Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009600.1 Hibiscus syriacus cultivar Beakdansim tig00116980_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 308658
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:2681 original size:21 final size:21
Alignment explanation
Indices: 2655--2698 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2645 GCCTTTGTTC
2655 CACGGTCAATTTGGCAAAATT
1 CACGGTCAATTTGGCAAAATT
2676 CACGGTCAATTTGGCAAAATT
1 CACGGTCAATTTGGCAAAATT
2697 CA
1 CA
2699 GATTCCTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
CACGGTCAATTTGGCAAAATT
Found at i:8180 original size:21 final size:22
Alignment explanation
Indices: 8145--8186 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8135 CAACCAAACA
*
8145 GAAAATAAACTAAAAATAAAAG
1 GAAAATAAACTAAAAAAAAAAG
*
8167 GAAAA-AAAGTAAAAAAAAAA
1 GAAAATAAACTAAAAAAAAAA
8187 AGATGTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (22 bp):
GAAAATAAACTAAAAAAAAAAG
Found at i:10385 original size:11 final size:12
Alignment explanation
Indices: 10345--10388 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
10335 TATTTAAACG
*
10345 GGTATTGGGCCA
1 GGTATTGGGTCA
*
10357 GGTATTGGGTCG
1 GGTATTGGGTCA
10369 GGTATTGGGTC-
1 GGTATTGGGTCA
10380 GGTATTGGG
1 GGTATTGGG
10389 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:10387 original size:23 final size:24
Alignment explanation
Indices: 10343--10388 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10333 ATTATTTAAA
10343 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
10367 CGGGTATTGGGTC-GGTATTGGG
1 CGGGTATTGGGCCAGGTATTGGG
10389 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:10557 original size:13 final size:13
Alignment explanation
Indices: 10501--10544 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
10491 TTTAATATTT
*
10501 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
10513 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
*
10526 ATTGGGGCGGGTA
1 ATCGGGGCGGGTA
10539 ATCGGG
1 ATCGGG
10545 TAATCGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.20
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:12765 original size:30 final size:31
Alignment explanation
Indices: 12695--12788 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
12685 GAACCTCGGC
* *
12695 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * **
12726 AATTGTCCATATGTTCCTTAGAACATAGGT-
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
*
12756 AACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
12787 AA
1 AA
12789 ACCCTCGACT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 21 0.42
31 29 0.58
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:12947 original size:2 final size:2
Alignment explanation
Indices: 12940--13030 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
12930 TCACATGTAT
12940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13024 TA TA TA T
1 TA TA TA T
13031 GTATTCATGT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13626 original size:64 final size:64
Alignment explanation
Indices: 13515--13662 Score: 192
Period size: 64 Copynumber: 2.3 Consensus size: 64
13505 TCTTTCAATG
* * * * *
13515 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTTATTTTAA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTT-A
* * *
13580 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
13643 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
13663 TATGAATGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 5 0.07
64 63 0.86
65 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (64 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
Found at i:16993 original size:31 final size:31
Alignment explanation
Indices: 16939--17032 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 31
16929 GAACCTCGGC
* *
16939 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
16970 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * * *
17001 TACTGTTCATATGTCTCGAAG-ACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
17031 AA
1 AA
17033 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:17828 original size:65 final size:62
Alignment explanation
Indices: 17687--17833 Score: 181
Period size: 63 Copynumber: 2.3 Consensus size: 62
17677 TCTTTCAATG
* *
17687 AAGGTATGCATCGATGCACTACTTGTGCATCGTGCATAAAATGCATTCGATGTTTTATTTTAA
1 AAGG-ATGCATCGATGCACTACTTATGCATCGTGCATAAAAGGCATTCGATGTTTTATTTTAA
* * *
17750 AAGGATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTT-TCTTTT
1 AAGGATGCATCGATGCACTA-CTTATGCATCG-TGCATAAAAGGCATTCGATGTT-TTAT-TTTA
17813 A
62 A
17814 AAGGAATGCATCGATGCACT
1 AAGG-ATGCATCGATGCACT
17834 TATGAATGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
62 23 0.32
63 26 0.36
64 10 0.14
65 14 0.19
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
AAGGATGCATCGATGCACTACTTATGCATCGTGCATAAAAGGCATTCGATGTTTTATTTTAA
Found at i:19647 original size:27 final size:28
Alignment explanation
Indices: 19608--19674 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
19598 TTTGATATAA
19608 TTATAT-TAT-TATATCAAA-ATACACT
1 TTATATATATATATATCAAAGATACACT
*
19633 TTATATATATATATATTAAAGATACACT
1 TTATATATATATATATCAAAGATACACT
*
19661 TTATTTAT-TATATA
1 TTATATATATATATA
19675 ATCATACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 6 0.16
26 3 0.08
27 14 0.38
28 14 0.38
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.48
Consensus pattern (28 bp):
TTATATATATATATATCAAAGATACACT
Found at i:34445 original size:31 final size:31
Alignment explanation
Indices: 34407--34468 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
34397 AAGTGTTCTA
34407 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
34438 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
34469 ATGTGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:34501 original size:22 final size:22
Alignment explanation
Indices: 34473--34523 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
34463 CTTTGCATGT
34473 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
34495 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
34517 GCC-TGCA
1 GCCATGCA
34524 TGCAGTGGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.14
Consensus pattern (22 bp):
GCCATGCACGTCGGAAGAGGTC
Found at i:34892 original size:20 final size:20
Alignment explanation
Indices: 34867--34917 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
34857 CACGAAATGT
* *
34867 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTAGAAATAA
34887 AAGATTACCAGTAGAAATAA
1 AAGATTACCAGTAGAAATAA
34907 AAGATTACCAG
1 AAGATTACCAG
34918 GGAATAGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTAGAAATAA
Found at i:36096 original size:7 final size:7
Alignment explanation
Indices: 36084--36108 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36074 TAAATTTAAA
36084 AAAACTC
1 AAAACTC
36091 AAAACTC
1 AAAACTC
36098 AAAACTC
1 AAAACTC
36105 AAAA
1 AAAA
36109 TACAACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAACTC
Found at i:36257 original size:16 final size:16
Alignment explanation
Indices: 36236--36271 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
36226 TAATTTTACA
36236 TAAACTAAAA-TACTAT
1 TAAACTAAAATTA-TAT
36252 TAAACTAAAATTATAT
1 TAAACTAAAATTATAT
36268 TAAA
1 TAAA
36272 TATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAACTAAAATTATAT
Found at i:36638 original size:21 final size:20
Alignment explanation
Indices: 36585--36640 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
36575 GGTACGTTTG
*
36585 TTATTAAAAATATTATATATT
1 TTATTAAAAAT-TTATACATT
**
36606 TT-TTAATTATTTATACATTT
1 TTATTAAAAATTTATACA-TT
36626 TTATTAAAAATTTAT
1 TTATTAAAAATTTAT
36641 TTTCACCTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 12 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTAAAAATTTATACATT
Found at i:38386 original size:18 final size:17
Alignment explanation
Indices: 38363--38397 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
38353 TAGGGTTACA
38363 TATTTTTAATCTAAATAT
1 TATTTTT-ATCTAAATAT
38381 TATTTTTATCTAAATAT
1 TATTTTTATCTAAATAT
38398 CGGTCCCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTTATCTAAATAT
Found at i:41391 original size:33 final size:33
Alignment explanation
Indices: 41349--41415 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
41339 TGAAAATCCA
*
41349 GCTTTTCTTGTGACTGTTGAGGTGGCGTTCTTG
1 GCTTTTCTTGTGACCGTTGAGGTGGCGTTCTTG
41382 GCTTTTCTTGTGACCGTTGAGGTGGCGTTCTTG
1 GCTTTTCTTGTGACCGTTGAGGTGGCGTTCTTG
41415 G
1 G
41416 TGTATCCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.06, C:0.16, G:0.34, T:0.43
Consensus pattern (33 bp):
GCTTTTCTTGTGACCGTTGAGGTGGCGTTCTTG
Found at i:46593 original size:17 final size:17
Alignment explanation
Indices: 46571--46604 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46561 ACTATTATTC
46571 CATAATTTAATTTTTGT
1 CATAATTTAATTTTTGT
46588 CATAATTTAATTTTTGT
1 CATAATTTAATTTTTGT
46605 TTTTATGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
CATAATTTAATTTTTGT
Found at i:58711 original size:27 final size:27
Alignment explanation
Indices: 58673--58727 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
58663 AAGAATAGCT
58673 TGATTAAGTTGAGTGTATTCTTGAGGG
1 TGATTAAGTTGAGTGTATTCTTGAGGG
58700 TGATTAAGTTGAGTGTATTCTTGAGGG
1 TGATTAAGTTGAGTGTATTCTTGAGGG
58727 T
1 T
58728 TTGGGATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.42
Consensus pattern (27 bp):
TGATTAAGTTGAGTGTATTCTTGAGGG
Found at i:60068 original size:27 final size:25
Alignment explanation
Indices: 60031--60084 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
60021 AAGATTGACC
60031 TTAAAACTATCCTTCCCAAGCTAAA
1 TTAAAACTATCCTTCCCAAGCTAAA
*
60056 TTAAACACTTATCCTTCCCAGGCTAAA
1 TTAAA-AC-TATCCTTCCCAAGCTAAA
60083 TT
1 TT
60085 CAAATGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.19
26 2 0.08
27 19 0.73
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAAACTATCCTTCCCAAGCTAAA
Found at i:84243 original size:387 final size:387
Alignment explanation
Indices: 83529--84304 Score: 1471
Period size: 387 Copynumber: 2.0 Consensus size: 387
83519 CTCTCGGATT
*
83529 CCGACAACCAAGGGTGCGACTGCTAGTTTGGTTAGCATAGGAAAGTTAACAAGTTTGAACCAAAA
1 CCGACAACCAAGGGTGCGACTGCAAGTTTGGTTAGCATAGGAAAGTTAACAAGTTTGAACCAAAA
83594 TTACAGTGATTGAACGATAAATGTCTATTTCATACAATCCATCATGCATATAAGTTTGAAACTAA
66 TTACAGTGATTGAACGATAAATGTCTATTTCATACAATCCATCATGCATATAAGTTTGAAACTAA
83659 GGACAGTACCTTGAGATAAACGTCTAGTGCACGGTACAGACCTTCATGCAAGGACCTAGCTCAGT
131 GGACAGTACCTTGAGATAAACGTCTAGTGCACGGTACAGACCTTCATGCAAGGACCTAGCTCAGT
83724 CAGGAAGAGAAGCAGCAAGAGCTTAAAACTTGCATACGTTGCAGTCGGGAACGAAATAAAACCAA
196 CAGGAAGAGAAGCAGCAAGAGCTTAAAACTTGCATACGTTGCAGTCGGGAACGAAATAAAACCAA
*
83789 CCGACCCTGAAGCTCAATATGTTCTAGCCGCGATGCAGAACATTTACAATGCTCTGGTATCAGCA
261 CCGACCCTGAAGCTCAATATGTTCTAGCCGAGATGCAGAACATTTACAATGCTCTGGTATCAGCA
*
83854 CAAGTATCTGATCAGATCAAGGTTTCAACGTCAGTGGAAGCGAGTCTGTTGGGCCAATCGTA
326 CAAGTATCTGATCAGATCAAGGTTTCAACGTCAGTGGAAGCGAGTCTGCTGGGCCAATCGTA
* *
83916 CCGACAACCAAGGGTGTGACTGCAAGTTTGGTTATCATAGGAAAGTTAACAAGTTTGAACCAAAA
1 CCGACAACCAAGGGTGCGACTGCAAGTTTGGTTAGCATAGGAAAGTTAACAAGTTTGAACCAAAA
83981 TTACAGTGATTGAACGATAAATGTCTATTTCATACAATCCATCATGCATATAAGTTTGAAACTAA
66 TTACAGTGATTGAACGATAAATGTCTATTTCATACAATCCATCATGCATATAAGTTTGAAACTAA
84046 GGACAGTACCTTGAGATAAACGTCTAGTGCACGGTACAGACCTTCATGCAAGGACCTAGCTCAGT
131 GGACAGTACCTTGAGATAAACGTCTAGTGCACGGTACAGACCTTCATGCAAGGACCTAGCTCAGT
* *
84111 CAGGAAGAGAAGCAGCAAGAGCTTAAAACTTGTATACGTTGCTGTCGGGAACGAAATAAAACCAA
196 CAGGAAGAGAAGCAGCAAGAGCTTAAAACTTGCATACGTTGCAGTCGGGAACGAAATAAAACCAA
*
84176 TCGACCCTGAAGCTCAATATGTTCTAGCCGAGATGCAGAACATTTACAATGCTCTGGTATCAGCA
261 CCGACCCTGAAGCTCAATATGTTCTAGCCGAGATGCAGAACATTTACAATGCTCTGGTATCAGCA
*
84241 CAAGTATCTGATCAGATCAAGGTTTCAATGTCAGTGGAAGCGAGTCTGCTGGGCCAATCGTA
326 CAAGTATCTGATCAGATCAAGGTTTCAACGTCAGTGGAAGCGAGTCTGCTGGGCCAATCGTA
84303 CC
1 CC
84305 CTCCATCAGC
Statistics
Matches: 380, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
387 380 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (387 bp):
CCGACAACCAAGGGTGCGACTGCAAGTTTGGTTAGCATAGGAAAGTTAACAAGTTTGAACCAAAA
TTACAGTGATTGAACGATAAATGTCTATTTCATACAATCCATCATGCATATAAGTTTGAAACTAA
GGACAGTACCTTGAGATAAACGTCTAGTGCACGGTACAGACCTTCATGCAAGGACCTAGCTCAGT
CAGGAAGAGAAGCAGCAAGAGCTTAAAACTTGCATACGTTGCAGTCGGGAACGAAATAAAACCAA
CCGACCCTGAAGCTCAATATGTTCTAGCCGAGATGCAGAACATTTACAATGCTCTGGTATCAGCA
CAAGTATCTGATCAGATCAAGGTTTCAACGTCAGTGGAAGCGAGTCTGCTGGGCCAATCGTA
Found at i:85333 original size:3 final size:3
Alignment explanation
Indices: 85294--85318 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85284 ATCGTTTGAC
85294 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85319 AATTCAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:87732 original size:29 final size:30
Alignment explanation
Indices: 87669--87737 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
87659 TAAACATTAG
* * *
87669 AAATGTATTTTATTTTTTACATGATTTATT
1 AAATATATTTTATTTTTTACATAATTTAAT
*
87699 AAATATATTTTATTTTTATA-TTAATTTAAT
1 AAATATATTTTATTTTT-TACATAATTTAAT
87729 AATATATAT
1 AA-ATATAT
87738 GTATATATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (30 bp):
AAATATATTTTATTTTTTACATAATTTAAT
Found at i:109038 original size:30 final size:29
Alignment explanation
Indices: 109004--109098 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 29
108994 CTAACAATAG
* *
109004 AAAATGAGATGGACAAAATCAAAATAAATC
1 AAAATGAG-GGGACAAAATCAAAATAAACC
*
109034 AAAATTGGGGGGACAAAATCAAAATAAACC
1 AAAA-TGAGGGGACAAAATCAAAATAAACC
* *
109064 AAAATTAGGGGAACAAAATCAAAATAAACT
1 AAAATGAGGGG-ACAAAATCAAAATAAACC
109094 AAAAT
1 AAAAT
109099 TTAAAGGTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.09
30 49 0.86
31 3 0.05
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.16
Consensus pattern (29 bp):
AAAATGAGGGGACAAAATCAAAATAAACC
Found at i:109099 original size:30 final size:30
Alignment explanation
Indices: 109016--109099 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
109006 AATGAGATGG
* *
109016 ACAAAATCAAAATAAA-TCAAAATTGGGGGG
1 ACAAAATCAAAATAAACT-AAAATTAGGGGA
*
109046 ACAAAATCAAAATAAACCAAAATTAGGGGA
1 ACAAAATCAAAATAAACTAAAATTAGGGGA
109076 ACAAAATCAAAATAAACTAAAATT
1 ACAAAATCAAAATAAACTAAAATT
109100 TAAAGGTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (30 bp):
ACAAAATCAAAATAAACTAAAATTAGGGGA
Found at i:109274 original size:24 final size:23
Alignment explanation
Indices: 109236--109285 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
109226 TTTAAAAAAT
*
109236 ATTTTTTTATAATTTGATCTCTA
1 ATTTTTTTATAATTTAATCTCTA
* *
109259 ATTTTTTTATTTATTTAATTTCTA
1 ATTTTTTTA-TAATTTAATCTCTA
109283 ATT
1 ATT
109286 AATTCAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (23 bp):
ATTTTTTTATAATTTAATCTCTA
Found at i:112911 original size:21 final size:20
Alignment explanation
Indices: 112825--112982 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
112815 AAATGACCAA
**
112825 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
112844 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
112864 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
112884 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
112905 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
112926 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
112946 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
112967 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
112983 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:113011 original size:20 final size:20
Alignment explanation
Indices: 112949--113138 Score: 213
Period size: 20 Copynumber: 9.4 Consensus size: 20
112939 CGATTTTCCA
* ** *
112949 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
112969 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
112989 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
113009 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
113029 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
113049 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
113069 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
113089 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
113109 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
113130 AAATCGCAA
1 AAATCGCAA
113139 TGCGATATTT
Statistics
Matches: 142, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 122 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:113033 original size:60 final size:60
Alignment explanation
Indices: 112949--113138 Score: 245
Period size: 60 Copynumber: 3.1 Consensus size: 60
112939 CGATTTTCCA
* ** * *
112949 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
113009 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
113069 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
113130 AAATCGCAA
1 AAATCGCAA
113139 TGCGATATTT
Statistics
Matches: 108, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 81 0.75
61 27 0.25
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:113564 original size:33 final size:33
Alignment explanation
Indices: 113525--113595 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
113515 TTCACTTAGA
*
113525 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
113558 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
113591 TTTCA
1 TTTCA
113596 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:113719 original size:20 final size:20
Alignment explanation
Indices: 113677--113784 Score: 104
Period size: 21 Copynumber: 5.7 Consensus size: 20
113667 CAGAAGAGTT
*
113677 GCAACGAGATAAATGAAAATC
1 GCAACGAGA-GAATGAAAATC
***
113698 GCAACGAGAGAATGACTGTC
1 GCAACGAGAGAATGAAAATC
113718 GCAACGAGAGAAATGAAAATC
1 GCAACGAGAG-AATGAAAATC
113739 GCAAC--GAG-A-G--AATC
1 GCAACGAGAGAATGAAAATC
*
113753 GCAACGCGA-AATGAAAATC
1 GCAACGAGAGAATGAAAATC
113772 GCAACGAGAGAAT
1 GCAACGAGAGAAT
113785 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 2 0.03
19 15 0.21
20 20 0.28
21 21 0.30
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
GCAACGAGAGAATGAAAATC
Found at i:113734 original size:41 final size:37
Alignment explanation
Indices: 113677--113791 Score: 134
Period size: 33 Copynumber: 3.2 Consensus size: 37
113667 CAGAAGAGTT
*
113677 GCAACGAGATAAATGAAAATCGCAACGAGAGAATGACTGTC
1 GCAACGAGAGAAATGAAAATCGCAACGAGAGAAT-A---TC
113718 GCAACGAGAGAAATGAAAATCGCAACGAGAG-A-ATC
1 GCAACGAGAGAAATGAAAATCGCAACGAGAGAATATC
*
113753 GCAAC--GCGAAATGAAAATCGCAACGAGAG-A-ATC
1 GCAACGAGAGAAATGAAAATCGCAACGAGAGAATATC
113786 GCAACG
1 GCAACG
113792 CGAAACCAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
33 32 0.45
35 7 0.10
38 1 0.01
40 1 0.01
41 30 0.42
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (37 bp):
GCAACGAGAGAAATGAAAATCGCAACGAGAGAATATC
Found at i:113754 original size:14 final size:14
Alignment explanation
Indices: 113735--113791 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
113725 GAGAAATGAA
113735 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
113749 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
113768 AATCGCAACGAGAG
1 AATCGCAACGAGAG
113782 AATCGCAACG
1 AATCGCAACG
113792 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:113767 original size:33 final size:33
Alignment explanation
Indices: 113727--113807 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
113717 CGCAACGAGA
113727 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
113760 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
113793 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
113808 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:113825 original size:19 final size:19
Alignment explanation
Indices: 113803--113900 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
113793 GAAACCAAAA
*
113803 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
113822 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
113836 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
113855 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
113869 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
113888 TCGCGTTGCGATT
1 TCGCGTTGCGATT
113901 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:113844 original size:14 final size:14
Alignment explanation
Indices: 113825--113914 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
113815 TTTCATTTCG
113825 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
113839 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
113858 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
113872 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
113891 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
113905 CGTTGCGATT
1 CGTTGCGATT
113915 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:113850 original size:33 final size:33
Alignment explanation
Indices: 113808--113922 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
113798 CAAAATCGCA
113808 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
113841 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
113874 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
113907 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
113923 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:115780 original size:93 final size:93
Alignment explanation
Indices: 115621--116089 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
115611 TAGATTGCTT
*
115621 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115686 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
115714 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115779 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
115807 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115872 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
115900 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115965 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
115993 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAATA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
116058 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
116085 AGTAA
1 AGTAA
116090 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:116177 original size:19 final size:19
Alignment explanation
Indices: 116137--116232 Score: 94
Period size: 19 Copynumber: 5.3 Consensus size: 19
116127 TAGTTTACTT
* *
116137 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
**
116157 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
116176 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
116190 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
116209 TCGCAAAGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
116228 TCGCA
1 TCGCA
116233 TTGCGATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 37 0.58
20 12 0.19
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:116250 original size:19 final size:19
Alignment explanation
Indices: 116228--116362 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
116218 GAAACCAAAA
*
116228 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
116247 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
116263 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
116280 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
116296 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
116313 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
116332 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
116352 TCGTGTTGCGA
1 TCGCGTTGCGA
116363 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:116269 original size:14 final size:14
Alignment explanation
Indices: 116250--116306 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
116240 TTTCATTTCG
116250 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
116264 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
116281 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
116297 CGTTGCGATT
1 CGTTGCGATT
116307 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:116275 original size:33 final size:33
Alignment explanation
Indices: 116233--116325 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
116223 CAAAATCGCA
*
116233 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
116266 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
116299 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
116326 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:116820 original size:44 final size:44
Alignment explanation
Indices: 116757--116842 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
116747 GCCCGACTCG
* * *
116757 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
* * *
116801 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
116843 ACTGTCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.22
Consensus pattern (44 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
Found at i:118306 original size:14 final size:14
Alignment explanation
Indices: 118287--118322 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
118277 ATTGTTTAAT
118287 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
118301 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
118315 TGATTTGT
1 TGATTTGT
118323 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:118445 original size:19 final size:19
Alignment explanation
Indices: 118429--118545 Score: 172
Period size: 19 Copynumber: 6.4 Consensus size: 19
118419 AAAAATGACT
118429 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
118448 ATCGCAATTCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
118467 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
118486 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
118500 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
118519 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
118539 ATCGCAA
1 ATCGCAA
118546 CGAGAGAATC
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 56 0.64
20 16 0.18
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:118508 original size:33 final size:36
Alignment explanation
Indices: 118429--118545 Score: 159
Period size: 33 Copynumber: 3.2 Consensus size: 36
118419 AAAAATGACT
118429 ATCGCAATGCGAAATGAAAATCGCAATTCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-TCG-AATGAAA
*
118467 ATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAATCGAATGAAA
118500 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAAT-C-G-AATGAAA
118539 ATCGCAA
1 ATCGCAA
118546 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
33 29 0.41
34 1 0.01
35 1 0.01
36 3 0.04
38 27 0.38
39 10 0.14
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAATCGAATGAAA
Found at i:118577 original size:53 final size:53
Alignment explanation
Indices: 118447--118563 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
118437 GCGAAATGAA
*
118447 AATCGCAATTCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
118499 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
118552 AATCGCAATGCG
1 AATCGCAATGCG
118564 TTTATAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
Found at i:118614 original size:19 final size:19
Alignment explanation
Indices: 118590--118756 Score: 184
Period size: 19 Copynumber: 9.5 Consensus size: 19
118580 GCGATTCTCT
118590 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
118609 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
118628 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
118644 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
118661 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
118680 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
*
118696 --TTGCAATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
118714 CATTGCGATTTTCA--T-G
1 CATTGCGATTTTCATTTCG
*
118730 --TTGGGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
118747 CATTGCGATT
1 CATTGCGATT
118757 CTCTCGTTGC
Statistics
Matches: 124, Mismatches: 8, Indels: 32
0.76 0.05 0.20
Matches are distributed among these distances:
14 22 0.18
16 16 0.13
17 13 0.10
18 3 0.02
19 59 0.48
20 11 0.09
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:118627 original size:52 final size:52
Alignment explanation
Indices: 118570--118728 Score: 291
Period size: 52 Copynumber: 3.0 Consensus size: 52
118560 TGCGTTTATA
*
118570 ATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
118622 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
118674 ATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
118727 AT
1 AT
118729 GTTGGGATTT
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 87 0.84
53 17 0.16
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:118778 original size:33 final size:33
Alignment explanation
Indices: 118570--118770 Score: 194
Period size: 33 Copynumber: 5.9 Consensus size: 33
118560 TGCGTTTATA
*
118570 ATTTCGCATTGCGATTCTCTCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
118603 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
118643 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
118674 ATTTCGCATTGCGATTCTCTCGTTGCAATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
118707 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
118741 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
118771 GTAATTTCCG
Statistics
Matches: 135, Mismatches: 19, Indels: 28
0.74 0.10 0.15
Matches are distributed among these distances:
31 9 0.07
32 6 0.04
33 61 0.45
34 28 0.21
35 6 0.04
36 3 0.02
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.07
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:121071 original size:12 final size:12
Alignment explanation
Indices: 121054--121078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
121044 TCTTCGGGGA
121054 CTTTTTCTTCTT
1 CTTTTTCTTCTT
121066 CTTTTTCTTCTT
1 CTTTTTCTTCTT
121078 C
1 C
121079 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:121287 original size:24 final size:24
Alignment explanation
Indices: 121253--121299 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
121243 CTGAAACATC
121253 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
121277 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
121300 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:122010 original size:20 final size:20
Alignment explanation
Indices: 121982--122251 Score: 267
Period size: 20 Copynumber: 13.5 Consensus size: 20
121972 AAATTTCAGT
* * *
121982 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
122002 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
122022 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
122042 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
122062 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
122082 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
122102 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
122122 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
122142 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
122162 GTTGCGATTTACGGATACAG-
1 GTTGCGATTTACGGATTC-GC
*
122182 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
122202 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
122222 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
122242 GTTGCGATTT
1 GTTGCGATTT
122252 TGGAAAATCG
Statistics
Matches: 219, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
19 4 0.02
20 209 0.95
21 6 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:122042 original size:40 final size:40
Alignment explanation
Indices: 121982--122251 Score: 300
Period size: 40 Copynumber: 6.8 Consensus size: 40
121972 AAATTTCAGT
* *
121982 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
122022 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
122062 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * *
122102 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
** *
122140 GCATTGCGATTTACCCATACGCGTTGCGATTTACGGA-TA-C
1 G--TTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * * **
122180 AGGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 --GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
*
122222 GTTGCGATTTTA-ATATTCGCGTTGCGATTT
1 GTTGCGA-TTTACAGATTCGCGTTGCGATTT
122252 TGGAAAATCG
Statistics
Matches: 207, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 195 0.94
41 6 0.03
42 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:122252 original size:20 final size:20
Alignment explanation
Indices: 122218--122315 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
122208 ATTTATGTGT
*
122218 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
122238 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
122259 TCGCAATGCGAATTTGTACT-A
1 TCGCGTTGCG-ATTT-TAATAA
* *
122280 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
122301 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
122316 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:122311 original size:42 final size:43
Alignment explanation
Indices: 122218--122316 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
122208 ATTTATGTGT
* *
122218 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
122259 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
122301 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
122317 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:123016 original size:23 final size:22
Alignment explanation
Indices: 122990--123036 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
122980 ATAAAGTACA
*
122990 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
123013 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
123035 AT
1 AT
123037 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:123578 original size:23 final size:23
Alignment explanation
Indices: 123515--123570 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
123505 TACTTTACAA
123515 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
123538 ATACCTATTACATTATATAATCG
1 CTACCTATTACATTATATAAACG
123561 CTACCTATTA
1 CTACCTATTA
123571 GATAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:123714 original size:481 final size:482
Alignment explanation
Indices: 123110--127734 Score: 8108
Period size: 505 Copynumber: 9.5 Consensus size: 482
123100 TTATAATATG
* *
123110 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
* *
123175 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
123240 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
123305 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
123370 TATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
123435 TCAAAAGATAACCTTAAATTAATGTTTTCTACACTGAAAAAAATATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
123500 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTAC
* *
123565 CTATTAGATAATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
123593 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
123658 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
123722 CCAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
123787 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
123852 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
123917 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * *
123982 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTATATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
124047 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
124074 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
124139 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
124204 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
124269 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
124332 ATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
124397 CAAAAGATAACCTTAAATTAATGTTTTCTACACTGAAAAAAGTATGGACACTTTTATAAAAATGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
124462 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
* *
124527 TATTAGATAATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
124554 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
124619 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
124684 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
124749 TAACCAAAGATAATAATAAATATGTAATAAATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
124814 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
124879 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
124944 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAATGATACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATA-C-----C------T--AT--TA-C
125009 TATTATATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
439 -ATTATA-TA-AT---CGCTACCTATTACATCATATTTTTACCTATTATA
125059 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
125124 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCAACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
125189 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
125254 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
125319 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
125384 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
125449 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAATGATACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATA-C-----C------T--AT--TA-C
125514 TATTATATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
439 -ATTATA-TA-AT---CGCTACCTATTACATCATATTTTTACCTATTATA
125564 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
125629 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
125694 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
125759 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
125824 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
125889 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
125954 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAATGATACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATA-C-----C------T--AT--TA-C
126019 TATTATATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
439 -ATTATA-TA-AT---CGCTACCTATTACATCATATTTTTACCTATTATA
126069 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
126134 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
126199 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
126264 TAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTATTAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
126329 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTTACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
126394 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
126459 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
126524 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
126551 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
126616 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
126680 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
126745 TAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
126810 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
126875 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
126940 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
127005 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
127032 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC--TTTTTTTAAAGTTATGTAATTTATG
*
127097 TTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
64 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
127162 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
129 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
*
127227 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
127292 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
259 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
*
127357 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGTAAAAAGTATGGACACTTTTATAAAAAG
324 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAG
*
127422 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
389 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTA
127487 CCTATTACATCATATTTTTACCTATTATA
454 CCTATTACATCATATTTTTACCTATTATA
*
127516 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
127581 TCAATTTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
127646 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
127710 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
127735 TTTCCACAGT
Statistics
Matches: 4040, Mismatches: 73, Indels: 60
0.97 0.02 0.01
Matches are distributed among these distances:
480 467 0.12
481 984 0.24
482 590 0.15
483 69 0.02
484 443 0.11
485 1 0.00
486 2 0.00
487 6 0.00
488 2 0.00
489 2 0.00
491 2 0.00
493 1 0.00
494 1 0.00
496 2 0.00
498 2 0.00
499 2 0.00
500 6 0.00
501 2 0.00
502 2 0.00
504 1 0.00
505 1453 0.36
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAATCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:124027 original size:23 final size:23
Alignment explanation
Indices: 123997--124059 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
123987 ACTTTACAAC
*
123997 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* * *
124020 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
124043 TACCTATTACATCATAT
1 TACCTATTACATTATAT
124060 TTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:124539 original size:23 final size:23
Alignment explanation
Indices: 124476--124531 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
124466 TACTTTACAA
124476 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
124499 ATACCTATTACATTATATAATCG
1 CTACCTATTACATTATATAAACG
124522 CTACCTATTA
1 CTACCTATTA
124532 GATAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:124989 original size:23 final size:23
Alignment explanation
Indices: 124959--125044 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
124949 ACTTTACAAC
124959 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
124982 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* * *
125005 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
125028 TACCTATTACATCATAT
1 TACCTATTACATTATAT
125045 TTTTACCTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:125494 original size:23 final size:23
Alignment explanation
Indices: 125464--125549 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
125454 ACTTTACAAC
125464 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
125487 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* * *
125510 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
125533 TACCTATTACATCATAT
1 TACCTATTACATTATAT
125550 TTTTACCTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:125999 original size:23 final size:23
Alignment explanation
Indices: 125969--126054 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
125959 ACTTTACAAC
125969 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
125992 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* * *
126015 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
126038 TACCTATTACATCATAT
1 TACCTATTACATTATAT
126055 TTTTACCTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:126504 original size:23 final size:23
Alignment explanation
Indices: 126474--126536 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
126464 ACTTTACAAC
126474 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
126497 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
126520 TACCTATTACATCATAT
1 TACCTATTACATTATAT
126537 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:126985 original size:23 final size:23
Alignment explanation
Indices: 126955--127017 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
126945 ACTTTACAAC
126955 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
126978 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
127001 TACCTATTACATCATAT
1 TACCTATTACATTATAT
127018 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:127432 original size:21 final size:21
Alignment explanation
Indices: 127394--127433 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
127384 TTCCACAATG
* *
127394 TAAAAAGTATGGACACTTTTA
1 TAAAAAGGATAGACACTTTTA
*
127415 TAAAAAGGATAGATACTTT
1 TAAAAAGGATAGACACTTT
127434 ACAACTACCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (21 bp):
TAAAAAGGATAGACACTTTTA
Found at i:127469 original size:23 final size:23
Alignment explanation
Indices: 127439--127501 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
127429 ACTTTACAAC
127439 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
127462 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
127485 TACCTATTACATCATAT
1 TACCTATTACATTATAT
127502 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:127931 original size:228 final size:228
Alignment explanation
Indices: 127533--128241 Score: 1273
Period size: 228 Copynumber: 3.1 Consensus size: 228
127523 TGTCCATACT
127533 TTTTATAAAAA-GA-ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAAT
1 TTTTATAAAAATGATAT--ATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAAT
*
127596 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
63 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
*
127661 TTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
128 TTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
127726 TAAATATGTTTTCCACAGTGAAATAAGTATGAACAC
193 TAAATATGTTTTCCACAGTGAAATAAGTATGAACAC
*
127762 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
127827 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
127892 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
131 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
127957 ATATGTTTTCCACAGTGAAATAAGTAT-ATACAC
196 ATATGTTTTCCACAGTGAAATAAGTATGA-ACAC
127990 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
*
128055 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTG
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT-
128120 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
130 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
* *
128185 AATATATTTT-CACAGTGAAATAAGTATGGACAC
195 AATATGTTTTCCACAGTGAAATAAGTATGAACAC
* *
128218 TTTTATAAAAAGGATAGATACTTT
1 TTTTATAAAAATGATATATACTTT
128242 AGAATATAAC
Statistics
Matches: 466, Mismatches: 9, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
227 1 0.00
228 341 0.73
229 120 0.26
230 2 0.00
231 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
ATATGTTTTCCACAGTGAAATAAGTATGAACAC
Found at i:129234 original size:3 final size:3
Alignment explanation
Indices: 129226--129251 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
129216 TTGAGTGAAA
129226 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
129252 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:129694 original size:148 final size:141
Alignment explanation
Indices: 129429--129717 Score: 368
Period size: 148 Copynumber: 2.0 Consensus size: 141
129419 TCAAAGAACA
* * * *
129429 CTCTCAATTATTTGACACTCATACCCTTAATATTTTGATTGCTCGAACTTGAAACCTCAAAGAAT
1 CTCTCAACTATTTGAAACTCAAACCCTTAATATTTTGATTGCTCGAACTTCAAACCTCAAAGAAT
*
129494 AACAATAATTCATTGACCACCGAAAATCGTTGGTTCGTACCATAATAAGCATAGTTTGCTAATAA
66 AACAATAATTCATTGACCACCGAAAATCATTGGTTCGTACCATAATAAGCATAGTTTG---AT-A
129559 ATAAAAAATGAGATT
127 ATAAAAAATGAGATT
* *
129574 CTCTCAACTATTTGAAACTCAAACTCC-TAATATTATTATTATTGCTCGAAC-TCAATATCTC-A
1 CTCTCAACTATTTGAAACTCAAAC-CCTTAATA-T-TT-TGATTGCTCGAACTTCAA-ACCTCAA
* ** *
129636 AGAAATAACAATAATTCATTTACTTCCGAAAATCATTGGTTCGTACCATAGTAAGCATAGTTTGA
61 AG-AATAACAATAATTCATTGACCACCGAAAATCATTGGTTCGTACCATAATAAGCATAGTTTGA
129701 TAATAAAAAATGAGATT
125 TAATAAAAAATGAGATT
129718 ATTTTTATTT
Statistics
Matches: 127, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
144 16 0.13
145 28 0.22
146 3 0.02
147 8 0.06
148 72 0.57
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (141 bp):
CTCTCAACTATTTGAAACTCAAACCCTTAATATTTTGATTGCTCGAACTTCAAACCTCAAAGAAT
AACAATAATTCATTGACCACCGAAAATCATTGGTTCGTACCATAATAAGCATAGTTTGATAATAA
AAAATGAGATT
Found at i:133936 original size:48 final size:48
Alignment explanation
Indices: 133849--133979 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
133839 GGGTATGAAA
* * **
133849 GAGATAGTGGCGGTGGTGACTTGTAATAGTATGTTGGTGG-GGTACTAG
1 GAGATAGTGGTGGTGGTGACTTGTAATAGTAAGGAGGTGGTGG-ACTAG
*
133897 GAGATAGTGGTGGTGGTGACTTGTAGTAGTAAGGAGGTGGTGGACTAG
1 GAGATAGTGGTGGTGGTGACTTGTAATAGTAAGGAGGTGGTGGACTAG
* * *
133945 GGGA-AGGGGTGGAGGTGACTTGTAATAGTAAGGAG
1 GAGATAGTGGTGGTGGTGACTTGTAATAGTAAGGAG
133980 AAGGTTGTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
47 28 0.38
48 43 0.59
49 2 0.03
ACGTcount: A:0.24, C:0.05, G:0.45, T:0.27
Consensus pattern (48 bp):
GAGATAGTGGTGGTGGTGACTTGTAATAGTAAGGAGGTGGTGGACTAG
Found at i:145863 original size:81 final size:82
Alignment explanation
Indices: 145776--145939 Score: 303
Period size: 81 Copynumber: 2.0 Consensus size: 82
145766 TTGAGGAAGG
145776 AAACAGAAACCTTTTAATATTTTGAAAAAAAAAATGAAAGTGCAATAAAAATAATATAA-TTTTT
1 AAACAGAAACCTTTTAATATTTTGAAAAAAAAAATGAAAGTGCAATAAAAATAATATAATTTTTT
145840 TAAGGAAACGGAAACAT
66 TAAGGAAACGGAAACAT
*
145857 AAACAGAAACCTTTTAATATTTTGAAAAAAAAAATGAAAGTGCAATAAAAATAGTATAATTTTTT
1 AAACAGAAACCTTTTAATATTTTGAAAAAAAAAATGAAAGTGCAATAAAAATAATATAATTTTTT
*
145922 TTAGGAAACGGAAACAT
66 TAAGGAAACGGAAACAT
145939 A
1 A
145940 CTGCAGGAAC
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
81 58 0.73
82 22 0.28
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (82 bp):
AAACAGAAACCTTTTAATATTTTGAAAAAAAAAATGAAAGTGCAATAAAAATAATATAATTTTTT
TAAGGAAACGGAAACAT
Found at i:151440 original size:12 final size:13
Alignment explanation
Indices: 151415--151439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
151405 TTGTCAAATT
151415 TAATTTTAAAAAA
1 TAATTTTAAAAAA
151428 TAATTTTAAAAA
1 TAATTTTAAAAA
151440 TTGTTTAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATTTTAAAAAA
Found at i:159668 original size:28 final size:28
Alignment explanation
Indices: 159628--159685 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
159618 CGTCTAAATG
159628 ATAGTAAATCTGAACTAAACATACAACA
1 ATAGTAAATCTGAACTAAACATACAACA
159656 ATAGTAAATCTGAACTAAACATACAACA
1 ATAGTAAATCTGAACTAAACATACAACA
159684 AT
1 AT
159686 TAAGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.22
Consensus pattern (28 bp):
ATAGTAAATCTGAACTAAACATACAACA
Found at i:161456 original size:10 final size:10
Alignment explanation
Indices: 161439--161478 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
161429 TAAAAAAAAC
161439 AATAAAAATG
1 AATAAAAATG
161449 AATTAAAAATG
1 AA-TAAAAATG
* *
161460 AATAAAATTC
1 AATAAAAATG
161470 AATAAAAAT
1 AATAAAAAT
161479 ATAATGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (10 bp):
AATAAAAATG
Found at i:161498 original size:31 final size:29
Alignment explanation
Indices: 161426--161499 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
161416 TTAAAAAAAT
*
161426 AAATAAAAAAAACAATAAAAATGAATTAA
1 AAATAAAAAATACAATAAAAATGAATTAA
* *
161455 AAATGAATAAAATTCAATAAAAATATAATGTAA
1 AAAT-AA-AAAATACAATAAAAAT-GAAT-TAA
*
161488 AACTAAAAAATA
1 AAATAAAAAATA
161500 TCACCTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 4 0.11
30 2 0.06
31 19 0.53
32 5 0.14
33 6 0.17
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (29 bp):
AAATAAAAAATACAATAAAAATGAATTAA
Found at i:163699 original size:30 final size:30
Alignment explanation
Indices: 163663--163740 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
163653 AATAGATTTT
* *
163663 TTAAAAAATGACTGGAAACATTATTAGGTG
1 TTAAAAAATGACTGGAAACATTACTAGGAG
* * *
163693 TTAAAAAATTACCGAAAACATTACTAGGAG
1 TTAAAAAATGACTGGAAACATTACTAGGAG
163723 TTAAAAAATGACTGGAAA
1 TTAAAAAATGACTGGAAA
163741 TGTTAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (30 bp):
TTAAAAAATGACTGGAAACATTACTAGGAG
Found at i:173627 original size:35 final size:36
Alignment explanation
Indices: 173547--173627 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 36
173537 CGAAATGTTA
* *
173547 TAAAA-TTATAATATTTCGATTGACAATTAAAATAT
1 TAAAATTTAAAATAATTCGATTGACAATTAAAATAT
**
173582 TATATTTTTAAAATAATTCGATT-A-AATTAAAAATAT
1 TA-AAATTTAAAATAATTCGATTGACAATT-AAAATAT
173618 TAAAATTTAA
1 TAAAATTTAA
173628 TATTTTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
35 12 0.32
36 11 0.30
37 14 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (36 bp):
TAAAATTTAAAATAATTCGATTGACAATTAAAATAT
Found at i:175894 original size:109 final size:104
Alignment explanation
Indices: 175686--175894 Score: 373
Period size: 109 Copynumber: 2.0 Consensus size: 104
175676 GCAAATAGGT
175686 AAAATTTTTGAGATAAGTTTTTGATTTTTATTTAATGATATAACGTACTTTTAAGATTATTGCTC
1 AAAATTTTTGAGATAAGTTTTTGATTTTTATTTAATGATATAACGTACTTTTAAGATTATTGCTC
175751 AATAGGGTGAATTGTACAGTGTTGGCTGTAAGTCGATGC
66 AATAGGGTGAATTGTACAGTGTTGGCTGTAAGTCGATGC
175790 AAAATTTTTGAGATAATGTTTTTGAATTTTTTATTTAATGATATAACGTACTTTTAAGATTAATT
1 AAAATTTTTGAGATAA-GTTTTTG-A-TTTTTATTTAATGATATAACGTACTTTTAAGATT-ATT
175855 GCTCAAATAGGGTGAATTGTACAGTGTTGGCTGTAAGTCG
62 GCTC-AATAGGGTGAATTGTACAGTGTTGGCTGTAAGTCG
175895 CCATGCCTTC
Statistics
Matches: 100, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
104 16 0.16
105 7 0.07
106 1 0.01
107 34 0.34
108 7 0.07
109 35 0.35
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (104 bp):
AAAATTTTTGAGATAAGTTTTTGATTTTTATTTAATGATATAACGTACTTTTAAGATTATTGCTC
AATAGGGTGAATTGTACAGTGTTGGCTGTAAGTCGATGC
Found at i:176432 original size:31 final size:31
Alignment explanation
Indices: 176394--176458 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
176384 TTGATTAATT
*
176394 CGAATCAAATTAACTCAGACTTAATTTAGTC
1 CGAATCAAATTAACTCAGACTTAATTTAGAC
176425 CGAATCAAATTAACTCAGACTTAATTTAGAC
1 CGAATCAAATTAACTCAGACTTAATTTAGAC
176456 CGA
1 CGA
176459 TCATTTTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (31 bp):
CGAATCAAATTAACTCAGACTTAATTTAGAC
Found at i:182271 original size:21 final size:21
Alignment explanation
Indices: 182247--182362 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 21
182237 ATTGGAATAA
182247 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
182268 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
182288 ATCGCAATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
*
182309 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
182330 ATCGTAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
182351 ATCGCATTGCGA
1 ATCGCAATGCGA
182363 TTTACATATT
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
20 17 0.22
21 61 0.78
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:182307 original size:41 final size:41
Alignment explanation
Indices: 182244--182362 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
182234 GAAATTGGAA
*
182244 TAAATCGCAATGCGAACTTCGACTATCGCAATGCGAATATG
1 TAAATCGCAATGCGAACGTCGACTATCGCAATGCGAATATG
182285 TAAATCGCAATGCGATA-GTCGACTATCGCAATGCGAACT-TG
1 TAAATCGCAATGCGA-ACGTCGACTATCGCAATGCGAA-TATG
* * * * * *
182326 GACTATCGTAACGCGAACTTCGACTATCGCATTGCGA
1 TA-AATCGCAATGCGAACGTCGACTATCGCAATGCGA
182363 TTTACATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
41 38 0.57
42 29 0.43
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
TAAATCGCAATGCGAACGTCGACTATCGCAATGCGAATATG
Found at i:182417 original size:21 final size:20
Alignment explanation
Indices: 182371--182424 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
182361 GATTTACATA
* *
182371 TTCGCATTGGGATAGTCGAC
1 TTCGCATTGCGATAGTCAAC
*
182391 TATCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGT-CAAC
*
182413 TTCGCGTTGCGA
1 TTCGCATTGCGA
182425 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCAAC
Found at i:182505 original size:19 final size:19
Alignment explanation
Indices: 182452--182506 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
182442 CGATACCGGA
*
182452 GATCGCGTTGCGAA-TTATC
1 GATCGCATTGC-AATTTATC
* * *
182471 GATCACATTGCGATTTATT
1 GATCGCATTGCAATTTATC
182490 GATCGCATTGCAATTTA
1 GATCGCATTGCAATTTA
182507 GTTGGTCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (19 bp):
GATCGCATTGCAATTTATC
Found at i:182739 original size:28 final size:28
Alignment explanation
Indices: 182708--182765 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
182698 AAATATCGTA
**
182708 TTTTAAATATCTATT-TTTAACATAAAAC
1 TTTTAAATAT-TATTAAATAACATAAAAC
* *
182736 TTTTTATTATTATTAAATAACATAAAAC
1 TTTTAAATATTATTAAATAACATAAAAC
182764 TT
1 TT
182766 AAATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTAAATATTATTAAATAACATAAAAC
Found at i:182769 original size:16 final size:16
Alignment explanation
Indices: 182748--182778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
182738 TTTATTATTA
*
182748 TTAAATAACATAAAAC
1 TTAAATAAAATAAAAC
182764 TTAAATAAAATAAAA
1 TTAAATAAAATAAAA
182779 ACGCACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAATAAAATAAAAC
Found at i:190180 original size:20 final size:19
Alignment explanation
Indices: 190142--190182 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
190132 AATGAATCAA
*
190142 AATTGATAATTTAAGTATT
1 AATTGATAATTTAAATATT
*
190161 AATTGTATAGTTTAAATATT
1 AATTG-ATAATTTAAATATT
190181 AA
1 AA
190183 AATGAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
AATTGATAATTTAAATATT
Found at i:197482 original size:14 final size:14
Alignment explanation
Indices: 197471--197508 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
197461 AATTCATTTG
197471 TTTATGTTCATTCA
1 TTTATGTTCATTCA
*
197485 TTTATGTTCGTTCA
1 TTTATGTTCATTCA
*
197499 TTTATATTCA
1 TTTATGTTCA
197509 GCCCAATCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:197722 original size:23 final size:22
Alignment explanation
Indices: 197695--197750 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
197685 TTGTTGTTGT
197695 TTATGTTTGTTTACGTTCATTTA
1 TTATGTTTGTTT-CGTTCATTTA
* * *
197718 TTATGTTCGATTTTGTTCATTTG
1 TTATGTTTG-TTTCGTTCATTTA
197741 TTATGTTTGT
1 TTATGTTTGT
197751 GCAAATTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.86
24 3 0.11
ACGTcount: A:0.14, C:0.07, G:0.16, T:0.62
Consensus pattern (22 bp):
TTATGTTTGTTTCGTTCATTTA
Found at i:197785 original size:23 final size:24
Alignment explanation
Indices: 197756--197811 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
197746 TTTGTGCAAA
*
197756 TTCGTTTATGTTCATT-TATTGTT
1 TTCGTTTATGTTCATTCTATTGTG
** *
197779 TTCGTTTCCGTTCATTCTTTTGTG
1 TTCGTTTATGTTCATTCTATTGTG
197803 TTCGTTTAT
1 TTCGTTTAT
197812 CATTTAAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.62
Consensus pattern (24 bp):
TTCGTTTATGTTCATTCTATTGTG
Found at i:199179 original size:3 final size:3
Alignment explanation
Indices: 199171--199198 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
199161 CAGTACAAGC
199171 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
199199 GTTGAGGAAG
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:201280 original size:31 final size:31
Alignment explanation
Indices: 201222--201280 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
201212 TACCCTTTCA
* *
201222 ATCATTTCATAATTTTCAAAAAGAAAATAGT
1 ATCATTTCATAACTATCAAAAAGAAAATAGT
*
201253 ATCATTTGATAACTATCAAGAAA-AAAAT
1 ATCATTTCATAACTATCAA-AAAGAAAAT
201281 GATAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (31 bp):
ATCATTTCATAACTATCAAAAAGAAAATAGT
Found at i:202429 original size:60 final size:60
Alignment explanation
Indices: 202365--202477 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
202355 TATGGAATAG
* *
202365 TATTTAATTAAGTCTCTC-ACCTATTAAAAATTACAAAAT-AGTTCCTCAACTATTTAGAGT
1 TATTTAATTAAGTCCCTCGA-CTATTAAAAATTACAAAATGA-TCCCTCAACTATTTAGAGT
* * *
202425 TATTTTATTGAGTCCCTCGACTATTAAAAGTTACAAAATGATCCCTCAACTAT
1 TATTTAATTAAGTCCCTCGACTATTAAAAATTACAAAATGATCCCTCAACTAT
202478 AGGGAGTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (60 bp):
TATTTAATTAAGTCCCTCGACTATTAAAAATTACAAAATGATCCCTCAACTATTTAGAGT
Found at i:202485 original size:60 final size:59
Alignment explanation
Indices: 202385--202535 Score: 173
Period size: 60 Copynumber: 2.6 Consensus size: 59
202375 AGTCTCTCAC
* * ** *
202385 CTATTAAAAATTACAAAAT-AGTTCCTCAACTATTTAGAGTTATTTTATTGAGTCCCTCGA
1 CTATTAAAAGTTACAAAATGAGTCCCTCAACTATAGAGAGTTACTTTATTGAGT--CTCGA
* *
202445 CTATTAAAAGTTACAAAATGA-TCCCTCAACTATAGGGAGTTACTTTGTTGAGTCTCGA
1 CTATTAAAAGTTACAAAATGAGTCCCTCAACTATAGAGAGTTACTTTATTGAGTCTCGA
* * *
202503 CTTTTAAAAGTTACAAAATG-GTCACTCGACTAT
1 CTATTAAAAGTTACAAAATGAGTCCCTCAACTAT
202536 TCATTATGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 34 0.43
60 44 0.56
61 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (59 bp):
CTATTAAAAGTTACAAAATGAGTCCCTCAACTATAGAGAGTTACTTTATTGAGTCTCGA
Found at i:218351 original size:47 final size:49
Alignment explanation
Indices: 218278--218394 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 49
218268 ATATATATAC
* *
218278 TATTT-TTTTATTTATATATATATATATTATTTTTACTTTTTTATTATTATTT
1 TATTTATTTT-TTTATATATATATAT-TT-TTCTT-CTTTTTCATTATTATTT
* * *
218330 TATTTATTTGTTTTATTTATATATATTTTTCTTCTTTTTCTTTATTTTTT
1 TATTTATTT-TTTTATATATATATATTTTTCTTCTTTTTCATTATTATTT
218380 ATATTTATTTTTTTA
1 -TATTTATTTTTTTA
218395 CTATTTTATC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
50 19 0.33
51 13 0.23
52 7 0.12
53 17 0.30
54 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (49 bp):
TATTTATTTTTTTATATATATATATTTTTCTTCTTTTTCATTATTATTT
Found at i:218359 original size:29 final size:28
Alignment explanation
Indices: 218258--218355 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 28
218248 AGTTTTATTA
*
218258 ATTTATATATATATATATACTATTTTTTT
1 ATTTATATATATATATAT-TTATTTTTTT
218287 ATTTATATATATATATA-TTATTTTTACTT
1 ATTTATATATATATATATTTATTTTT--TT
* *
218316 TTTTAT-TAT-TATTTTATTTATTTGTTTT
1 ATTTATATATATA-TATATTTATTT-TTTT
218344 ATTTATATATAT
1 ATTTATATATAT
218356 TTTTCTTCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
27 9 0.16
28 13 0.22
29 33 0.57
30 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTTATATATATATATATTTATTTTTTT
Found at i:218385 original size:51 final size:50
Alignment explanation
Indices: 218278--218394 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 50
218268 ATATATATAC
*
218278 TATTTTTTTATTTATATATATATATATTATTTTTACTTTTTTATTATTATTT
1 TATTTATTT-TTT-TATATATATATATTATTTTTACTTTTTTATTATTATTT
* *
218330 TATTTATTTGTTTTATTTATATATATT-TTTCTT-CTTTTTCT-TTATTTTTT
1 TATTTATTT-TTTTATATATATATATTATTT-TTACTTTTT-TATTATTATTT
218380 ATATTTATTTTTTTA
1 -TATTTATTTTTTTA
218395 CTATTTTATC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
50 22 0.38
51 25 0.43
52 11 0.19
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (50 bp):
TATTTATTTTTTTATATATATATATTATTTTTACTTTTTTATTATTATTT
Found at i:223589 original size:20 final size:20
Alignment explanation
Indices: 223564--223624 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
223554 TTTTGGTGCA
*
223564 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
* *
223584 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATCCCCCCTT
223604 GAAAGGGAACCGATTCCCCCC
1 G--AGGGAACCGA-TCCCCCC
223625 ACAGGGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 18 0.55
22 10 0.30
23 5 0.15
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:228371 original size:27 final size:25
Alignment explanation
Indices: 228341--228392 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
228331 TAATCAAAGC
228341 AAAAAGAGAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAA-CAAAG-GAAAAT
228368 AAAAAGAGAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAACAAAGGAAAAT
228393 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 14 0.56
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGGAAAAT
Found at i:228373 original size:13 final size:13
Alignment explanation
Indices: 228343--228391 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
228333 ATCAAAGCAA
228343 AAAGAGAAAAAAGC
1 AAAGAGAAAAAA-C
228357 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
228370 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
228383 AAAG-GAAAA
1 AAAGAGAAAA
228392 TTGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 10 0.30
15 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:230055 original size:106 final size:105
Alignment explanation
Indices: 229930--230252 Score: 448
Period size: 106 Copynumber: 3.0 Consensus size: 105
229920 ATATCGTGCC
* * * *
229930 ACTCGAGACAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGAATGGCTGGTTGTCAACAAACAATTTCCC
*
229995 AATTTCAGAGCCAATTTTAACTTCACAGCGATGAATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAGCGA-GGATATTGG
*
230036 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGAATGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGAATGGCTGGTTGTCAACAAACAATTTCCC
* * * *
230101 AATTTCGGAGCCAATTTCAACCTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAGCG-AGGATATTGG
* * * * **
230142 ACTCGAGACAACACAAGCTCAACTTCATAGCGAATGAATGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGAATGGCTGGTTGTCAACAAACAATTTCCC
* * *
230207 AGTTCCAGAGCCAATTTTAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAGC-GAGGATATTGG
230248 ACTCG
1 ACTCG
230253 GAACAATACA
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
106 189 0.99
107 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (105 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAATGAATGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTTAACTTCACAGCGAGGATATTGG
Found at i:230707 original size:87 final size:87
Alignment explanation
Indices: 230509--230687 Score: 297
Period size: 87 Copynumber: 2.1 Consensus size: 87
230499 GACAGTTTCT
*
230509 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
230574 CTTGAAACGAAATTTTATCTCC
66 CTTGAAACGAAATTTTATCTCC
* * *
230596 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
230661 CTTGAAAC-AAATTTTTGTCTCC
66 CTTGAAACGAAA-TTTTATCTCC
230683 CTTGA
1 CTTGA
230688 GACAGTTTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
86 3 0.03
87 83 0.97
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACGAAATTTTATCTCC
Found at i:230707 original size:102 final size:102
Alignment explanation
Indices: 230596--230789 Score: 325
Period size: 102 Copynumber: 1.9 Consensus size: 102
230586 TTTTATCTCC
* *
230596 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
230661 CTTGAAACAAATTTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
230698 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
230763 CTTGAAACAAAATTTTGTCTCCCTTGA
66 CTTGAAACAAAATTTTGTCTCCCTTGA
230790 AACATAAACC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:230876 original size:189 final size:185
Alignment explanation
Indices: 230481--230852 Score: 493
Period size: 189 Copynumber: 2.0 Consensus size: 185
230471 TTTTGGAACT
230481 AAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
1 AAATTTTAGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
*
230545 TGAATTTTATCTCGATTGAGATAGTTTCCCTTGAAACGAAATTTTATCTCCCTTGAAACATAAAC
66 TGAATTTTATCTCGATTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAAACATAAAC
* * * *** * *
230610 ATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCTTGAAAC
131 ATTGAAAACATTTCCCTTGAAACAAA--TAATAT--CTTGAAATAGTTCCCCTTAAAAC
* *
230669 AAATTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCTTTGAAA
1 AAATTTTAGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
* * ** *
230734 TTAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAAC
66 TGAATTTTATCTCGATTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAAACATAAAC
*
230799 CTTGAAAA-AGTTTCCCTTGAAACACAA-AATAT-TT-AAATCAGTTCCCCTTAAAAC
131 ATTGAAAACA-TTTCCCTTGAAACA-AATAATATCTTGAAAT-AGTTCCCCTTAAAAC
230853 GAGTTTTGAG
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
183 1 0.01
184 15 0.09
187 3 0.02
188 8 0.05
189 135 0.82
190 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (185 bp):
AAATTTTAGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
TGAATTTTATCTCGATTGAGATAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAAACATAAAC
ATTGAAAACATTTCCCTTGAAACAAATAATATCTTGAAATAGTTCCCCTTAAAAC
Found at i:230963 original size:37 final size:36
Alignment explanation
Indices: 230902--231018 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
230892 TATCTTTTCC
* *
230902 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
230938 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
230975 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
231011 TTGAAACA
1 TTGAAACA
231019 CAAAAAAACC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 39 0.54
37 31 0.43
38 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:231065 original size:40 final size:39
Alignment explanation
Indices: 231016--231092 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
231006 TTCTCTTGAA
231016 ACACA-AAAAAACC-CTCAAAATTGTTTCTCTTGAAACAC
1 ACACACAAAAAACCTCTCAAAA-TGTTTCTCTTGAAACAC
* *
231054 ACACACAAAAAACCTTTGAAAATGTTTCTCTTGAAACAC
1 ACACACAAAAAACCTCTCAAAATGTTTCTCTTGAAACAC
231093 CAAACCCTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 5 0.14
39 25 0.71
40 5 0.14
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (39 bp):
ACACACAAAAAACCTCTCAAAATGTTTCTCTTGAAACAC
Found at i:232332 original size:8 final size:8
Alignment explanation
Indices: 232321--232442 Score: 52
Period size: 9 Copynumber: 14.2 Consensus size: 8
232311 ATATATTTAC
232321 TATTTTTT
1 TATTTTTT
232329 TA-TTTTT
1 TATTTTTT
232336 TATTTATTAT
1 TATTT-TT-T
* * *
232346 ATATATATA
1 -TATTTTTT
232355 TATTATTTT
1 TATT-TTTT
*
232364 TACTTTTT
1 TATTTTTT
*
232372 TA--TTAT
1 TATTTTTT
232378 TATTTTATT
1 TATTTT-TT
232387 TATTTGTTT
1 TATTT-TTT
* *
232396 TATTTATA
1 TATTTTTT
*
232404 TATTTATATA
1 TATTT-T-TT
232414 TATATTTTT
1 TAT-TTTTT
232423 TATTTTTTT
1 TA-TTTTTT
232432 TATTTATTT
1 TATTT-TTT
232441 TA
1 TA
232443 CTTACTATTT
Statistics
Matches: 87, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
6 5 0.06
7 7 0.08
8 24 0.28
9 35 0.40
10 10 0.11
11 6 0.07
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (8 bp):
TATTTTTT
Found at i:232343 original size:4 final size:4
Alignment explanation
Indices: 232288--232527 Score: 72
Period size: 4 Copynumber: 59.8 Consensus size: 4
232278 TATTATCAGT
* * * * * * *
232288 TTTA TTAA TTTA TATA TATA TATA TATA TTTA -CTA TTTT TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
232334 TTTA TTTA TTATA TATA TATA TATTA -TT- TTTA CTTT- TTTA -TTA -TTA
1 TTTA TTTA TT-TA TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA TTTA
* * * * *
232380 TTTTA TTTA TTTGT TTTA TTTA TATA TTTA TATA TATA TTT- TTTA TTTTT
1 -TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
* * * * * *
232430 TTTA TTTA TTTTA CTTA -CTA TTT- TATA TTTGC TTTC TTTA TCTTA TCT-
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA T-TTA TTTA
* * *
232478 TTTA TTTAA TTTG TTT- TTTC TTCA TTTTAA TTTAA TTTA TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA -TTT-A TTT-A TTTA TTTA TTTA
232525 TTT
1 TTT
232528 CTTACCTTTT
Statistics
Matches: 182, Mismatches: 31, Indels: 46
0.70 0.12 0.18
Matches are distributed among these distances:
3 30 0.16
4 109 0.60
5 42 0.23
6 1 0.01
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:232364 original size:29 final size:29
Alignment explanation
Indices: 232328--232427 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 29
232318 TACTATTTTT
232328 TTATTTTTTATTTATTATATATATATATA
1 TTATTTTTTATTTATTATATATATATATA
*
232357 TTA-TTTTTACTTT-TT-TAT-TAT-TATT
1 TTATTTTTTA-TTTATTATATATATATATA
* *
232382 TTATTTATTTGTTTTATTTATATATTTATATA
1 TTATTT-TTT-ATTTA-TTATATATATATATA
232414 TATATTTTTTATTT
1 T-TATTTTTTATTT
232428 TTTTTATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
25 6 0.11
26 5 0.09
27 9 0.16
28 8 0.14
29 8 0.14
30 3 0.05
31 5 0.09
32 7 0.12
33 5 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (29 bp):
TTATTTTTTATTTATTATATATATATATA
Found at i:232397 original size:32 final size:33
Alignment explanation
Indices: 232321--232436 Score: 121
Period size: 36 Copynumber: 3.4 Consensus size: 33
232311 ATATATTTAC
*
232321 TATTTTTTTATTTTTTATTTATTATATATATATA
1 TATTTTTTTATTTTTTATTTATTATATAT-TATT
232355 TATTATTTTTACTTTTTTA-TTATTAT-T-TTATT
1 TATT-TTTTTA-TTTTTTATTTATTATATATTATT
* *
232387 TATTTGTTTTATTTATATATTTATATATATATTTTT
1 TATTT-TTTTATTT-TTTATTTAT-TATATATTATT
232423 TATTTTTTTTATTT
1 TA-TTTTTTTATTT
232437 ATTTTACTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
31 4 0.06
32 15 0.21
33 5 0.07
34 8 0.11
35 14 0.20
36 21 0.30
37 3 0.04
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (33 bp):
TATTTTTTTATTTTTTATTTATTATATATTATT
Found at i:232410 original size:36 final size:36
Alignment explanation
Indices: 232295--232438 Score: 117
Period size: 36 Copynumber: 4.2 Consensus size: 36
232285 AGTTTTATTA
* **
232295 ATTTATATATATATATATATATTTACTATTT-TTTT
1 ATTTATATATTTATATATATATTTTTTATTTGTTTT
* * *
232330 ATTT-TTTATTTAT-TATATATATATATATTAT-TTTT
1 ATTTATATATTTATATATATAT-TTTTTATT-TGTTTT
* *
232365 ACTTT-TTTA-TTAT-TAT-T-TTATTTATTTGTTTT
1 A-TTTATATATTTATATATATATTTTTTATTTGTTTT
*
232397 ATTTATATATTTATATATATATTTTTTATTTTTTTT
1 ATTTATATATTTATATATATATTTTTTATTTGTTTT
232433 ATTTAT
1 ATTTAT
232439 TTTACTTACT
Statistics
Matches: 91, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
31 4 0.04
32 15 0.16
33 12 0.13
34 16 0.18
35 18 0.20
36 26 0.29
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (36 bp):
ATTTATATATTTATATATATATTTTTTATTTGTTTT
Found at i:232452 original size:32 final size:30
Alignment explanation
Indices: 232321--232459 Score: 102
Period size: 32 Copynumber: 4.4 Consensus size: 30
232311 ATATATTTAC
* *
232321 TATTTTTT-TATTTTTTATTTATTATATATA
1 TATTTTTTATTTTTTTTATTTATTTTAT-TA
* * *
232351 TATATATTATTTTTACTTT-TTTATTATTATTT
1 TATTTTTTATTTTT--TTTATTTATT-TTATTA
* * *
232383 TATTTATTTGTTTTATTTATATATTTATATATA
1 TATTT-TTTATTTTTTTTATTTATTT-TAT-TA
232416 TATTTTTTATTTTTTTTATTTATTTTACTTA
1 TATTTTTTATTTTTTTTATTTATTTTA-TTA
*
232447 CTATTTTATATTT
1 -TATTTTTTATTT
232460 GCTTTCTTTA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
30 6 0.07
31 12 0.14
32 48 0.57
33 18 0.21
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (30 bp):
TATTTTTTATTTTTTTTATTTATTTTATTA
Found at i:232454 original size:57 final size:60
Alignment explanation
Indices: 232333--232455 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 60
232323 TTTTTTTATT
* * *
232333 TTTTATTTATTATATATATATATATTATTTTTACTTTTTTATTATTATTTTATTTATTTG
1 TTTTATTTATTATATATATATATATTATTTTTACTTTTTTATTATTATTTTACTTATCTA
*
232393 TTTTATTTA-TATATTTATATATA-TATTTTTTA-TTTTTT-TTATTTATTTTACTTA-CTA
1 TTTTATTTATTATATATATATATATTA-TTTTTACTTTTTTATTA-TTATTTTACTTATCTA
232450 TTTTAT
1 TTTTAT
232456 ATTTGCTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
57 10 0.18
58 19 0.33
59 19 0.33
60 9 0.16
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (60 bp):
TTTTATTTATTATATATATATATATTATTTTTACTTTTTTATTATTATTTTACTTATCTA
Found at i:232470 original size:45 final size:45
Alignment explanation
Indices: 232254--232457 Score: 82
Period size: 47 Copynumber: 4.3 Consensus size: 45
232244 ATTAAATATA
* * * *
232254 TATATATATATATATTATTTTTTTTATTATCAGTTTTA-TTAATTTA-T
1 TATATATTTATATA-TATATTTTTTATT-T--TTTTTATTTATTTTACT
* * *
232301 ATATATATATATATATTTACTATTTTT-TTATTTTTTATTTATTATA-T
1 -TATATATTTATATATATA-T-TTTTTATT-TTTTTTATTTATTTTACT
* *
232348 ATATATATATTAT-T-TTTACTTTTTTATTATTATTTTATTTATTTGT-TT
1 -TATATAT-TTATATATATA-TTTTTTATT-TT-TTTTATTTATTT-TACT
* *
232396 TATTTATATATTTATATATATATTTTTTATTTTTTTTATTTATTTTACT
1 TA--TATATTTAT--ATATATATTTTTTATTTTTTTTATTTATTTTACT
232445 TACTAT-TTTATAT
1 TA-TATATTTATAT
232458 TTGCTTTCTT
Statistics
Matches: 127, Mismatches: 14, Indels: 33
0.73 0.08 0.19
Matches are distributed among these distances:
45 7 0.06
46 16 0.13
47 34 0.27
48 30 0.24
49 25 0.20
50 2 0.02
51 10 0.08
52 3 0.02
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (45 bp):
TATATATTTATATATATATTTTTTATTTTTTTTATTTATTTTACT
Found at i:247430 original size:2 final size:2
Alignment explanation
Indices: 247423--247464 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
247413 ATTATACTAT
247423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
247465 GGAAAAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:248429 original size:28 final size:30
Alignment explanation
Indices: 248389--248458 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 30
248379 CTGTCTGTCT
*
248389 GCCTCTACTTCTA-TC-GGTTGGACCGTCG
1 GCCTCTACCTCTACTCAGGTTGGACCGTCG
248417 GCCTCTACCTCTATTCCTCAGGGTTGGACCGTCG
1 GCCTCTACCTCTA---CTCA-GGTTGGACCGTCG
248451 GCCTCTAC
1 GCCTCTAC
248459 TTTTGGCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 12 0.34
32 2 0.06
34 21 0.60
ACGTcount: A:0.11, C:0.36, G:0.23, T:0.30
Consensus pattern (30 bp):
GCCTCTACCTCTACTCAGGTTGGACCGTCG
Found at i:254567 original size:26 final size:25
Alignment explanation
Indices: 254537--254586 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
254527 TAATCAAAGC
*
254537 AAAAAGAGAAAAAAGCAAAGAGAAAAT
1 AAAAAG-GAAAAAAACAAAG-GAAAAT
254564 AAAAAGGAAAAAAACAAAGGAAA
1 AAAAAGGAAAAAAACAAAGGAAA
254587 TTTGAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (25 bp):
AAAAAGGAAAAAAACAAAGGAAAAT
Done.