Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 117 of 292
Found at i:35456008 original size:27 final size:27
Alignment explanation
Indices: 35455709--35456050 Score: 185
Period size: 27 Copynumber: 12.7 Consensus size: 27
35455699 TTAGTTTATC
* * **
35455709 AAATTATCAAAATACTCC-TGGTTTGTA
1 AAATTACCAAAATAC-CCTTGATTTACA
*
35455736 AAATTACCAAAATACCCTTGGTTT-CA
1 AAATTACCAAAATACCCTTGATTTACA
* * * **
35455762 AAATTACCAAACTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTACA
* *
35455789 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TTGATTTACA
* **
35455816 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTACA
* **
35455843 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTACA
* **
35455870 AAATTACCAAAATACCTCTAG-TTTGTA
1 AAATTACCAAAATACC-CTTGATTTACA
* ***
35455897 AAATTACC-AAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTACA
** * ** *
35455923 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTTGATTTACA
*** * **
35455950 AAATTATTGAAATA-CCTTCGACTTGTA
1 AAATTACCAAAATACCCTT-GATTTACA
*
35455977 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTACA
* * **** *
35456004 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTACA
35456031 AAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
35456051 TAGGGTAGAA
Statistics
Matches: 254, Mismatches: 50, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 50 0.20
27 195 0.77
28 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTACA
Found at i:35456065 original size:27 final size:27
Alignment explanation
Indices: 35456032--35456255 Score: 286
Period size: 27 Copynumber: 8.3 Consensus size: 27
35456022 CGATTTACAA
*
35456032 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
35456059 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
35456086 AATTACCGAAATACCCCTCTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* **
35456113 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
35456140 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
35456167 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
** *
35456194 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
35456221 AATTACTAAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
35456248 AATTACCA
1 AATTACCA
35456256 TTTTACCCCT
Statistics
Matches: 174, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:35456635 original size:22 final size:22
Alignment explanation
Indices: 35456610--35456660 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
35456600 CGATGGATCT
35456610 GTGCCAACCTAAATATGGCTTC
1 GTGCCAACCTAAATATGGCTTC
* * * *
35456632 GTGCCATCTTGACTATGGCTTC
1 GTGCCAACCTAAATATGGCTTC
35456654 GTGCCAA
1 GTGCCAA
35456661 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (22 bp):
GTGCCAACCTAAATATGGCTTC
Found at i:35457063 original size:6 final size:6
Alignment explanation
Indices: 35457048--35457099 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
35457038 ATTCTGTTAC
* *
35457048 CTGATA CTGATT CTGATT CTGATT -TGATT CTGATC CTGATT CT-AGTT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT
35457095 CTGAT
1 CTGAT
35457100 AATGTTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 6 0.15
6 33 0.82
7 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:35457077 original size:17 final size:17
Alignment explanation
Indices: 35457055--35457088 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35457045 TACCTGATAC
*
35457055 TGATTCTGATTCTGATT
1 TGATTCTGATCCTGATT
35457072 TGATTCTGATCCTGATT
1 TGATTCTGATCCTGATT
35457089 CTAGTTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.50
Consensus pattern (17 bp):
TGATTCTGATCCTGATT
Found at i:35459152 original size:41 final size:41
Alignment explanation
Indices: 35459107--35459224 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35459097 TGAAAGATAA
35459107 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35459148 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35459178 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35459219 ATGTAG
1 ATGTAG
35459225 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35459163 original size:71 final size:71
Alignment explanation
Indices: 35459075--35459238 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35459065 GAGATGTATC
35459075 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35459140 AGGACA
66 AGGACA
35459146 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35459211 AGGACA
66 AGGACA
35459217 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35459239 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35466728 original size:41 final size:41
Alignment explanation
Indices: 35466683--35466800 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35466673 TGAAAGATAA
35466683 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35466724 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35466754 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35466795 ATGTAG
1 ATGTAG
35466801 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35466739 original size:71 final size:71
Alignment explanation
Indices: 35466651--35466814 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35466641 GAGATGTATC
35466651 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35466716 AGGACA
66 AGGACA
35466722 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35466787 AGGACA
66 AGGACA
35466793 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35466815 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35471409 original size:41 final size:41
Alignment explanation
Indices: 35471364--35471481 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35471354 TGAAAGATAA
35471364 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35471405 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35471435 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35471476 ATGTAG
1 ATGTAG
35471482 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35471420 original size:71 final size:71
Alignment explanation
Indices: 35471332--35471495 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35471322 GAGATGTATC
35471332 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35471397 AGGACA
66 AGGACA
35471403 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35471468 AGGACA
66 AGGACA
35471474 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35471496 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35474140 original size:5 final size:5
Alignment explanation
Indices: 35474130--35474161 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
35474120 TCATGCATGT
35474130 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
35474162 GTTAGCTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:35475404 original size:40 final size:40
Alignment explanation
Indices: 35475305--35475522 Score: 230
Period size: 40 Copynumber: 5.5 Consensus size: 40
35475295 TGGATGATAA
* *
35475305 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGAATTTGTGCG--AGTTACTA-TAT
* * * *
35475346 CCGGGCTAAGTCCTGAAGGAATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAT
*
35475386 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAT
* * *
35475426 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAT
* * *
35475466 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTA-CTATAT
* *
35475505 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35475523 TACTTGGCTT
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 15 0.10
39 14 0.09
40 100 0.65
41 22 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAT
Found at i:35475459 original size:80 final size:80
Alignment explanation
Indices: 35475305--35475522 Score: 257
Period size: 80 Copynumber: 2.7 Consensus size: 80
35475295 TGGATGATAA
* *
35475305 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCTGAAGGAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGAAT
* * *
35475368 TTGTGCAAGTTATTACAT
63 TGGTACAAGTTACTACAT
*
35475386 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTGG
* *
35475451 TACGAGTTACTATAT
66 TACAAGTTACTACAT
* * * *
35475466 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
35475523 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
78 16 0.13
79 17 0.14
80 61 0.50
81 24 0.20
82 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGAATTGG
TACAAGTTACTACAT
Found at i:35477450 original size:27 final size:27
Alignment explanation
Indices: 35477412--35477698 Score: 385
Period size: 27 Copynumber: 10.6 Consensus size: 27
35477402 TTAGTTTATC
35477412 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * *
35477439 TAATCAATAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
35477466 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35477493 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35477520 AAATTACCAAACTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35477547 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35477574 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35477601 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35477628 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35477655 AAATTACCAAAATACCCCTGATTTGTC
1 AAATTACCAAAATACCCCTGGTTTGTA
**
35477682 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
35477699 TCGACCTATA
Statistics
Matches: 226, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 226 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:35477767 original size:27 final size:27
Alignment explanation
Indices: 35477406--35477809 Score: 294
Period size: 27 Copynumber: 15.0 Consensus size: 27
35477396 AATACTTTAG
* * *
35477406 TTTATCAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* * * ** *
35477433 TTTGTATAATCAATAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477460 TTTATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477487 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* * * *
35477514 TTTACAAAATTACCAAACTACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477541 TTTGTAAAATTACTAAAATACCCTTTG-
1 TTTATAAAATTACCAAAATACCC-TTGA
*
35477568 TTTATAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477595 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477621 GTTTGTAAAATTACCAAAATACCCCT-A
1 -TTTATAAAATTACCAAAATACCCTTGA
* *
35477648 GTTTGTAAAATTACCAAAATACCCCTGA
1 -TTTATAAAATTACCAAAATACCCTTGA
* * ** *
35477676 TTTGTCAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
** *** *
35477703 CCTATAAAATTATTGAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* * *
35477730 CTTGA-CAAATTACCAAAGTACCCTTGA
1 -TTTATAAAATTACCAAAATACCCTTGA
* * * **** *
35477757 TTTACAGAATTATCTTTTTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTTGA
* *
35477784 TTTACAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
35477810 TAGGGTAGAA
Statistics
Matches: 307, Mismatches: 64, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
26 6 0.02
27 297 0.97
28 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGA
Found at i:35477821 original size:27 final size:27
Alignment explanation
Indices: 35477791--35477978 Score: 286
Period size: 27 Copynumber: 7.0 Consensus size: 27
35477781 CGATTTACAA
*
35477791 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
35477818 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
35477845 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35477872 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35477899 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35477926 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
35477953 AATTACTGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
35477979 AAATGGTAAT
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:35478368 original size:22 final size:22
Alignment explanation
Indices: 35478335--35478393 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
35478325 CACGTTATCG
35478335 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
35478357 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
35478379 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
35478394 ATGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:35478796 original size:6 final size:6
Alignment explanation
Indices: 35478758--35478833 Score: 75
Period size: 6 Copynumber: 12.3 Consensus size: 6
35478748 TTGCATTCAC
* * *
35478758 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
35478808 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
35478834 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.05
6 45 0.78
7 9 0.16
8 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:35486751 original size:27 final size:27
Alignment explanation
Indices: 35486715--35486787 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
35486705 GTCGTTAAGA
*
35486715 CCCCAATTTGTAAGATTACCAAAATAC
1 CCCCAATTTGTAAAATTACCAAAATAC
*
35486742 CCCCAATTTGTAAAATTACCGAAATAC
1 CCCCAATTTGTAAAATTACCAAAATAC
* *
35486769 CCTCGATTTGTAAAATTAC
1 CCCCAATTTGTAAAATTAC
35486788 TGAATACCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (27 bp):
CCCCAATTTGTAAAATTACCAAAATAC
Found at i:35486806 original size:26 final size:27
Alignment explanation
Indices: 35486723--35486819 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
35486713 GACCCCAATT
* * * * *
35486723 TGTAAGATTACCAAAATACCCCCAATT
1 TGTAAAATTACCGAAATACCCTCGATG
*
35486750 TGTAAAATTACCGAAATACCCTCGATT
1 TGTAAAATTACCGAAATACCCTCGATG
* *
35486777 TGTAAAATTACTG-AATACCCTTG-TAG
1 TGTAAAATTACCGAAATACCCTCGAT-G
*
35486803 TGTAAAATTATCGAAAT
1 TGTAAAATTACCGAAAT
35486820 TCCCCTGTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.02
26 20 0.34
27 38 0.64
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCGATG
Found at i:35487243 original size:31 final size:32
Alignment explanation
Indices: 35487200--35487323 Score: 180
Period size: 31 Copynumber: 3.9 Consensus size: 32
35487190 CAGTGCCTTA
* *
35487200 GTGCAGATCATATTACAG-TATTGATGGCTTT
1 GTGCCGATCATATTACAGCTACTGATGGCTTT
* *
35487231 GTGACGATCATATTACAG-TACAGATGGCTTT
1 GTGCCGATCATATTACAGCTACTGATGGCTTT
*
35487262 GTGCCGATCATATTATAGCTACTGATGGCTTT
1 GTGCCGATCATATTACAGCTACTGATGGCTTT
*
35487294 GTGCCGATCATATTATAGCTACTGATGGCT
1 GTGCCGATCATATTACAGCTACTGATGGCT
35487324 GTAAGCCATG
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 43 0.51
32 42 0.49
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (32 bp):
GTGCCGATCATATTACAGCTACTGATGGCTTT
Found at i:35487293 original size:63 final size:63
Alignment explanation
Indices: 35487200--35487323 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
35487190 CAGTGCCTTA
*
35487200 GTGCAGATCATATTACAGTATTGATGGCTTTGTGACGATCATATTACAG-TACAGATGGCTTT
1 GTGCAGATCATATTACAGTACTGATGGCTTTGTGACGATCATATTACAGCTACAGATGGCTTT
* * * * *
35487262 GTGCCGATCATATTATAGCTACTGATGGCTTTGTGCCGATCATATTATAGCTACTGATGGCT
1 GTGCAGATCATATTACAG-TACTGATGGCTTTGTGACGATCATATTACAGCTACAGATGGCT
35487324 GTAAGCCATG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 16 0.30
63 28 0.52
64 10 0.19
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (63 bp):
GTGCAGATCATATTACAGTACTGATGGCTTTGTGACGATCATATTACAGCTACAGATGGCTTT
Found at i:35487339 original size:32 final size:32
Alignment explanation
Indices: 35487235--35487330 Score: 113
Period size: 32 Copynumber: 3.0 Consensus size: 32
35487225 GGCTTTGTGA
* * * **
35487235 CGATCATATTACAG-TACAGATGGCTTTGTGC
1 CGATCATATTATAGCTACTGATGGCTGTAAGC
* **
35487266 CGATCATATTATAGCTACTGATGGCTTTGTGC
1 CGATCATATTATAGCTACTGATGGCTGTAAGC
35487298 CGATCATATTATAGCTACTGATGGCTGTAAGC
1 CGATCATATTATAGCTACTGATGGCTGTAAGC
35487330 C
1 C
35487331 ATGTATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
31 13 0.22
32 46 0.78
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (32 bp):
CGATCATATTATAGCTACTGATGGCTGTAAGC
Found at i:35487388 original size:26 final size:26
Alignment explanation
Indices: 35487336--35487388 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
35487326 AAGCCATGTA
* * *
35487336 TATTTCTGGCAACTTTGCTACGTTAT
1 TATTTCTGGAAACTATGCTACGATAT
*
35487362 TATTTCTGGAAACTATGCTGCGATAT
1 TATTTCTGGAAACTATGCTACGATAT
35487388 T
1 T
35487389 GGTGTGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (26 bp):
TATTTCTGGAAACTATGCTACGATAT
Found at i:35487545 original size:27 final size:28
Alignment explanation
Indices: 35487510--35487562 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
35487500 TGTTACTGAT
35487510 ATGTCACTGTAATGGG-TTAGGCCCATA
1 ATGTCACTGTAATGGGCTTAGGCCCATA
* * *
35487537 ATGTTACTGTATTGGGCTTTGGCCCA
1 ATGTCACTGTAATGGGCTTAGGCCCA
35487563 CTTATGCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (28 bp):
ATGTCACTGTAATGGGCTTAGGCCCATA
Found at i:35489012 original size:35 final size:35
Alignment explanation
Indices: 35488938--35489019 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
35488928 AATACATTCT
35488938 GGGCCTAAGCCCATATTAGTAACAGTAACAGTCTA
1 GGGCCTAAGCCCATATTAGTAACAGTAACAGTCTA
* * * *
35488973 -GGCCTTAGCCTATTTTAGTATCAGTAAACAGTC-A
1 GGGCCTAAGCCCATATTAGTAACAGT-AACAGTCTA
35489007 GGGCCTAAGCCCA
1 GGGCCTAAGCCCA
35489020 CCTCAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (35 bp):
GGGCCTAAGCCCATATTAGTAACAGTAACAGTCTA
Found at i:35489476 original size:27 final size:28
Alignment explanation
Indices: 35489421--35489533 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 28
35489411 ATAAACATAT
* **
35489421 ATCACATAGGGCCAAAATAGTTACCTTACC
1 ATCACA-AGGG-CAAAATAGTCATTTTACC
* *
35489451 AT-ACAAGGGCAAAACAATCATTTTACC
1 ATCACAAGGGCAAAATAGTCATTTTACC
* *
35489478 -TCACAAAGGCAAAATAGTCATTTT-GC
1 ATCACAAGGGCAAAATAGTCATTTTACC
* * *
35489504 TTGACAAGGGCAAAATGGTCATTTTACC
1 ATCACAAGGGCAAAATAGTCATTTTACC
35489532 AT
1 AT
35489534 ACAGGGGAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.03
27 53 0.80
28 6 0.09
29 3 0.05
30 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (28 bp):
ATCACAAGGGCAAAATAGTCATTTTACC
Found at i:35489607 original size:28 final size:27
Alignment explanation
Indices: 35489570--35489641 Score: 126
Period size: 27 Copynumber: 2.6 Consensus size: 27
35489560 TATAGGGATG
35489570 TTTCGATCATTTTACCCTATGGGGGGTA
1 TTTCGATCATTTTACCCTAT-GGGGGTA
35489598 TTTCGATCATTTTACCCTATGGGGGTA
1 TTTCGATCATTTTACCCTATGGGGGTA
*
35489625 TTTCAATCATTTTACCC
1 TTTCGATCATTTTACCC
35489642 GATTAAAGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTCGATCATTTTACCCTATGGGGGTA
Found at i:35497887 original size:39 final size:39
Alignment explanation
Indices: 35497840--35497971 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
35497830 TATATGAGAT
* *
35497840 TGGAAATATATCCAGACATGAGGTCCGCAAGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
35497879 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * **
35497918 TAGAAATATATCTGGACTTGAGGTCCACAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
35497957 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
35497972 GTTAAAGACC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:35506833 original size:13 final size:14
Alignment explanation
Indices: 35506815--35506850 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35506805 ATAAATCACT
35506815 TTTTTTTTTC-GAA
1 TTTTTTTTTCGGAA
35506828 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
35506842 TTTTTTTTT
1 TTTTTTTTT
35506851 TCAAACTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:35506833 original size:14 final size:15
Alignment explanation
Indices: 35506814--35506852 Score: 64
Period size: 13 Copynumber: 2.7 Consensus size: 15
35506804 CATAAATCAC
35506814 TTTTTTTTTTC-GAA
1 TTTTTTTTTTCGGAA
35506828 -TTTTTTTTTCGGAA
1 TTTTTTTTTTCGGAA
35506842 TTTTTTTTTTC
1 TTTTTTTTTTC
35506853 AAACTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTTTTTTTCGGAA
Found at i:35516644 original size:16 final size:16
Alignment explanation
Indices: 35516623--35516653 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35516613 GTGAAACTGT
*
35516623 AAAGGCTGAAAAGCTG
1 AAAGGCTAAAAAGCTG
35516639 AAAGGCTAAAAAGCT
1 AAAGGCTAAAAAGCT
35516654 AGAGAGTGGG
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:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (16 bp):
AAAGGCTAAAAAGCTG
Found at i:35517072 original size:27 final size:27
Alignment explanation
Indices: 35517042--35517220 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
35517032 TTATTTACTT
*
35517042 GTAAAATGACTGAAATACCCCTATAAG
1 GTAAAATGACTGAAATACCCCTATAGG
* *
35517069 GTAAAATGAC-CAAATACCCCCATAGG
1 GTAAAATGACTGAAATACCCCTATAGG
* * *
35517095 GTAAAATGACCGAAATACCCCCATAAG
1 GTAAAATGACTGAAATACCCCTATAGG
*
35517122 GTAAAATGA-TCGAAATACCCCGATAGG
1 GTAAAATGACT-GAAATACCCCTATAGG
35517149 GTAAAATGA-TCGAAATACCCC-ATAGG
1 GTAAAATGACT-GAAATACCCCTATAGG
* * *
35517175 GTAAATTGACTGAAATACCCTTGTAGG
1 GTAAAATGACTGAAATACCCCTATAGG
*
35517202 GTAAAATGACTGTAATACC
1 GTAAAATGACTGAAATACC
35517221 TGTAACGTAA
Statistics
Matches: 135, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
26 45 0.33
27 90 0.67
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
GTAAAATGACTGAAATACCCCTATAGG
Found at i:35517110 original size:53 final size:53
Alignment explanation
Indices: 35517042--35517236 Score: 225
Period size: 53 Copynumber: 3.7 Consensus size: 53
35517032 TTATTTACTT
* *
35517042 GTAAAATGACTGAAATACCCCTATAAGGTAAAATGACCAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCTATAAGGTAAAATGACGAAATACCCCCATAGG
* *
35517095 GTAAAATGACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCGATAGG
1 GTAAAATGACCGAAATACCCCTATAAGGTAAAATGA-CGAAATACCCCCATAGG
* * * ***
35517149 GTAAAATGATCGAAATACCCC-ATAGGGTAAATTGACTGAAATACCCTTGTAGG
1 GTAAAATGACCGAAATACCCCTATAAGGTAAAATGAC-GAAATACCCCCATAGG
* * * *
35517202 GTAAAATGACTGTAATA--CCTGTAACGTAAAATGAC
1 GTAAAATGACCGAAATACCCCTATAAGGTAAAATGAC
35517237 TATTTTTTCG
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
51 2 0.02
52 12 0.10
53 73 0.60
54 35 0.29
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (53 bp):
GTAAAATGACCGAAATACCCCTATAAGGTAAAATGACGAAATACCCCCATAGG
Found at i:35517205 original size:80 final size:80
Alignment explanation
Indices: 35517042--35517236 Score: 236
Period size: 80 Copynumber: 2.5 Consensus size: 80
35517032 TTATTTACTT
*
35517042 GTAAAATGACTGAAATACCCCTATAAGGTAAAATGACCAAATACCCCCATAGGGTAAAATGACCG
1 GTAAAATGACTGAAATACCCCGATAAGGTAAAATGACCAAATACCCCCATAGGGTAAAATGACCG
35517107 AAATACCCCCATAAG
66 AAATACCCCCATAAG
* * *
35517122 GTAAAATGA-TCGAAATACCCCGATAGGGTAAAATGATCGAAATA-CCCCATAGGGTAAATTGAC
1 GTAAAATGACT-GAAATACCCCGATAAGGTAAAATGA-CCAAATACCCCCATAGGGTAAAATGAC
* *** *
35517185 TGAAATACCCTTGTAGG
64 CGAAATACCCCCATAAG
* * *
35517202 GTAAAATGACTGTAATA-CCTG-TAACGTAAAATGAC
1 GTAAAATGACTGAAATACCCCGATAAGGTAAAATGAC
35517237 TATTTTTTCG
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 11 0.11
79 4 0.04
80 76 0.77
81 7 0.07
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (80 bp):
GTAAAATGACTGAAATACCCCGATAAGGTAAAATGACCAAATACCCCCATAGGGTAAAATGACCG
AAATACCCCCATAAG
Found at i:35520042 original size:30 final size:29
Alignment explanation
Indices: 35519982--35520052 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
35519972 GATGGTAAGA
*
35519982 AAACCAAGATAAAGAAATCCAAAACGGAG
1 AAACCAAGATAAAGAAATCCAAAACAGAG
* * *
35520011 AAACCCAGAATAAAGAGATCCAAAATAGAG
1 AAACCAAG-ATAAAGAAATCCAAAACAGAG
35520041 AAATCCAAGATA
1 AAA-CCAAGATA
35520053 CGATACCGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 7 0.20
30 24 0.69
31 4 0.11
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (29 bp):
AAACCAAGATAAAGAAATCCAAAACAGAG
Found at i:35520046 original size:15 final size:15
Alignment explanation
Indices: 35519978--35520048 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
35519968 TAGAGATGGT
* *
35519978 AAGAAAACCAAGATA
1 AAGAAATCCAAAATA
**
35519993 AAGAAATCCAAAACG
1 AAGAAATCCAAAATA
* * *
35520008 GAGAAACCCAGAATA
1 AAGAAATCCAAAATA
*
35520023 AAGAGATCCAAAATA
1 AAGAAATCCAAAATA
*
35520038 GAGAAATCCAA
1 AAGAAATCCAA
35520049 GATACGATAC
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.08
Consensus pattern (15 bp):
AAGAAATCCAAAATA
Found at i:35525126 original size:24 final size:24
Alignment explanation
Indices: 35525099--35525153 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
35525089 GCACCTTCAT
*
35525099 ATACATATACACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
35525123 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
35525147 ATACATA
1 ATACATA
35525154 CCATCCACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:35526095 original size:15 final size:15
Alignment explanation
Indices: 35526057--35526140 Score: 89
Period size: 15 Copynumber: 5.7 Consensus size: 15
35526047 AAGAAAAACC
*
35526057 AGAAAT-CAAGATAG
1 AGAAATCCAAGATAA
* *
35526071 AGAAACCCAAAATAA
1 AGAAATCCAAGATAA
*
35526086 AGAAATCCAACATAA
1 AGAAATCCAAGATAA
* *
35526101 AGAAATCCCAGATAG
1 AGAAATCCAAGATAA
*
35526116 AGAAGTCCAAGATAA
1 AGAAATCCAAGATAA
*
35526131 GGAAATCCAA
1 AGAAATCCAA
35526141 ATTACAATAC
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
14 5 0.09
15 51 0.91
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:35527223 original size:19 final size:16
Alignment explanation
Indices: 35527176--35527215 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
35527166 TAGGTTACGG
*
35527176 TTTTTTTTAGTTTTTA
1 TTTTTTTTATTTTTTA
35527192 TTTTTATTTATTTATTTA
1 TTTTT-TTTATTT-TTTA
35527210 TTTTTT
1 TTTTTT
35527216 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 9 0.43
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:35527870 original size:3 final size:3
Alignment explanation
Indices: 35527862--35528269 Score: 100
Period size: 3 Copynumber: 136.7 Consensus size: 3
35527852 TTAATTTTAA
* *
35527862 TAT TAT TAT TGT TAT TAT TAG TAT TAT TATT TAT ATAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
* * * * * * *
35527907 TTT TAT TAT TAC TACT T-T CTAT TTT TAC TAT TGT TAT TAT TAG CA-
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
35527952 TAT TAT TAT TCAT ATAT TAT TAT TTT CTAT T-T T-T TAT AAT CAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
35527998 TGT TAA CA- TAT CAT TAT TA- TAT TTT CTAT TTT TGT TAT CT-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT -TAT
* * * * * *
35528042 TAT TTT TAC TAT TAG TGT TAT TCCAT TAT TAT TAT ATGT TAC TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
35528089 TAT TCAT TAT TTT TAT TTT TAT TAT TCT TTT TAT TAA TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
35528135 TAC TAT T-T T-T TA- TAC TAT AAT TAT TCT T-T AAT ATAT GAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * *
35528176 TTT TTT TCA- TAT TAT TAT TAT TA- TAT TAT TAT TCT TAT TAAT GTAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
* * ** * * *
35528222 TAT TAT TGT TAT TTT TGC T-T TAT TAT TAT T-G TAT TAT CAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35528268 TA
1 TA
35528270 CATTATATAT
Statistics
Matches: 291, Mismatches: 80, Indels: 68
0.66 0.18 0.15
Matches are distributed among these distances:
2 31 0.11
3 227 0.78
4 28 0.10
5 5 0.02
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:35528105 original size:18 final size:17
Alignment explanation
Indices: 35528084--35528225 Score: 69
Period size: 17 Copynumber: 7.9 Consensus size: 17
35528074 TATATGTTAC
35528084 TATTATATTCATTATTTT
1 TATTATATT-ATTATTTT
* *
35528102 TATTTTTATTATTCTTTT
1 TA-TTATATTATTATTTT
35528120 TATTAATATTATTATTACTATT
1 TATT-ATATTATTA-T--T-TT
*
35528142 TTTTATACTATAATTATTCTT
1 TATTATA-T-T-ATTATT-TT
* *
35528163 TAATATATGATT-TTTT
1 TATTATATTATTATTTT
*
35528179 T-TT-TCA-TATTATTAT
1 TATTAT-ATTATTATTTT
*
35528194 TATTATATTATTATTCT
1 TATTATATTATTATTTT
35528211 TATTA-ATGTATTATT
1 TATTATAT-TATTATT
35528226 ATTGTTATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
14 4 0.04
15 6 0.06
16 8 0.08
17 25 0.26
18 21 0.22
19 7 0.07
20 1 0.01
21 12 0.12
22 6 0.06
23 2 0.02
24 4 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (17 bp):
TATTATATTATTATTTT
Found at i:35528213 original size:20 final size:20
Alignment explanation
Indices: 35528185--35528234 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
35528175 TTTTTTTTCA
*
35528185 TATTATTATTATTATATTAT
1 TATTATTATTAATATATTAT
* *
35528205 TATTCTTATTAATGTATTAT
1 TATTATTATTAATATATTAT
*
35528225 TATTGTTATT
1 TATTATTATT
35528235 TTTGCTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTATTATTAATATATTAT
Found at i:35528267 original size:23 final size:23
Alignment explanation
Indices: 35528199--35528269 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
35528189 ATTATTATTA
* *
35528199 TATTATTATTCTTATTA--A-TG
1 TATTATTATTGTTATTATCACTT
* **
35528219 TATTATTATTGTTATTTTTGCTT
1 TATTATTATTGTTATTATCACTT
35528242 TATTATTATTG-TATTATCACTAT
1 TATTATTATTGTTATTATCACT-T
35528265 TATTA
1 TATTA
35528270 CATTATATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.38
22 7 0.17
23 18 0.45
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.62
Consensus pattern (23 bp):
TATTATTATTGTTATTATCACTT
Found at i:35544147 original size:30 final size:30
Alignment explanation
Indices: 35544061--35544158 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
35544051 TTAAACTAAA
* *
35544061 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
35544091 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
35544121 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
35544151 ATGAGCTA
1 ATGAGCTA
35544159 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:35544614 original size:16 final size:16
Alignment explanation
Indices: 35544593--35544631 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35544583 GTAGCCCAAC
35544593 TTTCAGCTACTCGACA
1 TTTCAGCTACTCGACA
** *
35544609 TTTCAGCTTTTCGACT
1 TTTCAGCTACTCGACA
35544625 TTTCAGC
1 TTTCAGC
35544632 ATTTTAGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (16 bp):
TTTCAGCTACTCGACA
Found at i:35549297 original size:19 final size:20
Alignment explanation
Indices: 35549273--35549310 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35549263 GGTACCACCA
35549273 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
35549292 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
35549311 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:35549638 original size:46 final size:45
Alignment explanation
Indices: 35549535--35549659 Score: 205
Period size: 46 Copynumber: 2.8 Consensus size: 45
35549525 AACCCGCCCC
* *
35549535 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCA
* *
35549580 TAAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCA
35549626 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35549660 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 32 0.43
46 42 0.57
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCA
Found at i:35557383 original size:27 final size:27
Alignment explanation
Indices: 35557353--35557433 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
35557343 TGTGAAATAT
35557353 GAATGGATATGTATATGTGGTAAAGCC
1 GAATGGATATGTATATGTGGTAAAGCC
* ***
35557380 GAATGGCTA-G----TGT-G-AAATAT
1 GAATGGATATGTATATGTGGTAAAGCC
35557400 GAATGGGATATGTATATGTGGTAAAGCC
1 GAAT-GGATATGTATATGTGGTAAAGCC
35557428 GAATGG
1 GAATGG
35557434 CTAGCGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 7 0.18
21 5 0.13
22 4 0.11
26 4 0.11
27 11 0.29
28 7 0.18
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.28
Consensus pattern (27 bp):
GAATGGATATGTATATGTGGTAAAGCC
Found at i:35557648 original size:48 final size:48
Alignment explanation
Indices: 35556880--35557640 Score: 1352
Period size: 48 Copynumber: 15.9 Consensus size: 48
35556870 AGATAAATAT
* *
35556880 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
35556928 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
35556976 ATATGTATATGTGGTAATGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
35557024 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
35557072 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
35557120 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
35557168 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
35557216 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
*
35557264 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
35557312 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATG-G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
35557359 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
* *
35557407 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTAAAATAT-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
35557455 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
35557503 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
* *
35557551 ATATGTATATGTGGTAAAGCCGAATCGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
35557599 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
35557641 TAGGAGATGT
Statistics
Matches: 690, Mismatches: 16, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
47 50 0.07
48 637 0.92
49 3 0.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
Found at i:35557830 original size:37 final size:37
Alignment explanation
Indices: 35557789--35557891 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
35557779 GGAAATATAT
* *
35557789 TCCGGGTAAGACCCGATGATTACTTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35557826 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35557863 TCCGGGTAAGACCCAATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35557892 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35559267 original size:40 final size:40
Alignment explanation
Indices: 35559169--35559321 Score: 246
Period size: 40 Copynumber: 4.0 Consensus size: 40
35559159 TTGAGAGTTA
*
35559169 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
35559208 --T-T--GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
35559243 TATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
35559283 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
35559322 ATGTGCATTC
Statistics
Matches: 105, Mismatches: 3, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
34 32 0.30
37 2 0.02
38 1 0.01
40 70 0.67
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:35562722 original size:48 final size:48
Alignment explanation
Indices: 35562651--35562892 Score: 430
Period size: 48 Copynumber: 5.0 Consensus size: 48
35562641 AGATAAATAT
*
35562651 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
35562699 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
35562747 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
35562795 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
35562843 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
35562891 AT
1 AT
35562893 GTGTGTATAT
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 188 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:35562772 original size:28 final size:28
Alignment explanation
Indices: 35562740--35562820 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
35562730 TGTGAAATAT
35562740 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
35562768 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
35562788 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
35562816 GAATG
1 GAATG
35562821 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:35563090 original size:37 final size:37
Alignment explanation
Indices: 35563033--35563134 Score: 168
Period size: 37 Copynumber: 2.7 Consensus size: 37
35563023 GGAAATATAT
*
35563033 TCCGGGTAAAGACCCAATGACTACGTGTAGAGATTATG
1 TCCGGGT-AAGACCCGATGACTACGTGTAGAGATTATG
*
35563071 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
*
35563108 TCCGGGTAAGACCCGATAACTACGTGT
1 TCCGGGTAAGACCCGATGACTACGTGT
35563135 GGGGACTATT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
37 54 0.89
38 7 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
Found at i:35566119 original size:19 final size:20
Alignment explanation
Indices: 35566095--35566132 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35566085 AGTACCACCA
35566095 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
35566114 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
35566133 ACCTCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:35566474 original size:93 final size:93
Alignment explanation
Indices: 35566364--35566534 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
35566354 GACCCTAAGT
* *
35566364 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
35566429 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
35566457 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
35566522 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35566535 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35566522 original size:46 final size:46
Alignment explanation
Indices: 35566359--35566531 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
35566349 AACCCGACCC
* * * *
35566359 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
35566405 TAAATGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
35566453 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
35566498 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35566532 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:35566988 original size:30 final size:30
Alignment explanation
Indices: 35566954--35567013 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
35566944 ATTTAATTCG
*
35566954 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** *
35566984 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
35567014 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:35570587 original size:20 final size:21
Alignment explanation
Indices: 35570538--35570596 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
35570528 CCCTACCCCA
* *
35570538 CCCTTTCTCTCCTTTCTTCTT
1 CCCTTTTTCCCCTTTCTTCTT
* *
35570559 TCTTTTTTCCCCTTTCTT-TT
1 CCCTTTTTCCCCTTTCTTCTT
35570579 CCCTTTTTCCCC-TTCTTC
1 CCCTTTTTCCCCTTTCTTC
35570597 CTCTTCAACC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.16
20 12 0.39
21 14 0.45
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (21 bp):
CCCTTTTTCCCCTTTCTTCTT
Found at i:35570904 original size:51 final size:50
Alignment explanation
Indices: 35570816--35570911 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 50
35570806 TAGTCAATTT
35570816 TATTTATTTATTTATTATTAGTCTTTATTATTATTACTGTTATTTTTCATCA
1 TATTTATTTATTTATTATTAGTCTTTATTATTATTACT-TT-TTTTTCATCA
* *
35570868 TATTT-TTTATTTATTATTTGAT-TATTATT-TTTTTACTTTTTTTT
1 TATTTATTTATTTATTATTAG-TCT-TTATTATTATTACTTTTTTTT
35570912 GTTTTACTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
49 5 0.12
50 2 0.05
51 22 0.55
52 11 0.28
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (50 bp):
TATTTATTTATTTATTATTAGTCTTTATTATTATTACTTTTTTTTCATCA
Found at i:35572448 original size:7 final size:6
Alignment explanation
Indices: 35572432--35572511 Score: 74
Period size: 6 Copynumber: 13.3 Consensus size: 6
35572422 TTTGAGTCCA
* * * *
35572432 TTTA-T TTTATCT TTTATT TTT-TGC TTTATT TTCATT TTCATT TTCATT
1 TTTATT TTTAT-T TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT
* *
35572480 TTCATT TTCATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
35572512 AGTTCTAAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
5 5 0.07
6 55 0.82
7 7 0.10
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:35572468 original size:6 final size:6
Alignment explanation
Indices: 35572459--35572511 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
35572449 TTTTTGCTTT
* * *
35572459 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTT ATTTTT ATTTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
35572507 ATTTT
1 ATTTT
35572512 AGTTCTAAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTC
Found at i:35573981 original size:22 final size:21
Alignment explanation
Indices: 35573956--35574029 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
35573946 TTTAAATCAC
35573956 TTTTCTCACTTTTTTCTCTTTT
1 TTTTCTCACTTTTTT-TCTTTT
35573978 TTTT-TCCACTTTCTTTTCTTTT
1 TTTTCT-CACTTT-TTTTCTTTT
* *
35574000 TCTTTTTCATTTTTTTTCTTGCTT
1 T-TTTCTCACTTTTTTTCTT--TT
35574024 TTTTCT
1 TTTTCT
35574030 TTTGACTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
21 1 0.02
22 24 0.55
23 15 0.34
24 4 0.09
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (21 bp):
TTTTCTCACTTTTTTTCTTTT
Found at i:35576683 original size:10 final size:10
Alignment explanation
Indices: 35576668--35576694 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35576658 TACTCCTTCA
35576668 AGCTCAAATC
1 AGCTCAAATC
35576678 AGCTCAAATC
1 AGCTCAAATC
35576688 AGCTCAA
1 AGCTCAA
35576695 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:35578295 original size:12 final size:11
Alignment explanation
Indices: 35578278--35578308 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35578268 ACAAGTTTGA
35578278 AAAAAAAATTCG
1 AAAAAAAA-TCG
35578290 AAAAAAAATCG
1 AAAAAAAATCG
35578301 AAAAAAAA
1 AAAAAAAA
35578309 AGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:35578309 original size:12 final size:13
Alignment explanation
Indices: 35578276--35578309 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
35578266 ATACAAGTTT
35578276 GAAAAAAAAATTC
1 GAAAAAAAAATTC
35578289 G-AAAAAAAA-TC
1 GAAAAAAAAATTC
35578300 GAAAAAAAAA
1 GAAAAAAAAA
35578310 GTGATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 16 0.80
13 1 0.05
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (13 bp):
GAAAAAAAAATTC
Found at i:35583481 original size:10 final size:10
Alignment explanation
Indices: 35583466--35583492 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35583456 TACTCCTTCA
35583466 AGCTCAAATC
1 AGCTCAAATC
35583476 AGCTCAAATC
1 AGCTCAAATC
35583486 AGCTCAA
1 AGCTCAA
35583493 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:35592809 original size:30 final size:30
Alignment explanation
Indices: 35592775--35592872 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
35592765 AGCTCACTCC
35592775 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
35592805 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
35592835 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
35592865 TAGCTCAT
1 TAGCTCAT
35592873 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:35599611 original size:30 final size:30
Alignment explanation
Indices: 35599525--35599622 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
35599515 TTAAACTAAA
* *
35599525 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
35599555 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
35599585 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
35599615 ATGAGCTA
1 ATGAGCTA
35599623 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:35601890 original size:30 final size:30
Alignment explanation
Indices: 35601819--35601901 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
35601809 CTTTTGTTTC
* *
35601819 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
35601850 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
35601879 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
35601902 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:35601901 original size:18 final size:18
Alignment explanation
Indices: 35601852--35601907 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
35601842 CACTCTCAAA
* *
35601852 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
35601869 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
35601887 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
35601906 TT
1 TT
35601908 CAAAGACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:35601908 original size:12 final size:12
Alignment explanation
Indices: 35601877--35601901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35601867 TTTTTCAATC
35601877 TCATTTTCTTTT
1 TCATTTTCTTTT
35601889 TCATTTTCTTTT
1 TCATTTTCTTTT
35601901 T
1 T
35601902 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:35601919 original size:12 final size:12
Alignment explanation
Indices: 35601904--35601934 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
35601894 TTCTTTTTGC
35601904 TTTTCAAAGACT
1 TTTTCAAAGACT
*
35601916 TTTTCAAAGGCT
1 TTTTCAAAGACT
35601928 TTTTCAA
1 TTTTCAA
35601935 GTTCTCTCAA
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:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:35601992 original size:5 final size:5
Alignment explanation
Indices: 35601982--35602038 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
35601972 CTCTTGCCTC
*
35601982 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
35602029 TCTTT TCTTT
1 TCTTT TCTTT
35602039 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:35602022 original size:15 final size:14
Alignment explanation
Indices: 35601982--35602038 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
35601972 CTCTTGCCTC
*
35601982 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
35601997 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
35602012 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
35602029 TCTTTTCTTT
1 TCTTTTCTTT
35602039 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:35602039 original size:21 final size:21
Alignment explanation
Indices: 35601982--35602049 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
35601972 CTCTTGCCTC
* *
35601982 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
35602003 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
35602024 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
35602044 CTCTTT
1 -TCTTT
35602050 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:35604724 original size:30 final size:30
Alignment explanation
Indices: 35604638--35604735 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
35604628 TTAAACTAAA
* *
35604638 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
35604668 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
35604698 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
35604728 ATGAGCTA
1 ATGAGCTA
35604736 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:35613600 original size:20 final size:20
Alignment explanation
Indices: 35613577--35613624 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35613567 AGCTTCGTCC
35613577 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
35613597 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
35613617 AGCTCAAC
1 AGCTCAAC
35613625 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:35616097 original size:21 final size:21
Alignment explanation
Indices: 35616073--35616140 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
35616063 GATTTTGAAT
35616073 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
35616094 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
35616115 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
35616136 GAAAT
1 GAAAT
35616141 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:35616113 original size:42 final size:42
Alignment explanation
Indices: 35616051--35616147 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
35616041 AGATTATGAG
* * *
35616051 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
35616093 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
35616135 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
35616148 AAAGAAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:35616177 original size:24 final size:24
Alignment explanation
Indices: 35616144--35616225 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
35616134 AAGAAATGAA
*
35616144 AGAAAAAGAAAAGGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
35616168 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
35616192 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
35616216 AGAAAAAGAA
1 AGAAAAAGAA
35616226 TGTGAATAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:35616183 original size:18 final size:18
Alignment explanation
Indices: 35616162--35616200 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35616152 AAAAGGAGAT
35616162 TGAGAGTGAAAAAGAAAA
1 TGAGAGTGAAAAAGAAAA
* *
35616180 TGAGATTGAAAAAGAGAA
1 TGAGAGTGAAAAAGAAAA
35616198 TGA
1 TGA
35616201 AAAAGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (18 bp):
TGAGAGTGAAAAAGAAAA
Found at i:35616239 original size:48 final size:48
Alignment explanation
Indices: 35616142--35616262 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
35616132 CAAAGAAATG
* * * * *
35616142 AAAGAAAAAGAAAAGGAGATTGAGAGTGAAAAAGAAAATGAGATTGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGATAGAA
* **
35616190 AAAGAGAATGAAAAAGAGTTTGAGAGAGAAAAAGAATGTGA-ATAAGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAT-AGAA
* *
35616238 AAA-AGAGTGGAAAAAGAAATTGAGA
1 AAAGAGAAT-GAAAAAGAGATTGAGA
35616263 TAAAAGAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 6 0.10
48 54 0.90
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (48 bp):
AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGATAGAA
Found at i:35616254 original size:18 final size:19
Alignment explanation
Indices: 35616218--35616256 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
35616208 TTTGAGAGAG
*
35616218 AAAAAGAATGTGAATAAGA
1 AAAAAGAATGTGAAAAAGA
*
35616237 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
35616255 AA
1 AA
35616257 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:35617934 original size:11 final size:11
Alignment explanation
Indices: 35617918--35617966 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
35617908 TATACAAGTT
35617918 AAAAAAAATCA
1 AAAAAAAATCA
35617929 AAAAAAAATTCGA
1 AAAAAAAA-TC-A
* *
35617942 AAAAAAATTCG
1 AAAAAAAATCA
35617953 AAAAAAAAT-A
1 AAAAAAAATCA
35617963 AAAA
1 AAAA
35617967 GAGTGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 4 0.12
11 16 0.50
12 4 0.12
13 8 0.25
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:35617935 original size:12 final size:12
Alignment explanation
Indices: 35617918--35617961 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
35617908 TATACAAGTT
*
35617918 AAAAAAAA-TCA
1 AAAAAAAATTCG
35617929 AAAAAAAATTCG
1 AAAAAAAATTCG
35617941 AAAAAAAATTCG
1 AAAAAAAATTCG
35617953 AAAAAAAAT
1 AAAAAAAAT
35617962 AAAAAGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 8 0.26
12 23 0.74
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:35618906 original size:21 final size:21
Alignment explanation
Indices: 35618872--35618939 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
35618862 ACATTCTTGT
35618872 AAAGAGAAAA-CAAATAAAAGA
1 AAAGA-AAAAGCAAATAAAAGA
*
35618893 AAAGAAAAAGCAAA-AGAAGAA
1 AAAGAAAAAGCAAATAAAAG-A
*
35618914 AAAGAAAACG-AAATAAAAAGA
1 AAAGAAAAAGCAAAT-AAAAGA
35618935 AAAGA
1 AAAGA
35618940 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 11 0.28
21 25 0.62
22 4 0.10
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGCAAATAAAAGA
Found at i:35618914 original size:15 final size:14
Alignment explanation
Indices: 35618894--35618939 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
35618884 AATAAAAGAA
35618894 AAGAAAAAGCAAAAG
1 AAGAAAAAG-AAAAG
35618909 AAGAAAAAGAAAACG
1 AAGAAAAAGAAAA-G
*
35618924 AAATAAAAAGAAAAG
1 -AAGAAAAAGAAAAG
35618939 A
1 A
35618940 GAGGCAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 12 0.43
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:35619019 original size:11 final size:12
Alignment explanation
Indices: 35618987--35619017 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35618977 TTGAGAGAAC
35618987 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35618999 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35619011 TTGAAAA
1 TTGAAAA
35619018 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:35619028 original size:12 final size:12
Alignment explanation
Indices: 35619020--35619044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35619010 TTTGAAAAGC
35619020 AAAAAGAAAATG
1 AAAAAGAAAATG
35619032 AAAAAGAAAATG
1 AAAAAGAAAATG
35619044 A
1 A
35619045 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:35619041 original size:18 final size:18
Alignment explanation
Indices: 35619014--35619069 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
35619004 AAAGCCTTTG
35619014 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
35619033 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
35619051 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
35619068 AA
1 AA
35619070 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:35619054 original size:30 final size:31
Alignment explanation
Indices: 35619020--35619101 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
35619010 TTTGAAAAGC
*
35619020 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
35619050 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
35619080 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
35619102 TGTAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:35621347 original size:30 final size:30
Alignment explanation
Indices: 35621313--35621410 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
35621303 AGCTCACTCC
*
35621313 TAGCTCATATTCAGCTCATGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
35621343 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
35621373 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
35621403 TAGCTCAT
1 TAGCTCAT
35621411 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:35630154 original size:12 final size:12
Alignment explanation
Indices: 35630137--35630240 Score: 60
Period size: 12 Copynumber: 8.6 Consensus size: 12
35630127 AAAGAAAGAC
35630137 AAGAAAATGAAA
1 AAGAAAATGAAA
35630149 AAGAAAA--AAA
1 AAGAAAATGAAA
*
35630159 TGAGAAAATG--A
1 -AAGAAAATGAAA
35630170 AAGAAAA-GAAAA
1 AAGAAAATG-AAA
35630182 AATGAGAGAA-GAAAAA
1 AA-GA-A-AATG--AAA
35630198 CAAGAAAATGAAA
1 -AAGAAAATGAAA
*
35630211 ATGAAAATGAAA
1 AAGAAAATGAAA
*
35630223 ATGAAAATG-AA
1 AAGAAAATGAAA
35630234 AAGAAAA
1 AAGAAAA
35630241 GCTTGATTGC
Statistics
Matches: 76, Mismatches: 4, Indels: 25
0.72 0.04 0.24
Matches are distributed among these distances:
9 1 0.01
10 9 0.12
11 15 0.20
12 30 0.39
13 5 0.07
14 3 0.04
15 5 0.07
16 6 0.08
17 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (12 bp):
AAGAAAATGAAA
Found at i:35630158 original size:15 final size:17
Alignment explanation
Indices: 35630137--35630240 Score: 75
Period size: 18 Copynumber: 6.4 Consensus size: 17
35630127 AAAGAAAGAC
35630137 AAGAAAATGAAAAA-GA
1 AAGAAAATGAAAAATGA
35630153 AA-AAAATGAGAAAATGA
1 AAGAAAATGA-AAAATGA
35630170 AAGAAAA-GAAAAAATG-
1 AAGAAAATG-AAAAATGA
* *
35630186 -AGAGAA-GAAAAA--C
1 AAGAAAATGAAAAATGA
35630199 AAGAAAATG-AAAATGAA
1 AAGAAAATGAAAAATG-A
35630216 AATGAAAATG-AAAATGAA
1 AA-GAAAATGAAAAATG-A
35630234 AAGAAAA
1 AAGAAAA
35630241 GCTTGATTGC
Statistics
Matches: 74, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
14 14 0.19
15 14 0.19
16 6 0.08
17 18 0.24
18 22 0.30
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (17 bp):
AAGAAAATGAAAAATGA
Found at i:35630176 original size:26 final size:24
Alignment explanation
Indices: 35630146--35630205 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
35630136 CAAGAAAATG
35630146 AAAAAGAAAAAAATGAGAAAATGAA
1 AAAAAGAAAAAAATGAGAAAA-GAA
*
35630171 AGAAAAG-AAAAAATGAGAGAAGAA
1 A-AAAAGAAAAAAATGAGAAAAGAA
35630195 AAACAAGAAAA
1 AAA-AAGAAAA
35630206 TGAAAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 7 0.23
25 17 0.55
26 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAAAAATGAGAAAAGAA
Found at i:35630183 original size:17 final size:18
Alignment explanation
Indices: 35630137--35630223 Score: 65
Period size: 20 Copynumber: 4.7 Consensus size: 18
35630127 AAAGAAAGAC
35630137 AAGAAAATG-AAAAA-GA
1 AAGAAAATGAAAAAATGA
*
35630153 AA-AAAATGAGAAAATGA
1 AAGAAAATGAAAAAATGA
35630170 AAGAAAA-GAAAAAATGAGA
1 AAGAAAATGAAAAAAT--GA
**
35630189 GAAGAAAAACAAGAAAATGAA
1 -AAGAAAATGAA-AAAATG-A
35630210 AATGAAAATGAAAA
1 AA-GAAAATGAAAA
35630224 TGAAAATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.11
16 6 0.11
17 11 0.20
18 4 0.07
19 2 0.04
20 12 0.21
21 10 0.18
22 5 0.09
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.08
Consensus pattern (18 bp):
AAGAAAATGAAAAAATGA
Found at i:35631325 original size:45 final size:45
Alignment explanation
Indices: 35631227--35631388 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 45
35631217 CCGGTATTTC
* * *
35631227 GCCTGCTAGGCTCGAA-GCTCG-ATA-TCATTTCATCGACATTATA
1 GCCTGCTAGGCTCAAAGGCTCGAATAGT-ATCTCACCGACATTATA
* * * *
35631270 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCTCGAATAGTATCTCACCGACATTATA
* *
35631315 ACCTGCTAGGCTCAAAGGCTCGAATAGTATCTCACCGACATCATA
1 GCCTGCTAGGCTCAAAGGCTCGAATAGTATCTCACCGACATTATA
* *
35631360 GCCTGCTAGGTTCAAAAGCTCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCTCGAATAGTA
35631389 CCGTACAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 16 0.16
44 4 0.04
45 81 0.79
46 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCTCGAATAGTATCTCACCGACATTATA
Found at i:35632098 original size:14 final size:14
Alignment explanation
Indices: 35632051--35632098 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
35632041 GTACGAATGG
*
35632051 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
35632065 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
35632079 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
35632093 ATTGGT
1 AATGGT
35632099 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:35634181 original size:13 final size:13
Alignment explanation
Indices: 35634163--35634187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35634153 TGGTCATCAT
35634163 GGTGTGAACACAA
1 GGTGTGAACACAA
35634176 GGTGTGAACACA
1 GGTGTGAACACA
35634188 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:35634756 original size:30 final size:30
Alignment explanation
Indices: 35634671--35634767 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
35634661 TAAACTAAAA
* * *
35634671 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * ** * *
35634701 TGAGCTGAGATTAAAATCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
35634731 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
35634760 ATGAGCTA
1 -TGAGCTA
35634768 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:35638871 original size:10 final size:10
Alignment explanation
Indices: 35638842--35638898 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
35638832 CACCTGAGCA
*
35638842 CGTTTCAGCC
1 CGTTTCAGCT
35638852 CGTTTCAGCT
1 CGTTTCAGCT
*
35638862 CGTTTGAGCT
1 CGTTTCAGCT
* *
35638872 TGATTTTAGCT
1 CG-TTTCAGCT
35638883 CGTTTCAGCT
1 CGTTTCAGCT
*
35638893 TGTTTC
1 CGTTTC
35638899 TTTTCCATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 31 0.79
11 8 0.21
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (10 bp):
CGTTTCAGCT
Found at i:35646183 original size:12 final size:12
Alignment explanation
Indices: 35646168--35646195 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35646158 TTCTTTTTAC
35646168 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35646180 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35646192 TTTT
1 TTTT
35646196 GAAGTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:35646256 original size:5 final size:5
Alignment explanation
Indices: 35646246--35646302 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
35646236 CTCTTGCTTC
*
35646246 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
35646293 TCTTT TCTTT
1 TCTTT TCTTT
35646303 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:35646286 original size:15 final size:14
Alignment explanation
Indices: 35646246--35646302 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
35646236 CTCTTGCTTC
*
35646246 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
35646261 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
35646276 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
35646293 TCTTTTCTTT
1 TCTTTTCTTT
35646303 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:35646303 original size:21 final size:21
Alignment explanation
Indices: 35646246--35646313 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
35646236 CTCTTGCTTC
* *
35646246 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
35646267 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
35646288 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
35646308 CTCTTT
1 -TCTTT
35646314 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:35648464 original size:20 final size:20
Alignment explanation
Indices: 35648441--35648479 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35648431 CACAACCAAA
*
35648441 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTTAAAAATTT
*
35648461 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
35648480 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTT
Found at i:35650425 original size:10 final size:10
Alignment explanation
Indices: 35650410--35650436 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35650400 TACTCCTTCA
35650410 AGCTCAAATC
1 AGCTCAAATC
35650420 AGCTCAAATC
1 AGCTCAAATC
35650430 AGCTCAA
1 AGCTCAA
35650437 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:35652064 original size:12 final size:12
Alignment explanation
Indices: 35652044--35652079 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
35652034 ATACAAGTTT
35652044 GAAAAAAAAATTTC
1 GAAAAAAAAA--TC
35652058 GAAAAAAAAATC
1 GAAAAAAAAATC
35652070 GAAAAAAAAA
1 GAAAAAAAAA
35652080 AGTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
14 10 0.45
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.11
Consensus pattern (12 bp):
GAAAAAAAAATC
Found at i:35660521 original size:19 final size:19
Alignment explanation
Indices: 35660497--35660536 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35660487 AGCTCCCATG
35660497 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
35660516 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
35660535 TA
1 TA
35660537 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:35662512 original size:20 final size:20
Alignment explanation
Indices: 35662487--35662524 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35662477 GTTTATTCGC
*
35662487 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35662507 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35662525 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35664184 original size:28 final size:28
Alignment explanation
Indices: 35664152--35664220 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35664142 GCGTAGATCA
35664152 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35664180 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35664208 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35664221 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35670520 original size:20 final size:20
Alignment explanation
Indices: 35670495--35670532 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35670485 GTTTATTCGC
*
35670495 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35670515 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35670533 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35672192 original size:28 final size:28
Alignment explanation
Indices: 35672160--35672228 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35672150 GCGTAGATCA
35672160 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35672188 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35672216 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35672229 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35675956 original size:40 final size:40
Alignment explanation
Indices: 35675858--35676014 Score: 230
Period size: 40 Copynumber: 4.0 Consensus size: 40
35675848 CCTTCGGGTG
35675858 TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
*
35675898 TA-A-CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGA
1 TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
35675936 TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
* * * * *
35675976 TATAATC-ACTAGCATAAATGCCTTTGGGGCTTAGCCCGG
1 TAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
35676015 GTATCATTCA
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
38 36 0.34
39 2 0.02
40 67 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
Found at i:35679024 original size:27 final size:27
Alignment explanation
Indices: 35678994--35679187 Score: 235
Period size: 27 Copynumber: 7.2 Consensus size: 27
35678984 TTTGTAAAAG
*
35678994 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
35679021 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
35679048 TATTGAAATACCCCTGTATGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
35679075 TACCGAAATACCCTTGTAGGATGGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
35679102 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
35679129 TACTGAAATACCCCTGTAGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * * * *
35679156 TATCGAGATACGCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
35679183 TACCG
1 TACCG
35679188 TTTTGCCCCT
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:35679727 original size:27 final size:26
Alignment explanation
Indices: 35679683--35679733 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
35679673 CTCACTGCAA
*
35679683 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
35679710 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
35679734 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:35679774 original size:2 final size:2
Alignment explanation
Indices: 35679769--35679798 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35679759 TTCACCACAC
35679769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35679799 CTGTTCTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.