACAATGTATATCTTAACTTTTTT-AAGGTTGT
1 CTTAAAC-GGGTTTATCTCAACTTTTTTAAAGGTTGT
* * * * *
114424746 ATTAGACGGTTTTATCTCAGCCTTTTTAAAGGTTGT
1 CTTAAACGGGTTTATCTCAACTTTTTTAAAGGTTGT
114424782 CTTAAAC
1 CTTAAAC
114424789 AAGGTCTATT
Statistics
Matches: 120, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
34 5 0.04
35 51 0.43
36 48 0.40
37 16 0.13
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (36 bp):
CTTAAACGGGTTTATCTCAACTTTTTTAAAGGTTGT
Found at i:114424731 original size:37 final size:37
Alignment explanation
Indices: 114424648--114424790 Score: 132
Period size: 36 Copynumber: 4.0 Consensus size: 37
114424638 TCTTAAATGG
* **
114424648 GTTTATCTCAA-TTTTTTAAAGGTTGCCTTAAAC-GG
1 GTTTATCTCAACTTTTTTAAAGGTTGTCTTAAACAAT
* * *
114424683 GTTTATTTTAACTTTTTTAAAGGTTGTCTTAGACAAT
1 GTTTATCTCAACTTTTTTAAAGGTTGTCTTAAACAAT
* * * * **
114424720 GTATATCTTAACTTTTTT-AAGGTTGTATTAGACGGT
1 GTTTATCTCAACTTTTTTAAAGGTTGTCTTAAACAAT
* *
114424756 -TTTATCTCAGCCTTTTTAAAGGTTGTCTTAAACAA
1 GTTTATCTCAACTTTTTTAAAGGTTGTCTTAAACAA
114424791 GGTCTATTCC
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
35 22 0.26
36 48 0.56
37 16 0.19
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (37 bp):
GTTTATCTCAACTTTTTTAAAGGTTGTCTTAAACAAT
Found at i:114424760 original size:72 final size:72
Alignment explanation
Indices: 114424613--114424851 Score: 175
Period size: 72 Copynumber: 3.3 Consensus size: 72
114424603 CCTTAGACGT
* *** * *
114424613 GTTTAT-TCCAACCTTTTT-AAGATTGTCTTAAA-TGGGTTTATCTCAATTTTTTAAAGGTTGCC
1 GTTTATCT-CAACCTTTTTAAAGGTTGTCTTAAACAATGTATATCTCAATTTTTTAAAGGTTGCA
114424675 TTAAACGG
65 TTAAACGG
* * * * * *
114424683 GTTTATTTTAACTTTTTTAAAGGTTGTCTTAGACAATGTATATCTTAACTTTTTT-AAGGTTGTA
1 GTTTATCTCAACCTTTTTAAAGGTTGTCTTAAACAATGTATATCTCAA-TTTTTTAAAGGTTGCA
*
114424747 TTAGACGG
65 TTAAACGG
* * * * ** *
114424755 TTTTATCTCAGCCTTTTTAAAGGTTGTCTTAAACAAGGTCTAT-TCCAGCCTTTTT-AGGGTTGC
1 GTTTATCTCAACCTTTTTAAAGGTTGTCTTAAACAATGTATATCT-CA-ATTTTTTAAAGGTTGC
* *
114424818 TTTAAATGG
64 ATTAAACGG
* *
114424827 GTCTATCCCAACCTTTTTTAAAGGT
1 GTTTATCTCAACC-TTTTTAAAGGT
114424852 CAGCATTGAC
Statistics
Matches: 130, Mismatches: 32, Indels: 11
0.75 0.18 0.06
Matches are distributed among these distances:
70 14 0.11
71 14 0.11
72 85 0.65
73 17 0.13
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (72 bp):
GTTTATCTCAACCTTTTTAAAGGTTGTCTTAAACAATGTATATCTCAATTTTTTAAAGGTTGCAT
TAAACGG
Found at i:114428356 original size:19 final size:20
Alignment explanation
Indices: 114428324--114428362 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
114428314 AACATTTATC
* *
114428324 TTGTATTTTTATTAT-TTTA
1 TTGTATTGTAATTATGTTTA
114428343 TTGTATTGTAATTATGTTTA
1 TTGTATTGTAATTATGTTTA
114428363 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:114428376 original size:2 final size:2
Alignment explanation
Indices: 114428369--114428393 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
114428359 TTTAAAGAAG
114428369 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
114428394 ACAAAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114428730 original size:11 final size:10
Alignment explanation
Indices: 114428716--114428862 Score: 73
Period size: 9 Copynumber: 15.4 Consensus size: 10
114428706 TTTTGATACA
114428716 TTTTATAATTT
1 TTTTATAA-TT
*
114428727 TTTTATGA-T
1 TTTTATAATT
*
114428736 TTTTATAA-A
1 TTTTATAATT
* *
114428745 ATTTACAATT
1 TTTTATAATT
*
114428755 TTTTATATAAT
1 TTTTATA-ATT
114428766 TTTTATAAATT
1 TTTTAT-AATT
*
114428777 TTTTATAGTT
1 TTTTATAATT
*
114428787 TTTAAT-A-T
1 TTTTATAATT
114428795 TTTTAT-ATT
1 TTTTATAATT
*
114428804 TTTTATTAAAT
1 TTTTA-TAATT
*
114428815 TTTAATAA--
1 TTTTATAATT
*
114428823 TTTTATAA-C
1 TTTTATAATT
114428832 TTTTAT--TT
1 TTTTATAATT
*
114428840 ATTTAT-ATT
1 TTTTATAATT
*
114428849 ATTTATAATT
1 TTTTATAATT
114428859 TTTT
1 TTTT
114428863 TGCCACATGT
Statistics
Matches: 106, Mismatches: 20, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
8 19 0.18
9 34 0.32
10 23 0.22
11 29 0.27
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:114428739 original size:30 final size:30
Alignment explanation
Indices: 114428705--114428778 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
114428695 TTAAAGGGTC
* * *
114428705 TTTTTGATACATTTTATAATTTTTT-TATGA
1 TTTTT-ATAAATTTTACAATTTTTTATATAA
*
114428735 TTTTTATAAAATTTACAATTTTTTATATAA
1 TTTTTATAAATTTTACAATTTTTTATATAA
114428765 TTTTTATAAATTTT
1 TTTTTATAAATTTT
114428779 TTATAGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTTATAAATTTTACAATTTTTTATATAA
Found at i:114434860 original size:4 final size:4
Alignment explanation
Indices: 114434843--114434875 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
114434833 CCCTTTTCTA
*
114434843 TTTC TTTC TGTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
114434876 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:114440519 original size:4 final size:4
Alignment explanation
Indices: 114440510--114440542 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
114440500 CCCTTTTCTA
114440510 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
114440543 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:114445463 original size:42 final size:42
Alignment explanation
Indices: 114445417--114445500 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
114445407 GCACATTAGA
114445417 ATCTGTTGTATTGTTCAGATTATATAAGCAAAAAAAAAACAT
1 ATCTGTTGTATTGTTCAGATTATATAAGCAAAAAAAAAACAT
114445459 ATCTGTTGTATTGTTCAGATTATATAAGCAAAAAAAAAACAT
1 ATCTGTTGTATTGTTCAGATTATATAAGCAAAAAAAAAACAT
114445501 GTTAAACTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (42 bp):
ATCTGTTGTATTGTTCAGATTATATAAGCAAAAAAAAAACAT
Found at i:114445629 original size:32 final size:32
Alignment explanation
Indices: 114445505--114445622 Score: 218
Period size: 32 Copynumber: 3.6 Consensus size: 32
114445495 AAACATGTTA
114445505 AACTTACTCCTAAAATCATGACACAAACATTG
1 AACTTACTCCTAAAATCATGACACAAACATTG
114445537 AACTTACTCCTAAAATCATGTGACACAAACATTG
1 AACTTACTCCTAAAATCA--TGACACAAACATTG
114445571 AACTTACTCCTAAAATCATGACACAAACATTG
1 AACTTACTCCTAAAATCATGACACAAACATTG
114445603 AACTTACTCCTAAAATCATG
1 AACTTACTCCTAAAATCATG
114445623 TGACAAAATT
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
32 52 0.62
34 32 0.38
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (32 bp):
AACTTACTCCTAAAATCATGACACAAACATTG
Found at i:114448533 original size:23 final size:23
Alignment explanation
Indices: 114448490--114448534 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
114448480 GCTATATTTG
*
114448490 TTTAAAATTCATGTAATAAATTA
1 TTTAAAATTCATGTAAGAAATTA
114448513 TTTAAAATTCAT-TAAAGAAATT
1 TTTAAAATTCATGT-AAGAAATT
114448535 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:114452353 original size:14 final size:14
Alignment explanation
Indices: 114452336--114452366 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
114452326 AATTACATAA
114452336 ATGATATTAGAAGT
1 ATGATATTAGAAGT
114452350 ATGATATTAGAAGT
1 ATGATATTAGAAGT
114452364 ATG
1 ATG
114452367 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:114455331 original size:27 final size:27
Alignment explanation
Indices: 114455300--114455356 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
114455290 CCCTCTTTTC
*
114455300 AAAGCTTCAAGGATAAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
*
114455327 AAAGCTTAAAGGATCAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
114455354 AAA
1 AAA
114455357 TAGATAACTG
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:114459427 original size:35 final size:35
Alignment explanation
Indices: 114459388--114459458 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
114459378 CACATTAAGT
114459388 TAATTTTTTTCGGATCATACGATGGAAATTAATTA
1 TAATTTTTTTCGGATCATACGATGGAAATTAATTA
114459423 TAATTTTTTTCGGATCATACGATGGAAATTAATTA
1 TAATTTTTTTCGGATCATACGATGGAAATTAATTA
114459458 T
1 T
114459459 CCATTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (35 bp):
TAATTTTTTTCGGATCATACGATGGAAATTAATTA
Found at i:114463440 original size:189 final size:189
Alignment explanation
Indices: 114463120--114463501 Score: 633
Period size: 189 Copynumber: 2.0 Consensus size: 189
114463110 TTCACAAATA
114463120 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* *
114463185 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
*
114463250 GGTTTTCAGACTCAGATACTGCCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
131 GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
* * *
114463309 GCAGCATTCTCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACTGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* * *
114463374 T-TCAGATTCTCCTGAAACCTTCGTTTCACACTGAA-CTCTCTCTACAGAATCAGGCAATGATGC
66 TCT-AGATTCTCCTGAAAACTTCGTTTCACACTGAACCT-TATCTACACAATCAGGCAATGATGC
* *
114463437 TGGGTTTTCAGACTCGGATACTACCTGTCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
129 TGGGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
114463498 GCAG
1 GCAG
114463502 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:114468592 original size:26 final size:26
Alignment explanation
Indices: 114468555--114468638 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
114468545 TGATACAAAT
* *
114468555 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114468581 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114468607 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114468633 TGATAA
1 TGATAA
114468639 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:114474345 original size:26 final size:26
Alignment explanation
Indices: 114474308--114474391 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
114474298 TGATACAAAT
* *
114474308 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114474334 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114474360 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114474386 TGATAA
1 TGATAA
114474392 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:114480096 original size:26 final size:26
Alignment explanation
Indices: 114480059--114480142 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
114480049 TGATACAAAT
* *
114480059 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114480085 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114480111 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114480137 TGATAA
1 TGATAA
114480143 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:114488023 original size:26 final size:26
Alignment explanation
Indices: 114487987--114488092 Score: 169
Period size: 26 Copynumber: 4.1 Consensus size: 26
114487977 CATGAATTTC
*
114487987 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
114488013 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
114488039 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
114488065 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
114488090 TTA
1 TTA
114488093 GCAATTTGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 18 0.24
26 56 0.76
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114494150 original size:2 final size:2
Alignment explanation
Indices: 114494143--114494177 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
114494133 TCTAAGATTT
114494143 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114494178 ATTGATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114494197 original size:3 final size:3
Alignment explanation
Indices: 114494169--114494235 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
114494159 TATATATATA
* * **
114494169 TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT T-T TA-
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
*
114494213 TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
114494236 AATAAATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
2 6 0.12
3 38 0.76
4 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:114494748 original size:12 final size:12
Alignment explanation
Indices: 114494731--114494773 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
114494721 GAAACAGAGG
114494731 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
114494743 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
114494755 AG-AAAAGAAAA
1 AGAAAAAGAGAA
114494766 AGGAAAAA
1 A-GAAAAA
114494774 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:114494763 original size:17 final size:18
Alignment explanation
Indices: 114494735--114494768 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
114494725 CAGAGGAGAA
114494735 AAAGAGAAAGAAAAAGGG
1 AAAGAGAAAGAAAAAGGG
114494753 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
114494769 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:114495511 original size:21 final size:21
Alignment explanation
Indices: 114495485--114495552 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
114495475 TTGTTTTGAG
114495485 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
114495506 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
114495524 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
114495546 TACTGAA
1 TACTGAA
114495553 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:114495518 original size:40 final size:40
Alignment explanation
Indices: 114495466--114495552 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
114495456 AATTATGGAA
* * *
114495466 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
* *
114495506 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
114495546 TACTGAA
1 TACTGAA
114495553 GTAATGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
Found at i:114496102 original size:2 final size:2
Alignment explanation
Indices: 114496095--114496133 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
114496085 GAGACTAGTC
114496095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114496134 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114499237 original size:45 final size:45
Alignment explanation
Indices: 114499186--114499284 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
114499176 TGACTACTGT
*
114499186 TACTGTTATCGTTACTATTACCAATTC-GACACTTTGTGTCTCGAA
1 TACTGTTATCGTTACTATTACAAATTCAG-CACTTTGTGTCTCGAA
* * * * *
114499231 TACTGTTACCGTTACTGTTACAAATTCAGTACTTTGTGTGTTGAA
1 TACTGTTATCGTTACTATTACAAATTCAGCACTTTGTGTCTCGAA
114499276 TACTGTTAT
1 TACTGTTAT
114499285 TATTACTGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (45 bp):
TACTGTTATCGTTACTATTACAAATTCAGCACTTTGTGTCTCGAA
Found at i:114505343 original size:3 final size:3
Alignment explanation
Indices: 114505300--114505381 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
114505290 TTTTATTTAG
* *
114505300 ATT ATAT ATAT ATT A-T ATT A-T ATA ATT GATT ATT ATA ATT ATT AATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT
* * *
114505347 ATT ATG GTT -TT A-T ATT ATT ATT AGT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
114505382 AATAAATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
2 8 0.13
3 42 0.67
4 13 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:114505888 original size:12 final size:12
Alignment explanation
Indices: 114505873--114505915 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
114505863 AAAACAGAGG
114505873 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
114505885 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
114505897 AG-AAAAGAAAA
1 AGAAAAAGAGAA
114505908 AGGAAAAA
1 A-GAAAAA
114505916 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:114505905 original size:17 final size:18
Alignment explanation
Indices: 114505877--114505910 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
114505867 CAGAGGAGAA
114505877 AAAGAGAAAGAAAAAGGG
1 AAAGAGAAAGAAAAAGGG
114505895 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
114505911 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:114506967 original size:45 final size:45
Alignment explanation
Indices: 114506903--114507015 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
114506893 TGACTACTGC
114506903 TACTGTTACCGTTACTGTTACCA-ATTCAACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAGATTCAACACTTTGTGTGTCGAA
** *
114506948 TACTGTTACCGTTACTGTTACAGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
** *
114506993 TACTGTTATTGTTACTGCTACAG
1 TACTGTTACCGTTACTGTTACAG
114507016 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:114507006 original size:51 final size:49
Alignment explanation
Indices: 114506888--114507007 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 49
114506878 GAGACACTTA
* *
114506888 TGTGCTGACTACTGCTACTGTTACCGTTACTGTTACCAATTCAACACTTTG
1 TGTGTTGAATACTG-TA-TGTTACCGTTACTGTTACCAATTCAACACTTTG
* **
114506939 TGTGTCGAATAC----TGTTACCGTTACTGTTA-CAGATTCAGTACTTTG
1 TGTGTTGAATACTGTATGTTACCGTTACTGTTACCA-ATTCAACACTTTG
114506984 TGTGTTGAATACTGTTATTGTTAC
1 TGTGTTGAATACTG-TA-TGTTAC
114507008 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:114521465 original size:36 final size:36
Alignment explanation
Indices: 114521393--114521473 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
114521383 TATTCCAACC
* * *
114521393 GAAACACATCAGATGCTCATAATAACTAATCTATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
* * *
114521429 GAAACACATCAGATGCTTATACGAGCCAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
114521465 GATAACACA
1 GA-AACACA
114521474 CCAATGTCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 32 0.84
37 6 0.16
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (36 bp):
GAAACACATCAGATGCTCATAAGAACCAATCCATCT
Found at i:114528023 original size:25 final size:27
Alignment explanation
Indices: 114527995--114528045 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
114527985 CCCGATATAT
*
114527995 GGCTC-TTC-GGAGCTTTCCGATTAAA
1 GGCTCTTTCAGGAGCTTCCCGATTAAA
*
114528020 GGCTCTTTCATGAGCTTCCCGATTAA
1 GGCTCTTTCAGGAGCTTCCCGATTAA
114528046 TTTGCTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 3 0.14
27 14 0.64
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
GGCTCTTTCAGGAGCTTCCCGATTAAA
Found at i:114528158 original size:25 final size:24
Alignment explanation
Indices: 114528028--114528160 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 24
114528018 AAGGCTCTTT
* *
114528028 CATGAGCTTCCCGATTAATTTGCTCT
1 CATGAGCTTCCCGA-TAA-TGGCTCG
* *
114528054 C-TGGAGCTTCCCGATATTGTCTCG
1 CAT-GAGCTTCCCGATAATGGCTCG
* * * * * *
114528078 CTTGAACTTTCCTGTTATTGGCTCA
1 CATGAGC-TTCCCGATAATGGCTCG
* * *
114528103 TATGAGCTTCCCGTTAATGGCTCT
1 CATGAGCTTCCCGATAATGGCTCG
114528127 C-TAGAGCTTCCCGATACATGGCTCG
1 CAT-GAGCTTCCCGATA-ATGGCTCG
114528152 CATGAGCTT
1 CATGAGCTT
114528161 TCCGTTTATA
Statistics
Matches: 83, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.01
24 34 0.41
25 35 0.42
26 13 0.16
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
CATGAGCTTCCCGATAATGGCTCG
Found at i:114528176 original size:74 final size:75
Alignment explanation
Indices: 114528028--114528190 Score: 199
Period size: 74 Copynumber: 2.2 Consensus size: 75
114528018 AAGGCTCTTT
* * * * *
114528028 CATGAGCTTCCCGATTAATTTGCTCTCTGGAGCTTCCCGATATTGTCTCGCTTGAACTTTCCTGT
1 CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATAATGGCTCGCATGAACTTTCCTGT
114528093 TATTGGCTCA
66 TATTGGCTCA
* *
114528103 TATGAGCTTCCCG-TTAA-TGGCTCTCTAGAGCTTCCCGATACATGGCTCGCATGAGCTTTCC-G
1 CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATA-ATGGCTCGCATGAACTTTCCTG
114528165 TTTATAT-GCTCA
65 -TTAT-TGGCTCA
114528177 CATGAGCATTCCCG
1 CATGAGC-TTCCCG
114528191 GATATGAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
73 22 0.29
74 35 0.46
75 19 0.25
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.35
Consensus pattern (75 bp):
CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATAATGGCTCGCATGAACTTTCCTGT
TATTGGCTCA
Found at i:114540881 original size:52 final size:52
Alignment explanation
Indices: 114540820--114540923 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
114540810 CATGCAAATG
*
114540820 TATGTCTGCATATGTGTGCATGTGGATGCCCCAACTCAGAATACCAGTTCCA
1 TATGTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCA
*
114540872 TATGTCTGCATATGTGTGCATGTGGATACCCCAACTTAGAATACCAGTTCCA
1 TATGTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCA
114540924 AACATATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (52 bp):
TATGTCTGCATATGTGTGCATGTGGATACCCCAACTCAGAATACCAGTTCCA
Found at i:114547636 original size:9 final size:9
Alignment explanation
Indices: 114547622--114547689 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
114547612 ATAAGTATAA
114547622 AATTAACCG
1 AATTAACCG
114547631 AATTAACCG
1 AATTAACCG
*
114547640 AATTAACCA
1 AATTAACCG
* *
114547649 AATTACCCA
1 AATTAACCG
*
114547658 AATTAACCA
1 AATTAACCG
*
114547667 AATTAATCG
1 AATTAACCG
114547676 AATTAACCG
1 AATTAACCG
114547685 AATTA
1 AATTA
114547690 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:114547721 original size:6 final size:6
Alignment explanation
Indices: 114547710--114547754 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
114547700 ATTATATGTT
*
114547710 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA T
114547755 ATATTAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:114550288 original size:42 final size:42
Alignment explanation
Indices: 114550241--114550327 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
114550231 GTCTAGAATA
114550241 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
114550283 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
114550325 AAC
1 AAC
114550328 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:114558396 original size:17 final size:18
Alignment explanation
Indices: 114558362--114558404 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
114558352 TAACTTTTTA
114558362 ATTTTGACAATATTAAAATT
1 ATTTT-ACAATA-TAAAATT
114558382 ATTTTACAATA-AAAATT
1 ATTTTACAATATAAAATT
*
114558399 TTTTTA
1 ATTTTA
114558405 TATAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
19 6 0.27
20 5 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTTACAATATAAAATT
Found at i:114558538 original size:2 final size:2
Alignment explanation
Indices: 114558531--114558561 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114558521 TTGATTAAAG
114558531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114558562 TCAAATCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114560762 original size:2 final size:2
Alignment explanation
Indices: 114560755--114560779 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
114560745 TGAAGTAATT
114560755 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
114560780 TGAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114561270 original size:27 final size:27
Alignment explanation
Indices: 114561232--114561287 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
114561222 GGGATTTATC
*
114561232 TATTTTTATAATTTAATGAATTTTTAA
1 TATTTTTATAATTTAATGAATTTTAAA
* **
114561259 TATTTTTCTAATTTGTTGAATTTTAAA
1 TATTTTTATAATTTAATGAATTTTAAA
114561286 TA
1 TA
114561288 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:0.05, T:0.59
Consensus pattern (27 bp):
TATTTTTATAATTTAATGAATTTTAAA
Found at i:114561472 original size:2 final size:2
Alignment explanation
Indices: 114561465--114561496 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
114561455 ATACTTTACA
114561465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114561497 TTATTTTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114562922 original size:31 final size:31
Alignment explanation
Indices: 114562864--114562922 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
114562854 ATGACCAAAT
* * *
114562864 TAAAGTACAATGACTAAAATCATAACTTTTG
1 TAAACTACAATGACTAAAAGCAGAACTTTTG
*
114562895 TAAACTACAATGACTAATAGCAGAACTT
1 TAAACTACAATGACTAAAAGCAGAACTT
114562923 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:114565642 original size:22 final size:22
Alignment explanation
Indices: 114565616--114565661 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
114565606 CGATAACTTA
*
114565616 AATAA-AATTTTTTAAATATTTT
1 AATAATAATTTTATAAA-ATTTT
*
114565638 AATAATTATTTTATAAAATTTT
1 AATAATAATTTTATAAAATTTT
114565660 AA
1 AA
114565662 AATTAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATAATAATTTTATAAAATTTT
Found at i:114565648 original size:23 final size:21
Alignment explanation
Indices: 114565618--114565666 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
114565608 ATAACTTAAA
*
114565618 TAAAATT-TTTTA-AATATTT
1 TAAAATTATTTTATAAAATTT
114565637 TAATAATTATTTTATAAAATTT
1 TAA-AATTATTTTATAAAATTT
114565659 TAAAATTA
1 TAAAATTA
114565667 AACAATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 10 0.38
22 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATTATTTTATAAAATTT
Found at i:114568408 original size:22 final size:22
Alignment explanation
Indices: 114568375--114568417 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
114568365 TGAATACGTT
114568375 ATTTAGGAGCCTTTGTGGCTAA
1 ATTTAGGAGCCTTTGTGGCTAA
114568397 ATTT-GGATGCCTTTGTGGCTA
1 ATTTAGGA-GCCTTTGTGGCTA
114568418 TCTTGCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (22 bp):
ATTTAGGAGCCTTTGTGGCTAA
Found at i:114573569 original size:2 final size:2
Alignment explanation
Indices: 114573562--114573599 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
114573552 TTCTAGAGTA
114573562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114573600 GTTTTCTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114576713 original size:53 final size:53
Alignment explanation
Indices: 114576613--114576717 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
114576603 TTCCTTTTTA
* * * * **
114576613 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTTTCATTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCATACATGGGATCATTGCCTTATG
* * *
114576666 AACTCACCATTGCCATGCCTTGGCATGGTCATGCATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCATACATGGGATCATTGCCTTAT
114576718 CATAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCATACATGGGATCATTGCCTTATG
Found at i:114579332 original size:24 final size:24
Alignment explanation
Indices: 114579300--114579371 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
114579290 TTGGATGGGA
114579300 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
*
114579324 AATGATTAGAGGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
114579348 AATGATTAGAAGATGAATTCTAAC
1 AATGATTAGAAGATGAATTCTAAC
114579372 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:114582832 original size:20 final size:20
Alignment explanation
Indices: 114582761--114582832 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
114582751 AAATTCATGG
* *
114582761 TTATGATTAGGATATGAGTA
1 TTATGATTTGGATTTGAGTA
* *
114582781 TTATGATTTTAGATGATTGAGTT
1 TTATGA-TTTGGAT--TTGAGTA
114582804 TTATGATTTGGATTTGAGTA
1 TTATGATTTGGATTTGAGTA
114582824 TTATGATTT
1 TTATGATTT
114582833 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:114584648 original size:12 final size:13
Alignment explanation
Indices: 114584631--114584662 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
114584621 ATAGCACATT
114584631 TCAAAAC-ATGCA
1 TCAAAACTATGCA
114584643 TCAAAACTATGCA
1 TCAAAACTATGCA
114584656 -CAAAACT
1 TCAAAACT
114584663 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:114595111 original size:16 final size:17
Alignment explanation
Indices: 114595090--114595121 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
114595080 TTTAAAAAAA
114595090 TTATAAAAAT-ATAAAT
1 TTATAAAAATAATAAAT
114595106 TTATAAAAATAATAAA
1 TTATAAAAATAATAAA
114595122 AAGCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTATAAAAATAATAAAT
Found at i:114595197 original size:8 final size:8
Alignment explanation
Indices: 114595161--114595213 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
114595151 AAAAGTTGCA
114595161 ATATAATAT
1 ATATAA-AT
114595170 ATATAAAT
1 ATATAAAT
*
114595178 TTA-AAAT
1 ATATAAAT
*
114595185 TTATAAAT
1 ATATAAAT
114595193 ATATAGAAAT
1 ATAT--AAAT
114595203 ATATAAAT
1 ATATAAAT
114595211 ATA
1 ATA
114595214 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:114595210 original size:33 final size:33
Alignment explanation
Indices: 114595168--114595242 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
114595158 GCAATATAAT
* *
114595168 ATATATAAATTTAAAATTTATAAATATATA-GAA
1 ATATATAAATAT-AAATTTATAAAAATATATGAA
114595201 ATATATAAATATAAATTTATAAAAATATATGAA
1 ATATATAAATATAAATTTATAAAAATATATGAA
114595234 AGTAT-TAAA
1 A-TATATAAA
114595243 ATCACATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 16 0.42
33 19 0.50
34 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (33 bp):
ATATATAAATATAAATTTATAAAAATATATGAA
Found at i:114595213 original size:24 final size:24
Alignment explanation
Indices: 114595160--114595230 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
114595150 AAAAAGTTGC
* *
114595160 AATAT-AATATATATAAATTTA-A
1 AATATAAATATATAAAAATATATA
*
114595182 AATTTATAAATATATAGAAATATATA
1 AA--TATAAATATATAAAAATATATA
*
114595208 AATATAAATTTATAAAAATATAT
1 AATATAAATATATAAAAATATAT
114595231 GAAAGTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 2 0.05
24 22 0.54
25 14 0.34
26 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (24 bp):
AATATAAATATATAAAAATATATA
Found at i:114597316 original size:21 final size:21
Alignment explanation
Indices: 114597291--114597330 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
114597281 TTTATTATTT
*
114597291 ATTAATCATATTTACTTAATG
1 ATTAATCATATTTAATTAATG
*
114597312 ATTAATCTTATTTAATTAA
1 ATTAATCATATTTAATTAA
114597331 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:114603158 original size:17 final size:16
Alignment explanation
Indices: 114603117--114603158 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
114603107 CTCTCCCACT
114603117 ACTAAAATAAAAATAA
1 ACTAAAATAAAAATAA
114603133 ACTAGAAATAAAATAATAA
1 ACTA-AAAT-AAA-AATAA
114603152 AC-AAAAT
1 ACTAAAAT
114603159 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:114608418 original size:49 final size:49
Alignment explanation
Indices: 114608341--114608494 Score: 220
Period size: 49 Copynumber: 3.2 Consensus size: 49
114608331 TTATGCTATG
* ** *
114608341 CATTTCTAAACTGGGTCTTCCATTGTCTACACTCTCATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTATTTATA
* *
114608390 CATTGCTAAACTTCGTCTTCCATTGTCTATACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTATTTATA
* * *
114608439 CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATC
1 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTATTTATA
114608488 CA-TGCTA
1 CATTGCTA
114608495 GAATGTCAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 5 0.05
49 90 0.95
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCACTATTTATA
Found at i:114610743 original size:3 final size:3
Alignment explanation
Indices: 114610737--114610810 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
114610727 TTTAATGCAC
114610737 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114610785 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
114610811 CTACTTATAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:114613814 original size:3 final size:3
Alignment explanation
Indices: 114613806--114614109 Score: 234
Period size: 3 Copynumber: 100.0 Consensus size: 3
114613796 AAGCATAAAC
114613806 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114613854 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
114613902 TAA TGA TAA CAT TGGAA T-A TAA -AA GAA -ACA AACA TAA CAT TAA TAA
1 TAA TAA TAA TAA T--AA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA
* * * * *
114613948 -AA TAT TAA -AA TAA -AG TGA -AA TAA AAA TAT TAA -ATA TGAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA
* * *
114613989 TATA TATA TGTA TACA CGTACA TAA TAA AAA TATA TAC TAA TACA TAA
1 TA-A TA-A T-AA TA-A --TA-A TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
114614037 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
114614085 TAA TAA TAC TAA TAA T-A TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
114614110 CAAGGATATT
Statistics
Matches: 245, Mismatches: 33, Indels: 46
0.76 0.10 0.14
Matches are distributed among these distances:
2 18 0.07
3 198 0.81
4 22 0.09
5 3 0.01
6 4 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:114616079 original size:57 final size:56
Alignment explanation
Indices: 114615938--114616107 Score: 281
Period size: 57 Copynumber: 3.0 Consensus size: 56
114615928 TAAAAGCAGA
*
114615938 TTTTGAAAAACAGAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 TTTTGAAAAACATAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
114615992 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTTTGAAAAACAT-AAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
114616049 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTTTGAAAAACATAAATT-AAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
114616106 TT
1 TT
114616108 AAAAGGTAGA
Statistics
Matches: 107, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
54 12 0.11
55 38 0.36
56 4 0.04
57 53 0.50
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (56 bp):
TTTTGAAAAACATAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
Found at i:114616299 original size:13 final size:13
Alignment explanation
Indices: 114616281--114616310 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
114616271 TGATTTTTGA
114616281 AAAACAGAAACTG
1 AAAACAGAAACTG
*
114616294 AAAACAGAAATTG
1 AAAACAGAAACTG
114616307 AAAA
1 AAAA
114616311 TACCTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:114616429 original size:89 final size:87
Alignment explanation
Indices: 114616072--114616540 Score: 442
Period size: 89 Copynumber: 5.4 Consensus size: 87
114616062 AAATTGAAAG
** *
114616072 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-AAAAGGTAGAAATTGAAAAAAACAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAT-G-AATTG--AAAAACAGAA
* *
114616135 ATTGAAATTACCTCAGCATGTCCTGA
62 ATTGAAATTACCTCAGCGTGTCATGA
* * * * ** **
114616161 AGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTG-AAACTTGATTTGAAAAGTAGATTTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACATGAATTGAAAAACAGAAATT
* ** **
114616225 GAAA--A-AT-AGAAAT-T-AAAA
65 GAAATTACCTCAG-CGTGTCATGA
* *
114616243 GACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACA-GAAACTG-AAAACAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATG-AATTGAAAAACAGAAAT
* * **
114616305 TGAAAATACCTCAGCGTGCCCCGA
64 TGAAATTACCTCAGCGTGTCATGA
*
114616329 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATGAATTGAGAAAATAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACATGAATTGA-AAAACAGAAAT
* *
114616394 TGCAATTACCTCAACGTGTCATGA
64 TGAAATTACCTCAGCGTGTCATGA
* ** *
114616418 GGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTG-AAAGGTAGAATTTTGAAAAACAAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAT-GAA--TTGAAAAACAGAAA
*
114616482 TTGAAATTACCTCAGCGTGTCGTGA
63 TTGAAATTACCTCAGCGTGTCATGA
114616507 GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTT
114616541 CTGAGAACAG
Statistics
Matches: 309, Mismatches: 50, Indels: 42
0.77 0.12 0.10
Matches are distributed among these distances:
80 6 0.02
81 13 0.04
82 36 0.12
83 4 0.01
84 5 0.02
85 3 0.01
86 31 0.10
87 26 0.08
88 16 0.05
89 155 0.50
90 5 0.02
91 9 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (87 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATGAATTGAAAAACAGAAATTG
AAATTACCTCAGCGTGTCATGA
Found at i:114618898 original size:1 final size:1
Alignment explanation
Indices: 114618888--114618931 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
114618878 TTAATCTCTC
* * * *
114618888 TTTTTGTTTTTTTTTTTGTTTTTTTTATTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
114618932 CTTTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:114618909 original size:10 final size:10
Alignment explanation
Indices: 114618888--114618931 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
114618878 TTAATCTCTC
*
114618888 TTTTTGTTTT
1 TTTTTATTTT
*
114618898 TTTTTTTGTTT
1 TTTTTAT-TTT
114618909 TTTTTATTTT
1 TTTTTATTTT
114618919 TTTTTATTTT
1 TTTTTATTTT
114618929 TTT
1 TTT
114618932 CTTTCATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:114623573 original size:3 final size:3
Alignment explanation
Indices: 114623565--114623636 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
114623555 AAGCATAAAC
114623565 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
114623613 TAA TAA TAA TAA TAT TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
114623637 CATTGGAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:114623748 original size:22 final size:23
Alignment explanation
Indices: 114623731--114623788 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 23
114623721 TGTATACACG
114623731 TACATAATAA-AATATATACTAA
1 TACATAATAATAATATATACTAA
*
114623753 TACATAATAATAATAATAATAGTAA
1 TACATAATAATAAT-AT-ATACTAA
114623778 TAC-TAATAATA
1 TACATAATAATA
114623789 CTAATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 10 0.31
23 3 0.09
24 10 0.31
25 9 0.28
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATAATATATACTAA
Found at i:114623755 original size:28 final size:24
Alignment explanation
Indices: 114623711--114623788 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 24
114623701 ATTAAATATG
*
114623711 AAAATATATATGTATACACGTACATAAT
1 AAAATATATAT-AATACA--TA-ATAAT
114623739 AAAATATATACTAATACATAATAAT
1 AAAATATATA-TAATACATAATAAT
114623764 AATAATA-ATAGTAATAC-TAATAAT
1 AA-AATATATA-TAATACATAATAAT
114623788 A
1 A
114623789 CTAATAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.17
25 16 0.35
26 6 0.13
28 15 0.33
29 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATATATATAATACATAATAAT
Found at i:114623764 original size:3 final size:3
Alignment explanation
Indices: 114623734--114623806 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
114623724 ATACACGTAC
* *
114623734 ATA ATA A-A ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
114623780 CTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
114623807 CAGGGATATT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:114625170 original size:22 final size:23
Alignment explanation
Indices: 114625145--114625190 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
114625135 CAACCAAATC
114625145 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
114625167 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
114625190 A
1 A
114625191 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:114625196 original size:23 final size:23
Alignment explanation
Indices: 114625152--114625196 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
114625142 ATCAATTCAA
*
114625152 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
114625175 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
114625197 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:114640436 original size:5 final size:5
Alignment explanation
Indices: 114640421--114640481 Score: 99
Period size: 5 Copynumber: 12.6 Consensus size: 5
114640411 ATGTTGGTTA
*
114640421 ATATT AAATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA-T
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
114640470 ATA-T ATATT ATA
1 ATATT ATATT ATA
114640482 ATGAAATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
4 8 0.15
5 45 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:114640820 original size:9 final size:9
Alignment explanation
Indices: 114640806--114640839 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
114640796 AAATAGATAT
114640806 TTATTATAA
1 TTATTATAA
114640815 TTATTATAA
1 TTATTATAA
*
114640824 TGTATTATTA
1 T-TATTATAA
114640834 TTATTA
1 TTATTA
114640840 ACAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATTATAA
Found at i:114640851 original size:2 final size:2
Alignment explanation
Indices: 114640844--114640876 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114640834 TTATTAACAA
114640844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114640877 AGATATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114640950 original size:4 final size:4
Alignment explanation
Indices: 114640941--114640975 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
114640931 AAAACAGGGG
114640941 AGAA AGAA AGAA AGGAAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA A-G-AA AGAA AGAA AGAA AGAA A
114640976 AGGGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.83
5 2 0.07
6 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:114640962 original size:18 final size:17
Alignment explanation
Indices: 114640883--114640977 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 17
114640873 TATAAGATAT
114640883 AAAGAAAAGAAAGAAACGAA
1 AAAG-AAAGAAAGAAA-G-A
* *
114640903 AAAGAAGGAAAAAACAGA
1 AAAGAAAGAAAGAA-AGA
* *
114640921 ATAGAAACGAAA-AACAGG
1 AAAGAAA-GAAAGAA-AGA
**
114640939 GGAGAAAGAAAGAAAGGA
1 AAAGAAAGAAAGAAA-GA
114640957 AAAGAAAGAAAGAAAGA
1 AAAGAAAGAAAGAAAGA
114640974 AAAG
1 AAAG
114640978 GGAGAAATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
17 11 0.18
18 32 0.52
19 13 0.21
20 5 0.08
ACGTcount: A:0.69, C:0.04, G:0.25, T:0.01
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAGA
Found at i:114641384 original size:12 final size:11
Alignment explanation
Indices: 114641364--114641415 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
114641354 GTTAAGATTA
*
114641364 AAATTGAAATT
1 AAATAGAAATT
114641375 AAAGTAGAAATT
1 AAA-TAGAAATT
*
114641387 GAATAGAAATT
1 AAATAGAAATT
*
114641398 GAATAAGAAATTT
1 AAAT-AGAAA-TT
114641411 AAATA
1 AAATA
114641416 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Done.