Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 324 of 332
Found at i:106369480 original size:73 final size:72
Alignment explanation
Indices: 106369289--106369521 Score: 263
Period size: 75 Copynumber: 3.2 Consensus size: 72
106369279 ATGTTTTTAT
* * * * * * * *
106369289 TTCTGTTTTCAAAATTGAACTCATATTGTGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTAC
1 TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* *
106369354 TTTCAAT
66 TTTTAAA
* *
106369361 TTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 TTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
106369426 TAATTTTAAA
63 TAATTTTAAA
*
106369436 TTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG-CACGCTGA-GA
1 TTCTGTTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACGCTGAGGT
*
106369499 AATTTTCAA
64 AATTTTAAA
106369508 TTCCTGCTTTTCAA
1 TT-CTG-TTTTCAA
106369522 TTTCTGCTTT
Statistics
Matches: 138, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
72 16 0.12
73 56 0.41
74 8 0.06
75 58 0.42
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (72 bp):
TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTTAAA
Found at i:106369520 original size:14 final size:14
Alignment explanation
Indices: 106369501--106369535 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
106369491 CGCTGAGAAA
106369501 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
*
106369515 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
106369529 TTTTCAA
1 TTTTCAA
106369536 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:106369647 original size:90 final size:87
Alignment explanation
Indices: 106369445--106369663 Score: 269
Period size: 89 Copynumber: 2.5 Consensus size: 87
106369435 ATTCTGTTTG
* *
106369445 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGAAATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGAAATTCTCAATT
* *
106369510 CCTGCTTTTCAATTTCTGCTTT
66 CCTGCTTTTCAATTTATACTTT
* * **
106369532 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCATATGCTGAGGTATTCT
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-GC--ACGCTGAGAAATTCT
* * * *
106369596 CAGTTTCTGTTTTTTCAATTTATATTTT
61 CAATTCCTG-CTTTTCAATTTATACTTT
106369624 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
106369664 GGGTCACATG
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
87 2 0.02
88 2 0.02
89 38 0.33
90 38 0.33
91 18 0.16
92 16 0.14
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (87 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGAAATTCTCAATT
CCTGCTTTTCAATTTATACTTT
Found at i:106369683 original size:90 final size:89
Alignment explanation
Indices: 106369445--106369673 Score: 284
Period size: 90 Copynumber: 2.6 Consensus size: 89
106369435 ATTCTGTTTG
* ** *
106369445 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG-CAC--GCTGAGAAATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACATGCTGAGGTATTCTCA
* *
106369507 ATTCCTGCTTTTCAATTTCTGCTTT
65 ATTCCTGCTTTTCAATTTATACTTT
* *
106369532 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCATATGCTGAGGTATTCTC
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTCTC
* * * *
106369597 AGTTTCTGTTTTTTCAATTTATATTTT
64 AATTCCTG-CTTTTCAATTTATACTTT
*
106369624 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATG
106369674 TCAAGGTATT
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
87 2 0.02
88 2 0.02
89 39 0.32
90 45 0.37
91 17 0.14
92 16 0.13
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (89 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTCTCAA
TTCCTGCTTTTCAATTTATACTTT
Found at i:106370466 original size:25 final size:25
Alignment explanation
Indices: 106370408--106370490 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
106370398 TGATACAAAT
*
106370408 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
106370434 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
106370459 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
106370485 TGATAA
1 TGATAA
106370491 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 23 0.42
26 32 0.58
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:106371683 original size:8 final size:8
Alignment explanation
Indices: 106371672--106371704 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
106371662 CAAAAGTCGA
106371672 AAATGCCG
1 AAATGCCG
106371680 AAATGCCG
1 AAATGCCG
106371688 AAATGCCG
1 AAATGCCG
106371696 AAATGCCG
1 AAATGCCG
106371704 A
1 A
106371705 TGTATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (8 bp):
AAATGCCG
Found at i:106374841 original size:16 final size:15
Alignment explanation
Indices: 106374801--106374855 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 15
106374791 TTATTCCCTC
106374801 TATTATGTATTACTAATG
1 TATTAT-TATTACT-A-G
106374819 TATTATTATTACTAG
1 TATTATTATTACTAG
*
106374834 TCATTATTATTTCTAG
1 T-ATTATTATTACTAG
106374850 TATTAT
1 TATTAT
106374856 CACATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 7 0.20
16 15 0.43
17 7 0.20
18 6 0.17
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:106375139 original size:21 final size:22
Alignment explanation
Indices: 106375074--106375169 Score: 76
Period size: 22 Copynumber: 4.4 Consensus size: 22
106375064 TTTTCTGTTA
* * *
106375074 ATATCTTTATATTATTATGTAC
1 ATATTTTTATACTATTATGTAT
*
106375096 ATATTTTGATA-TCATTA-GTTAT
1 ATATTTTTATACT-ATTATG-TAT
106375118 ATATTTTTATA-TATTATGTAT
1 ATATTTTTATACTATTATGTAT
106375139 AT-TTCTTT-TACTATTCCATGTAT
1 ATATT-TTTATACTATT--ATGTAT
106375162 ATATTTTT
1 ATATTTTT
106375170 TATTTCATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
20 4 0.06
21 18 0.29
22 27 0.44
23 11 0.18
24 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
ATATTTTTATACTATTATGTAT
Found at i:106380658 original size:44 final size:45
Alignment explanation
Indices: 106380545--106380689 Score: 139
Period size: 45 Copynumber: 3.2 Consensus size: 45
106380535 GTGAAGTTAG
* * *
106380545 ATCTTATCTCCCTGAAGTTGCAGCGGAATAGATCGAAGATTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATGACAA
* * * * * *
106380590 ACCTTATCTCCCTAAAGTTACAGTGGAACAGGTTGAAG-TGACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATGACAA
* * * * * * *
106380634 GTCTTATCTCCCTGAATTTGCAGTGGAGCAGACCAAAGATGGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATGACAA
106380679 ATCTTATCTCC
1 ATCTTATCTCC
106380690 ATGTATCGGC
Statistics
Matches: 76, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
44 32 0.42
45 44 0.58
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATGACAA
Found at i:106380865 original size:26 final size:26
Alignment explanation
Indices: 106380829--106380936 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
106380819 TGAAATGCCC
*
106380829 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
106380855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106380881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106380907 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106380933 ATCA
1 ATCA
106380937 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106383630 original size:28 final size:29
Alignment explanation
Indices: 106383598--106383669 Score: 74
Period size: 32 Copynumber: 2.4 Consensus size: 29
106383588 TCGCATATGT
*
106383598 TTTATGTAAATAT-TTTCTTTTAAATCCA
1 TTTATGTAAATATACTTCTTTTAAATCCA
* **
106383626 TTTATATATATATATAACTTCTTTTAAATTTA
1 TTTATGTA-A-ATAT-ACTTCTTTTAAATCCA
106383658 TTTATGTAAATA
1 TTTATGTAAATA
106383670 CATTTGTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 7 0.20
29 1 0.03
30 7 0.20
31 1 0.03
32 19 0.54
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTATGTAAATATACTTCTTTTAAATCCA
Found at i:106386495 original size:99 final size:99
Alignment explanation
Indices: 106386377--106386571 Score: 372
Period size: 99 Copynumber: 2.0 Consensus size: 99
106386367 ATTAGAGAGA
106386377 AAGTGACAGTAGACATGTAATATTCACATATCATCATTATTCAGTAGTAGTTCAACCATCAAATC
1 AAGTGACAGTAGACATGTAATATTCACATATCATCATTATTCAGTAGTAGTTCAACCATCAAATC
106386442 ACAGATTCTAGTATGTTCATAATGTCAGGGATTC
66 ACAGATTCTAGTATGTTCATAATGTCAGGGATTC
*
106386476 AAGTGACAGTAGACATGTAATATTCACATATCATCATTATTCAGTAGTAGTTCAATCATCAAATC
1 AAGTGACAGTAGACATGTAATATTCACATATCATCATTATTCAGTAGTAGTTCAACCATCAAATC
*
106386541 ACAGATTCTAGTATGTTCATAATGTTAGGGA
66 ACAGATTCTAGTATGTTCATAATGTCAGGGA
106386572 CTTAATCTGG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (99 bp):
AAGTGACAGTAGACATGTAATATTCACATATCATCATTATTCAGTAGTAGTTCAACCATCAAATC
ACAGATTCTAGTATGTTCATAATGTCAGGGATTC
Found at i:106387708 original size:37 final size:37
Alignment explanation
Indices: 106387667--106387743 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
106387657 ACTAAACCTC
106387667 TAAAATATGACAATGGTACTTAACCATCAAACTTATT
1 TAAAATATGACAATGGTACTTAACCATCAAACTTATT
*
106387704 TAAAATATGACAATGGTACTTGACCATCAAACTTATT
1 TAAAATATGACAATGGTACTTAACCATCAAACTTATT
106387741 TAA
1 TAA
106387744 TTTTTTAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (37 bp):
TAAAATATGACAATGGTACTTAACCATCAAACTTATT
Found at i:106390715 original size:21 final size:21
Alignment explanation
Indices: 106390674--106390715 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
106390664 TCTAATATAA
* *
106390674 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
106390695 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
106390716 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:106401212 original size:26 final size:26
Alignment explanation
Indices: 106401182--106401263 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
106401172 TGAAATTCCC
*
106401182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106401208 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
106401234 ATTATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106401260 ATCA
1 ATCA
106401264 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:106407984 original size:26 final size:26
Alignment explanation
Indices: 106407954--106408035 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
106407944 TGAAATTCCC
*
106407954 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106407980 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106408006 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106408032 ATCA
1 ATCA
106408036 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:106413274 original size:87 final size:86
Alignment explanation
Indices: 106412967--106413396 Score: 427
Period size: 87 Copynumber: 4.9 Consensus size: 86
106412957 TTTCTGCTTG
* * *
106412967 TCAAAAATCAACTCATATCGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAACT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* *
106413032 TCTATATTTTCAA-TTGATGTT
66 TCTAT-TTTTCAATTTTATTTT
* * * *
106413053 TC-AAAATCAACTCATATTGCGAGAAGTGGGTCGAGCCTTAGGACACGCTGAGGTATTTTCAATA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT-
* *
106413117 TT-TGTTTTTCAATTTCTGTTTT
65 TTCTATTTTTCAATTT-TATTTT
** * * *
106413139 AAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 ---TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* *
106413204 ATTTCTATTTTTTAATCTATATTTT
63 ATTTCTATTTTTCAAT-TTTATTTT
* * * * *
106413229 TCAAATATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
**
106413294 TCTGCTTTTCAATTTT-TGCTTT
66 TCTATTTTTCAATTTTAT--TTT
* * * *
106413316 TCAAAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTC
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTC
* * *
106413381 AAATTCTGTCTTTCAA
62 AATTTCTATTTTTCAA
106413397 ACTCTGTTTT
Statistics
Matches: 283, Mismatches: 46, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
84 7 0.02
85 59 0.21
86 9 0.03
87 72 0.25
89 40 0.14
90 68 0.24
91 28 0.10
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (86 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTATTTTTCAATTTTATTTT
Found at i:106413305 original size:14 final size:14
Alignment explanation
Indices: 106413286--106413319 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
106413276 GCTGAGGTAA
106413286 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
*
106413300 TTTCAATTTTTGCT
1 TTTCAATTTCTGCT
106413314 TTTCAA
1 TTTCAA
106413320 AAAAATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:106413484 original size:103 final size:105
Alignment explanation
Indices: 106413294--106413492 Score: 294
Period size: 103 Copynumber: 1.9 Consensus size: 105
106413284 AATTTCAATT
* * *
106413294 TCTGCTTTTCAATTTTTGCTTTTCAAAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 TCTGCTTTTCAATTTTTACTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
*
106413359 GGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAAC
66 GCTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAAC
* * *
106413399 TCTG-TTTTTAATTTTTACTTTTC-AAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
1 TCTGCTTTTCAATTTTTACTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* * *
106413462 GCTCGCATGCTGAGGTATTTTCAATTTCTGT
66 GCTCACATGCCGAGGTATTTTCAAATTCTGT
106413493 TTTAATTCAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 63 0.75
104 17 0.20
105 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (105 bp):
TCTGCTTTTCAATTTTTACTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
GCTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAAC
Found at i:106413539 original size:86 final size:88
Alignment explanation
Indices: 106413417--106413815 Score: 393
Period size: 86 Copynumber: 4.4 Consensus size: 88
106413407 TAATTTTTAC
* *
106413417 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATG-CTGAGGTATT
1 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGGTATT
*
106413481 TTCAATTTCTGT-TTT-AATTCATG
65 TTCAAATTCTGTCTTTAAATTC-TG
* *
106413504 TTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTT
1 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTT
106413568 TCAAATTCTGTCTTTCAAATTCTG
66 TCAAATTCTGTCTTT-AAATTCTG
* ** * *
106413592 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
1 TTTTCAA---AAAC---TC---AA--C---TCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCAC
* * * *
106413657 ATGCCGAGGTATTTTCAATTTCTGTTTTTAATTTCTG
52 ATGTCGAGGTATTTTCAAATTCTGTCTTTAAATTCTG
*
106413694 TTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATG-CTGAGGTAT
1 -TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGGTAT
* *
106413757 TTCCAATTTCTGT-TTT-AATTCATG
64 TTTCAAATTCTGTCTTTAAATTC-TG
*
106413781 TTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGT
106413816 AGAGAATTTT
Statistics
Matches: 267, Mismatches: 23, Indels: 45
0.80 0.07 0.13
Matches are distributed among these distances:
86 96 0.36
87 20 0.07
88 64 0.24
89 5 0.02
91 2 0.01
93 2 0.01
95 2 0.01
96 2 0.01
98 2 0.01
100 2 0.01
102 7 0.03
103 63 0.24
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (88 bp):
TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTT
TCAAATTCTGTCTTTAAATTCTG
Found at i:106413542 original size:189 final size:190
Alignment explanation
Indices: 106413212--106413769 Score: 820
Period size: 189 Copynumber: 2.9 Consensus size: 190
106413202 CAATTTCTAT
* * * * * * * *
106413212 TTTTTAATCTATATTTTTCAAATA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--GGC
1 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
* * * *
106413274 ACGCTGAGGTAATTTCAATTTCTGCTTTTCAATTTTTGCTTTTCAAAAAAATGAACTCATATTGC
66 ATGCTGAGGTATTTTCAATTTCTGCTTTT-AA-TTCTGCTTTTC--AAAAATCAACTCATATTGC
106413339 GAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTG
127 GAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTG
106413403 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
1 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
106413468 ATGCTGAGGTATTTTCAATTTCTG-TTTTAATTCATG-TTTTCAAAAATCAACTCATATTGCGAG
66 ATGCTGAGGTATTTTCAATTTCTGCTTTTAATTC-TGCTTTTCAAAAATCAACTCATATTGCGAG
* *
106413531 AGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAATTCTGTCTTTCAAATTCTG
130 AGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTG
106413592 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
1 TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
* * *
106413657 ATGCCGAGGTATTTTCAATTTCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG
66 ATGCTGAGGTATTTTCAATTTCTGCTTTTAA-TTCTGCTTTTCAAAAATCAACTCATATTGCGAG
* * * * * *
106413722 AAGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATTTCTGT
130 AGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGT
106413770 TTTAATTCAT
Statistics
Matches: 338, Mismatches: 22, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
189 168 0.50
190 8 0.02
191 98 0.29
192 36 0.11
193 4 0.01
194 24 0.07
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (190 bp):
TTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGC
ATGCTGAGGTATTTTCAATTTCTGCTTTTAATTCTGCTTTTCAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTG
Found at i:106413585 original size:14 final size:14
Alignment explanation
Indices: 106413566--106413592 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106413556 GTCGAGGTAT
106413566 TTTCAAATTCTGTC
1 TTTCAAATTCTGTC
106413580 TTTCAAATTCTGT
1 TTTCAAATTCTGT
106413593 TTTTAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTCAAATTCTGTC
Found at i:106413665 original size:103 final size:99
Alignment explanation
Indices: 106413504--106413784 Score: 341
Period size: 88 Copynumber: 2.9 Consensus size: 99
106413494 TTAATTCATG
* * * *
106413504 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTT
*
106413569 CAAATTCTGTCTTTCAAATTCTGTTTTTAATTTTTAC
66 CAAATTCTGT-TTT--AATTCTGTTTTTAATTTCTAC
*
106413606 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATGCCGAGGTATTT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTT
**
106413671 TC-AA--------T--TTCTGTTTTTAATTTCTGT
65 TCAAATTCTGTTTTAATTCTGTTTTTAATTTCTAC
* *
106413695 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTT
*
106413760 CAATTTCTGTTTTAATTCATGTTTT
66 CAAATTCTGTTTTAATTC-TGTTTT
106413785 CAAAAATCAA
Statistics
Matches: 154, Mismatches: 12, Indels: 28
0.79 0.06 0.14
Matches are distributed among these distances:
88 53 0.34
89 27 0.18
93 1 0.01
97 1 0.01
99 3 0.02
100 6 0.04
102 12 0.08
103 51 0.33
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (99 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTT
CAAATTCTGTTTTAATTCTGTTTTTAATTTCTAC
Found at i:106413689 original size:13 final size:13
Alignment explanation
Indices: 106413668--106413698 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
106413658 TGCCGAGGTA
*
106413668 TTTTCAATTTCTG
1 TTTTTAATTTCTG
106413681 TTTTTAATTTCTG
1 TTTTTAATTTCTG
106413694 TTTTT
1 TTTTT
106413699 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:106413735 original size:88 final size:87
Alignment explanation
Indices: 106413580--106413815 Score: 359
Period size: 88 Copynumber: 2.7 Consensus size: 87
106413570 AAATTCTGTC
* * *
106413580 TTTCAAATTCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTCAATTTCTGTTTTTAATTTCT-GTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGA
*
106413645 GCCTTGGCTCGCATGCCGAGGTAT
64 GCCTTGGCTCACATGCCGAGGTAT
106413669 TTTCAATTTCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTCAATTTCTGTTTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
*
106413734 CCTTGGCTCACATGCTGAGGTAT
65 CCTTGGCTCACATGCCGAGGTAT
* *
106413757 TTCCAATTTCTG-TTTTAA-TTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTCAATTTCTGTTTTTAATTTC-TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGT
106413816 AGAGAATTTT
Statistics
Matches: 138, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
86 37 0.27
87 8 0.06
88 61 0.44
89 32 0.23
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (87 bp):
TTTCAATTTCTGTTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
CTTGGCTCACATGCCGAGGTAT
Found at i:106416216 original size:21 final size:21
Alignment explanation
Indices: 106416192--106416236 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
106416182 GTCATTTATC
*
106416192 TTTTGAACTATTA-TATGTATA
1 TTTTGAA-TATTACTATATATA
*
106416213 TTTTTAATATTACTATATATA
1 TTTTGAATATTACTATATATA
106416234 TTT
1 TTT
106416237 CTAATACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTGAATATTACTATATATA
Found at i:106416241 original size:21 final size:20
Alignment explanation
Indices: 106416200--106416255 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
106416190 TCTTTTGAAC
* *
106416200 TATTATATGTATATTTTTAA
1 TATTATATATATATTTCTAA
106416220 TATTACTATATATATTTCTAA
1 TATTA-TATATATATTTCTAA
**
106416241 TACCAT-TATATATTT
1 TATTATATATATATTT
106416256 ATATATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 9 0.29
20 6 0.19
21 16 0.52
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTATATATATATTTCTAA
Found at i:106416360 original size:21 final size:21
Alignment explanation
Indices: 106416319--106416360 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
106416309 TCTAATATAA
* *
106416319 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
106416340 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
106416361 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:106420265 original size:106 final size:106
Alignment explanation
Indices: 106420115--106420327 Score: 277
Period size: 106 Copynumber: 2.0 Consensus size: 106
106420105 AAACATTGCT
* ** * *
106420115 AATTAAATCAAATTTTGTGAAAAATGCCTTTGTATTTTGAGTTAATC-GAGAAGAAAATCATGTC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCGAGTTAATCAG-GAAGAAAATCATGCC
* * * *
106420179 TTATACGTTAGGGCACGATG-TCTCGAATCCCTGAAAATAAGA
65 TCATAAGTTAGGACACGATGCT-TCAAATCCCTGAAAATAAGA
* * *
106420221 AATTAAATCAAATTTTATGAAGAATGTCTTCATATTTCGAGTTAATCAGGAAGAGAATCATGCCT
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCGAGTTAATCAGGAAGAAAATCATGCCT
*
106420286 CGTAAGTTAGGACACGATGCTTCAAATCCCTGAAAATAAGA
66 CATAAGTTAGGACACGATGCTTCAAATCCCTGAAAATAAGA
106420327 A
1 A
106420328 TGCTCATTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 90 0.98
107 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCGAGTTAATCAGGAAGAAAATCATGCCT
CATAAGTTAGGACACGATGCTTCAAATCCCTGAAAATAAGA
Found at i:106426296 original size:32 final size:33
Alignment explanation
Indices: 106426225--106426297 Score: 130
Period size: 32 Copynumber: 2.2 Consensus size: 33
106426215 TTCAACAATT
106426225 TTTTTTTATGTTATTGACACATAATTTTGGTAA
1 TTTTTTTATGTTATTGACACATAATTTTGGTAA
*
106426258 CTTTTTT-TGTTATTGACACATAATTTTGGTAA
1 TTTTTTTATGTTATTGACACATAATTTTGGTAA
106426290 TTTTTTTA
1 TTTTTTTA
106426298 CTCTGAATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.58
Consensus pattern (33 bp):
TTTTTTTATGTTATTGACACATAATTTTGGTAA
Found at i:106427730 original size:5 final size:5
Alignment explanation
Indices: 106427720--106427746 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
106427710 AATTTGTGTG
106427720 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
106427747 TCATAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:106432253 original size:14 final size:14
Alignment explanation
Indices: 106432234--106432262 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106432224 GTAAACTCAA
106432234 TTACATAATAAATT
1 TTACATAATAAATT
106432248 TTACATAATAAATT
1 TTACATAATAAATT
106432262 T
1 T
106432263 AGTAACCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
TTACATAATAAATT
Found at i:106432341 original size:57 final size:59
Alignment explanation
Indices: 106432278--106432391 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
106432268 CCTTTAGCAC
* *
106432278 GATACAATCAC-A-CAAGTAACCATAACATAGTAATATAATACGAGAATGCAGATCTTG
1 GATACAATCACAATCAAGTAACCATAACATAGTAATACAACACGAGAATGCAGATCTTG
* *
106432335 GATACAATCACAATTTTAAGTAACCATAACATAGTAATACAACACGAGAATGTAGAT
1 GATACAATCACAA--TCAAGTAACCATAACATAGTAATACAACACGAGAATGCAGAT
106432392 TTTGATTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 11 0.22
58 1 0.02
61 37 0.76
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (59 bp):
GATACAATCACAATCAAGTAACCATAACATAGTAATACAACACGAGAATGCAGATCTTG
Found at i:106433904 original size:55 final size:55
Alignment explanation
Indices: 106433808--106433919 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
106433798 GTAATGTTCC
* * *
106433808 AAATCTATAATTCTAATTATTTTATGAGTTTACAATCCAAATATGTTATGTGAAA
1 AAATCTATAATTCTAAGTATTTTATGAATTTACAATACAAATATGTTATGTGAAA
* *
106433863 AAATTTATAATTCTAAGTATTTTATGAATTTATAATACAAATATGTTATGTGAAA
1 AAATCTATAATTCTAAGTATTTTATGAATTTACAATACAAATATGTTATGTGAAA
106433918 AA
1 AA
106433920 GATAACAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (55 bp):
AAATCTATAATTCTAAGTATTTTATGAATTTACAATACAAATATGTTATGTGAAA
Found at i:106435071 original size:20 final size:20
Alignment explanation
Indices: 106435046--106435087 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
106435036 TATAATAGAG
106435046 TTGTAATCAGTAATTCAACT
1 TTGTAATCAGTAATTCAACT
106435066 TTGTAATCAGTAATTCAACT
1 TTGTAATCAGTAATTCAACT
106435086 TT
1 TT
106435088 TTGGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
TTGTAATCAGTAATTCAACT
Found at i:106436779 original size:132 final size:132
Alignment explanation
Indices: 106436513--106436769 Score: 343
Period size: 132 Copynumber: 1.9 Consensus size: 132
106436503 TTGCCTCGCC
* * * * * * * * *
106436513 TTAGAAAACACGAGTGAAATTCCAAAGGGATATTTGATTGTTTTGAACAAATGAGAGATTGCAAC
1 TTAGAAAACACGAATGAAATTCCAAAGAGACATTCGATTATTGTAAACAAACGAGAAATTGCAAC
* * * **
106436578 CCAGCACGATAGGGCACTATTCCTCGAATTGCTAAACATCGAACATTTCCTTCGTTTTAAAAAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAAAGT
106436643 TT
131 TT
* *
106436645 TTAGAAAACATGAATGAAATTCTAAAGAGACATTCGATTATTGTAAACAAACGAGAAATTGCAAC
1 TTAGAAAACACGAATGAAATTCCAAAGAGACATTCGATTATTGTAAACAAACGAGAAATTGCAAC
* * *
106436710 CCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACGTCGGACATCGCCTTCGTTTTAA
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAA
106436770 GGAATTTTTA
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (132 bp):
TTAGAAAACACGAATGAAATTCCAAAGAGACATTCGATTATTGTAAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAAAGT
TT
Found at i:106437187 original size:14 final size:14
Alignment explanation
Indices: 106437152--106437188 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
106437142 TAAAATATAT
*
106437152 AAAGGATAAGTTTA
1 AAAGGATGAGTTTA
106437166 AAAGGATGAGTTTA
1 AAAGGATGAGTTTA
106437180 AAAGGATGA
1 AAAGGATGA
106437189 ACACATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (14 bp):
AAAGGATGAGTTTA
Found at i:106440668 original size:26 final size:26
Alignment explanation
Indices: 106440637--106440744 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
106440627 TGAAATGCCC
*
106440637 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
106440663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
106440689 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
106440715 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106440741 ATCA
1 ATCA
106440745 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106445382 original size:35 final size:38
Alignment explanation
Indices: 106445319--106445390 Score: 114
Period size: 35 Copynumber: 2.0 Consensus size: 38
106445309 TTCTAATTAT
106445319 TTTATGAATTCATAATCCAAATAGGTTATGTGAAAAAA
1 TTTATGAATTCATAATCCAAATAGGTTATGTGAAAAAA
*
106445357 TTTAT-AATTC-T-ATCCAAATATGTTATGTGAAAAA
1 TTTATGAATTCATAATCCAAATAGGTTATGTGAAAAA
106445391 GATAATAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 22 0.67
36 1 0.03
37 5 0.15
38 5 0.15
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (38 bp):
TTTATGAATTCATAATCCAAATAGGTTATGTGAAAAAA
Found at i:106447525 original size:33 final size:32
Alignment explanation
Indices: 106447436--106447527 Score: 82
Period size: 33 Copynumber: 2.9 Consensus size: 32
106447426 TTTTATAAAT
* *
106447436 AAATTTTTATTTAATTTTAATTATATA-TACG
1 AAATTTTAATTTAATTTTAATTATATATTACA
* * * *
106447467 AAACTTGAA-TTATAGTTT-ATATATATATGTATA
1 AAATTTTAATTTA-ATTTTAAT-TATATAT-TACA
106447500 AAATTTTAATTTAATTTTAATTATATAT
1 AAATTTTAATTTAATTTTAATTATATAT
106447528 AGTTAAATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
30 5 0.11
31 16 0.35
33 20 0.43
34 5 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (32 bp):
AAATTTTAATTTAATTTTAATTATATATTACA
Found at i:106450115 original size:21 final size:23
Alignment explanation
Indices: 106450077--106450131 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
106450067 AAGAAAGAAA
106450077 ATACATAT-TAATAAT-AA-ATAT
1 ATACATATAT-ATAATAAAGATAT
* *
106450098 GTACATATATATATTAAAGATAT
1 ATACATATATATAATAAAGATAT
106450121 ATACATATATA
1 ATACATATATA
106450132 ATAGACATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 11 0.39
22 3 0.11
23 14 0.50
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (23 bp):
ATACATATATATAATAAAGATAT
Found at i:106450141 original size:19 final size:17
Alignment explanation
Indices: 106450100--106450142 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
106450090 ATAAATATGT
*
106450100 ACATATATATATTAAAG
1 ACATATACATATTAAAG
*
106450117 ATATATACATATATAATAG
1 ACATATACATAT-TAA-AG
106450136 ACATATA
1 ACATATA
106450143 TTAATAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (17 bp):
ACATATACATATTAAAG
Found at i:106450233 original size:26 final size:27
Alignment explanation
Indices: 106450190--106450243 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
106450180 TATGTACACC
* * *
106450190 AAATAATACATAATAATA-TTAAAATA
1 AAATAATAAATAACAATAGTGAAAATA
*
106450216 AAATAATAAATGACAATAGTGAAAATA
1 AAATAATAAATAACAATAGTGAAAATA
106450243 A
1 A
106450244 TAAGTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATAATAAATAACAATAGTGAAAATA
Found at i:106450383 original size:21 final size:21
Alignment explanation
Indices: 106450335--106450383 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
106450325 TACTAATATC
106450335 AATAATAAATATAATAAGAAT
1 AATAATAAATATAATAAGAAT
* *
106450356 AAAAATAAATATAA-ATATAAT
1 AATAATAAATATAATA-AGAAT
106450377 AATAATA
1 AATAATA
106450384 TACACATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAATAAATATAATAAGAAT
Found at i:106450620 original size:23 final size:22
Alignment explanation
Indices: 106450591--106450633 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
106450581 AATAGTAATG
*
106450591 GTATTAGAAGTATATAATATATA
1 GTATTAGAAATATAT-ATATATA
106450614 GTATTAGAAATATATATATA
1 GTATTAGAAATATATATATA
106450634 AAACAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
GTATTAGAAATATATATATATA
Found at i:106450679 original size:14 final size:14
Alignment explanation
Indices: 106450662--106450702 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
106450652 ATAACTAATG
106450662 ACATTAAAATATAT
1 ACATTAAAATATAT
106450676 ACA-TAATAATATAT
1 ACATTAA-AATATAT
106450690 ACATATAAAATAT
1 ACAT-TAAAATAT
106450703 TAGGAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 13 0.54
15 5 0.21
16 3 0.12
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
ACATTAAAATATAT
Found at i:106450851 original size:23 final size:24
Alignment explanation
Indices: 106450820--106450873 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
106450810 TTGATAATAC
106450820 TACA-TAAATATATACACATAT-A
1 TACATTAAATATATACACATATAA
*
106450842 TACATTAAATATATACATATATAA
1 TACATTAAATATATACACATATAA
106450866 TAACATTA
1 T-ACATTA
106450874 TACACTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 16 0.57
24 2 0.07
25 6 0.21
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
TACATTAAATATATACACATATAA
Found at i:106450877 original size:19 final size:21
Alignment explanation
Indices: 106450820--106450864 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
106450810 TTGATAATAC
106450820 TACA-TAAATATATACACATATA
1 TACATTAAATATAT--ACATATA
106450842 TACATTAAATATATACATATA
1 TACATTAAATATATACATATA
106450863 TA
1 TA
106450865 ATAACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
TACATTAAATATATACATATA
Found at i:106452829 original size:88 final size:87
Alignment explanation
Indices: 106452543--106452946 Score: 406
Period size: 88 Copynumber: 4.6 Consensus size: 87
106452533 GTGATCCTAA
** * * * * *
106452543 GCTCAACTCATTTCTCGAAATATGAATTGACTCTTT-AAAAACAGATATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAAACAGAAATTG
* * * *
106452606 AAGATAGCTCAGCACGTGAACC-AAT
65 AAAATACCTCAG--CGTG-ACCTGAG
* * * * * **
106452631 GCTCAACTCACCTCTCACAATATGAGTTGGTTTTTG--AAACTTAATTTGAAAATCAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATTGA
* *
106452694 AAATTCCTC-GACATGTGACCCGAG
66 AAATACCTCAG-C--GTGACCTGAG
*
106452718 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTG-AAAAACAGAAATTG
*
106452783 AAAATACCTCAGCGTGTCCTGAG
65 AAAATACCTCAGCGTGACCTGAG
* * * * **
106452806 GCTCAATTCACCTCTCGCGATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAAGTAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAAACAGAAATTG
*
106452871 AAAATACCTCAGCGTGCCCTGAG
65 AAAATACCTCAGCGTGACCTGAG
* *
106452894 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAA
106452947 TTACCTCAGC
Statistics
Matches: 263, Mismatches: 43, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
85 2 0.01
86 11 0.04
87 80 0.30
88 122 0.46
89 26 0.10
90 21 0.08
91 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAACAGAAATTGA
AAATACCTCAGCGTGACCTGAG
Found at i:106452859 original size:14 final size:14
Alignment explanation
Indices: 106452840--106452874 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
106452830 AGTTGATTTT
106452840 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
106452854 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
106452868 TTGAAAA
1 TTGAAAA
106452875 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:106452984 original size:73 final size:73
Alignment explanation
Indices: 106452865--106453385 Score: 873
Period size: 73 Copynumber: 7.1 Consensus size: 73
106452855 TGAAAAGTAG
106452865 AAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*** *
106452929 GACAAACAA
65 TTGAAACAT
* * * *
106452938 AAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATCTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
106453003 TGAAACAT
66 TGAAACAT
*
106453011 AAATTGAAAATACTTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
106453076 TGAAACAT
66 TGAAACAT
* * * *
106453084 AAATTGAAATTACCTCAGCGTGTCCCAAGACTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
106453149 TGAAACAT
66 TGAAACAT
*
106453157 AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
106453222 TGAAACAT
66 TGAAACAT
106453230 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
106453295 TGAAACAT
66 TGAAACAT
* *
106453303 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCATCTCACCTCTCGCAATATGAGTTCATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
106453368 CGAAACAT
66 TGAAACAT
106453376 AAATTGAAAA
1 AAATTGAAAA
106453386 GCAGAAATTG
Statistics
Matches: 422, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
73 419 0.99
74 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAACAT
Found at i:106456030 original size:16 final size:16
Alignment explanation
Indices: 106456011--106456046 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
106456001 CATTAAATAG
*
106456011 AAAGTTTAATAAAAAT
1 AAAGTTTAATAAAAAA
106456027 AAAGTTTAATAAAAAA
1 AAAGTTTAATAAAAAA
106456043 AAAG
1 AAAG
106456047 AGTAAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (16 bp):
AAAGTTTAATAAAAAA
Found at i:106478108 original size:25 final size:27
Alignment explanation
Indices: 106478071--106478123 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
106478061 TCAAACATGC
106478071 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
106478097 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
106478123 A
1 A
106478124 AAACTGTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:106479647 original size:26 final size:26
Alignment explanation
Indices: 106479611--106479718 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
106479601 TGAAATTCCA
106479611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106479637 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106479663 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106479689 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106479715 ATCA
1 ATCA
106479719 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106509005 original size:16 final size:16
Alignment explanation
Indices: 106508975--106509036 Score: 67
Period size: 15 Copynumber: 4.0 Consensus size: 16
106508965 CAACCCAATC
*
106508975 TTTATTTTTAT-TTTT
1 TTTATTTTTTTATTTT
106508990 TTTATTTTTTTATTTT
1 TTTATTTTTTTATTTT
*
106509006 TTTA-TTTATTATTTT
1 TTTATTTTTTTATTTT
*
106509021 CTTT-TATTTTTATTTT
1 -TTTATTTTTTTATTTT
106509037 ATTTTAGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
15 20 0.50
16 20 0.50
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTTTTTATTTT
Found at i:106509005 original size:23 final size:25
Alignment explanation
Indices: 106508975--106509042 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 25
106508965 CAACCCAATC
106508975 TTTATTTTTATTTTTTTTA-TTT-T
1 TTTATTTTTATTTTTTTTATTTTCT
*
106508998 TTTATTTTT-TTATTTATTATTTTCT
1 TTTATTTTTATT-TTTTTTATTTTCT
106509023 TTTATTTTTATTTTATTTTA
1 TTTATTTTTATTTT-TTTTA
106509043 GTTAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 3 0.08
25 12 0.32
26 6 0.16
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTATTTTTATTTTTTTTATTTTCT
Found at i:106509026 original size:13 final size:11
Alignment explanation
Indices: 106508975--106509041 Score: 73
Period size: 11 Copynumber: 5.7 Consensus size: 11
106508965 CAACCCAATC
106508975 TTTATTTTTATT
1 TTTATTTTT-TT
106508987 TTT-TTTATTTT
1 TTTATTT-TTTT
106508998 TTTATTTTTTT
1 TTTATTTTTTT
106509009 ATTTATTATTTTCT
1 -TTTATT-TTTT-T
*
106509023 TTTATTTTTAT
1 TTTATTTTTTT
106509034 TTTATTTT
1 TTTATTTT
106509042 AGTTAAATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
11 21 0.43
12 17 0.35
13 10 0.20
14 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTTT
Found at i:106509041 original size:16 final size:15
Alignment explanation
Indices: 106508975--106509042 Score: 91
Period size: 16 Copynumber: 4.3 Consensus size: 15
106508965 CAACCCAATC
106508975 TTTATTTTTATTTTT
1 TTTATTTTTATTTTT
*
106508990 TTTATTTTTTTATTTT
1 TTTATTTTTAT-TTTT
106509006 TTTATTTATTATTTTCT
1 TTTATTT-TTATTTT-T
106509023 TTTATTTTTATTTTAT
1 TTTATTTTTATTTT-T
106509039 TTTA
1 TTTA
106509043 GTTAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
15 10 0.21
16 26 0.55
17 11 0.23
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:106510208 original size:118 final size:118
Alignment explanation
Indices: 106510000--106510212 Score: 381
Period size: 118 Copynumber: 1.8 Consensus size: 118
106509990 TGTTTTCCAT
* *
106510000 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
106510065 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
** *
106510118 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
106510183 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
106510213 TTGGGTAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:106513673 original size:42 final size:39
Alignment explanation
Indices: 106513576--106513726 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 39
106513566 GAGTTTCTGT
106513576 TTAA-CCTTAATGGGTTTTCGTTTAGCTCTTTGAGCTTTAG
1 TTAACCCTT-ATGGG-TTTCGTTTAGCTCTTTGAGCTTTAG
* *
106513616 TATAACTCTTCTGGGTTTCAGTTTAGCTCTTTTGAGCTTTAG
1 T-TAACCCTTATGGGTTTC-GTTTAGCTC-TTTGAGCTTTAG
* **
106513658 ATTAACCCTTATGGGTTTCCGTTTAGCTCCTATGAGCTTCCG
1 -TTAACCCTTATGGGTTT-CGTTTAGCT-CTTTGAGCTTTAG
*
106513700 TTCAACCCTTATGAGTTTTCGTTTAGC
1 TT-AACCCTTATG-GGTTTCGTTTAGC
106513727 ACTTATGTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 16
0.80 0.07 0.14
Matches are distributed among these distances:
40 5 0.05
41 18 0.19
42 64 0.68
43 7 0.07
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (39 bp):
TTAACCCTTATGGGTTTCGTTTAGCTCTTTGAGCTTTAG
Found at i:106513731 original size:21 final size:21
Alignment explanation
Indices: 106513665--106513733 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
106513655 TAGATTAACC
* *
106513665 CTTATGGGTTTCCGTTTAGCT
1 CTTATGAGTTTCCGTTTAGCA
* * * * *
106513686 CCTATGAGCTTCCGTTCAACC
1 CTTATGAGTTTCCGTTTAGCA
*
106513707 CTTATGAGTTTTCGTTTAGCA
1 CTTATGAGTTTCCGTTTAGCA
106513728 CTTATG
1 CTTATG
106513734 TGCTTCTGTG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
CTTATGAGTTTCCGTTTAGCA
Found at i:106516041 original size:22 final size:20
Alignment explanation
Indices: 106515999--106516041 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
106515989 ATCAAAAGAA
*
106515999 TGAAATAATATAAAACGATT
1 TGAAATAATATAAAACAATT
*
106516019 TGAAATAAATAATGAAACAATT
1 TGAAAT-AAT-ATAAAACAATT
106516041 T
1 T
106516042 TGACTAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
TGAAATAATATAAAACAATT
Found at i:106516296 original size:19 final size:18
Alignment explanation
Indices: 106516232--106516306 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 18
106516222 ATATAGAAAA
*
106516232 ATAT-TAAAGTAAATAAT
1 ATATATAAAATAAATAAT
*
106516249 ATACATAAAATAAA-AAT
1 ATATATAAAATAAATAAT
* *
106516266 AT-TTTAATATAAATAAT
1 ATATATAAAATAAATAAT
106516283 ATATATGAAAATAAATAAT
1 ATATAT-AAAATAAATAAT
*
106516302 GTATA
1 ATATA
106516307 AAGAGTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 10 0.22
19 15 0.33
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
ATATATAAAATAAATAAT
Found at i:106527358 original size:19 final size:19
Alignment explanation
Indices: 106527323--106527360 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
106527313 CCATTGTTAC
*
106527323 TGTTATTATTATTATCACT
1 TGTTATTATTATCATCACT
106527342 TGTTATTA-TACTCATCACT
1 TGTTATTATTA-TCATCACT
106527361 ATTATTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (19 bp):
TGTTATTATTATCATCACT
Found at i:106527378 original size:13 final size:13
Alignment explanation
Indices: 106527360--106527392 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
106527350 TACTCATCAC
106527360 TATTATTG-TACTT
1 TATTATTGTTAC-T
106527373 TATTATTGTTACT
1 TATTATTGTTACT
106527386 TATTATT
1 TATTATT
106527393 TTAGTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (13 bp):
TATTATTGTTACT
Found at i:106527473 original size:3 final size:3
Alignment explanation
Indices: 106527467--106527636 Score: 80
Period size: 3 Copynumber: 57.7 Consensus size: 3
106527457 TTTTTTTTTG
* * * *
106527467 TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA TCA CTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * * *
106527515 GAA CTA TTT TTA TTA CTA TTA TT- TAA TATA TTA TTT TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
** * * * * * *
106527560 TCG TTA CTA TTA TTG TTA -TA TTG TTA CTA TTA CTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
106527606 -TG TTA TTA -TA TCTT TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT
106527637 GTATTCTTAC
Statistics
Matches: 115, Mismatches: 45, Indels: 14
0.66 0.26 0.08
Matches are distributed among these distances:
2 7 0.06
3 104 0.90
4 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:106527600 original size:20 final size:20
Alignment explanation
Indices: 106527562--106527601 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
106527552 TATTACTATC
* * *
106527562 GTTACTATTATTGTTATATT
1 GTTACTATTACTATCATATT
106527582 GTTACTATTACTATCATATT
1 GTTACTATTACTATCATATT
106527602 ATTATGTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (20 bp):
GTTACTATTACTATCATATT
Found at i:106527628 original size:23 final size:22
Alignment explanation
Indices: 106527601--106527664 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
106527591 ACTATCATAT
*
106527601 TATTATGTTATTATATCTTTTAC
1 TATTATGTTATTATAT-TCTTAC
* *
106527624 TATTATTATTATTGTATTCTTAC
1 TATTA-TGTTATTATATTCTTAC
*
106527647 TATTTTTGTTATTATATT
1 TA-TTATGTTATTATATT
106527665 TCCTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTATGTTATTATATTCTTAC
Found at i:106527858 original size:6 final size:6
Alignment explanation
Indices: 106527806--106527980 Score: 62
Period size: 6 Copynumber: 29.0 Consensus size: 6
106527796 TAAATTTTAG
* **
106527806 ATTACTT ATTATT -TGTATT ATTGTT ATTA-T ATT-TGT ATTTACC ATTATT
1 ATTA-TT ATTATT AT-TATT ATTATT ATTATT ATTAT-T A-TTATT ATTATT
* * * *
106527855 ATTACT ATTATT -TTCACTT -TTATT ACTATT ACTATT ATCATT -TCT-TT
1 ATTATT ATTATT ATT-A-TT ATTATT ATTATT ATTATT ATTATT AT-TATT
* * * * * *
106527902 ATTATT TTCTATT ACTATT ATTATT ATTAAT ATAAAT ATTGA-T ATTCTT
1 ATTATT AT-TATT ATTATT ATTATT ATTATT ATTATT ATT-ATT ATTATT
* *
106527951 ATTACT ACTT-TT ATTATT ATTAAT ATTATT
1 ATTATT A-TTATT ATTATT ATTATT ATTATT
106527981 GTTTTACCAC
Statistics
Matches: 126, Mismatches: 25, Indels: 35
0.68 0.13 0.19
Matches are distributed among these distances:
5 15 0.12
6 92 0.73
7 19 0.15
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (6 bp):
ATTATT
Found at i:106530422 original size:46 final size:46
Alignment explanation
Indices: 106530352--106530440 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
106530342 GAGGGAAACA
106530352 AAGCGACATAGGTAAAAAACAAACTTTATTTTTTTATTTATTAACG
1 AAGCGACATAGGTAAAAAACAAACTTTATTTTTTTATTTATTAACG
*
106530398 AAGCGACATAGGTAAAAAATAAACTTTATTTTTTTATTTATTA
1 AAGCGACATAGGTAAAAAACAAACTTTATTTTTTTATTTATTA
106530441 TACTTTTCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (46 bp):
AAGCGACATAGGTAAAAAACAAACTTTATTTTTTTATTTATTAACG
Found at i:106532329 original size:18 final size:18
Alignment explanation
Indices: 106532293--106532335 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
106532283 AGTGCGTATG
106532293 ATGCAATGCTGATGCATGA
1 ATGCAATGC-GATGCATGA
106532312 ATGCAATG-GATGCAATGA
1 ATGCAATGCGATGC-ATGA
106532330 ATGCAA
1 ATGCAA
106532336 AACAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (18 bp):
ATGCAATGCGATGCATGA
Found at i:106535107 original size:21 final size:21
Alignment explanation
Indices: 106535081--106535123 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106535071 GTGGCTTGAC
106535081 TCTCTTATTCGTATTCCCCAG
1 TCTCTTATTCGTATTCCCCAG
106535102 TCTCTTATTCGTATTCCCCAG
1 TCTCTTATTCGTATTCCCCAG
106535123 T
1 T
106535124 GGAGTCGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.33, G:0.09, T:0.44
Consensus pattern (21 bp):
TCTCTTATTCGTATTCCCCAG
Found at i:106536506 original size:3 final size:3
Alignment explanation
Indices: 106536500--106536539 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
106536490 GAATAATAGC
* * *
106536500 AAT AAT AAT AGT AAT AAT AAT AAT AAC AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
106536540 CATTAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106536508 original size:12 final size:12
Alignment explanation
Indices: 106536491--106536521 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
106536481 GACAATAAAG
106536491 AATAATAGCAAT
1 AATAATAGCAAT
*
106536503 AATAATAGTAAT
1 AATAATAGCAAT
106536515 AATAATA
1 AATAATA
106536522 ATAACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (12 bp):
AATAATAGCAAT
Found at i:106536521 original size:18 final size:18
Alignment explanation
Indices: 106536491--106536679 Score: 55
Period size: 18 Copynumber: 10.1 Consensus size: 18
106536481 GACAATAAAG
*
106536491 AATAATAGCAATAATAAT
1 AATAATAGTAATAATAAT
* * *
106536509 AGTAATAATAATAATAAC
1 AATAATAGTAATAATAAT
* *
106536527 AATATTAATAATACATTAA-
1 AATAATAGTAATA-A-TAAT
106536546 AATACAATAGTAA-AATAAT
1 AAT--AATAGTAATAATAAT
* * * *
106536565 GACAATGGTAGTAATAAT
1 AATAATAGTAATAATAAT
* *
106536583 -ATATTGGTAATACATAAT
1 AATAATAGTAATA-ATAAT
* *
106536601 AGAGGGAATAAAGAATATAATAGA-
1 A-A--TAAT--AGTA-ATAATA-AT
106536625 AATAATAGTAATAAT-AT
1 AATAATAGTAATAATAAT
* ** *
106536642 GAACAATAGTGGTGATAAT
1 -AATAATAGTAATAATAAT
*
106536661 AATAATAATAATAATAAT
1 AATAATAGTAATAATAAT
106536679 A
1 A
106536680 TATGAGTTAT
Statistics
Matches: 123, Mismatches: 30, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
16 1 0.01
17 15 0.12
18 69 0.56
19 11 0.09
20 5 0.04
21 9 0.07
22 2 0.02
23 1 0.01
24 6 0.05
25 4 0.03
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (18 bp):
AATAATAGTAATAATAAT
Found at i:106537655 original size:16 final size:16
Alignment explanation
Indices: 106537634--106537664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106537624 TATAACAATT
*
106537634 AAAAGAAGAAAAAGGG
1 AAAAGAAAAAAAAGGG
106537650 AAAAGAAAAAAAAGG
1 AAAAGAAAAAAAAGG
106537665 CCCTTGTTTA
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGGG
Found at i:106538171 original size:77 final size:76
Alignment explanation
Indices: 106538042--106538191 Score: 248
Period size: 77 Copynumber: 2.0 Consensus size: 76
106538032 ATATGGAGCT
106538042 TGTCGAAACCATTTTTATTTTTGGATTTAAAAAACGAAGGGGATCGAATTTTAAAACAAAGTGTG
1 TGTCGAAACCATTTTTATTTTTGGATTTAAAAAACGAAGGGGATCGAATTTTAAAA-AAAGTGTG
106538107 GAGTCGCCAACC
65 GAGTCGCCAACC
* * *
106538119 TGTCGAACCCATTTTTATTTTTGGATTTAAAAAATGACGGGGATC-AACTTTTAAAAAAAGTGTG
1 TGTCGAAACCATTTTTATTTTTGGATTTAAAAAACGAAGGGGATCGAA-TTTTAAAAAAAGTGTG
106538183 GAGTCGCCA
65 GAGTCGCCA
106538192 CCAATCTTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 19 0.28
77 50 0.72
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (76 bp):
TGTCGAAACCATTTTTATTTTTGGATTTAAAAAACGAAGGGGATCGAATTTTAAAAAAAGTGTGG
AGTCGCCAACC
Found at i:106541376 original size:15 final size:15
Alignment explanation
Indices: 106541356--106541386 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
106541346 AACAAACAAC
106541356 AACAATAATAATAAT
1 AACAATAATAATAAT
106541371 AACAATAATAATAAT
1 AACAATAATAATAAT
106541386 A
1 A
106541387 CGATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:106545867 original size:56 final size:56
Alignment explanation
Indices: 106545802--106545911 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
106545792 ATAAGATTCC
*
106545802 AAATCTATAATTCTAAGTATTTAATGAATTCACAATCTAAATATATTATGTGAAAA
1 AAATCTATAATTCTAAGTATTTAACGAATTCACAATCTAAATATATTATGTGAAAA
* * *
106545858 AAATCTATAATTCTAAGTATTTTACGATTTCACAATCTAAATATGTTATGTGAA
1 AAATCTATAATTCTAAGTATTTAACGAATTCACAATCTAAATATATTATGTGAA
106545912 CATGAACTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (56 bp):
AAATCTATAATTCTAAGTATTTAACGAATTCACAATCTAAATATATTATGTGAAAA
Found at i:106549706 original size:24 final size:24
Alignment explanation
Indices: 106549661--106549707 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
106549651 GCTGAGGGAG
* * *
106549661 AAAAAGAGTGGATGAAAGAAAAAA
1 AAAAACAGTGAATAAAAGAAAAAA
*
106549685 AAAAACAGTGAATAAAATAAAAA
1 AAAAACAGTGAATAAAAGAAAAA
106549708 TAACTAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.17, T:0.11
Consensus pattern (24 bp):
AAAAACAGTGAATAAAAGAAAAAA
Found at i:106555583 original size:6 final size:6
Alignment explanation
Indices: 106555567--106555604 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
106555557 CTGTGAGTTA
* *
106555567 CTGTT- CTGTTG CTGTTG CTGTTG CAGTTG CTGCTG CTG
1 CTGTTG CTGTTG CTGTTG CTGTTG CTGTTG CTGTTG CTG
106555605 CTGTTGCTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.03, C:0.21, G:0.32, T:0.45
Consensus pattern (6 bp):
CTGTTG
Found at i:106555585 original size:27 final size:27
Alignment explanation
Indices: 106555547--106555613 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
106555537 TGCTGCTGAA
*
106555547 GCTGTTGTTGCTG-TG-AGTTACTGTTCT
1 GCTGCTGTTGCTGTTGCAGTTACTG--CT
* *
106555574 GTTGCTGTTGCTGTTGCAGTTGCTGCT
1 GCTGCTGTTGCTGTTGCAGTTACTGCT
106555601 GCTGCTGTTGCTG
1 GCTGCTGTTGCTG
106555614 CTGATGCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 25 0.74
28 2 0.06
29 7 0.21
ACGTcount: A:0.04, C:0.18, G:0.33, T:0.45
Consensus pattern (27 bp):
GCTGCTGTTGCTGTTGCAGTTACTGCT
Found at i:106555610 original size:15 final size:15
Alignment explanation
Indices: 106555582--106555621 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
106555572 CTGTTGCTGT
*
106555582 TGCTGTTGCAGTTGC
1 TGCTGCTGCAGTTGC
*
106555597 TGCTGCTGCTGTTGC
1 TGCTGCTGCAGTTGC
*
106555612 TGCTGATGCA
1 TGCTGCTGCA
106555622 ACTGAGCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.07, C:0.23, G:0.33, T:0.38
Consensus pattern (15 bp):
TGCTGCTGCAGTTGC
Found at i:106556257 original size:30 final size:30
Alignment explanation
Indices: 106556221--106556278 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
106556211 ATCACATTAT
* *
106556221 TTAGATTCCAAATATACAAGTAATATGAAC
1 TTAGATTCCAAATAAACAAGTAAAATGAAC
*
106556251 TTAGATTCCAAATAAATAAGTAAAATGA
1 TTAGATTCCAAATAAACAAGTAAAATGA
106556279 CCCAAGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (30 bp):
TTAGATTCCAAATAAACAAGTAAAATGAAC
Found at i:106557303 original size:15 final size:14
Alignment explanation
Indices: 106557283--106557459 Score: 110
Period size: 15 Copynumber: 13.0 Consensus size: 14
106557273 CCTGCTGGGA
*
106557283 CTGCTGTGGTGGCTG
1 CTGCTGT-GTTGCTG
106557298 CTGCTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
*
106557313 TTGCTGTTGTTGCTG
1 CTGCTG-TGTTGCTG
106557328 CTG-T-TGTTGCTG
1 CTGCTGTGTTGCTG
*
106557340 CTG-T-TGCTGCTG
1 CTGCTGTGTTGCTG
* * *
106557352 TTGTTGCTGTTGTTG
1 CTGCTG-TGTTGCTG
*
106557367 CTGTTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
*
106557382 TTGCTGTTGTTG-T-
1 CTGCTG-TGTTGCTG
106557395 -TGC--TGTTGCTG
1 CTGCTGTGTTGCTG
106557406 CTGCTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
*
106557421 TTGCTGTTGTTGCTG
1 CTGCTG-TGTTGCTG
106557436 CTG-T-TGTTGCTG
1 CTGCTGTGTTGCTG
106557448 CTG-T-TGTTGCTG
1 CTGCTGTGTTGCTG
106557460 TTGTTGGGCA
Statistics
Matches: 136, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
9 5 0.04
10 1 0.01
12 47 0.35
13 1 0.01
14 3 0.02
15 78 0.57
16 1 0.01
ACGTcount: A:0.00, C:0.18, G:0.34, T:0.48
Consensus pattern (14 bp):
CTGCTGTGTTGCTG
Found at i:106557305 original size:6 final size:6
Alignment explanation
Indices: 106557294--106557450 Score: 98
Period size: 6 Copynumber: 26.2 Consensus size: 6
106557284 TGCTGTGGTG
* * * * * *
106557294 GCTGCT GCTGCT GTTGCT GTTGCT GTTGTT GCTGCT GTTGTT GCTGCT
1 GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT
* * * * * * * * *
106557342 GTTGCT GCTGTT GTTGCT GTTGTT GCTGTT GCTGTT GCTGTT GCTGTT
1 GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT
* * * * * * *
106557390 GTTGTT GCTGTT GCTGCT GCTGCT GTTGCT GTTGCT GTTGTT GCTGCT
1 GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT GCTGCT
* *
106557438 GTTGTT GCTGCT G
1 GCTGCT GCTGCT G
106557451 TTGTTGCTGT
Statistics
Matches: 125, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 125 1.00
ACGTcount: A:0.00, C:0.18, G:0.34, T:0.48
Consensus pattern (6 bp):
GCTGCT
Found at i:106557311 original size:12 final size:12
Alignment explanation
Indices: 106557296--106557465 Score: 175
Period size: 12 Copynumber: 14.2 Consensus size: 12
106557286 CTGTGGTGGC
106557296 TGCTGCTGCTGT
1 TGCTGCTGCTGT
*
106557308 TGCTGTTGCTGT
1 TGCTGCTGCTGT
*
106557320 TGTTGCTGCTGT
1 TGCTGCTGCTGT
*
106557332 TGTTGCTGCTGT
1 TGCTGCTGCTGT
*
106557344 TGCTGCTGTTGT
1 TGCTGCTGCTGT
106557356 TGCTG-T--TGT
1 TGCTGCTGCTGT
*
106557365 TGCTGTTGCTGT
1 TGCTGCTGCTGT
*
106557377 TGCTGTTGCTGT
1 TGCTGCTGCTGT
* *
106557389 TGTTGTTGCTGTT
1 TGCTGCTGCTG-T
106557402 GCTGCTGCTGCTGT
1 --TGCTGCTGCTGT
*
106557416 TGCTGTTGCTGT
1 TGCTGCTGCTGT
*
106557428 TGTTGCTGCTGT
1 TGCTGCTGCTGT
*
106557440 TGTTGCTGCTGT
1 TGCTGCTGCTGT
* *
106557452 TGTTGCTGTTGT
1 TGCTGCTGCTGT
106557464 TG
1 TG
106557466 GGCATGCCTC
Statistics
Matches: 140, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.06
10 1 0.01
11 1 0.01
12 119 0.85
13 1 0.01
14 1 0.01
15 9 0.06
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (12 bp):
TGCTGCTGCTGT
Found at i:106557327 original size:39 final size:38
Alignment explanation
Indices: 106557294--106557462 Score: 217
Period size: 39 Copynumber: 4.6 Consensus size: 38
106557284 TGCTGTGGTG
106557294 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTGT
1 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTGT
*
106557332 --TGTTGCTGCTGTTGC---TGCTGTTGTTGCTG-T-T
1 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTGT
* * *
106557363 GTTGCTGTTGCTGTTGCTGTTGCTGTTGTTGTTGCTGTT
1 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTG-T
106557402 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTGTT
1 GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTG-T
* *
106557441 GTTGCTGCTGTTGTTGCTGTTG
1 GCTGCTGCTGCTGTTGCTGTTG
106557463 TTGGGCATGC
Statistics
Matches: 114, Mismatches: 9, Indels: 15
0.83 0.07 0.11
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 27 0.24
36 27 0.24
37 1 0.01
39 57 0.50
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.49
Consensus pattern (38 bp):
GCTGCTGCTGCTGTTGCTGTTGCTGTTGTTGCTGCTGT
Found at i:106557452 original size:9 final size:9
Alignment explanation
Indices: 106557296--106557462 Score: 136
Period size: 9 Copynumber: 17.2 Consensus size: 9
106557286 CTGTGGTGGC
*
106557296 TGCTGCTGC
1 TGCTGCTGT
*
106557305 TGTTGCTGT
1 TGCTGCTGT
*
106557314 TGCTGTTGT
1 TGCTGCTGT
106557323 TGCTGCTGTTGT
1 TGCTGC---TGT
106557335 TGCTGCTGT
1 TGCTGCTGT
106557344 TGCTGCTGT
1 TGCTGCTGT
*
106557353 TGTTGCTGT
1 TGCTGCTGT
*
106557362 TGTTGCTGT
1 TGCTGCTGT
106557371 TGCTGTTGCTGT
1 TGC---TGCTGT
*
106557383 TGCTGTTGT
1 TGCTGCTGT
*
106557392 TGTTGCTGT
1 TGCTGCTGT
106557401 TGCTGCTGCT
1 TGCTGCTG-T
*
106557411 GCTGTTGCTGT
1 --TGCTGCTGT
*
106557422 TGCTGTTGT
1 TGCTGCTGT
106557431 TGCTGCTGTTGT
1 TGCTGC---TGT
106557443 TGCTGCTGT
1 TGCTGCTGT
*
106557452 TGTTGCTGT
1 TGCTGCTGT
106557461 TG
1 TG
106557463 TTGGGCATGC
Statistics
Matches: 130, Mismatches: 16, Indels: 24
0.76 0.09 0.14
Matches are distributed among these distances:
9 94 0.72
10 1 0.01
11 1 0.01
12 34 0.26
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.50
Consensus pattern (9 bp):
TGCTGCTGT
Found at i:106557523 original size:6 final size:6
Alignment explanation
Indices: 106557503--106557561 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
106557493 CATCTGCAGT
* * * * * * *
106557503 TGTTGC TGCTGC TGTTGC TGTTGA TGTTGA TGTTGA GGCTGC TGCTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
106557551 TGTTGC TGTTG
1 TGTTGC TGTTG
106557562 TTGCTGCTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.05, C:0.15, G:0.36, T:0.44
Consensus pattern (6 bp):
TGTTGC
Found at i:106557557 original size:9 final size:9
Alignment explanation
Indices: 106557509--106557569 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
106557499 CAGTTGTTGC
106557509 TGCTGCTGT
1 TGCTGCTGT
* *
106557518 TGCTGTTGA
1 TGCTGCTGT
* *
106557527 TGTTGATGT
1 TGCTGCTGT
** *
106557536 TGAGGCTGC
1 TGCTGCTGT
106557545 TGCTGCTGT
1 TGCTGCTGT
*
106557554 TGCTGTTGT
1 TGCTGCTGT
106557563 TGCTGCT
1 TGCTGCT
106557570 CCCGTGCTTT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.05, C:0.16, G:0.34, T:0.44
Consensus pattern (9 bp):
TGCTGCTGT
Found at i:106557569 original size:12 final size:12
Alignment explanation
Indices: 106557503--106557569 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
106557493 CATCTGCAGT
*
106557503 TGTTGCTGCTGC
1 TGTTGCTGCTGA
*
106557515 TGTTGCTGTTGA
1 TGTTGCTGCTGA
* *
106557527 TGTTGATGTTGA
1 TGTTGCTGCTGA
* * *
106557539 GGCTGCTGCTGC
1 TGTTGCTGCTGA
106557551 TGTTGCTG-T--
1 TGTTGCTGCTGA
106557560 TGTTGCTGCT
1 TGTTGCTGCT
106557570 CCCGTGCTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
9 8 0.18
10 1 0.02
11 1 0.02
12 34 0.77
ACGTcount: A:0.04, C:0.16, G:0.34, T:0.45
Consensus pattern (12 bp):
TGTTGCTGCTGA
Found at i:106558550 original size:18 final size:18
Alignment explanation
Indices: 106558527--106558562 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
106558517 TAAAAGAGCA
106558527 GATCTTCGGCTTTAACAT
1 GATCTTCGGCTTTAACAT
106558545 GATCTTCGGCTTTAACAT
1 GATCTTCGGCTTTAACAT
106558563 AATTCCCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (18 bp):
GATCTTCGGCTTTAACAT
Found at i:106559578 original size:20 final size:20
Alignment explanation
Indices: 106559555--106559592 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
106559545 AGAGCTTTTT
*
106559555 TTTTCTTTTTCTTTTTTTGG
1 TTTTCTTTTTATTTTTTTGG
*
106559575 TTTTTTTTTTATTTTTTT
1 TTTTCTTTTTATTTTTTT
106559593 TGGTGTGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (20 bp):
TTTTCTTTTTATTTTTTTGG
Found at i:106559593 original size:21 final size:23
Alignment explanation
Indices: 106559552--106559596 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
106559542 TTGAGAGCTT
*
106559552 TTTTTTTCTTTTTCTTTTTTTGG
1 TTTTTTTCTTTATCTTTTTTTGG
106559575 TTTTTTT-TTTAT-TTTTTTTGG
1 TTTTTTTCTTTATCTTTTTTTGG
106559596 T
1 T
106559597 GTGTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 7 0.33
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.84
Consensus pattern (23 bp):
TTTTTTTCTTTATCTTTTTTTGG
Found at i:106563220 original size:30 final size:30
Alignment explanation
Indices: 106563133--106563223 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 30
106563123 ATTTCTTTAA
* * *
106563133 AATGAGTATAATTGAATCAACATTAAAGTTT
1 AATGTGTATAATTGAACCAA-ATCAAAGTTT
* * *
106563164 CATGTATATATTTGAACCACAATCAAAGTTT
1 AATGTGTATAATTGAACCA-AATCAAAGTTT
*
106563195 AATGTGTATAATTGCACCAAATCAAAGTT
1 AATGTGTATAATTGAACCAAATCAAAGTT
106563224 CATATATCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.20
31 38 0.78
32 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (30 bp):
AATGTGTATAATTGAACCAAATCAAAGTTT
Found at i:106568345 original size:25 final size:25
Alignment explanation
Indices: 106568315--106568377 Score: 110
Period size: 24 Copynumber: 2.6 Consensus size: 25
106568305 AATTTAATTA
106568315 TTTAATATTTTTTTATAAATATATG
1 TTTAATATTTTTTTATAAATATATG
*
106568340 TTTAATA-ATTTTTATAAATATATG
1 TTTAATATTTTTTTATAAATATATG
106568364 TTTAATATTTTTTT
1 TTTAATATTTTTTT
106568378 TCATTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTAATATTTTTTTATAAATATATG
Found at i:106573422 original size:19 final size:19
Alignment explanation
Indices: 106573390--106573427 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
106573380 TGAAACTCGA
*
106573390 AAAGTATAATGACTCAATT
1 AAAGTATAATGACTAAATT
106573409 AAAGTATAGA-GACTAAATT
1 AAAGTATA-ATGACTAAATT
106573428 CATAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATAATGACTAAATT
Found at i:106574178 original size:15 final size:15
Alignment explanation
Indices: 106574158--106574191 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
106574148 AATTTTAAAG
*
106574158 AAATGAATATTGTAA
1 AAATGAATATCGTAA
106574173 AAATGAATATCGTAA
1 AAATGAATATCGTAA
106574188 AAAT
1 AAAT
106574192 ATTGATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (15 bp):
AAATGAATATCGTAA
Found at i:106577861 original size:16 final size:18
Alignment explanation
Indices: 106577822--106577863 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
106577812 TTAAATAATA
106577822 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
106577839 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
106577856 A-ATTTATA
1 ATATTTATA
106577864 ACACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:106589581 original size:27 final size:27
Alignment explanation
Indices: 106589543--106589596 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
106589533 TGTTCCATTC
106589543 AATAAGATTGAGATTCTTCAATGCCTG
1 AATAAGATTGAGATTCTTCAATGCCTG
106589570 AATAAGATTGAGATTCTTCAATGCCTG
1 AATAAGATTGAGATTCTTCAATGCCTG
106589597 CTAGAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
AATAAGATTGAGATTCTTCAATGCCTG
Found at i:106594772 original size:29 final size:29
Alignment explanation
Indices: 106594717--106594778 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
106594707 ATTGATTTTA
106594717 AAATTTAAATTTTCAATAATAAAAT-AAT
1 AAATTTAAATTTTCAATAATAAAATAAAT
* * *
106594745 AAATTTAGGATTTTCAATAATGAGATAAAT
1 AAATTTA-AATTTTCAATAATAAAATAAAT
106594775 AAAT
1 AAAT
106594779 ATAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 7 0.24
29 15 0.52
30 7 0.24
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (29 bp):
AAATTTAAATTTTCAATAATAAAATAAAT
Found at i:106596386 original size:8 final size:8
Alignment explanation
Indices: 106596373--106596406 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
106596363 AATGTATTTC
106596373 TTTATCAT
1 TTTATCAT
106596381 TTTATCAT
1 TTTATCAT
106596389 TTTATCAT
1 TTTATCAT
106596397 TTTATCAT
1 TTTATCAT
106596405 TT
1 TT
106596407 ATTCTATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATCAT
Found at i:106599165 original size:14 final size:14
Alignment explanation
Indices: 106599146--106599174 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
106599136 AAGAAACTTT
106599146 AAATAAAAAAGTAA
1 AAATAAAAAAGTAA
106599160 AAATAAAAAAGTAA
1 AAATAAAAAAGTAA
106599174 A
1 A
106599175 CTGGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAATAAAAAAGTAA
Found at i:106606677 original size:19 final size:19
Alignment explanation
Indices: 106606640--106606677 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
106606630 TATGGTAAAA
*
106606640 TTAGGTTTTTCTCTGATAT
1 TTAGGTTTTTCTCTCATAT
106606659 TTAGG-TTTTCTCATCATAT
1 TTAGGTTTTTCTC-TCATAT
106606678 ATGTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (19 bp):
TTAGGTTTTTCTCTCATAT
Found at i:106608374 original size:9 final size:9
Alignment explanation
Indices: 106608360--106608416 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
106608350 TGGAGGTTTG
106608360 ATGCCTGGA
1 ATGCCTGGA
106608369 ATGCCTGGA
1 ATGCCTGGA
*
106608378 ATGCCAGGA
1 ATGCCTGGA
* *
106608387 A-CCCGGAGA
1 ATGCCTG-GA
*
106608396 ATGCCTGGT
1 ATGCCTGGA
106608405 ATGCCTGGA
1 ATGCCTGGA
106608414 ATG
1 ATG
106608417 GACAATGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 3 0.08
9 33 0.85
10 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.19
Consensus pattern (9 bp):
ATGCCTGGA
Found at i:106627652 original size:29 final size:30
Alignment explanation
Indices: 106627585--106627641 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
106627575 TTTTTTTTTT
*
106627585 GTCACTAAATTATGAAAAGTTACAAAAACA
1 GTCACTCAATTATGAAAAGTTACAAAAACA
**
106627615 GTCACTCAATTATGAAATTTTACAAAA
1 GTCACTCAATTATGAAAAGTTACAAAA
106627642 TGATCACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (30 bp):
GTCACTCAATTATGAAAAGTTACAAAAACA
Found at i:106629479 original size:19 final size:19
Alignment explanation
Indices: 106629434--106629479 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
106629424 TATTAATTTA
* *
106629434 AAATGAAATAGTATATAAT
1 AAATGAAATAATAAATAAT
106629453 AAAT-AAATAAATAAATAAT
1 AAATGAAAT-AATAAATAAT
106629472 -AATGAAAT
1 AAATGAAAT
106629480 GTGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAATGAAATAATAAATAAT
Found at i:106629746 original size:28 final size:30
Alignment explanation
Indices: 106629714--106629773 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
106629704 TATGGAAAAC
106629714 AATATATATAAATAAT-TAGT-A-AATATAA
1 AATATATATAAA-AATATAGTAATAATATAA
*
106629742 AATATATATGAAAATATAGTAATAATATAA
1 AATATATATAAAAATATAGTAATAATATAA
106629772 AA
1 AA
106629774 AATGATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.11
28 15 0.54
29 1 0.04
30 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (30 bp):
AATATATATAAAAATATAGTAATAATATAA
Found at i:106629757 original size:30 final size:32
Alignment explanation
Indices: 106629714--106629789 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
106629704 TATGGAAAAC
106629714 AATATATAT--AAATAATTAGT-A-AATATAA
1 AATATATATGAAAATAATTAGTAATAATATAA
106629742 AATATATATGAAAAT-A-TAGTAATAATATAA
1 AATATATATGAAAATAATTAGTAATAATATAA
106629772 AA-A-ATGATGTAAAATAAT
1 AATATAT-ATG-AAAATAAT
106629790 AATAATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
28 15 0.38
29 6 0.15
30 18 0.45
31 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (32 bp):
AATATATATGAAAATAATTAGTAATAATATAA
Found at i:106629817 original size:7 final size:7
Alignment explanation
Indices: 106629805--106629877 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
106629795 TTTGAGAAAA
106629805 ATAATAT
1 ATAATAT
*
106629812 ATAATAA
1 ATAATAT
106629819 ATAATA-
1 ATAATAT
106629825 AT-ATAT
1 ATAATAT
106629831 ATAATA-
1 ATAATAT
*
106629837 AT-ATTT
1 ATAATAT
*
106629843 ATAATAAA
1 ATAAT-AT
*
106629851 ATAATTTT
1 ATAA-TAT
106629859 ATAATAT
1 ATAATAT
106629866 ATAATAT
1 ATAATAT
106629873 A-AATA
1 ATAATA
106629878 AGGTTAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
5 5 0.09
6 12 0.23
7 27 0.51
8 8 0.15
9 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:106629824 original size:17 final size:17
Alignment explanation
Indices: 106629804--106629937 Score: 71
Period size: 17 Copynumber: 8.4 Consensus size: 17
106629794 ATTTGAGAAA
106629804 AATAATATATAATAAAT
1 AATAATATATAATAAAT
106629821 AATAATATAT-AT-AAT
1 AATAATATATAATAAAT
*
106629836 AAT-ATTTATAAT-AA-
1 AATAATATATAATAAAT
*
106629850 AATAAT-T-TTAT-AAT
1 AATAATATATAATAAAT
*
106629864 ATATAATATA-AATAAGGTT
1 A-ATAATATATAATAA--AT
106629883 AA-AATA-AT-ATAAAT
1 AATAATATATAATAAAT
*
106629897 AACAATATATGAA-AAAT
1 AATAATATAT-AATAAAT
*
106629914 -ATATATATAAAATAAAT
1 AATA-ATATATAATAAAT
*
106629931 AAGAATA
1 AATAATA
106629938 AATTTAAGAC
Statistics
Matches: 92, Mismatches: 8, Indels: 34
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.05
14 13 0.14
15 21 0.23
16 16 0.17
17 31 0.34
18 4 0.04
19 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (17 bp):
AATAATATATAATAAAT
Found at i:106629836 original size:12 final size:12
Alignment explanation
Indices: 106629804--106629868 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
106629794 ATTTGAGAAA
106629804 AATA-ATAT-AT
1 AATATATATAAT
106629814 AATA-A-ATAAT
1 AATATATATAAT
106629824 AATATATATAAT
1 AATATATATAAT
*
106629836 AATATTTATAAT
1 AATATATATAAT
* * *
106629848 AAAATAATTTTAT
1 AATAT-ATATAAT
106629861 AATATATA
1 AATATATA
106629869 ATATAAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 2 0.05
10 11 0.25
11 1 0.02
12 22 0.50
13 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATATATAAT
Found at i:106629888 original size:24 final size:25
Alignment explanation
Indices: 106629842--106629898 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
106629832 TAATAATATT
** *
106629842 TATAATA-AAATAATTTTATAAT-A
1 TATAATATAAATAAGGTTAAAATAA
106629865 TATAATATAAATAAGGTTAAAATAA
1 TATAATATAAATAAGGTTAAAATAA
106629890 TATAA-ATAA
1 TATAATATAA
106629899 CAATATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.24
24 16 0.55
25 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
TATAATATAAATAAGGTTAAAATAA
Found at i:106633477 original size:46 final size:48
Alignment explanation
Indices: 106633333--106633505 Score: 149
Period size: 53 Copynumber: 3.5 Consensus size: 48
106633323 ACAAAAATCA
106633333 ATATGTGA-TCTGTGTAAGACCATAGCTGGGCTATGGCATCAGAGATATGTG
1 ATATGTGATTC-GTGTAAGACCATAGCTGGGCTATGGCATCAGAG---TGTG
* * * * *
106633384 ATTACGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC--AGTGTG
1 A-TATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCAGAGTGTG
* * *
106633432 ATATGTGATTCGTGTAAGACCATGGCTGGGCTATGGC-TACGGTGTGTG
1 ATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCAT-CAGAGTGTG
*
106633480 ATATGTGACTAT-GTGCAAGACCATAG
1 ATATGTGA-T-TCGTGTAAGACCATAG
106633506 TTTTACTATG
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 24 0.24
47 7 0.07
48 18 0.18
49 13 0.13
50 1 0.01
51 3 0.03
52 5 0.05
53 27 0.27
54 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCAGAGTGTG
Found at i:106637602 original size:6 final size:6
Alignment explanation
Indices: 106637579--106637613 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
106637569 GGAAGGAGTG
* *
106637579 GAGGTA GAGGAA GAGGTA GGGGTA GAGGTA GAGGT
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGT
106637614 GCGCAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GAGGTA
Found at i:106644856 original size:26 final size:24
Alignment explanation
Indices: 106644825--106644877 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
106644815 AAAAATAATT
106644825 TAAAAATTATAAA-AAAATTAAATAAA
1 TAAAAA-TA-AAACAAAATTAAA-AAA
106644851 TAAAAATAAAATCAAAATTAAAAAA
1 TAAAAATAAAA-CAAAATTAAAAAA
106644876 TA
1 TA
106644878 TATAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 3 0.12
25 7 0.28
26 15 0.60
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAAATAAAACAAAATTAAAAAA
Found at i:106646375 original size:16 final size:16
Alignment explanation
Indices: 106646350--106646386 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
106646340 AATTCCTTTA
* *
106646350 AAATTGATATAATTAT
1 AAATTAATATAATGAT
106646366 AAATTAATATAATGAT
1 AAATTAATATAATGAT
106646382 AAATT
1 AAATT
106646387 TATAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AAATTAATATAATGAT
Found at i:106655714 original size:25 final size:23
Alignment explanation
Indices: 106655675--106655750 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 23
106655665 TTTTTTTATT
* * *
106655675 AAATAAAAAAATTTAAAATATAA
1 AAATAAATACATTTAAAACATAA
106655698 TAAATCAAATACATTTAAAACATAA
1 -AAAT-AAATACATTTAAAACATAA
106655723 AAATAAAT--A-TTAAAACA-AA
1 AAATAAATACATTTAAAACATAA
106655742 AAATAAATA
1 AAATAAATA
106655751 AATAATGGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.21
20 8 0.17
21 1 0.02
23 4 0.09
24 8 0.17
25 16 0.34
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (23 bp):
AAATAAATACATTTAAAACATAA
Found at i:106655743 original size:19 final size:20
Alignment explanation
Indices: 106655712--106655750 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
106655702 TCAAATACAT
106655712 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAATAAATA
106655732 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAATAAATA
106655751 AATAATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TTAAAACATAAAAATAAATA
Done.