Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 42 of 230
Found at i:11327276 original size:43 final size:43
Alignment explanation
Indices: 11327211--11327312 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
11327201 TGCCCCGATC
*
11327211 TGAT-CAAAATTTGAGCTGCTCTGATCACCTCATG-CCCTAATT-
1 TGATCCAAAATTTGAGCTGCTCTGATCACCTAATGTCCC--ATTA
11327253 TGATCCAAAATTTGAG-TCGCTCTGATCACCTAATGTCCCATTA
1 TGATCCAAAATTTGAGCT-GCTCTGATCACCTAATGTCCCATTA
*
11327296 TGATCAAAAATTTGAGC
1 TGATCCAAAATTTGAGC
11327313 CGCCCTTTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 8 0.15
43 42 0.79
44 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
TGATCCAAAATTTGAGCTGCTCTGATCACCTAATGTCCCATTA
Found at i:11328249 original size:14 final size:15
Alignment explanation
Indices: 11328230--11328260 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11328220 TATTTTTGAC
11328230 TTTGATT-ATTTTTT
1 TTTGATTGATTTTTT
11328244 TTTGATTGATTTTTT
1 TTTGATTGATTTTTT
11328259 TT
1 TT
11328261 GAGTCTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTGATTGATTTTTT
Found at i:11331720 original size:16 final size:16
Alignment explanation
Indices: 11331699--11331739 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11331689 AATAATGGAA
11331699 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
11331715 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
11331731 ATATATAAA
1 ATATATAAA
11331740 TTAAGGAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:11335187 original size:20 final size:20
Alignment explanation
Indices: 11335162--11335214 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
11335152 TGGGTACTCG
* *
11335162 TATTTTTTAGTATTCCCTTA
1 TATTTTTTAGTAATCCCTAA
11335182 TATTTTTT-GATAATCCCTAA
1 TATTTTTTAG-TAATCCCTAA
11335202 TATTTTTTTAGTA
1 TA-TTTTTTAGTA
11335215 CTTTCTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 8 0.29
22 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (20 bp):
TATTTTTTAGTAATCCCTAA
Found at i:11335249 original size:20 final size:20
Alignment explanation
Indices: 11335205--11335255 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11335195 TCCCTAATAT
* **
11335205 TTTTTTAGTACTTTCTCATTT
1 TTTTTT-GTATTTTCTCATAA
11335226 TTTTTTGTATTTTCTCATAA
1 TTTTTTGTATTTTCTCATAA
11335246 TTTTTTGTAT
1 TTTTTTGTAT
11335256 GCCCTAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTTGTATTTTCTCATAA
Found at i:11335388 original size:19 final size:18
Alignment explanation
Indices: 11335356--11335399 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
11335346 CCTCATGTTT
*
11335356 TTTTTGGTATTCTCATATAA
1 TTTTT-GTACTCTCATAT-A
*
11335376 TTTTTGTACTCTCTTATA
1 TTTTTGTACTCTCATATA
11335394 TTTTTG
1 TTTTTG
11335400 AGTACTCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTTTGTACTCTCATATA
Found at i:11335406 original size:20 final size:20
Alignment explanation
Indices: 11335356--11335406 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
11335346 CCTCATGTTT
*
11335356 TTTTTGGTATTCTCATATAA
1 TTTTTGGTACTCTCATATAA
*
11335376 TTTTT-GTACTCTCTTAT-A
1 TTTTTGGTACTCTCATATAA
11335394 TTTTTGAGTACTC
1 TTTTTG-GTACTC
11335407 GTATCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTTTGGTACTCTCATATAA
Found at i:11335867 original size:20 final size:20
Alignment explanation
Indices: 11335825--11335869 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11335815 TTTTGTATAC
*
11335825 TTTTTAGTATTACCTCATAA
1 TTTTTAGTATTACCGCATAA
** *
11335845 TTTTTAGTATTTTCGCATGA
1 TTTTTAGTATTACCGCATAA
11335865 TTTTT
1 TTTTT
11335870 TTTTTACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTTAGTATTACCGCATAA
Found at i:11335990 original size:37 final size:38
Alignment explanation
Indices: 11335894--11335990 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 38
11335884 TTTTTTATTT
* *
11335894 CCTTATAATATTTGGTATTCCCTCGTAATACTTGGTACT
1 CCTTATAATTTTTGGTATTCCCTC-TAATACTTGGTACC
* ** *
11335933 CCTTCATATTTTTTTATATTCCCT-T-ATATTTGGTATCC
1 CCTT-ATAATTTTTGGTATTCCCTCTAATACTTGGTA-CC
11335971 CCTTATAATTTTTGGTATTC
1 CCTTATAATTTTTGGTATTC
11335991 TCATAATTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
37 22 0.47
38 6 0.13
39 4 0.09
40 15 0.32
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.51
Consensus pattern (38 bp):
CCTTATAATTTTTGGTATTCCCTCTAATACTTGGTACC
Found at i:11336794 original size:20 final size:21
Alignment explanation
Indices: 11336746--11336794 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
11336736 ATCAAAAGGG
* *
11336746 TACCAAAAAATTATGAGAGAA
1 TACCAAAAAATAATGAGAAAA
* *
11336767 TA-TAAAAAAAAATGAGAAAA
1 TACCAAAAAATAATGAGAAAA
11336787 TACCAAAA
1 TACCAAAA
11336795 TACATAAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.16
Consensus pattern (21 bp):
TACCAAAAAATAATGAGAAAA
Found at i:11337715 original size:2 final size:2
Alignment explanation
Indices: 11337708--11337756 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11337698 ATACTATGAT
11337708 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11337750 TC TC TC T
1 TC TC TC T
11337757 TTTGATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11344414 original size:28 final size:27
Alignment explanation
Indices: 11344374--11344449 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
11344364 TTTATTCAGT
* *
11344374 AAAACTCCTATTTTATTGGGATTGAATC
1 AAAACTCC-ATTTTATTGGGATTAAATA
11344402 AAAACTCTCATTTTATTGGGATTAAATA
1 AAAACTC-CATTTTATTGGGATTAAATA
11344430 AAAACTCCCATTTTATTGGG
1 AAAACT-CCATTTTATTGGG
11344450 GTTCATGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAACTCCATTTTATTGGGATTAAATA
Found at i:11348421 original size:25 final size:25
Alignment explanation
Indices: 11348390--11348457 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
11348380 TAAGCCCTCT
11348390 CGAGCTTCCCGTTATATAGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
* *
11348415 TGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
11348440 CGAGCTTCCCGTTA-ATAG
1 CGAGCTTCCCGTTATATAG
11348458 CTTTTAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 3 0.08
25 36 0.92
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGTTCTTG
Found at i:11348601 original size:25 final size:25
Alignment explanation
Indices: 11348535--11348605 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
11348525 GTCCCGTTAT
11348535 ATGGCTCTTCGTGAGCTTTCCGATTA
1 ATGGCTCTTCGTGAGC-TTCCGATTA
* *
11348561 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTCGTGAGCTTCC-GATTA
11348587 ATGGCTCTTCG-GAGCTTCC
1 ATGGCTCTTCGTGAGCTTCC
11348606 CGGTATGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.30
26 28 0.70
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (25 bp):
ATGGCTCTTCGTGAGCTTCCGATTA
Found at i:11348724 original size:73 final size:72
Alignment explanation
Indices: 11348572--11348728 Score: 165
Period size: 73 Copynumber: 2.2 Consensus size: 72
11348562 AGGCTCTTTG
* **
11348572 TGAGCTTCCTGATTAATGGCTCTTCGGAGCTTCCCGGTATGACTCGCTTGAACTTCCCGATATAT
1 TGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGGTATGACTCGCACGAACTTCCCGATATAT
11348637 AGCTATC
66 AGCTATC
* * ** * *
11348644 TGAAGCTT-CTCGATTAATGGCTCTTCGGAGCTACCTGTTATTTTCTCGCACGAGCTTCCCGA-C
1 TG-AGCTTCCT-GATTAATGGCTCTTCGGAGCTACCCGGTA-TGACTCGCACGAACTTCCCGATA
* *
11348707 TATGGCTCTC
63 TATAGCTATC
11348717 ATGAGCTTCCTG
1 -TGAGCTTCCTG
11348729 TTATTTAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
72 4 0.06
73 45 0.65
74 20 0.29
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (72 bp):
TGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGGTATGACTCGCACGAACTTCCCGATATAT
AGCTATC
Found at i:11348771 original size:50 final size:49
Alignment explanation
Indices: 11348696--11348790 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 49
11348686 TTCTCGCACG
* **
11348696 AGCTTCCCGACTATGGCTCTCATGAGCTTCCTGTTATTTAGCTCGGATA
1 AGCTTCCCGACTATGGCTCACATGAGCTTCCCATTATTTAGCTCGGATA
*
11348745 AGCTTCCCGTTAC-ATGGCTCACATGAGCTTCCCATTATTTGGCTCG
1 AGCTTCCCG--ACTATGGCTCACATGAGCTTCCCATTATTTAGCTCG
11348791 AGAGTGTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 9 0.22
50 29 0.73
51 2 0.05
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (49 bp):
AGCTTCCCGACTATGGCTCACATGAGCTTCCCATTATTTAGCTCGGATA
Found at i:11348773 original size:25 final size:25
Alignment explanation
Indices: 11348695--11348777 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
11348685 TTTCTCGCAC
*
11348695 GAGCTTCCCG--ACTATGGCTCTCAT
1 GAGCTTCCCGTTAC-ATGGCTCACAT
* ** * **
11348719 GAGCTTCCTGTTATTTAGCTCGGAT
1 GAGCTTCCCGTTACATGGCTCACAT
*
11348744 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACAT
11348769 GAGCTTCCC
1 GAGCTTCCC
11348778 ATTATTTGGC
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
24 9 0.21
25 33 0.77
26 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAT
Found at i:11348787 original size:25 final size:25
Alignment explanation
Indices: 11348709--11348789 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
11348699 TTCCCGACTA
* *
11348709 TGGCTCTCATGAGCTTCCTGTTATT
1 TGGCTCACATGAGCTTCCCGTTATT
* ** * **
11348734 TAGCTCGGATAAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTATT
*
11348759 TGGCTCACATGAGCTTCCCATTATT
1 TGGCTCACATGAGCTTCCCGTTATT
11348784 TGGCTC
1 TGGCTC
11348790 GAGAGTGTGC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTATT
Found at i:11355810 original size:288 final size:287
Alignment explanation
Indices: 11355284--11355862 Score: 953
Period size: 288 Copynumber: 2.0 Consensus size: 287
11355274 GATTGGAGTT
* *
11355284 AAGTGAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGTGAATGAACACAAGGCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
*
11355349 AGTGAAGGAGTATGCATAAAAACATGGGGTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
66 AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
* *
11355414 TAGACAATTCAATTAGTGATAGCACTTGCAACTCAAAGGGGATGGTCCATATACTAACTAGACAA
131 TAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
*
11355479 GTCATCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
196 GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
*
11355544 AAAA-GGGAGGTGAGCAAAAGGATTAC
261 AAAAGGGGAGGTAAGCAAAAGGATTAC
**
11355570 AAGTAAGTTTATAAGATTAAATTTGATGAAAATGAAAAAGAGAATGAACACAAGGCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
* * * *
11355635 ATTGAAGGGGTATGCATAACAACATGGGCTGGATGACATAGAATTTTTTACACCTGTGACATGTA
66 AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTAC-CC-GTGACATGTA
* **
11355700 TATAGACAATTCAATTAGTGATACCACTTGCATGTCAAAAGGGATGGTCCATATACTAACTAGAC
129 AATAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGAC
* * *
11355765 AAGTTAGCATTTTTTATATGGTGAGTTGCATGAAATGTTTTTGTGGAACAATCTTGTGGTTATGT
194 AAGTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGT
*
11355830 GTAAAAGGGGGGGTAAGCAAAAGGATTAC
259 GTAAAAGGGGAGGTAAGCAAAAGGATTAC
11355859 AAGT
1 AAGT
11355863 TAAAAAAGGC
Statistics
Matches: 270, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
286 107 0.40
287 2 0.01
288 137 0.51
289 24 0.09
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (287 bp):
AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
TAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
AAAAGGGGAGGTAAGCAAAAGGATTAC
Found at i:11356903 original size:46 final size:46
Alignment explanation
Indices: 11356812--11356909 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 46
11356802 CTTGCAATTC
*
11356812 AACAGGCTCACACTTTGCTTACTGTCTTCAACAGGCTCACAACTTT
1 AACAGGCTCACACTTGGCTTACTGTCTTCAACAGGCTCACAACTTT
* *
11356858 AACAGGCTCGCACTCTGGCTTACTGTCTTCAACAGGCTCGC-ACTTT
1 AACAGGCTCACACT-TGGCTTACTGTCTTCAACAGGCTCACAACTTT
*
11356904 TACAGG
1 AACAGG
11356910 GATCGCACCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
46 23 0.49
47 24 0.51
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (46 bp):
AACAGGCTCACACTTGGCTTACTGTCTTCAACAGGCTCACAACTTT
Found at i:11357275 original size:18 final size:18
Alignment explanation
Indices: 11357247--11357291 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11357237 CTAAGCTCAC
* *
11357247 AGCTTGCACATCTTGCTG
1 AGCTCGCACATCTCGCTG
* *
11357265 AGTTCGCACATCTCGTTG
1 AGCTCGCACATCTCGCTG
11357283 AGCTCGCAC
1 AGCTCGCAC
11357292 CACTTGATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (18 bp):
AGCTCGCACATCTCGCTG
Found at i:11360672 original size:42 final size:42
Alignment explanation
Indices: 11360610--11360727 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
11360600 GTTTACAAAC
11360610 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
* * * * *
11360652 AAAAATGCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
* *
11360694 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
11360728 GTTTTTTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
Found at i:11360750 original size:42 final size:42
Alignment explanation
Indices: 11360701--11361027 Score: 460
Period size: 42 Copynumber: 7.8 Consensus size: 42
11360691 GAGAAAAACA
* *
11360701 CCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTAT-TAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT-TCTAAGCG
* * *
11360743 GCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCA
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
*
11360785 CCTCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTT-TAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTTCTAAGCG
* *
11360827 CCACTAAAGAACATGGTCTATAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
11360869 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGTG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
11360911 CCGCTAAAAAACATGGTCTCTAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
** * * *
11360953 CCGCTAAAGAACATTATCTTTAGCAGCATTTTTTTCAAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
*
11360995 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
11361028 ATACAAAAAC
Statistics
Matches: 254, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 5 0.02
42 245 0.96
43 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
Found at i:11366896 original size:9 final size:9
Alignment explanation
Indices: 11366882--11367357 Score: 359
Period size: 9 Copynumber: 51.8 Consensus size: 9
11366872 TTTTTATGTA
11366882 TTATGTAAG
1 TTATGTAAG
11366891 TTATGTACTAAG
1 TTATG---TAAG
*
11366903 TTCTGT-A-
1 TTATGTAAG
11366910 TTATGTAAG
1 TTATGTAAG
11366919 TTATGTAAG
1 TTATGTAAG
*
11366928 TTGTGT-A-
1 TTATGTAAG
*
11366935 TTATGTGAG
1 TTATGTAAG
11366944 TTATGTAAG
1 TTATGTAAG
11366953 TTATGTAAG
1 TTATGTAAG
* *
11366962 TTATTTAAT
1 TTATGTAAG
11366971 TTATGTAAG
1 TTATGTAAG
*
11366980 TTTACATATAAG
1 -TT--ATGTAAG
*
11366992 TTATGTAGG
1 TTATGTAAG
*
11367001 CTATGT-A-
1 TTATGTAAG
* *
11367008 TTATCTAAA
1 TTATGTAAG
*
11367017 TAATGTAAG
1 TTATGTAAG
*
11367026 TTA-GGAAGG
1 TTATGTAA-G
11367035 TTATGTAAG
1 TTATGTAAG
* *
11367044 TTATTTAGAAAAAA
1 TTA--T-G--TAAG
11367058 TTATGTAAG
1 TTATGTAAG
11367067 TTATGTACTAAG
1 TTATG---TAAG
11367079 TTATGT-A-
1 TTATGTAAG
*
11367086 TTATGTAAA
1 TTATGTAAG
*
11367095 TAATGTAAG
1 TTATGTAAG
11367104 TTATGTAAG
1 TTATGTAAG
11367113 TTATGTAAG
1 TTATGTAAG
11367122 TTATGTAAG
1 TTATGTAAG
11367131 TTATGTAAG
1 TTATGTAAG
*
11367140 TTATTTAAG
1 TTATGTAAG
11367149 TTATGTAAG
1 TTATGTAAG
* *
11367158 TTATTTAAT
1 TTATGTAAG
11367167 TTATGTAAG
1 TTATGTAAG
11367176 TTATGTAAG
1 TTATGTAAG
*
11367185 TTATTTAAG
1 TTATGTAAG
* *
11367194 TTATTTAAT
1 TTATGTAAG
11367203 TTATGTAAG
1 TTATGTAAG
11367212 TTATGTAAG
1 TTATGTAAG
* **
11367221 TTATTTATT
1 TTATGTAAG
11367230 TTATGTAAG
1 TTATGTAAG
* *
11367239 TTATTTAGAAAAAA
1 TTA--T-G--TAAG
11367253 TTATGTAAG
1 TTATGTAAG
11367262 TTATGTACTAAG
1 TTATG---TAAG
11367274 TTATGT-A-
1 TTATGTAAG
*
11367281 TTATGTAAA
1 TTATGTAAG
*
11367290 TAATGTAAG
1 TTATGTAAG
*
11367299 TTA-GGAAGG
1 TTATGTAA-G
11367308 TTATGT-A-
1 TTATGTAAG
11367315 TTATGTAAG
1 TTATGTAAG
*
11367324 TTATTTAAG
1 TTATGTAAG
11367333 TTATGTAAG
1 TTATGTAAG
11367342 TTATGTAAG
1 TTATGTAAG
11367351 TTATGTA
1 TTATGTA
11367358 GGCCATGTAT
Statistics
Matches: 373, Mismatches: 56, Indels: 76
0.74 0.11 0.15
Matches are distributed among these distances:
7 32 0.09
8 16 0.04
9 267 0.72
10 6 0.02
11 6 0.02
12 36 0.10
14 10 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11367316 original size:34 final size:34
Alignment explanation
Indices: 11367271--11367357 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 34
11367261 GTTATGTACT
11367271 AAGTTATGTATTATGTAAATAATGTAAGTTA-GG
1 AAGTTATGTATTATGTAAATAATGTAAGTTATGG
* * * *
11367304 AAGGTTATGTATTATGTAAGTTATTTAAGTTATGT
1 AA-GTTATGTATTATGTAAATAATGTAAGTTATGG
11367339 AAGTTATGTAAGTTATGTA
1 AAGTTATGT-A-TTATGTA
11367358 GGCCATGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.04
34 33 0.72
35 4 0.09
36 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (34 bp):
AAGTTATGTATTATGTAAATAATGTAAGTTATGG
Found at i:11367340 original size:52 final size:51
Alignment explanation
Indices: 11367281--11367388 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 51
11367271 AAGTTATGTA
** *
11367281 TTATGTAAATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAG
1 TTATGTAAATAATGTAAGTTAGGAAGGCCATGTATTATGTAA-TTATATAAG
* * * * *
11367333 TTATGTAAGTTATGTAAGTTATGTAGGCCATGTATTATGTTATTATATAAG
1 TTATGTAAATAATGTAAGTTAGGAAGGCCATGTATTATGTAATTATATAAG
11367384 TTATG
1 TTATG
11367389 CAAGTTTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 13 0.27
52 35 0.73
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.44
Consensus pattern (51 bp):
TTATGTAAATAATGTAAGTTAGGAAGGCCATGTATTATGTAATTATATAAG
Found at i:11367365 original size:18 final size:18
Alignment explanation
Indices: 11367315--11367366 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
11367305 AGGTTATGTA
** *
11367315 TTATGTAAGTTATTTAAG
1 TTATGTAAGCCATGTAAG
**
11367333 TTATGTAAGTTATGTAAG
1 TTATGTAAGCCATGTAAG
*
11367351 TTATGTAGGCCATGTA
1 TTATGTAAGCCATGTA
11367367 TTATGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (18 bp):
TTATGTAAGCCATGTAAG
Found at i:11367417 original size:33 final size:34
Alignment explanation
Indices: 11367375--11367447 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
11367365 TATTATGTTA
*
11367375 TTATATAAGTTATG-CAAGTT-TATATATTGTATG
1 TTATTTAAGTTATGACAAGTTAT-TATATTGTATG
*
11367408 TTATTTAAGTTATGTATAAGTTATTATATTGTATG
1 TTATTTAAGTTATG-ACAAGTTATTATATTGTATG
11367443 TTATT
1 TTATT
11367448 ATATAAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 13 0.37
35 21 0.60
36 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (34 bp):
TTATTTAAGTTATGACAAGTTATTATATTGTATG
Found at i:11367429 original size:86 final size:85
Alignment explanation
Indices: 11367318--11367510 Score: 209
Period size: 86 Copynumber: 2.3 Consensus size: 85
11367308 TTATGTATTA
* *
11367318 TGTAAGTTATTTAAGTTATG--TAAGTTATGTA-AGTTATGTAGGCCATGTAT-TATGTTATTAT
1 TGTATGTTATTTAAGTTATGTATAAGTTAT-TATA--T-TGTAGGCCAT-TATATAAGTTATTAT
*
11367379 ATAAG-T-TATGCAAGTTTATATAT
61 ATAAGATCTATACAAGTTTATATAT
* **
11367402 TGTATGTTATTTAAGTTATGTATAAGTTATTATATTGTATGTTATTATATAAGTTATTATATAAG
1 TGTATGTTATTTAAGTTATGTATAAGTTATTATATTGTAGGCCATTATATAAGTTATTATATAAG
* *
11367467 ATTCTATATATGTTTATATAT
66 A-TCTATACAAGTTTATATAT
*
11367488 TGTATGTTATTTAACTTATGTAT
1 TGTATGTTATTTAAGTTATGTAT
11367511 TATGTAAGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 12
0.82 0.08 0.11
Matches are distributed among these distances:
82 3 0.03
83 22 0.24
84 20 0.22
85 3 0.03
86 45 0.48
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.51
Consensus pattern (85 bp):
TGTATGTTATTTAAGTTATGTATAAGTTATTATATTGTAGGCCATTATATAAGTTATTATATAAG
ATCTATACAAGTTTATATAT
Found at i:11367457 original size:12 final size:12
Alignment explanation
Indices: 11367408--11367466 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
11367398 ATATTGTATG
*
11367408 TTATTTAAGTTA
1 TTATATAAGTTA
*
11367420 -TGTATAAGTTA
1 TTATATAAGTTA
*
11367431 TTATATTGTATGTTA
1 TTATA---TAAGTTA
11367446 TTATATAAGTTA
1 TTATATAAGTTA
11367458 TTATATAAG
1 TTATATAAG
11367467 ATTCTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 9 0.24
12 18 0.47
15 11 0.29
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (12 bp):
TTATATAAGTTA
Found at i:11367869 original size:23 final size:23
Alignment explanation
Indices: 11367825--11367869 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
11367815 ATAAAATTGG
* *
11367825 AATATAAGTTATATGTCCATATT
1 AATATAAGTTATATATCAATATT
* *
11367848 AATATATGTTATATATTAATAT
1 AATATAAGTTATATATCAATAT
11367870 ATGTCCCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (23 bp):
AATATAAGTTATATATCAATATT
Found at i:11369170 original size:28 final size:28
Alignment explanation
Indices: 11369132--11369190 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
11369122 TTCACTTGTC
*
11369132 AAAATGTTACTGCTTAATACCCTAAACA
1 AAAACGTTACTGCTTAATACCCTAAACA
11369160 AAAACGTTACTGCTTAATACCCTAAACA
1 AAAACGTTACTGCTTAATACCCTAAACA
11369188 AAA
1 AAA
11369191 TAAATTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAACGTTACTGCTTAATACCCTAAACA
Found at i:11371106 original size:7 final size:7
Alignment explanation
Indices: 11371096--11371157 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
11371086 CATAAATTCT
11371096 AAACCCC
1 AAACCCC
11371103 AAACCCC
1 AAACCCC
**
11371110 AAAAACC
1 AAACCCC
11371117 AAACCCC
1 AAACCCC
11371124 AAACCCC
1 AAACCCC
***
11371131 AAACTTT
1 AAACCCC
11371138 AAACCCC
1 AAACCCC
* *
11371145 AAATCTC
1 AAACCCC
11371152 AAACCC
1 AAACCC
11371158 TAAAAGTCAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (7 bp):
AAACCCC
Found at i:11371161 original size:21 final size:21
Alignment explanation
Indices: 11371094--11371161 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
11371084 ATCATAAATT
*
11371094 CTAAACCCCAAACCCCAAAAAC
1 CTAAACCCCAAACCCC-AAACC
*
11371116 C-AAACCCCAAACCCCAAACT
1 CTAAACCCCAAACCCCAAACC
* * *
11371136 TTAAACCCCAAATCTCAAACC
1 CTAAACCCCAAACCCCAAACC
11371157 CTAAA
1 CTAAA
11371162 AGTCAAAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.08
21 34 0.89
22 1 0.03
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (21 bp):
CTAAACCCCAAACCCCAAACC
Found at i:11372555 original size:114 final size:113
Alignment explanation
Indices: 11372355--11372567 Score: 277
Period size: 114 Copynumber: 1.9 Consensus size: 113
11372345 CGTTTTTCCT
* * * *
11372355 AGCGCTACTAATTCTAATCTACCTCAAGACTAAACGCTGCGTTTTAGATAAGATATTTTGCAGCG
1 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
*
11372420 CGTTCAGACAGACGCCGCTAATACTG-TGCTTTAGCGGCATGTTCTCCAA
66 CGTT-AGACAAACGCCGCTAATACTGCT-CTTTAGCGGCATGTTCTCCAA
* * * **
11372469 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATCTTTTGTGGCG
1 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
*
11372534 CTTGTT-GTCAAACGCCGCTAATACTGCTCTTTAG
66 C--GTTAGACAAACGCCGCTAATACTGCTCTTTAG
11372568 TTTTAATATA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
114 81 0.95
115 1 0.01
116 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (113 bp):
AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
CGTTAGACAAACGCCGCTAATACTGCTCTTTAGCGGCATGTTCTCCAA
Found at i:11372637 original size:88 final size:88
Alignment explanation
Indices: 11372483--11372643 Score: 198
Period size: 88 Copynumber: 1.8 Consensus size: 88
11372473 CCACTAACTC
* * * * ****
11372483 TAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATCTTTTGTGGCGCTTGTTGTCAAACG
1 TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCAAATCAAACG
*
11372548 CCGCTAATACTGCTCTTTAGTTT
66 CCACTAATACTGCTCTTTAGTTT
* * *
11372571 TAATATACCTCAAAACCAAATGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAAT-AAAC
1 TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTT-CAAATCAAAC
11372635 GCCACTAAT
65 GCCACTAAT
11372644 GATATTCTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
88 59 0.98
89 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (88 bp):
TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCAAATCAAACG
CCACTAATACTGCTCTTTAGTTT
Found at i:11375977 original size:32 final size:32
Alignment explanation
Indices: 11375936--11376000 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
11375926 TCAGGGAGAT
*
11375936 AGGATTTGCTTTCTTGGGTCTGCTCCACTGCA
1 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
11375968 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
1 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
11376000 A
1 A
11376001 CTTCAGGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (32 bp):
AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
Found at i:11376253 original size:129 final size:129
Alignment explanation
Indices: 11375972--11376274 Score: 364
Period size: 129 Copynumber: 2.3 Consensus size: 129
11375962 ACTGCAAGGA
* ** * * *
11375972 TTTGCTTTCTTGGGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCT
1 TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCTCT
* * * *
11376037 GTAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTTCACAGCAATTTCAGGGAGATAGGG
66 GCAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAGGG
* ** * *
11376101 TTTGCTTTCTTGGGTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGATGTGATATACTCTAC
1 TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCT-C
* *
11376166 TGCAACTTCAGAGAGAT-A-ATCTCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
65 TGCAACTTCAGAGAGATAAGAT-TC-GAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAG
*
11376229 GAT
128 G-G
11376232 TATTG-GTT-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 T-TTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
11376275 TTCGCCATCT
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
128 2 0.01
129 91 0.59
130 54 0.35
131 3 0.02
132 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCTCT
GCAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAGGG
Found at i:11376308 original size:45 final size:44
Alignment explanation
Indices: 11375985--11376540 Score: 180
Period size: 44 Copynumber: 12.8 Consensus size: 44
11375975 GCTTTCTTGG
* ** * *
11375985 GTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * *
11376027 -TCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TTCGAGATT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT---GATTACTTA
* * * * * * ** * * *
11376069 ATCCGCTTCACAGCAATTTCAGGGAGATAGGGTTTGCTTTCTTGG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTT-A
* ** * *
11376114 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGA-T-GTGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * * * **
11376156 -TATACTCTACTGCAACTTCAGAGAGATAATCTCTGTGATT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAA-GACT-TGATTACTTA
* * * * **
11376199 ATCCGCTCCACTGCAACTTCAGAGAGATAGGA-TT-ATTGGTTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT--ACTTA
*
11376243 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCA-T-CTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTACTT-A
*
11376288 GTCTG-TCTTACTGCAACTTCA-GGAGGATAAGACTTGATTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTA
** * * *
11376332 GTCTGCTCCACTGCAACTTCAGGGAGATAACTCTAGA-TGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * * *
11376374 -TCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTG-TTATTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGATTA-CTTA
* ** ** *
11376416 ATCCACTCCACTATAACTTCAGGGAGATAGGA-TT-ATTAGCTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-C-TTA
* * *
11376460 ATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT-ACTT-A
** * * *
11376504 AACCGCTCCACTGTAACTTCAGGGAGATAAGATTTGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGA
11376541 CATCTTCAAT
Statistics
Matches: 384, Mismatches: 87, Indels: 82
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 45 0.12
41 36 0.09
42 10 0.03
43 24 0.06
44 201 0.52
45 62 0.16
46 3 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
Found at i:11376946 original size:44 final size:43
Alignment explanation
Indices: 11376891--11377221 Score: 324
Period size: 44 Copynumber: 7.7 Consensus size: 43
11376881 CTATTTTCAG
* * *
11376891 CCTACTCCACTGCTGACTAGGGAGATAGGACCTACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATCTTTAA
* * *
11376935 TCTATTCCACTGCTG-CCTAGGGAGATAGAATTCT-CAATCTTCAA
1 CCTATTCCACTGCTGACC-AGGGAGATAGGA--CTACAATCTTTAA
*
11376979 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATCTTTAA
* *
11377023 CCTATTCCACTGCT-ATCTAGGGAGATA-G---A-ATTCTTTAA
1 CCTATTCCACTGCTGA-CCAGGGAGATAGGACTACAATCTTTAA
* * *
11377061 TCTATTCCACTGCTG-CTGAGAGAGATAGGATTCT-CAAT-TTTCAA
1 CCTATTCCACTGCTGAC-CAGGGAGATAGGA--CTACAATCTTT-AA
** *
11377105 CCTATTCCACTAATGACCAGGGAGATAGGATTTACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATCTTTAA
* *
11377149 CCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATCTTTAA
11377193 CCTATTCCACTGCTGACCAGGGAGATAGG
1 CCTATTCCACTGCTGACCAGGGAGATAGG
11377222 GCTGGGGTCA
Statistics
Matches: 242, Mismatches: 25, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.00
38 29 0.12
39 2 0.01
42 1 0.00
43 10 0.04
44 191 0.79
45 8 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
CCTATTCCACTGCTGACCAGGGAGATAGGACTACAATCTTTAA
Found at i:11377086 original size:38 final size:38
Alignment explanation
Indices: 11377016--11377094 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
11377006 GGATTCACAA
* *
11377016 TCTTTAACCTATTCCACTGCTATCTAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCTAGCTAGAGAGATAGAAT
* *
11377054 TCTTTAATCTATTCCACTGCT-GCTGAGAGAGATAGGAT
1 TCTTTAACCTATTCCACTGCTAGCT-AGAGAGATAGAAT
11377092 TCT
1 TCT
11377095 CAATTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTAGCTAGAGAGATAGAAT
Found at i:11377094 original size:126 final size:126
Alignment explanation
Indices: 11376928--11377181 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
11376918 GGACCTACAA
* **
11376928 TCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCT
1 TCTTCAATCTATTCCACTGCTGCCTAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAAT
*
11376993 GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCTAGGGAGATAGAAT
66 GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
* * *
11377054 TCTTTAATCTATTCCACTGCTG-CTGAGAGAGATAGGATTCTCAATTTTCAACCTATTCCACTAA
1 TCTTCAATCTATTCCACTGCTGCCT-AGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAA
* * *
11377118 TGACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGAT
65 TGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
11377180 TC
1 TC
11377182 ACAATCTTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
125 2 0.02
126 115 0.98
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (126 bp):
TCTTCAATCTATTCCACTGCTGCCTAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAAT
GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
Found at i:11377178 original size:170 final size:170
Alignment explanation
Indices: 11376896--11377220 Score: 480
Period size: 170 Copynumber: 1.9 Consensus size: 170
11376886 TTCAGCCTAC
* * **
11376896 TCCACTGCTGACTAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCTAGGGAGAT
1 TCCACTGCTGACTAGAGAGATAGGACCTACAATCTTCAACCTATTCCACTAATGCCTAGGGAGAT
11376961 AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
66 AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
*
11377026 ATTCCACTGCT-ATCTAGGGAGATAGAATTCTTTAATCTAT
131 ATTCCACTGCTGA-CCAGGGAGATAGAATTCTTTAATCTAT
* *
11377066 TCCACTGCTG-CTGAGAGAGATAGGATTCT-CAATTTTCAACCTATTCCACTAATGACC-AGGGA
1 TCCACTGCTGACT-AGAGAGATAGGA-CCTACAATCTTCAACCTATTCCACTAATG-CCTAGGGA
* * *
11377128 GATAGGATT-TACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
63 GATAGAATTCT-CAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
11377192 ACCTATTCCACTGCTGACCAGGGAGATAG
127 ACCTATTCCACTGCTGACCAGGGAGATAG
11377221 GGCTGGGGTC
Statistics
Matches: 140, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
169 3 0.02
170 132 0.94
171 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (170 bp):
TCCACTGCTGACTAGAGAGATAGGACCTACAATCTTCAACCTATTCCACTAATGCCTAGGGAGAT
AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
ATTCCACTGCTGACCAGGGAGATAGAATTCTTTAATCTAT
Found at i:11377221 original size:88 final size:88
Alignment explanation
Indices: 11376891--11377221 Score: 380
Period size: 88 Copynumber: 3.8 Consensus size: 88
11376881 CTATTTTCAG
* * * * *
11376891 CCTACTCCACTGCTGACTAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTGCTG-CCTA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTTAACCTATTCCACTGCTGACC-A
* *
11376954 GGGAGATAGAATTCT-CAATCTTCAA
64 GGGAGATAGGATT-TACAATCTTTAA
*
11376979 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT-ATCTAG
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGA-CCAG
*
11377043 GGAGATA-G----A-ATTCTTTAA
65 GGAGATAGGATTTACAATCTTTAA
* * * * **
11377061 TCTATTCCACTGCTG-CTGAGAGAGATAGGATTCTCAAT-TTTCAACCTATTCCACTAATGACCA
1 CCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTT-AACCTATTCCACTGCTGACCA
11377124 GGGAGATAGGATTTACAATCTTTAA
64 GGGAGATAGGATTTACAATCTTTAA
*
11377149 CCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
11377214 GAGATAGG
66 GAGATAGG
11377222 GCTGGGGTCA
Statistics
Matches: 205, Mismatches: 23, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
81 4 0.02
82 63 0.31
83 2 0.01
87 1 0.00
88 129 0.63
89 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
GAGATAGGATTTACAATCTTTAA
Found at i:11377280 original size:88 final size:87
Alignment explanation
Indices: 11377221--11377626 Score: 526
Period size: 88 Copynumber: 4.6 Consensus size: 87
11377211 AGGGAGATAG
* * *
11377221 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGT-ATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
11377286 TCCGCTGCAACCCAGGGAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * * ** * * *
11377309 GACTGGTGTTTTCAATCTGCTTCATTGTCGGTGTAGGAAGGCAATATCTGCTATTTTTAGTCTGC
1 GGCTGGTG-TATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
11377374 TCCGCTGCAACCCAGGGAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * * *
11377397 GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAAGG-AAGATCTGTTATTTTTAGTCTG
1 GGCTGGTGT-ATCGATCTGCTTCGCTGTCGGTGCAGG-AAGGCAAGATCTGCTATTTTTAGCCTG
*
11377461 CTCCGCTGCAACCCAGGGAGGTAA
64 CTCCGCTGCAACCCAGGGAGGCAA
* * *
11377485 GGCTGGTGTATTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAGCCTAC
1 GGCTGGTGTA-TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* * *
11377550 TCCACTACAACCTAGGGAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * *
11377573 GGCTGGTGTATTCGATTTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTAT
1 GGCTGGTGTA-TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
11377627 CTTCACTGAT
Statistics
Matches: 283, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
87 5 0.02
88 273 0.96
89 5 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (87 bp):
GGCTGGTGTATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCT
CCGCTGCAACCCAGGGAGGCAA
Found at i:11377395 original size:44 final size:44
Alignment explanation
Indices: 11377254--11377477 Score: 141
Period size: 44 Copynumber: 5.1 Consensus size: 44
11377244 GCTGTCGGTG
**
11377254 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTCCGCTGCAACC
* * * * * * ** ****
11377298 CAGGGAGGCAAGA-CTGGTGTTTTCAATCTGCTTCATTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTCCGCTG-CAACC
* *
11377342 TAGGAAGGCAATATCTGCTATTTTTAGTCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTCCGCTGCAACC
* * * * * * * ***
11377386 CAGGGAGGCAAG-GCTGGT-GTCTTCGATCTGCTTCGCTGTCAGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAG-TCTGCTCCGCTG-CAACC
*
11377430 CAGGAAAGG-AAGATCTGTTATTTTTAGTCTGCTCCGCTGCAACC
1 CAGG-AAGGCAAGATCTGCTATTTTTAGTCTGCTCCGCTGCAACC
11377474 CAGG
1 CAGG
11377478 GAGGTAAGGC
Statistics
Matches: 125, Mismatches: 48, Indels: 14
0.67 0.26 0.07
Matches are distributed among these distances:
42 4 0.03
43 33 0.26
44 48 0.38
45 36 0.29
46 4 0.03
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTCCGCTGCAACC
Found at i:11377417 original size:43 final size:41
Alignment explanation
Indices: 11377369--11377511 Score: 106
Period size: 43 Copynumber: 3.3 Consensus size: 41
11377359 CTATTTTTAG
11377369 TCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGA
1 TCTGCTCCGCTGCAACCCAGGGAGG-AAGGCTGGTGT-TTCGA
* *** * * * * **
11377412 TCTGCTTCGCTGTCAGTGCAGGAAAGGAAGATCTGTTATTTTTA
1 TCTGCTCCGCTG-CAACCCAGG-GAGGAAG-GCTGGTGTTTCGA
11377456 GTCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTATTCGA
1 -TCTGCTCCGCTGCAACCCAGGGAGG-AAGGCTGGTGT-TTCGA
* *
11377500 TTTGCTTCGCTG
1 TCTGCTCCGCTG
11377512 TCGGTGCAGG
Statistics
Matches: 72, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 29 0.40
44 24 0.33
45 19 0.26
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (41 bp):
TCTGCTCCGCTGCAACCCAGGGAGGAAGGCTGGTGTTTCGA
Found at i:11388747 original size:5 final size:5
Alignment explanation
Indices: 11388739--11388763 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11388729 TATAATATAT
11388739 TTTCC TTTCC TTTCC TTTCC TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC
11388764 ACCACTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:11396442 original size:103 final size:104
Alignment explanation
Indices: 11396263--11396527 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
11396253 AACCGTTATT
* * * *
11396263 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
11396328 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
11396366 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
11396431 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
11396470 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11396528 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:11396888 original size:30 final size:29
Alignment explanation
Indices: 11396854--11396918 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11396844 TAATCCACCA
11396854 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
11396884 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
11396914 CCCAA
1 CCCAA
11396919 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:11396892 original size:31 final size:30
Alignment explanation
Indices: 11396861--11396918 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11396851 CCACCCAACT
11396861 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
11396891 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
11396919 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:11402097 original size:23 final size:23
Alignment explanation
Indices: 11402070--11402122 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
11402060 AGTGTTATCG
11402070 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
11402093 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11402116 ATCAGTG
1 ATCAGTG
11402123 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11402447 original size:15 final size:15
Alignment explanation
Indices: 11402427--11402482 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
11402417 ATTCAATATT
11402427 AATATTTTAATAATA
1 AATATTTTAATAATA
*
11402442 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
11402461 AATATATTAATAATA
1 AATATTTTAATAATA
11402476 AATATTT
1 AATATTT
11402483 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:11419501 original size:18 final size:18
Alignment explanation
Indices: 11419470--11419504 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11419460 AATAATTTAG
*
11419470 GAAAATTTGGAAAAATAT
1 GAAAATTTGCAAAAATAT
*
11419488 GAAAATTTTCAAAAATA
1 GAAAATTTGCAAAAATA
11419505 GGGGACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
GAAAATTTGCAAAAATAT
Found at i:11421426 original size:25 final size:25
Alignment explanation
Indices: 11421392--11421463 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
11421382 AATCACAATC
*
11421392 AAAGCTTCAAGCACATAATTATATA
1 AAAGCTTCAAACACATAATTATATA
* *
11421417 AAAGCTTCAAACAAATAATTATATC
1 AAAGCTTCAAACACATAATTATATA
*
11421442 AAATCTTCAAACACATAATTAT
1 AAAGCTTCAAACACATAATTAT
11421464 CACCAAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAGCTTCAAACACATAATTATATA
Found at i:11429634 original size:16 final size:16
Alignment explanation
Indices: 11429613--11429644 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11429603 ACTTCCTAGT
11429613 TTCACACTCGGAACCC
1 TTCACACTCGGAACCC
11429629 TTCACACTCGGAACCC
1 TTCACACTCGGAACCC
11429645 GAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.19
Consensus pattern (16 bp):
TTCACACTCGGAACCC
Found at i:11434700 original size:2 final size:2
Alignment explanation
Indices: 11434693--11434738 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
11434683 TAAAGGGATA
11434693 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11434735 AG AG
1 AG AG
11434739 TTACAAGAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11434820 original size:6 final size:6
Alignment explanation
Indices: 11434811--11434838 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11434801 AAGAAGAAGA
11434811 AGTGGG AGTGGG AGTGGG AGTGGG AGTG
1 AGTGGG AGTGGG AGTGGG AGTGGG AGTG
11434839 AATTGAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.64, T:0.18
Consensus pattern (6 bp):
AGTGGG
Found at i:11435706 original size:18 final size:19
Alignment explanation
Indices: 11435662--11435709 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
11435652 CACTAAAATA
*
11435662 TAACTCTCTCCATTCTCTC
1 TAACTCTCTCAATTCTCTC
*
11435681 TAA-ACTCTCAATTCTCTC
1 TAACTCTCTCAATTCTCTC
11435699 -AACTCTCTCAA
1 TAACTCTCTCAA
11435710 ATTTATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACTCTCTCAATTCTCTC
Found at i:11438446 original size:25 final size:28
Alignment explanation
Indices: 11438418--11438472 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 28
11438408 TGAATGAATA
11438418 GATTTTGTACA-AAAAAAAT-TG-TAAT
1 GATTTTGTACACAAAAAAATATGTTAAT
*
11438443 GATTTTTTACACAAAAAAATATGTTAAT
1 GATTTTGTACACAAAAAAATATGTTAAT
11438471 GA
1 GA
11438473 CGTTGAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.38
26 8 0.31
27 2 0.08
28 6 0.23
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (28 bp):
GATTTTGTACACAAAAAAATATGTTAAT
Found at i:11443314 original size:25 final size:26
Alignment explanation
Indices: 11443268--11443316 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
11443258 TGAAAATGAA
*
11443268 TTTTTATTTTTAAATACTAAATATGT
1 TTTTTATTTTTAAATACAAAATATGT
11443294 TTTTTAATTTTTAAA-A-AAAATAT
1 TTTTT-ATTTTTAAATACAAAATAT
11443317 ATAAAGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 6 0.29
27 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTTTATTTTTAAATACAAAATATGT
Found at i:11444555 original size:19 final size:17
Alignment explanation
Indices: 11444531--11444565 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
11444521 ATTTTTTTAA
11444531 TGAATTTTTAATAATTTTT
1 TGAA-TTTTAA-AATTTTT
11444550 TGAATTTTAAAATTTT
1 TGAATTTTAAAATTTT
11444566 GAGAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TGAATTTTAAAATTTTT
Found at i:11446636 original size:17 final size:17
Alignment explanation
Indices: 11446614--11446648 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11446604 AGTAAGACTA
11446614 TAAAATAACAAAACTTC
1 TAAAATAACAAAACTTC
*
11446631 TAAAATAATAAAACTTC
1 TAAAATAACAAAACTTC
11446648 T
1 T
11446649 CTTTGGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAACAAAACTTC
Found at i:11451965 original size:16 final size:16
Alignment explanation
Indices: 11451944--11451975 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11451934 TTAAATAAAG
11451944 AATAATCTTTGATGCA
1 AATAATCTTTGATGCA
11451960 AATAATCTTTGATGCA
1 AATAATCTTTGATGCA
11451976 CCGTCAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AATAATCTTTGATGCA
Found at i:11452875 original size:18 final size:20
Alignment explanation
Indices: 11452844--11452882 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11452834 GATGCATATT
11452844 AATTTTTGAATTAATT-TAA
1 AATTTTTGAATTAATTATAA
*
11452863 AATTTTT-ATTTAATTATAA
1 AATTTTTGAATTAATTATAA
11452882 A
1 A
11452883 TTATTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTTTGAATTAATTATAA
Found at i:11461402 original size:44 final size:42
Alignment explanation
Indices: 11461340--11461527 Score: 209
Period size: 42 Copynumber: 4.4 Consensus size: 42
11461330 ATGGCAGTAC
* * * *
11461340 ATGATTTCGTATATGACCACGTCTGAGACGTTGGCATCG-AT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
* * *
11461381 TTGAGATTTACGTGTAAGACCATGTCT-AGGACATTGGCATCGTAT
1 AT--GATTT-TGTGTAAGACCACGTCTGA-GACATTGGCATCGTAT
* * * *
11461426 ATGATTTTGTGTAAGATCATGTTTGGGACATTGGCATCGTAT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
* *
11461468 ATGATTTTGTGTAAGACCACATCTGGGACATTGGCATCGTAT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
11461510 ATGATTTTGTGTAAGACC
1 ATGATTTTGTGTAAGACC
11461528 TTGTCAAGGT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 86 0.68
43 11 0.09
44 26 0.20
45 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
Found at i:11461447 original size:42 final size:42
Alignment explanation
Indices: 11461392--11461532 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 42
11461382 TGAGATTTAC
*
11461392 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
* *
11461434 GTGTAAGATCATGTTTGGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
**
11461476 GTGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
*
11461518 GTGTAAGACCTTGTC
1 GTGTAAGACCATGTC
11461533 AAGGTTAGTG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
Found at i:11461545 original size:84 final size:84
Alignment explanation
Indices: 11461392--11461548 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
11461382 TGAGATTTAC
** * *** *
11461392 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTTGTGTAAGATCATGTTTGGGACAT
1 GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
11461457 TGGCATCGTATATGATTTT
66 TGGCATCGTATATGATTTT
* * **
11461476 GTGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTTGTGTAAGACCTTGTCAAGGTTAG
1 GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
11461541 TGGCATCG
66 TGGCATCG
11461549 ATAGTTGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (84 bp):
GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
TGGCATCGTATATGATTTT
Found at i:11462151 original size:40 final size:40
Alignment explanation
Indices: 11462065--11462140 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
11462055 AATTTGAAAG
*
11462065 CATGGTTTATATGTTCATTGATAAATAAGATAAGTGAAGT
1 CATGGTTTATATGTTCATTGATAAATAAGATAAATGAAGT
11462105 CATGGTTTATATGTTCATTGATAAATAAGATAAATG
1 CATGGTTTATATGTTCATTGATAAATAAGATAAATG
11462141 TATGTGTGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (40 bp):
CATGGTTTATATGTTCATTGATAAATAAGATAAATGAAGT
Found at i:11464321 original size:13 final size:13
Alignment explanation
Indices: 11464303--11464346 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
11464293 ATTCAATTCG
*
11464303 ATGTTTAGACAGT
1 ATGTTTAGACAAT
*
11464316 ATGTTTAGATAAT
1 ATGTTTAGACAAT
*
11464329 ATGTTTAGACATT
1 ATGTTTAGACAAT
11464342 ATGTT
1 ATGTT
11464347 CATATAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (13 bp):
ATGTTTAGACAAT
Found at i:11464365 original size:25 final size:24
Alignment explanation
Indices: 11464302--11464378 Score: 57
Period size: 26 Copynumber: 3.1 Consensus size: 24
11464292 TATTCAATTC
* * *
11464302 GATGTTTAGACAGTATGTTTAGATAA
1 GATGTTTAGACA-TAAGTTCAAAT-A
* * *
11464328 TATGTTTAGACATTATGTTCATATA
1 GATGTTTAGACA-TAAGTTCAAATA
11464353 GATGTTT-GAACATAAGTTCAAATA
1 GATGTTTAG-ACATAAGTTCAAATA
11464377 GA
1 GA
11464379 ACATAGGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 13 0.30
25 10 0.23
26 20 0.47
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (24 bp):
GATGTTTAGACATAAGTTCAAATA
Found at i:11464641 original size:59 final size:58
Alignment explanation
Indices: 11464574--11464684 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
11464564 ATAGATAACA
* *
11464574 CCGACTTGTTATAAATCACTCACCGCAAAAATCTCACATTACAACCAGTAAAACTCTTC
1 CCGACTTGTTATAAATCACTCACC-CAAAAACCTCACAATACAACCAGTAAAACTCTTC
* * *
11464633 CCGACTTGTTATAAATTACTCACCCAAAAACCTTACAATACAAGCAGTAAAA
1 CCGACTTGTTATAAATCACTCACCCAAAAACCTCACAATACAACCAGTAAAA
11464685 TTCTCCAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 24 0.51
59 23 0.49
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (58 bp):
CCGACTTGTTATAAATCACTCACCCAAAAACCTCACAATACAACCAGTAAAACTCTTC
Found at i:11468870 original size:29 final size:29
Alignment explanation
Indices: 11468807--11468872 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
11468797 AGTTTAATTT
*
11468807 CCAAACTTTGGGGCAAAAGCGTAATTATG
1 CCAAAGTTTGGGGCAAAAGCGTAATTATG
** * *
11468836 TAAAAGTTTAGGGG-AAAATCGTAATTTTG
1 CCAAAGTTT-GGGGCAAAAGCGTAATTATG
11468865 CCAAAGTT
1 CCAAAGTT
11468873 AGAGTCGAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (29 bp):
CCAAAGTTTGGGGCAAAAGCGTAATTATG
Found at i:11469290 original size:50 final size:50
Alignment explanation
Indices: 11469210--11469402 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
11469200 ATTTGGGTAA
* *
11469210 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
*
11469260 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** * * * * *
11469310 AGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCATTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
* * * *
11469360 AGAGCATCCCATGTAAGACCATGTTTGGGACATGTCTTTGGCA
1 AGAG-GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
11469403 TGTTATTATC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 93 0.75
51 31 0.25
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
Found at i:11470118 original size:16 final size:17
Alignment explanation
Indices: 11470097--11470133 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11470087 GGATAGTATA
11470097 AAATGA-AT-TAGAATGT
1 AAATGATATATAGAAT-T
11470113 AAATGATATATAGAATT
1 AAATGATATATAGAATT
11470130 AAAT
1 AAAT
11470134 ATTATTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (17 bp):
AAATGATATATAGAATT
Found at i:11472689 original size:20 final size:20
Alignment explanation
Indices: 11472664--11472703 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11472654 AAAAAGGAAG
11472664 TTAGAAAAGAAATGAATCGA
1 TTAGAAAAGAAATGAATCGA
11472684 TTAGAAAAGAAATGAATCGA
1 TTAGAAAAGAAATGAATCGA
11472704 CTAGGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGAAATGAATCGA
Found at i:11475787 original size:7 final size:7
Alignment explanation
Indices: 11475775--11475800 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11475765 CATTTTCCTA
11475775 CTCTTTT
1 CTCTTTT
11475782 CTCTTTT
1 CTCTTTT
11475789 CTCTTTT
1 CTCTTTT
11475796 CTCTT
1 CTCTT
11475801 CTTCATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
CTCTTTT
Found at i:11491138 original size:21 final size:21
Alignment explanation
Indices: 11491020--11491138 Score: 69
Period size: 21 Copynumber: 5.7 Consensus size: 21
11491010 TGTTAACTCA
* *
11491020 TATGAGTTTCTGTTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * * *
11491041 AATGGGTTTTCGTTCATCTCT
1 TATGGGTTTCCGTTCAACCCT
* * * * *
11491062 TTTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * * *
11491083 TATGGGTTTCCATTTAGCTCT
1 TATGGGTTTCCGTTCAACCCT
* *
11491104 TGTGAGCTTT-CGTTCAACCCT
1 TATG-GGTTTCCGTTCAACCCT
11491125 TATGGGTTTCCGTT
1 TATGGGTTTCCGTT
11491139 TAGCATTTAT
Statistics
Matches: 66, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
20 4 0.06
21 58 0.88
22 4 0.06
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGGGTTTCCGTTCAACCCT
Found at i:11491161 original size:42 final size:42
Alignment explanation
Indices: 11491020--11491164 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
11491010 TGTTAACTCA
* * * * *
11491020 TATGAGTTTCTGTTCAACCCTAATGGGTTTTCGTTCATCTCT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
* * * *
11491062 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCATTTAGCTCT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
*
11491104 TGTGAGCTT-TCGTTCAACCCTTATGGGTTTCCGTTTAGCAT-T
1 TATGAGCTTCT-GTTCAACCCTTATGGGTTTCCGTTTAGC-TCT
*
11491146 TATGTGCTTCTGTTCAACC
1 TATGAGCTTCTGTTCAACC
11491165 TTTAGGCTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:11494355 original size:10 final size:11
Alignment explanation
Indices: 11494332--11494357 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11494322 AGGCTTTATC
11494332 AAAATAAATAA
1 AAAATAAATAA
11494343 AAAATAAATAA
1 AAAATAAATAA
11494354 AAAA
1 AAAA
11494358 AGTCAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:11504100 original size:20 final size:19
Alignment explanation
Indices: 11504039--11504110 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
11504029 GTAGATGGTA
* *
11504039 TTTAATTAATTTTTTAA-AA
1 TTTAA-TAATTTTATAATAT
* *
11504058 TTTAAAAATATTTTTAATAT
1 TTTAATAAT-TTTATAATAT
* *
11504078 TTTTATAATGTTTATAATTT
1 TTTAATAAT-TTTATAATAT
11504098 TTTAATAATTTTA
1 TTTAATAATTTTA
11504111 ATGACTTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 3 0.07
19 16 0.37
20 24 0.56
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTAATAATTTTATAATAT
Found at i:11504632 original size:32 final size:32
Alignment explanation
Indices: 11504596--11504659 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11504586 GCTGCATTCC
11504596 AGTGTTAATGTAAAACATGTGATATTCTTTTT
1 AGTGTTAATGTAAAACATGTGATATTCTTTTT
11504628 AGTGTTAATGTAAAACATGTGATATTCTTTTT
1 AGTGTTAATGTAAAACATGTGATATTCTTTTT
11504660 CATAATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (32 bp):
AGTGTTAATGTAAAACATGTGATATTCTTTTT
Found at i:11509161 original size:37 final size:37
Alignment explanation
Indices: 11509100--11509245 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
11509090 TACGTATGAT
* *
11509100 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11509135 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11509172 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11509209 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11509246 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11509262 original size:46 final size:46
Alignment explanation
Indices: 11509209--11509523 Score: 378
Period size: 46 Copynumber: 6.6 Consensus size: 46
11509199 TAAGTGCAGC
* * **
11509209 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
11509255 CACTTATCACTTTGGCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
11509301 CACTTATCACTTTATTACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11509347 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11509399 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
11509445 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11509497 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11509524 AGTACTCAAA
Statistics
Matches: 236, Mismatches: 21, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
46 151 0.64
48 2 0.01
50 2 0.01
52 81 0.34
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:11509381 original size:52 final size:52
Alignment explanation
Indices: 11509317--11509509 Score: 290
Period size: 52 Copynumber: 3.8 Consensus size: 52
11509307 TCACTTTATT
*
11509317 ACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTC
1 ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTC
11509369 ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT--A----TC
1 ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTC
*
11509415 ACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTC
1 ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTC
* ** *
11509467 ACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
11509510 ATCACTTGAT
Statistics
Matches: 128, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
46 44 0.34
48 1 0.01
50 1 0.01
52 82 0.64
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (52 bp):
ACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTC
Found at i:11509405 original size:98 final size:98
Alignment explanation
Indices: 11509209--11509523 Score: 471
Period size: 98 Copynumber: 3.3 Consensus size: 98
11509199 TAAGTGCAGC
* * * ** *
11509209 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
* *
11509268 GGCTCTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11509301 CACTTATCACTTTATTACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
11509366 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
11509399 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
* ** *
11509464 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
11509497 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
11509524 AGTACTCAAA
Statistics
Matches: 203, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
92 49 0.24
94 1 0.00
98 153 0.75
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:11509515 original size:144 final size:138
Alignment explanation
Indices: 11509208--11509523 Score: 398
Period size: 144 Copynumber: 2.2 Consensus size: 138
11509198 ATAAGTGCAG
* * * * * *
11509208 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGGCTC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTAGCAC
11509273 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAAGTATAGC
66 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAAGTATAGC
*
11509338 CGAAGCTA
131 CAAAGCTA
** *
11509346 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTT
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTT
* *
11509411 TATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
60 TAGCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT--A--T-T-ACTTGATCA
* *
11509476 GATAAGTGTAGCTAAAGCTA
119 GATAAGTATAGCCAAAGCTA
11509496 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
11509524 AGTACTCAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
138 12 0.08
144 96 0.64
146 1 0.01
148 2 0.01
149 1 0.01
150 38 0.25
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (138 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTAGCAC
TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAAGTATAGC
CAAAGCTA
Found at i:11537348 original size:111 final size:111
Alignment explanation
Indices: 11537172--11537372 Score: 339
Period size: 111 Copynumber: 1.8 Consensus size: 111
11537162 TTTGTATGTG
* * *
11537172 TATATATATACCTTGTTAGAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTCATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
11537237 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
66 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
* ** *
11537283 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAATAACCTTTCTTGTCTAATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
11537348 TATGTATATGTTGATATGAAATGAT
66 TATGTATATGTTGATATGAAATGAT
11537373 ATGGATCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (111 bp):
TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
Found at i:11545006 original size:27 final size:27
Alignment explanation
Indices: 11544975--11545030 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11544965 GTTAAATCGG
11544975 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
11545002 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
11545029 TA
1 TA
11545031 AGAATTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (27 bp):
TATGTTTATGCTAGTAATATATTTCAC
Found at i:11549563 original size:16 final size:16
Alignment explanation
Indices: 11549544--11549611 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
11549534 TATTAAACTT
*
11549544 AATTACTTTAATATTA
1 AATTAATTTAATATTA
*
11549560 AATTTAATATAATATTTA
1 AA-TTAATTTAATA-TTA
** *
11549578 TCTTGA-TTAATATTA
1 AATTAATTTAATATTA
*
11549593 TATTAATTTAATATTA
1 AATTAATTTAATATTA
11549609 AAT
1 AAT
11549612 CTTATTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
15 7 0.17
16 18 0.45
17 12 0.30
18 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
AATTAATTTAATATTA
Found at i:11549702 original size:39 final size:36
Alignment explanation
Indices: 11549652--11549733 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
11549642 AATTAAATTA
11549652 AATATTAAGATAA-TCACTTTAATATTAAATTAATAAAAT
1 AATATTAAGATAAGT-A--TTAA-ATTAAATTAATAAAAT
* *
11549691 ACTATTAAGATAAGTATTAAATTAAATTATTAAAAT
1 AATATTAAGATAAGTATTAAATTAAATTAATAAAAT
11549727 AATATTA
1 AATATTA
11549734 TTTTTAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 21 0.54
37 4 0.10
39 13 0.33
40 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (36 bp):
AATATTAAGATAAGTATTAAATTAAATTAATAAAAT
Found at i:11551306 original size:12 final size:12
Alignment explanation
Indices: 11551289--11551314 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11551279 AGTTTGAACT
11551289 TAAATACAAAAA
1 TAAATACAAAAA
11551301 TAAATACAAAAA
1 TAAATACAAAAA
11551313 TA
1 TA
11551315 CAAAAAGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAATACAAAAA
Found at i:11551313 original size:8 final size:8
Alignment explanation
Indices: 11551306--11551353 Score: 57
Period size: 7 Copynumber: 6.4 Consensus size: 8
11551296 AAAAATAAAT
*
11551306 ACAAAAAT
1 ACAAAAAG
11551314 ACAAAAAG
1 ACAAAAAG
11551322 AC-AAAAG
1 ACAAAAAG
11551329 AC-AAAAG
1 ACAAAAAG
*
11551336 ACAAAAAT
1 ACAAAAAG
11551344 AC-AAAAG
1 ACAAAAAG
11551351 ACA
1 ACA
11551354 TAATAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 20 0.57
8 15 0.43
ACGTcount: A:0.73, C:0.15, G:0.08, T:0.04
Consensus pattern (8 bp):
ACAAAAAG
Found at i:11551332 original size:15 final size:15
Alignment explanation
Indices: 11551306--11551353 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
11551296 AAAAATAAAT
11551306 ACAAAAATACAAAAAG
1 ACAAAAATAC-AAAAG
*
11551322 AC-AAAAGACAAAAG
1 ACAAAAATACAAAAG
11551336 ACAAAAATACAAAAG
1 ACAAAAATACAAAAG
11551351 ACA
1 ACA
11551354 TAATAGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.24
15 20 0.69
16 2 0.07
ACGTcount: A:0.73, C:0.15, G:0.08, T:0.04
Consensus pattern (15 bp):
ACAAAAATACAAAAG
Found at i:11551339 original size:22 final size:22
Alignment explanation
Indices: 11551309--11551353 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11551299 AATAAATACA
*
11551309 AAAATACAAAAAGACAAAAGAC
1 AAAAGACAAAAAGACAAAAGAC
*
11551331 AAAAGACAAAAATACAAAAGAC
1 AAAAGACAAAAAGACAAAAGAC
11551353 A
1 A
11551354 TAATAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.73, C:0.13, G:0.09, T:0.04
Consensus pattern (22 bp):
AAAAGACAAAAAGACAAAAGAC
Found at i:11560672 original size:27 final size:27
Alignment explanation
Indices: 11560640--11560712 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
11560630 GAAAAGTTTG
11560640 TAAAATTACCAAATTACCCTCAAAGGA
1 TAAAATTACCAAATTACCCTCAAAGGA
* * * *
11560667 TAAAATTATCGAAA-TACCTTCGAAGGG
1 TAAAATTA-CCAAATTACCCTCAAAGGA
* *
11560694 TAAAATGACCGAATTACCC
1 TAAAATTACCAAATTACCC
11560713 CCTTAGGGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.08
27 29 0.81
28 4 0.11
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (27 bp):
TAAAATTACCAAATTACCCTCAAAGGA
Found at i:11560775 original size:24 final size:24
Alignment explanation
Indices: 11560746--11560792 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11560736 GGCCTCGAGG
11560746 TTAAATGATTGATTTT-TCTGTGAT
1 TTAAATGATTG-TTTTGTCTGTGAT
11560770 TTAAATGATTGTTTTGTCTGTGA
1 TTAAATGATTGTTTTGTCTGTGA
11560793 ATTGTATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.53
Consensus pattern (24 bp):
TTAAATGATTGTTTTGTCTGTGAT
Found at i:11561179 original size:28 final size:27
Alignment explanation
Indices: 11561130--11561184 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
11561120 ACATCTGATA
*
11561130 CTGGTTCTGTATTGGGCTTAGGTCCAG
1 CTGGTTCTGTATTGGGCTTAGGCCCAG
11561157 CTGGTTCTGT-TGATGGGCTTAGGCCCAG
1 CTGGTTCTGTAT--TGGGCTTAGGCCCAG
11561185 TCTTTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 1 0.04
27 10 0.40
28 14 0.56
ACGTcount: A:0.11, C:0.20, G:0.35, T:0.35
Consensus pattern (27 bp):
CTGGTTCTGTATTGGGCTTAGGCCCAG
Found at i:11570338 original size:132 final size:132
Alignment explanation
Indices: 11570101--11570375 Score: 471
Period size: 132 Copynumber: 2.1 Consensus size: 132
11570091 CTTCGTTGCC
*
11570101 TAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTAGC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTAGC
* * *
11570166 TTCAATGTACTCCACTGTAACCTCAGTGAGGTAAAATCTGCCAT-CTTCGATTTGCTCCACTACT
66 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCT-GATCTGCTCCACTACT
11570230 GCT
130 GCT
* *
11570233 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTAGC
*
11570298 TTCAATGTACTCCGCTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTG
66 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTG
11570363 CT
131 CT
11570365 TAGGGAGATAA
1 TAGGGAGATAA
11570376 AATTACTGGC
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 133 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTAGC
TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTG
CT
Found at i:11570383 original size:88 final size:88
Alignment explanation
Indices: 11570278--11570463 Score: 302
Period size: 88 Copynumber: 2.1 Consensus size: 88
11570268 ACTGCTGCCC
* *
11570278 AGGGAGATAGAATTACTGGCTTCAATGTACTCCGCTGTAACCTCAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATC
*
11570343 C-CTGATCTGCTCCACTACTGCTT
66 CTC-AATCTGCTCCACTACTGCTT
*
11570366 AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATC
* *
11570431 TTCAATCTGCTCCACTATTGCTT
66 CTCAATCTGCTCCACTACTGCTT
11570454 AGGGAGATAA
1 AGGGAGATAA
11570464 GATCTGTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 90 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATC
CTCAATCTGCTCCACTACTGCTT
Found at i:11570458 original size:132 final size:132
Alignment explanation
Indices: 11570366--11570705 Score: 574
Period size: 132 Copynumber: 2.6 Consensus size: 132
11570356 ACTACTGCTT
* * *
11570366 AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGAGAGGTAAAATCCGCCATC
* *
11570431 TTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
11570496 CC
131 CC
11570498 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGAGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGAGAGGTAAAATCCGCCAT-
* * *
11570563 CTT-GATCTACTCCACTACTGTTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
11570627 CCC
130 CCC
* *
11570630 AGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGAGAGGTAAAATCCGCCATC
11570695 TTCGATCTGCT
66 TTCGATCTGCT
11570706 TCGCTGTCAA
Statistics
Matches: 195, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
131 3 0.02
132 189 0.97
133 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGAGAGGTAAAATCCGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
CC
Found at i:11570538 original size:220 final size:220
Alignment explanation
Indices: 11570127--11570595 Score: 767
Period size: 220 Copynumber: 2.1 Consensus size: 220
11570117 GTAATCTTCA
* * ** * *
11570127 ATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
* * *
11570192 TGAGGTAAAATCTGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
*
11570257 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCGCTGTAACCTC
131 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
* *
11570322 AGGGAGGTAAAATCTGCCATCCCTG
196 AGAGAGGTAAAATCCGCCATCCCTG
* * *
11570347 ATCTGCTCCACTACTGCTTAGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
*
11570412 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
*
11570477 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTT
131 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
*
11570542 AGAGAGGTAAAATCCGCCATCCTTG
196 AGAGAGGTAAAATCCGCCATCCCTG
*
11570567 ATCTACTCCACTACTGTTTAGGGAGATAA
1 ATCTACTCCACTACTGCTTAGGGAGATAA
11570596 GATCTATAAT
Statistics
Matches: 229, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 229 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (220 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
AGAGAGGTAAAATCCGCCATCCCTG
Found at i:11602479 original size:27 final size:27
Alignment explanation
Indices: 11602449--11602505 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
11602439 GAATAGTGAC
*
11602449 TCGGGAAGTTAAATAACTAAGAAGTAA
1 TCGGGAAGTTAAAGAACTAAGAAGTAA
11602476 TCGGGAAGTTAAAGAACTAAGAAGTAA
1 TCGGGAAGTTAAAGAACTAAGAAGTAA
11602503 TCG
1 TCG
11602506 AGTGCCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.21
Consensus pattern (27 bp):
TCGGGAAGTTAAAGAACTAAGAAGTAA
Found at i:11608425 original size:6 final size:6
Alignment explanation
Indices: 11608409--11608464 Score: 60
Period size: 7 Copynumber: 8.8 Consensus size: 6
11608399 TTCCACCATT
*
11608409 TTTTTA CTTTTTA TTTTTA -TTTTA TTTATTA TTTTTA CTTTTCTA TTTATA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA -TTTT-TA TTTTTA
11608460 TTTTT
1 TTTTT
11608465 GTATATTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
5 5 0.12
6 17 0.40
7 19 0.44
8 2 0.05
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:11608440 original size:18 final size:19
Alignment explanation
Indices: 11608410--11608464 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
11608400 TCCACCATTT
11608410 TTTTACTTT-TTATTTTTA-
1 TTTTA-TTTATTATTTTTAC
11608428 TTTTATTTATTATTTTTAC
1 TTTTATTTATTATTTTTAC
11608447 TTTTCTATTTA-TATTTTT
1 -TTT-TATTTATTATTTTT
11608465 GTATATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.09
18 14 0.42
20 10 0.30
21 6 0.18
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTTATTATTTTTAC
Found at i:11608464 original size:14 final size:13
Alignment explanation
Indices: 11608408--11608482 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 13
11608398 CTTCCACCAT
*
11608408 TTTTTTACTTTTTA
1 TTTTTTA-TTTATA
11608422 -TTTTTATTT-TA
1 TTTTTTATTTATA
* *
11608433 TTTATTATTTTTA
1 TTTTTTATTTATA
*
11608446 CTTTTCTATTTATA
1 -TTTTTTATTTATA
11608460 TTTTTGTATATTATA
1 TTTTT-TAT-TTATA
11608475 TTTTTTAT
1 TTTTTTAT
11608483 GCCTAATTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.04
12 11 0.22
13 12 0.24
14 16 0.31
15 10 0.20
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTTTATTTATA
Found at i:11613342 original size:21 final size:20
Alignment explanation
Indices: 11613284--11613342 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
11613274 ATCACATATC
*
11613284 TAATAATTTCTCAAT-TAAAT
1 TAATAATTT-TAAATATAAAT
* *
11613304 TAATTATTATTAATTATAAAT
1 TAATAATT-TTAAATATAAAT
11613325 TAATAATTTGTAAATATA
1 TAATAATTT-TAAATATA
11613343 CGAGGAGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATAATTTTAAATATAAAT
Found at i:11620114 original size:41 final size:41
Alignment explanation
Indices: 11620057--11620135 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
11620047 TATTCGCCCA
* * *
11620057 TTGTACTTTGTATTGAGTGATTTTAGATTATAGTTGGTATG
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTATG
*
11620098 TTGTACTTTGTTTTGAGTGATTCTACACTATAGTTGGT
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGT
11620136 TAAACATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.20, C:0.06, G:0.23, T:0.51
Consensus pattern (41 bp):
TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTATG
Found at i:11625524 original size:17 final size:17
Alignment explanation
Indices: 11625504--11625537 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11625494 AATATTAAGA
11625504 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11625521 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11625538 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:11625628 original size:120 final size:119
Alignment explanation
Indices: 11625446--11625677 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 119
11625436 TTTTATAGTA
* *
11625446 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
11625511 TAAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
66 TAAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
* *
11625565 TTATAGTATTTTATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTTA
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATA-TAAGAATATCTAATATTAAGAATTTTA
11625630 TTAAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAAA
65 TTAAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAAA
11625678 ATATGATTAA
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
119 34 0.31
120 74 0.69
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (119 bp):
TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
TAAATTATATATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
Found at i:11625644 original size:17 final size:17
Alignment explanation
Indices: 11625624--11625657 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11625614 AATATTAAGA
11625624 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11625641 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11625658 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:11630539 original size:107 final size:107
Alignment explanation
Indices: 11630353--11630565 Score: 408
Period size: 107 Copynumber: 2.0 Consensus size: 107
11630343 TTGGTTTGAA
*
11630353 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTTGTTTTAGTCATTCAATT
1 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
*
11630418 GGAAATAACTTTTCCCTATACTCATATACAAATATGTATTTG
66 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTTG
11630460 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
1 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
11630525 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTT
66 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTT
11630566 ATAACAAATT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (107 bp):
TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTTG
Found at i:11631199 original size:16 final size:16
Alignment explanation
Indices: 11631178--11631216 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11631168 TTGCATTATT
* *
11631178 ATTACAGGTTTATTCC
1 ATTACAGATATATTCC
*
11631194 ATTACATATATATTCC
1 ATTACAGATATATTCC
11631210 ATTACAG
1 ATTACAG
11631217 CCCTATTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTACAGATATATTCC
Found at i:11631281 original size:20 final size:19
Alignment explanation
Indices: 11631258--11631296 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11631248 CCAAACAAAT
11631258 AAAAAATAATATAATAACCC
1 AAAAAATAATATAA-AACCC
* *
11631278 AAAACATTATATAAAACCC
1 AAAAAATAATATAAAACCC
11631297 TTTTAGGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATAATATAAAACCC
Found at i:11631508 original size:19 final size:20
Alignment explanation
Indices: 11631466--11631509 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11631456 TTATTTATAA
*
11631466 TATATATTTAAAATTTGATC
1 TATATATTTAAAATATGATC
* *
11631486 TATATATTT-TAATATGATT
1 TATATATTTAAAATATGATC
11631505 TATAT
1 TATAT
11631510 TAAATCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TATATATTTAAAATATGATC
Found at i:11632119 original size:19 final size:19
Alignment explanation
Indices: 11632095--11632131 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11632085 TAATAAACAT
*
11632095 TAAAAAATTATTTTAAAAA
1 TAAAAAAATATTTTAAAAA
11632114 TAAAAAAATATTTTAAAA
1 TAAAAAAATATTTTAAAA
11632132 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAAATATTTTAAAAA
Found at i:11649695 original size:30 final size:30
Alignment explanation
Indices: 11649633--11649695 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11649623 ACTTATTTTA
**
11649633 TTGTTAATTTTATTATTATTTTAAAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
11649663 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
11649693 TTG
1 TTG
11649696 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:11649832 original size:11 final size:11
Alignment explanation
Indices: 11649816--11649846 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11649806 TATATATATT
11649816 TAAAAATTATA
1 TAAAAATTATA
*
11649827 TAAAAATAATA
1 TAAAAATTATA
11649838 TAAAAATTA
1 TAAAAATTA
11649847 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:11653724 original size:579 final size:578
Alignment explanation
Indices: 11652128--11655024 Score: 4830
Period size: 579 Copynumber: 5.0 Consensus size: 578
11652118 ACCATGTGTG
* *
11652128 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTTTAAACTGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * *
11652193 GGCACACACGGTCGTGTCGTAGGCTATGTGCTAGGTCATGTGGATATGCACCTATAATCAATAAT
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
* *
11652258 TACACACGGTCGTACGTGGTGACTGTGTGTGGCACATGGTCGTGTGCACCCTTTTTGACCCCTTA
131 TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCC-TA
* *
11652323 AATCAAGCAATGTCATGCATTATTCCTTGCATAACAAGACATGCCATATCTAGATCAATTCCTAA
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
* *
11652388 GTTCAAAAACACATTTAAATCATCAAGTACATGCTAAAATTTCATTCATTTCACTCCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
*
11652453 ATGTCATTCAAATGTACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
11652518 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
11652583 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
*
11652648 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAATATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* *
11652707 TATTCGAAGTTGGGTCATACGACAGTGTCGTAGGCCGTATTCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* *
11652772 GGCACACACGGTCGTGTCGTATGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
* *
11652837 TATACACGGTCGTGTGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
131 TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
* * *
11652902 ATCAAGTAATGTCATGCATTATTCCTTGCACAACAAGACATGACATATCTGGATCAATTCCTAGG
196 ATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAGG
*
11652967 TTCAAAAACACATTTAAATCATCAAATACATG-TGAAAATTTCATTCATTTCACACCTAACCAAT
261 TTCAAAAACACATTTAAATCATCAAATACATGCT-AAAATTTCATTCATTTCACGCCTAACCAAT
11653031 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
**
11653096 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAGTATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
11653161 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
11653226 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* * * * * *
11653285 TATTCGAAGTTGGGTCACACAACAGTGTCATAGGTCGTGTGCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * * *
11653350 GGCTCACACAGTCATGTCGCAGGCCATGTGTTAGGCCGTGTAGATACTGCACCTATAATCAATAA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATA-TGCACCTATAATCAATAA
* * * *
11653415 TTACACAAGGCCGTGCGTGGTGACTGTATGTGGCACATGGCCGTATGCACCCTTTTTGACCCCTA
130 TTACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTA
* * * *
11653480 AATCAAGCAATGTCATGCATTATTCCTTGCACAATAAGACATTCCATATCTAGATGAAATCCTAG
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
* * *
11653545 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAATTTTAATTCATTTCACGTCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
* * *
11653610 ATGCCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGTTAAGTAAGCACATGG
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
11653675 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
*
11653740 TACCATTTCAAAGTATTAACACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
*
11653805 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTATA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* * *** * * * *
11653864 TATTCGAAGTTGGGTCACACAACAGTGTTACAAGCCGTGTGCTAGACCGTCTAACAATCTGTTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * * * * *
11653929 GGCTCACATGGTCGTGTTGCAAGCCATGTGCTAGGCTGTGTGGATATTGCA-CTGATAATCAATA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATA-TGCACCT-ATAATCAATA
*
11653993 ATTACACACGG-CTGTGCGTGGTGACTGTGTGTGGTACATGGCCGTGTGCACCCTTTTTGACCCC
129 ATTACACACGGTC-GTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCC
* * *
11654057 TAAATCAAGTAATGTCATGCATTGTTCCTTGCACAACAAGACATGCCATATTTAGATCAATTCCT
193 TAAATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCT
* * * *
11654122 AGGCTCAAAAACACATTTAAATCATCAAATACATGTTAAAATTTAATTCATTTCACGCCTAACTA
258 AGGTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCA
* * * * *
11654187 ATATGCCATTCAAATGCACCACAATTAAATATCAGTAAATTACTAATTTAGCTAAGTAAACACAT
323 ATATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACAT
11654252 GACATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAA
388 GACATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAA
11654317 CTTACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACT
453 CTTACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACT
* *
11654382 TTAAACACATATTCAAAACCAAACATTTCACTAGAAACACCATTATAATATAACATTTACA
518 TTAAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
*
11654443 TATTCAAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* *
11654508 GGCACACACGGTCGTGTCGCATGCTATGTGCTAGGCCGTGT-GCATATGCACCTATAACCAATAA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAG-ATATGCACCTATAATCAATAA
* *
11654572 TTACACACGGTCGTGTGTGGTGACTGTGTGTGACACATGGCCGTGTGCACCCTTTTTGACCCCTA
130 TTACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTA
* * *
11654637 AATCAAGCAATGTCATGTATTATTCCTTGCATAACAAGACATGGCATATCTAGATCAATTCCTAG
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
11654702 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
*
11654767 ATGTCATTCAAATGTACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
11654832 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
* *
11654897 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCTAACCAAAAATACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
* *
11654962 AAACCCATATTCAGAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
11655021 TATT
1 TATT
11655025 TACAACAAAA
Statistics
Matches: 2166, Mismatches: 144, Indels: 17
0.93 0.06 0.01
Matches are distributed among these distances:
577 1 0.00
578 915 0.42
579 1249 0.58
580 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (578 bp):
TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
ATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAGG
TTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAATA
TGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGAC
ATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACTT
ACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTTA
AACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
Found at i:11655616 original size:20 final size:20
Alignment explanation
Indices: 11655551--11655673 Score: 97
Period size: 20 Copynumber: 6.2 Consensus size: 20
11655541 GCATCATAGA
* *
11655551 TGCATAACAGAAGCATCGAAG
1 TGCA-AACAGAGGCACCGAAG
* *
11655572 TACAAACAGAGACA-CGAATG
1 TGCAAACAGAGGCACCGAA-G
* * *
11655592 TGCAATCAGCGGCACTGAAG
1 TGCAAACAGAGGCACCGAAG
**
11655612 TGCAAACAGAGATACCGAAG
1 TGCAAACAGAGGCACCGAAG
* * *
11655632 TG-TAATAGAGGCACCAAAG
1 TGCAAACAGAGGCACCGAAG
*
11655651 TGCAAACAGAGGCACTGAAG
1 TGCAAACAGAGGCACCGAAG
11655671 TGC
1 TGC
11655674 GCGCATACTG
Statistics
Matches: 77, Mismatches: 22, Indels: 7
0.73 0.21 0.07
Matches are distributed among these distances:
19 18 0.23
20 53 0.69
21 6 0.08
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (20 bp):
TGCAAACAGAGGCACCGAAG
Done.