Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 35 of 202
Found at i:10319412 original size:30 final size:29
Alignment explanation
Indices: 10319362--10319421 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
10319352 TCGCAAGTCT
10319362 AATTAAACTTTTTATTTTTTA-TATTATGA
1 AATTAAACTTTTTATTTTTTACTA-TATGA
*
10319391 AATTATAA-TTTTTTTTCTTTTACTATATGA
1 AATTA-AACTTTTTATT-TTTTACTATATGA
10319421 A
1 A
10319422 GTTGGTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 12 0.44
30 13 0.48
31 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (29 bp):
AATTAAACTTTTTATTTTTTACTATATGA
Found at i:10319833 original size:2 final size:2
Alignment explanation
Indices: 10319826--10319867 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10319816 TTTGATTTTG
10319826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10319868 TGGCATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10323834 original size:32 final size:32
Alignment explanation
Indices: 10323793--10323855 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
10323783 AACCCCTCTT
10323793 CACAGAACAGAAATAAGTAAGGGCTTAAGGGC
1 CACAGAACAGAAATAAGTAAGGGCTTAAGGGC
10323825 CACAGAACAGAAATAAGTAAGGGCTTAAGGG
1 CACAGAACAGAAATAAGTAAGGGCTTAAGGG
10323856 ATCCCCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.29, T:0.13
Consensus pattern (32 bp):
CACAGAACAGAAATAAGTAAGGGCTTAAGGGC
Found at i:10328626 original size:21 final size:21
Alignment explanation
Indices: 10328585--10328630 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
10328575 ATCCCTCATG
*
10328585 TTTTTTTGGTATTCCTATATAA
1 TTTTTTTGGTACTCCTATAT-A
10328607 TTTTTTT-GTACTCTCT-TATA
1 TTTTTTTGGTACTC-CTATATA
10328627 TTTT
1 TTTT
10328631 GGGTACTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.17, C:0.11, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTTTTGGTACTCCTATATA
Found at i:10328665 original size:20 final size:19
Alignment explanation
Indices: 10328640--10328736 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 19
10328630 TGGGTACTCG
10328640 TATTTTTTAGTATTCCCTCA
1 TATTTTTT-GTATTCCCTCA
* *
10328660 TATTTTTTGATAATCCCTAA
1 TATTTTTTG-TATTCCCTCA
*
10328680 TATTTTTTTGGTA--CTCTCA
1 TA-TTTTTT-GTATTCCCTCA
* *
10328699 TTTTTTTTTGTATTTCCTCA
1 -TATTTTTTGTATTCCCTCA
*
10328719 TAATTTTTTGTATGCCCT
1 T-ATTTTTTGTATTCCCT
10328737 AAGAATTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
18 3 0.05
19 12 0.20
20 36 0.60
21 8 0.13
22 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.58
Consensus pattern (19 bp):
TATTTTTTGTATTCCCTCA
Found at i:10329314 original size:20 final size:20
Alignment explanation
Indices: 10329272--10329316 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10329262 TTTTGTATAC
*
10329272 TTTTTAGTATTACCTCATAA
1 TTTTTAGTATTACCGCATAA
** *
10329292 TTTTTAGTATTTTCGCATGA
1 TTTTTAGTATTACCGCATAA
10329312 TTTTT
1 TTTTT
10329317 TTTACTTTTT
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:10331151 original size:2 final size:2
Alignment explanation
Indices: 10331144--10331174 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10331134 ATACTATGAT
10331144 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10331175 TTTGATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10337843 original size:28 final size:27
Alignment explanation
Indices: 10337803--10337878 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 27
10337793 TTTATTCAGT
* **
10337803 AAAACTCCTATTTTATTGGGATTGAATC
1 AAAACTCC-ATTTTATTGGGATTAAAAA
10337831 AAAACTCTCATTTTATTGGGATTAAAAA
1 AAAACTC-CATTTTATTGGGATTAAAAA
10337859 AAAACTCCCATTTTATTGGG
1 AAAACT-CCATTTTATTGGG
10337879 GTTCATGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAACTCCATTTTATTGGGATTAAAAA
Found at i:10341860 original size:25 final size:25
Alignment explanation
Indices: 10341830--10341902 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
10341820 TAAGCCCTCT
10341830 CGAGCTTCCCGTTATATAGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
* *
10341855 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
* *
10341880 CTAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGTTCTT
10341903 AAGAGTATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 7 0.17
25 35 0.83
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGTTCTTG
Found at i:10341981 original size:25 final size:25
Alignment explanation
Indices: 10341953--10342049 Score: 117
Period size: 26 Copynumber: 3.8 Consensus size: 25
10341943 GCACACCGCA
* *
10341953 GCTCTTATGAGCGTCCCG-TTATATG
1 GCTCTTGTGAGCTTCCCGATTA-ATG
*
10341978 GCTCTTCGTGAGCTTCCCGATTAAAG
1 GCTCTT-GTGAGCTTCCCGATTAATG
10342004 GCTCTTTGTGAGCTTCCCGATTAATG
1 GCTC-TTGTGAGCTTCCCGATTAATG
10342030 GCTCTCTG-GAGCTTCCCGAT
1 GCTCT-TGTGAGCTTCCCGAT
10342050 ATGACTCACT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
25 19 0.30
26 40 0.62
27 5 0.08
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (25 bp):
GCTCTTGTGAGCTTCCCGATTAATG
Found at i:10342092 original size:25 final size:25
Alignment explanation
Indices: 10342014--10342097 Score: 61
Period size: 25 Copynumber: 3.4 Consensus size: 25
10342004 GCTCTTTGTG
* * *
10342014 AGCTTCCCGAT-TAATGGCTCTCTGG
1 AGCTTCCCGATAT-ATAGCTATCTGA
*
10342039 AGCTTCCCGATAT-GA-CTCA-CTTGA
1 AGCTTCCCGATATATAGCT-ATC-TGA
10342063 A-CTTCCCGATATATAGCTATCTGA
1 AGCTTCCCGATATATAGCTATCTGA
*
10342087 AGCTTCTCGAT
1 AGCTTCCCGAT
10342098 TAATGGCTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
23 14 0.30
24 9 0.20
25 22 0.48
26 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGATATATAGCTATCTGA
Found at i:10342115 original size:25 final size:25
Alignment explanation
Indices: 10341961--10342115 Score: 95
Period size: 26 Copynumber: 6.2 Consensus size: 25
10341951 CAGCTCTTAT
* * *
10341961 GAGCGTCCCG-TTATATGGCTCTTCG
1 GAGCTTCCCGATTA-ATGGCTATTTG
* *
10341986 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -GAGCTTCCCGATTAATGGCTATTTG
* *
10342012 TGAGCTTCCCGATTAATGGCTCTCTG
1 -GAGCTTCCCGATTAATGGCTATTTG
* *
10342038 GAGCTTCCCGA-T-ATGACTCACTT-
1 GAGCTTCCCGATTAATGGCT-ATTTG
* * *
10342061 GAACTTCCCGA-TATATAGCTATCTG
1 GAGCTTCCCGATTA-ATGGCTATTTG
* * *
10342086 AAGCTTCTCGATTAATGGCTTTTTG
1 GAGCTTCCCGATTAATGGCTATTTG
10342111 GAGCT
1 GAGCT
10342116 ACCTGTTATT
Statistics
Matches: 102, Mismatches: 21, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
23 16 0.16
24 4 0.04
25 35 0.34
26 44 0.43
27 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTATTTG
Found at i:10342163 original size:48 final size:49
Alignment explanation
Indices: 10342111--10342213 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
10342101 TGGCTTTTTG
* *
10342111 GAGCTACCTGTTATTT-GCTCGCACGAGCTTCCCG-ACTATGGCTCTCAT
1 GAGCTACCTGTTATTTAGCTCGCACAAGCTTCCCGTAC-ATGGCTCACAT
* * *
10342159 GAGCTTCCTGTTATTTAGCTCGGATAAGCTTCCCGTTACATGGCTCACAT
1 GAGCTACCTGTTATTTAGCTCGCACAAGCTTCCCG-TACATGGCTCACAT
10342209 GAGCT
1 GAGCT
10342214 TCCCATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 15 0.32
49 15 0.32
50 15 0.32
51 2 0.04
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.32
Consensus pattern (49 bp):
GAGCTACCTGTTATTTAGCTCGCACAAGCTTCCCGTACATGGCTCACAT
Found at i:10342212 original size:50 final size:48
Alignment explanation
Indices: 10342111--10342230 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 48
10342101 TGGCTTTTTG
* * *
10342111 GAGCTACCTGTTATTTGCTCGCACGAGCTTCCCGACTATGGCTCTCAT
1 GAGCTTCCTGTTATTTGCTCGCACAAGCTTCCCGACTATGGCTCACAT
* *
10342159 GAGCTTCCTGTTATTTAGCTCGGATAAGCTTCCCGTTAC-ATGGCTCACAT
1 GAGCTTCCTGTTATTT-GCTCGCACAAGCTTCCCG--ACTATGGCTCACAT
**
10342209 GAGCTTCCCATTATTTGGCTCG
1 GAGCTTCCTGTTATTT-GCTCG
10342231 AGAATGTGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 15 0.25
49 15 0.25
50 29 0.48
51 2 0.03
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.33
Consensus pattern (48 bp):
GAGCTTCCTGTTATTTGCTCGCACAAGCTTCCCGACTATGGCTCACAT
Found at i:10342227 original size:25 final size:25
Alignment explanation
Indices: 10342111--10342229 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
10342101 TGGCTTTTTG
* * * *
10342111 GAGCTACCTGTTATTT-GCTCGCAC
1 GAGCTTCCCGTTATTTGGCTCACAT
* *
10342135 GAGCTTCCCG--ACTATGGCTCTCAT
1 GAGCTTCCCGTTA-TTTGGCTCACAT
* * **
10342159 GAGCTTCCTGTTATTTAGCTCGGAT
1 GAGCTTCCCGTTATTTGGCTCACAT
* **
10342184 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTATTTGGCTCACAT
*
10342209 GAGCTTCCCATTATTTGGCTC
1 GAGCTTCCCGTTATTTGGCTC
10342230 GAGAATGTGC
Statistics
Matches: 70, Mismatches: 21, Indels: 7
0.71 0.21 0.07
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 23 0.33
25 43 0.61
26 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATTTGGCTCACAT
Found at i:10344284 original size:91 final size:91
Alignment explanation
Indices: 10344108--10344287 Score: 261
Period size: 91 Copynumber: 2.0 Consensus size: 91
10344098 TGTTATTGGG
*
10344108 GGAGAATACTTAGCCAACGAGCTTTGCACTATGTGCATCTGGCATGTTATCAGTTGGAAAGCTCT
1 GGAGAATACTTAGCCAACGAGCTTTGCACTATGTGCATCTAGCATGTTATCAGTTGGAAAGCTCT
* **
10344173 TATGAGTAAACTAATGTGTTATCGAC
66 TATGAGCAAACTAACATGTTATCGAC
* * * *
10344199 GGAGAATACTTAGGCTACGAGGTTTGCACTATGTGCATCTAGCATGTTATCGGTTGGAAAGCTCT
1 GGAGAATACTTAGCCAACGAGCTTTGCACTATGTGCATCTAGCATGTTATCAGTTGGAAAGCTCT
* **
10344264 TATGAGCAATCTGGCATGTTATCG
66 TATGAGCAAACTAACATGTTATCG
10344288 GATGATTACT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (91 bp):
GGAGAATACTTAGCCAACGAGCTTTGCACTATGTGCATCTAGCATGTTATCAGTTGGAAAGCTCT
TATGAGCAAACTAACATGTTATCGAC
Found at i:10349288 original size:288 final size:286
Alignment explanation
Indices: 10348758--10349335 Score: 951
Period size: 288 Copynumber: 2.0 Consensus size: 286
10348748 GATTAGAGTT
* *
10348758 AAGTGAGTTTATAAGATTAAATTTGATGAAAACGAAAAAGTGAATGAACACAAGGCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACGAAAAAGAGAATGAACACAAGGCCAAGCTTGT
10348823 AGTTAAGGAGTATGCATAACAACATGGGGTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
66 AGTTAAGGAGTATGCATAACAACATGGGGTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
* *
10348888 TAGACAATTCAATTAGTGATAGCACTTGCAACTCAAAGGGGATGGTCCATATACTAACTAGACAA
131 TAAACAATTCAATTAGTGATAGCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
* * * *
10348953 GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGTTTATGTTT
196 GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTATGGAACAATCTTGTGGTTATCTGT
10349018 AAAAGGGAGGTGAGCAAAAGGATTAC
261 AAAAGGGAGGTGAGCAAAAGGATTAC
* *
10349044 AAGTAAGTTTATAAGATTAAATTTGATGAAAATGAAAAAGAGAATGAACACAAGTCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACGAAAAAGAGAATGAACACAAGGCCAAGCTTGT
* * *
10349109 A-TTGAAGGGGTATGCATAACAACATGGGGTGGATGACATTGAATTTTTTACACCTGTGACATGT
66 AGTT-AAGGAGTATGCATAACAACATGGGGTGGATGACATAGAAGTTTTTAC-CC-GTGACATGT
* *
10349173 ATATAAACAATTCAATTAGTGATAGCACTTGCATCTCAAAAGGGATGGTCCATATACTAACTAGA
128 AAATAAACAATTCAATTAGTGATAGCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGA
* * *
10349238 CAAGTTAGCATTTTTTATATGGTGAGTTGCATGAAATGTTTTTATGGAACAATCTTGTGGTTATC
193 CAAGTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTATGGAACAATCTTGTGGTTATC
*
10349303 TGTAAAAGGGGGGTGAGCAAAAGGATTAC
258 TGTAAAAGGGAGGTGAGCAAAAGGATTAC
10349332 AAGT
1 AAGT
10349336 TAAAGAAGGC
Statistics
Matches: 270, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
285 2 0.01
286 106 0.39
287 2 0.01
288 160 0.59
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (286 bp):
AAGTAAGTTTATAAGATTAAATTTGATGAAAACGAAAAAGAGAATGAACACAAGGCCAAGCTTGT
AGTTAAGGAGTATGCATAACAACATGGGGTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
TAAACAATTCAATTAGTGATAGCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTATGGAACAATCTTGTGGTTATCTGT
AAAAGGGAGGTGAGCAAAAGGATTAC
Found at i:10350238 original size:44 final size:44
Alignment explanation
Indices: 10350189--10350282 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
10350179 TCCATTTTGG
* *
10350189 CTTGCACCTACTCAAGCTTGCATTTAGACCGT-CTGCCACTTCGA
1 CTTGCACCCACTCAAGCTTGCATTTAGACCATCCT-CCACTTCGA
*** * *
10350233 CTTGCACCCACTTGGGTTTGCATTTAGACTATCCTCCACTTCGA
1 CTTGCACCCACTCAAGCTTGCATTTAGACCATCCTCCACTTCGA
10350277 CTTGCA
1 CTTGCA
10350283 ATTCAATAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (44 bp):
CTTGCACCCACTCAAGCTTGCATTTAGACCATCCTCCACTTCGA
Found at i:10350528 original size:64 final size:64
Alignment explanation
Indices: 10350427--10350569 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 64
10350417 ATATGTCGTT
* * * * * *
10350427 GAGCTCACACCTTTGACAGACTCGCAGCTTTGCATATTGTCTTTAGCAGGCTCGCAACTATACA
1 GAGCTCACACCTTTAACAGACTCGCAGATTTGCATATTATCTTCAACACGCTCGCAACTATACA
* *
10350491 GAGCTCACACCTTTAACAGACTCGCATATTTGCATATTATCTTCAACACGCTTGCAACTATACA
1 GAGCTCACACCTTTAACAGACTCGCAGATTTGCATATTATCTTCAACACGCTCGCAACTATACA
*
10350555 GGGCT-AGCACCTTTA
1 GAGCTCA-CACCTTTA
10350570 CAACCCGCAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.01
64 68 0.99
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (64 bp):
GAGCTCACACCTTTAACAGACTCGCAGATTTGCATATTATCTTCAACACGCTCGCAACTATACA
Found at i:10350650 original size:13 final size:13
Alignment explanation
Indices: 10350634--10350659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10350624 CTTTGCATAC
10350634 TGTCTTCAACAGG
1 TGTCTTCAACAGG
10350647 TGTCTTCAACAGG
1 TGTCTTCAACAGG
10350660 CTCGCAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:10354900 original size:112 final size:113
Alignment explanation
Indices: 10354745--10354978 Score: 280
Period size: 112 Copynumber: 2.1 Consensus size: 113
10354735 ATCTGAAGAT
* * * *
10354745 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGTTTATGGAAAA-ACG-TCGC
1 CAAAACGCATCGTTTTGATCTCGATGTATACTAGAATTAGTGGCGCTTA-CGAAAACACGCT-GC
*
10354808 TAAAGGAAGTATTAGCGGAGCATT-GCAGAAAGCGCCGTAA-AAATCTTAAC
64 TAAAGGAAGTATTAGCGGAGC-TTACCA-AAAGCGCCGTAACAAATCTTAAC
* * * * *
10354858 GAAAACGCATCGTTTT-ATCTCGCTGTATATTAGCATTAGTGGCGCTTACGAAAACCCGCTGCTA
1 CAAAACGCATCGTTTTGATCTCGATGTATACTAGAATTAGTGGCGCTTACGAAAACACGCTGCTA
* * *
10354922 AAGGAAGTATTAGCGGCGCTTACCAAAAGCGCCGTAACATATGTTAAC
66 AAGGAAGTATTAGCGGAGCTTACCAAAAGCGCCGTAACAAATCTTAAC
10354970 CAAAACGCA
1 CAAAACGCA
10354979 AAGTTTGGTC
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
111 19 0.18
112 68 0.66
113 16 0.16
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (113 bp):
CAAAACGCATCGTTTTGATCTCGATGTATACTAGAATTAGTGGCGCTTACGAAAACACGCTGCTA
AAGGAAGTATTAGCGGAGCTTACCAAAAGCGCCGTAACAAATCTTAAC
Found at i:10355013 original size:112 final size:112
Alignment explanation
Indices: 10354770--10355017 Score: 254
Period size: 112 Copynumber: 2.2 Consensus size: 112
10354760 TGGTCTTGAT
* * * * *
10354770 GTATACTAGAATTAGTGGCGTTTATGGAAAA-ACG-TCGCTAAAGGAAGTATTAGCGGAGCATTG
1 GTATATTAGAATTAGTGGCGCTTA-CGAAAACCCGCT-GCTAAAGGAAGTATTAGCGGAGCATTC
* ** * * **
10354833 CAGAAAGCGCCGTAAAAATCTTAACGAAAACGCATCGTTTTATCTCGCT
64 CAGAAAGCGCCGTAAAAATCTTAACCAAAACGCAAAGTTTGATCTAGAG
* *
10354882 GTATATTAGCATTAGTGGCGCTTACGAAAACCCGCTGCTAAAGGAAGTATTAGCGGCGC-TTACC
1 GTATATTAGAATTAGTGGCGCTTACGAAAACCCGCTGCTAAAGGAAGTATTAGCGGAGCATT-CC
* * *
10354946 A-AAAGCGCCGTAACATATGTTAACCAAAACGCAAAGTTTGGTCTAGAG
65 AGAAAGCGCCGTAA-AAATCTTAACCAAAACGCAAAGTTTGATCTAGAG
*
10354994 GTATGTTAGAATTTA-TGGCGCTTA
1 GTATATTAGAA-TTAGTGGCGCTTA
10355018 TGGAAAAACG
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
111 19 0.17
112 89 0.79
113 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (112 bp):
GTATATTAGAATTAGTGGCGCTTACGAAAACCCGCTGCTAAAGGAAGTATTAGCGGAGCATTCCA
GAAAGCGCCGTAAAAATCTTAACCAAAACGCAAAGTTTGATCTAGAG
Found at i:10355229 original size:113 final size:114
Alignment explanation
Indices: 10355101--10355319 Score: 284
Period size: 113 Copynumber: 1.9 Consensus size: 114
10355091 TTAAGGGAAA
* * *
10355101 ACGCCGCTAAAGCATAATATTAGCGGCGTTTTGAG-GAAAGCGCCGCAAAATATCTTAACCAAAA
1 ACGCCGCTAAAGCATAATATTAGCGGCGTTTTCAGAG-AAGCACCGCAAAATATCGTAACCAAAA
10355165 CGCAGA-G-TTTGGTCTTGAGGTATACTAG-AATTAGTGGCGCAAAGGGTAC
65 CGCA-ACGTTTTGGTCTTGAGGTATAC-AGTAATTAGTGGCGCAAAGGGTAC
* * * * *
10355214 ACGCCGCTAAGGCATACTATTAGCGGCGTTTTCAGAGAAGCACCGCAACATTTGGTAACCAAAAC
1 ACGCCGCTAAAGCATAATATTAGCGGCGTTTTCAGAGAAGCACCGCAAAATATCGTAACCAAAAC
* * *
10355279 GCAACGTTTTTGTCTTGATGTATACAGTTATTAGTGGCGCA
66 GCAACGTTTTGGTCTTGAGGTATACAGTAATTAGTGGCGCA
10355320 TATCAAAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
112 1 0.01
113 61 0.67
114 29 0.32
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (114 bp):
ACGCCGCTAAAGCATAATATTAGCGGCGTTTTCAGAGAAGCACCGCAAAATATCGTAACCAAAAC
GCAACGTTTTGGTCTTGAGGTATACAGTAATTAGTGGCGCAAAGGGTAC
Found at i:10355646 original size:21 final size:20
Alignment explanation
Indices: 10355622--10355660 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10355612 TTTGGTCTAT
*
10355622 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
10355643 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
10355661 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:10356501 original size:14 final size:15
Alignment explanation
Indices: 10356482--10356522 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
10356472 ACACTTGTAT
10356482 GGATTTAGGGTTT-G
1 GGATTTAGGGTTTAG
*
10356496 GGATTTAAGGTTTAG
1 GGATTTAGGGTTTAG
*
10356511 GGATTTTGGGTT
1 GGATTTAGGGTT
10356523 CAGATCAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (15 bp):
GGATTTAGGGTTTAG
Found at i:10360441 original size:27 final size:27
Alignment explanation
Indices: 10360403--10360993 Score: 594
Period size: 27 Copynumber: 20.6 Consensus size: 27
10360393 CTTACATTAA
*
10360403 TTACATAACTTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
10360430 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
10360457 TTACATAACTTACAAAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
10360484 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
10360511 TTACATAACTTACATAACTTACATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
10360538 TTACATAAATTAAATAACTTACATAAATTAAATATC
1 TTAC---------ATAACTTACATAAATTAAATAAC
*
10360574 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
10360601 TTACATAACTTACAAAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
10360628 TTACATAACTTACATAAATTAAGTAACTTACATAAC
1 TTACATAACTTACATAAA-T---T-A---A-ATAAC
10360664 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
10360691 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
10360718 TTACATAACTTACAATAATTGAATAACTTACATAAC
1 TTACATAACTTAC----A-T--A-AA-TTAAATAAC
10360754 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
10360781 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
10360808 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
10360835 TTACATAACTTACATAAATGTAGTAACTTACATAAC
1 TTACATAACTTACATAAA--T--T-A---A-ATAAC
* *
10360871 TTCCATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
** *
10360898 TTACATAACTTACATAAATGTAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* * *
10360925 TTACATAACTTACATAACTTACATAAA
1 TTACATAACTTACATAAATTAAATAAC
* * *
10360952 TTAAATAACTTACATAACTTACAGT-AC
1 TTACATAACTTACATAAATTA-AATAAC
10360979 TTACATAA--TACATAA
1 TTACATAACTTACATAA
10360994 TACATAACTG
Statistics
Matches: 482, Mismatches: 45, Indels: 76
0.80 0.07 0.13
Matches are distributed among these distances:
25 7 0.01
27 361 0.75
28 6 0.01
29 2 0.00
31 6 0.01
32 6 0.01
34 2 0.00
35 5 0.01
36 87 0.18
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:10360449 original size:63 final size:63
Alignment explanation
Indices: 10360382--10360986 Score: 616
Period size: 63 Copynumber: 9.6 Consensus size: 63
10360372 TAGGGTTCAC
*
10360382 AAATTAAATAACTTACATTAA-TTACATAACTTACAAAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * * ** * *
10360445 AAATTAAGTAACTTACATAACTTACAAAAATTAAATATCTTACATAACTTACATAAATTA-AGT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACA-T
* * * *
10360508 AACTTACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAAATTAAAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
** * * * * * *
10360571 ATCTTACATAACTTACATAAATTA-AGTAACTTACATAACTTACAA-AAATTAAATATCTTACAT
1 AAATTAAATAACTTACATAACTTACA-TAACTTACATAAATTA-AATAACTTACATAACTTACAT
* * * * * * *
10360634 AACTTACATAAATTA-AGTAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * * * *
10360697 AACTTACATAAATTAAATATCTTACATAACTTACA-ATAATTGAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATA-AATTAAATAACTTACATAACTTACAT
* * * * *
10360760 AACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAATATCTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * * * *
10360823 AAATTAAATATCTTACATAACTTACATAAATGTA-GTAACTTACATAACTTCCATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACT-TACATAAATTAAATAACTTACATAACTTACAT
* * * * *
10360886 AAATTAAATATCTTACATAACTTACATAAATGTA-GTAACTTACATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACT-TACATAAATTAAATAACTTACATAACTTACAT
10360949 AAATTAAATAACTTACATAACTTACAGT-ACTTACATAA
1 AAATTAAATAACTTACATAACTTACA-TAACTTACATAA
10360987 TACATAATAC
Statistics
Matches: 473, Mismatches: 55, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
62 10 0.02
63 454 0.96
64 9 0.02
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (63 bp):
AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
Found at i:10360519 original size:90 final size:90
Alignment explanation
Indices: 10360382--10360974 Score: 827
Period size: 90 Copynumber: 6.7 Consensus size: 90
10360372 TAGGGTTCAC
*
10360382 AAATTAAATAACTTACATTAA-TTACATAACTTACAAAAATTAAATAACTTACATAACTTACATA
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATA
* * *
10360446 AATTAAGTAACTTACATAACTTACAA
65 AATTAAATATCTTACATAACTTACAT
* * * *
10360472 AAATTAAATATCTTACATAACTTACATAAATTA-AGTAACTTACATAACTTACATAACTTACATA
1 AAATTAAATAACTTACATAACTTACATAACTTACA-TAAATTAAATAACTTACATAACTTACATA
* * ** *
10360536 ACTTACATAAATTAAATAACTTACAT
65 AATTAAATATCTTACATAACTTACAT
* *
10360562 AAATT--A-AA--T--AT--CTTACATAACTTACATAAATTAAGTAACTTACATAACTTACAAAA
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
10360618 ATTAAATATCTTACATAACTTACAT
66 ATTAAATATCTTACATAACTTACAT
*
10360643 AAATTAAGTAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
10360708 ATTAAATATCTTACATAACTTACA-
66 ATTAAATATCTTACATAACTTACAT
*
10360732 ATAATTGAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATA
1 A-AATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATA
10360797 AATTAAATATCTTACATAACTTACAT
65 AATTAAATATCTTACATAACTTACAT
* * * * * *
10360823 AAATTAAATATCTTACATAACTTACATAAATGTA-GTAACTTACATAACTTCCATAACTTACATA
1 AAATTAAATAACTTACATAACTTACATAACT-TACATAAATTAAATAACTTACATAACTTACATA
10360887 AATTAAATATCTTACATAACTTACAT
65 AATTAAATATCTTACATAACTTACAT
*
10360913 AAATGT-AGTAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACA
1 AAAT-TAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACA
10360975 GTACTTACAT
Statistics
Matches: 445, Mismatches: 41, Indels: 34
0.86 0.08 0.07
Matches are distributed among these distances:
81 63 0.14
82 1 0.00
83 2 0.00
84 2 0.00
85 1 0.00
86 1 0.00
87 1 0.00
88 3 0.01
89 7 0.02
90 360 0.81
91 4 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (90 bp):
AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
ATTAAATATCTTACATAACTTACAT
Found at i:10366483 original size:21 final size:21
Alignment explanation
Indices: 10366457--10366525 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
10366447 CAACAACTTA
** *
10366457 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCACAGCGAGAG
* *
10366478 AAGCAGAGGCTATAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
10366499 AAGCAGAGGCCACAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
10366520 AAGCAG
1 AAGCAG
10366526 CGATAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCACAGCGAGAG
Found at i:10367023 original size:42 final size:42
Alignment explanation
Indices: 10366972--10367224 Score: 289
Period size: 42 Copynumber: 6.0 Consensus size: 42
10366962 TTTGTGAAAT
* * * **
10366972 AAGCGCCGCTAAAGAATACTACTTTTAGCGGCATTTTTGACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
* *
10367014 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTATTTCA
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TTTCC
* *
10367057 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTCC
* *
10367099 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
*
10367141 AAGCGCCGCTAAAGAAC-TTGA-TCTTTAGCGGCGTTTATTTCC
1 AAGCGCCGCTAAAGAACATT-ACT-TTTAGCGGCGTTTTTTTCC
* * *
10367183 TTAGCGCCGCTAAAGAAAATGA-TCTTTAGCGGCGTTTTTTTC
1 -AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTTC
10367225 TGTAAGCGCC
Statistics
Matches: 182, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.02
42 107 0.59
43 71 0.39
44 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTTCC
Found at i:10367063 original size:85 final size:84
Alignment explanation
Indices: 10366972--10367224 Score: 316
Period size: 85 Copynumber: 3.0 Consensus size: 84
10366962 TTTGTGAAAT
*
10366972 AAGCGCCGCTAAAGAATACT-A-CTTTTAGCGGCATTTTTGACCAAGCGCCGCTATAGAACATTA
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTTGACCAAGCGCCGCTATAGAACATTA
10367035 CTTTTAGCGGCGTTTTATTTCA
64 CTTTTAGCGGCGTTTT-TTTCA
* **
10367057 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTGACCAAGCGCCGCTATAGAACATTACT
*
10367122 TTTAGCGGCGTTTTTTTCT
66 TTTAGCGGCGTTTTTTTCA
* * * * * * *
10367141 AAGCGCCGCTAAAGAACTTGATCTTTAGCGGCGTTTATT-TCCTTAGCGCCGCTAAAGAAAATGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTT-TTGACC-AAGCGCCGCTATAGAACATTA
10367205 -TCTTTAGCGGCGTTTTTTTC
64 CT-TTTAGCGGCGTTTTTTTC
10367225 TGTAAGCGCC
Statistics
Matches: 152, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
84 43 0.28
85 108 0.71
86 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTGACCAAGCGCCGCTATAGAACATTACT
TTTAGCGGCGTTTTTTTCA
Found at i:10367145 original size:127 final size:127
Alignment explanation
Indices: 10366972--10367222 Score: 355
Period size: 127 Copynumber: 2.0 Consensus size: 127
10366962 TTTGTGAAAT
* *
10366972 AAGCGCCGCTAAAGAATACTACTTTTAGCGGCATTTTTGACCAAGCGCCGCTATAGAACATT-A-
1 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACCAAGCGCCGCTAAAGAAC-TTGAT
*
10367035 CTTTTAGCGGCGTTTTATTT-CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
65 C-TTTAGCGGCG-TTTATTTCCAAAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCC
* * * ** *
10367099 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACTTGATC
1 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACCAAGCGCCGCTAAAGAACTTGATC
**
10367164 TTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTT
66 TTTAGCGGCGTTTATTTCCAAAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTT
10367223 TCTGTAAGCG
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
126 9 0.08
127 100 0.91
128 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACCAAGCGCCGCTAAAGAACTTGATC
TTTAGCGGCGTTTATTTCCAAAGCGCCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCC
Found at i:10368563 original size:2 final size:2
Alignment explanation
Indices: 10368556--10368593 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10368546 ATAGTGTATG
10368556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10368594 TCGTTTGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10373201 original size:5 final size:5
Alignment explanation
Indices: 10373191--10373218 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10373181 TACAATTGAA
10373191 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
10373219 TTTTCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:10378017 original size:20 final size:20
Alignment explanation
Indices: 10377992--10378068 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 20
10377982 TAACTAAATA
10377992 TTAAAACATGAAAAAATTAT
1 TTAAAACATGAAAAAATTAT
* *
10378012 TTAAAACTTTAAAGAAA-TACT
1 TTAAAACATGAAA-AAATTA-T
* * *
10378033 TCGTAATATATGAAAAAATTAC
1 T--TAAAACATGAAAAAATTAT
*
10378055 TTAAAATATGAAAA
1 TTAAAACATGAAAA
10378069 TGCTACTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 25 0.57
21 5 0.11
22 4 0.09
23 10 0.23
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
TTAAAACATGAAAAAATTAT
Found at i:10378593 original size:22 final size:22
Alignment explanation
Indices: 10378568--10378612 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10378558 AATCGAATTC
10378568 CTTTGCACCATCATGAT-CTCCT
1 CTTTGCACC-TCATGATCCTCCT
* *
10378590 CTTTGCTCCTCATTATCCTCCT
1 CTTTGCACCTCATGATCCTCCT
10378612 C
1 C
10378613 CATTGTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.13, C:0.40, G:0.07, T:0.40
Consensus pattern (22 bp):
CTTTGCACCTCATGATCCTCCT
Found at i:10383872 original size:23 final size:23
Alignment explanation
Indices: 10383846--10383920 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
10383836 GTGTTATTGA
10383846 TCAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTTTGGCTACATT
10383869 TCAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTTTGGCTACATT
*
10383892 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTTGGCTACATT
10383915 TCAGTG
1 TCAGTG
10383921 TGACACTTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (23 bp):
TCAGTGGTAGCTTTGGCTACATT
Found at i:10395145 original size:3 final size:3
Alignment explanation
Indices: 10395137--10395167 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10395127 CACAAATGAC
10395137 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10395168 CAAGTTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10397471 original size:37 final size:37
Alignment explanation
Indices: 10397430--10397507 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
10397420 ACAAGAACAA
10397430 AAGTTCATATCAATTATGGAAACTAACCAGGAATAAG
1 AAGTTCATATCAATTATGGAAACTAACCAGGAATAAG
10397467 AAGTTCATATCAATTATGGAAACTAACCAGGAATAAG
1 AAGTTCATATCAATTATGGAAACTAACCAGGAATAAG
10397504 AAGT
1 AAGT
10397508 GCAATTCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (37 bp):
AAGTTCATATCAATTATGGAAACTAACCAGGAATAAG
Found at i:10402195 original size:18 final size:18
Alignment explanation
Indices: 10402164--10402198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10402154 AATAAGTTAG
*
10402164 GAAAATTTGGAAAAATAT
1 GAAAATTTGCAAAAATAT
*
10402182 GAAAATTTTCAAAAATA
1 GAAAATTTGCAAAAATA
10402199 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:10404121 original size:25 final size:25
Alignment explanation
Indices: 10404087--10404156 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
10404077 AATCACAATC
*
10404087 AAAGCTTCAAGCACATAATTATATA
1 AAAGCTTCAAACACATAATTATATA
* *
10404112 AAAGCTTCAAACAAATAATTATATC
1 AAAGCTTCAAACACATAATTATATA
10404137 AAAGCTTCAAACACATAATT
1 AAAGCTTCAAACACATAATT
10404157 TTTACAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAGCTTCAAACACATAATTATATA
Found at i:10404164 original size:25 final size:25
Alignment explanation
Indices: 10404086--10404164 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
10404076 AAATCACAAT
*
10404086 CAAAGCTTCAAGCACATAATTATATA
1 CAAAGCTTCAAACACATAATT-TATA
*
10404112 -AAAGCTTCAAACAAATAA-TTATA
1 CAAAGCTTCAAACACATAATTTATA
*
10404135 TCAAAGCTTCAAACACATAATTTTTA
1 -CAAAGCTTCAAACACATAATTTATA
10404161 CAAA
1 CAAA
10404165 AAACAATCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.09
24 1 0.02
25 37 0.80
26 4 0.09
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (25 bp):
CAAAGCTTCAAACACATAATTTATA
Found at i:10407500 original size:22 final size:22
Alignment explanation
Indices: 10407444--10407501 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
10407434 GTTCCAGTTT
* *
10407444 CCACATGCCCGTGT-CACTTGC
1 CCACACGCCCGTGTGCAATTGC
**
10407465 CCACACGCTTGTGTGCAATT-C
1 CCACACGCCCGTGTGCAATTGC
10407486 CTCACACGCCCGTGTG
1 C-CACACGCCCGTGTG
10407502 AAAACACTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.16, C:0.40, G:0.21, T:0.24
Consensus pattern (22 bp):
CCACACGCCCGTGTGCAATTGC
Found at i:10412562 original size:30 final size:31
Alignment explanation
Indices: 10412523--10412582 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
10412513 GGAGGTGTGA
**
10412523 TGGGAAGGGAATAAAGGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
10412554 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
10412583 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:10416559 original size:2 final size:2
Alignment explanation
Indices: 10416552--10416581 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10416542 TAAAGGGATA
10416552 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
10416582 TTACAAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10417526 original size:18 final size:17
Alignment explanation
Indices: 10417482--10417531 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
10417472 CACTAAAATA
*
10417482 TAACTCTCTCCATTCTC
1 TAACTCTCTCAATTCTC
**
10417499 TATAAACTCTCAATTCTC
1 TA-ACTCTCTCAATTCTC
10417517 TCAACTCTCTCAATT
1 T-AACTCTCTCAATT
10417532 TTATCAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 2 0.08
18 23 0.88
19 1 0.04
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (17 bp):
TAACTCTCTCAATTCTC
Found at i:10419662 original size:6 final size:6
Alignment explanation
Indices: 10419647--10419701 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
10419637 CTCAAGCACA
* * *
10419647 GAAGAT GAAGAC GAAGAC AAAAAC GAAGAC GAAGAC GAAGAC GAAGAC
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC
10419695 GAAGAC G
1 GAAGAC G
10419702 GAGGTGGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.53, C:0.15, G:0.31, T:0.02
Consensus pattern (6 bp):
GAAGAC
Found at i:10426863 original size:27 final size:28
Alignment explanation
Indices: 10426833--10426887 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10426823 TAATCGCCAC
10426833 ATGAAGCGATAA-TTTTTTTTATCAATT
1 ATGAAGCGATAATTTTTTTTTATCAATT
10426860 ATGAAGCGATAATTTTTTTTTATCAATT
1 ATGAAGCGATAATTTTTTTTTATCAATT
10426888 TAATCTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (28 bp):
ATGAAGCGATAATTTTTTTTTATCAATT
Found at i:10431506 original size:58 final size:59
Alignment explanation
Indices: 10431436--10431550 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 59
10431426 GTTATTTATT
* *
10431436 GGAGAATTTTACTGCTTGTATTGTAAGGTTTTTG-GGTGAGTAATTTATAACAAGTCGG
1 GGAGAATTTTACTGCTTGTAATGTAAGATTTTTGCGGTGAGTAATTTATAACAAGTCGG
* * * * *
10431494 GGAGAGTTTTACTGGTTGTAATGTGAGATTTTTGCGGTGCGTGATTTATAACAAGTC
1 GGAGAATTTTACTGCTTGTAATGTAAGATTTTTGCGGTGAGTAATTTATAACAAGTC
10431551 AGTGTTATCT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 29 0.59
59 20 0.41
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (59 bp):
GGAGAATTTTACTGCTTGTAATGTAAGATTTTTGCGGTGAGTAATTTATAACAAGTCGG
Found at i:10431798 original size:13 final size:13
Alignment explanation
Indices: 10431780--10431823 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
10431770 CATCTATATG
10431780 AACATAATGTCTA
1 AACATAATGTCTA
* *
10431793 AACATATTATCTA
1 AACATAATGTCTA
*
10431806 AACATACTGTCTA
1 AACATAATGTCTA
10431819 AACAT
1 AACAT
10431824 CGAATTGAAT
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:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (13 bp):
AACATAATGTCTA
Found at i:10434191 original size:12 final size:12
Alignment explanation
Indices: 10434174--10434200 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10434164 AGCATGGCAT
10434174 TCTCCATCAGTA
1 TCTCCATCAGTA
10434186 TCTCCATCAGTA
1 TCTCCATCAGTA
10434198 TCT
1 TCT
10434201 GCACACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
TCTCCATCAGTA
Found at i:10442394 original size:9 final size:9
Alignment explanation
Indices: 10442377--10442413 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10442367 TGAGTTTTCG
10442377 AATTCGAAT
1 AATTCGAAT
*
10442386 AACTCGAAT
1 AATTCGAAT
10442395 AATTCGAAT
1 AATTCGAAT
10442404 AATTCGAAT
1 AATTCGAAT
10442413 A
1 A
10442414 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10444638 original size:8 final size:8
Alignment explanation
Indices: 10444625--10444654 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
10444615 GCTCTTTGGT
10444625 TTAGATGG
1 TTAGATGG
10444633 TTAGATGG
1 TTAGATGG
10444641 TTAGATGG
1 TTAGATGG
10444649 TTAGAT
1 TTAGAT
10444655 AATTGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
TTAGATGG
Found at i:10454825 original size:9 final size:9
Alignment explanation
Indices: 10454811--10454857 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
10454801 AAAATTTAAA
10454811 AATATTTTT
1 AATATTTTT
10454820 AATATTTTT
1 AATATTTTT
*
10454829 -ATAATGTTT
1 AAT-ATTTTT
10454838 -ATATTTTT
1 AATATTTTT
*
10454846 AATAATTTT
1 AATATTTTT
10454855 AAT
1 AAT
10454858 GACTTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
AATATTTTT
Found at i:10454843 original size:17 final size:17
Alignment explanation
Indices: 10454811--10454855 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10454801 AAAATTTAAA
*
10454811 AATATTTTTAATATTTTT
1 AATAATTTT-ATATTTTT
10454829 -ATAATGTTTATATTTTT
1 AATAAT-TTTATATTTTT
10454846 AATAATTTTA
1 AATAATTTTA
10454856 ATGACTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATAATTTTATATTTTT
Found at i:10454864 original size:26 final size:26
Alignment explanation
Indices: 10454812--10454872 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10454802 AAATTTAAAA
*
10454812 ATATTTTTAATATTTTTATAATGTTT
1 ATATTTTTAATATATTTATAATGTTT
10454838 ATATTTTTAATA-ATTT-TAATGACTTT
1 ATATTTTTAATATATTTATAATG--TTT
10454864 A-ATTTTTAA
1 ATATTTTTAA
10454873 AAATAGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.16
25 11 0.34
26 16 0.50
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTTTTAATATATTTATAATGTTT
Found at i:10462174 original size:29 final size:28
Alignment explanation
Indices: 10462117--10462178 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
10462107 CACGAAGAAC
*
10462117 GAAATAAAAACTAAACTATAAATATAAAT
1 GAAA-AAAAACTAAACTATAAATAAAAAT
*
10462146 GAAAAAAAACCTAAATTA-AAAGTAAAAAT
1 GAAAAAAAA-CTAAACTATAAA-TAAAAAT
10462175 -AAAA
1 GAAAA
10462179 CTAAATAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.19
Consensus pattern (28 bp):
GAAAAAAAACTAAACTATAAATAAAAAT
Found at i:10469187 original size:2 final size:2
Alignment explanation
Indices: 10469182--10469213 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10469172 ACACACACTC
10469182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10469214 GAGATAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10481568 original size:19 final size:19
Alignment explanation
Indices: 10481498--10481568 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
10481488 AAGAGAAGAA
10481498 AAAAAAGAACAAAAATAAAGG
1 AAAAAAGAA-AAAAA-AAAGG
* *
10481519 -AAAAATAAAACAAAAAGG
1 AAAAAAGAAAAAAAAAAGG
* * *
10481537 GAAAATGTGAAAAAAAAAGG
1 AAAAAAG-AAAAAAAAAAGG
10481557 AAAAAAGAAAAA
1 AAAAAAGAAAAA
10481569 CCAAAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.13
19 12 0.31
20 22 0.56
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAAGG
Found at i:10482835 original size:22 final size:22
Alignment explanation
Indices: 10482807--10482850 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10482797 ATATATATAT
10482807 ATATAGACCTTGTTACAAACTA
1 ATATAGACCTTGTTACAAACTA
10482829 ATATAGACCTTGTTACAAACTA
1 ATATAGACCTTGTTACAAACTA
10482851 GCTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
ATATAGACCTTGTTACAAACTA
Found at i:10490572 original size:27 final size:27
Alignment explanation
Indices: 10490541--10490596 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10490531 GTTAAATCAG
10490541 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
10490568 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
10490595 TA
1 TA
10490597 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:10495274 original size:49 final size:49
Alignment explanation
Indices: 10495164--10495286 Score: 117
Period size: 49 Copynumber: 2.5 Consensus size: 49
10495154 TAACTATTAT
* * * *
10495164 TAAAC-TT-AATTACTTTAATATTAAATTTACTAAAATATTTATCTTGA
1 TAAACATTAAATTAATTTAATATTAAATTTACTAAAATATGTAGCTAGA
* * * * *
10495211 TTAATATTATATTAATTTAATATTAAATATTATTAAAATA-GTAGGTAGA
1 TAAACATTAAATTAATTTAATATTAAAT-TTACTAAAATATGTAGCTAGA
*
10495260 TAAACATTAAATTAAATTAAATATTAA
1 TAAACATTAAATT-AATTTAATATTAA
10495287 GATAACCACT
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
47 3 0.05
48 2 0.03
49 32 0.54
50 22 0.37
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (49 bp):
TAAACATTAAATTAATTTAATATTAAATTTACTAAAATATGTAGCTAGA
Found at i:10495329 original size:39 final size:36
Alignment explanation
Indices: 10495279--10495361 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
10495269 AATTAAATTA
10495279 AATATTAAGATAACCACTTTAATATTAAATTAATAAAAT
1 AATATTAAGATAACCA--TTAA-ATTAAATTAATAAAAT
* ** *
10495318 ACTATTAAGATAAGTATTAAATTAAATTATTAAAAT
1 AATATTAAGATAACCATTAAATTAAATTAATAAAAT
10495354 AATATTAA
1 AATATTAA
10495362 TTTTAGAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 22 0.56
37 4 0.10
39 13 0.33
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (36 bp):
AATATTAAGATAACCATTAAATTAAATTAATAAAAT
Found at i:10496945 original size:8 final size:8
Alignment explanation
Indices: 10496930--10496974 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
10496920 ATACAAAAAT
10496930 AAAGACAA
1 AAAGACAA
*
10496938 AAATACAA
1 AAAGACAA
10496946 AAAGAC-A
1 AAAGACAA
10496953 AAAGACAA
1 AAAGACAA
*
10496961 AAATAC-A
1 AAAGACAA
10496968 AAAGACA
1 AAAGACA
10496975 TAATAGTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.73, C:0.13, G:0.09, T:0.04
Consensus pattern (8 bp):
AAAGACAA
Found at i:10496960 original size:15 final size:15
Alignment explanation
Indices: 10496930--10496974 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
10496920 ATACAAAAAT
*
10496930 AAAGACAAAAATACAA
1 AAAGAC-AAAAGACAA
10496946 AAAGACAAAAGACAA
1 AAAGACAAAAGACAA
*
10496961 AAATACAAAAGACA
1 AAAGACAAAAGACA
10496975 TAATAGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.73, C:0.13, G:0.09, T:0.04
Consensus pattern (15 bp):
AAAGACAAAAGACAA
Found at i:10496960 original size:23 final size:22
Alignment explanation
Indices: 10496918--10496974 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
10496908 GTTTGAACTT
*
10496918 AAATACAAAA-A-TAAAGACAA
1 AAATACAAAAGACAAAAGACAA
10496938 AAATACAAAAAGACAAAAGACAA
1 AAATAC-AAAAGACAAAAGACAA
10496961 AAATACAAAAGACA
1 AAATACAAAAGACA
10496975 TAATAGTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 9 0.27
23 14 0.42
ACGTcount: A:0.74, C:0.12, G:0.07, T:0.07
Consensus pattern (22 bp):
AAATACAAAAGACAAAAGACAA
Found at i:10506330 original size:27 final size:27
Alignment explanation
Indices: 10506230--10506317 Score: 167
Period size: 27 Copynumber: 3.3 Consensus size: 27
10506220 CAAAAAGGTT
*
10506230 GTAAAATTACCAAAATATCCTCGAAGG
1 GTAAAATTACCAAAATACCCTCGAAGG
10506257 GTAAAATTACCAAAATACCCTCGAAGG
1 GTAAAATTACCAAAATACCCTCGAAGG
10506284 GTAAAATTACCAAAATACCCTCGAAGG
1 GTAAAATTACCAAAATACCCTCGAAGG
10506311 GTAAAAT
1 GTAAAAT
10506318 GACCGAATTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.20
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTCGAAGG
Found at i:10506344 original size:54 final size:54
Alignment explanation
Indices: 10506230--10506332 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
10506220 CAAAAAGGTT
* * *
10506230 GTAAAATTACCAAAATATCCTCGAAGGGTAAAATTACCAAAATACCCTCGAAGG
1 GTAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCCGAAGG
* *
10506284 GTAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCGAATTACCCCC
1 GTAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCC
10506333 TTAAGGTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCCGAAGG
Found at i:10506393 original size:24 final size:24
Alignment explanation
Indices: 10506364--10506410 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10506354 GGCCTCGAGG
*
10506364 TTAAATGATTGATTTT-TCTGTGAT
1 TTAAATGACTG-TTTTGTCTGTGAT
10506388 TTAAATGACTGTTTTGTCTGTGA
1 TTAAATGACTGTTTTGTCTGTGA
10506411 ATTGTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.51
Consensus pattern (24 bp):
TTAAATGACTGTTTTGTCTGTGAT
Found at i:10506803 original size:28 final size:28
Alignment explanation
Indices: 10506749--10506812 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
10506739 ACATATGATA
* * *
10506749 CTGGTTCTGTATTGGGCTTAGGTCCAG-
1 CTGGTTCTGTAATGGGCTTAAGCCCAGT
10506776 CTGGTTCTGTTAATGGGCTTAAGCCCAGT
1 CTGGTTCTG-TAATGGGCTTAAGCCCAGT
*
10506805 CTGTTTCT
1 CTGGTTCT
10506813 ACATCCCGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.29
28 15 0.48
29 7 0.23
ACGTcount: A:0.12, C:0.20, G:0.28, T:0.39
Consensus pattern (28 bp):
CTGGTTCTGTAATGGGCTTAAGCCCAGT
Found at i:10510141 original size:29 final size:31
Alignment explanation
Indices: 10510109--10510171 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 31
10510099 TTTTTGGGTA
10510109 TAATTTCTAT-TTG-ATTTAAT-TTTT-CTATT
1 TAATTTC-ATGTTGCATTTAATATTTTCCT-TT
10510138 TAA-TTCATGTTGCATTTAATATTTTCCTTT
1 TAATTTCATGTTGCATTTAATATTTTCCTTT
10510168 TAAT
1 TAAT
10510172 GCCATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
27 2 0.07
28 6 0.21
29 10 0.34
30 9 0.31
31 2 0.07
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (31 bp):
TAATTTCATGTTGCATTTAATATTTTCCTTT
Found at i:10517164 original size:2 final size:2
Alignment explanation
Indices: 10517157--10517189 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10517147 TGTGGTCAAG
10517157 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10517190 GTTTAGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10538454 original size:27 final size:27
Alignment explanation
Indices: 10538424--10538477 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
10538414 TAGTGACTCA
*
10538424 GGAAGTTAAATAACTAAGAAGTAATCG
1 GGAAGTTAAAGAACTAAGAAGTAATCG
*
10538451 GGAAGTTAAAGAATTAAGAAGTAATCG
1 GGAAGTTAAAGAACTAAGAAGTAATCG
10538478 AGTGCCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.22
Consensus pattern (27 bp):
GGAAGTTAAAGAACTAAGAAGTAATCG
Found at i:10539727 original size:17 final size:17
Alignment explanation
Indices: 10539705--10539745 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
10539695 TAAAAGGAAG
10539705 TTAGAGGAGTTGTCTAC
1 TTAGAGGAGTTGTCTAC
10539722 TTAGAGGAGTTGTCTAC
1 TTAGAGGAGTTGTCTAC
10539739 TGTAGAG
1 T-TAGAG
10539746 CTAAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.24, C:0.10, G:0.32, T:0.34
Consensus pattern (17 bp):
TTAGAGGAGTTGTCTAC
Found at i:10544399 original size:6 final size:6
Alignment explanation
Indices: 10544383--10544443 Score: 63
Period size: 7 Copynumber: 9.8 Consensus size: 6
10544373 TTCCACCATT
10544383 TTTTTA CTTTTTA TTTTTA -TTTTA -TTTTA TTTATTA TTTTTA CTTTTCTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA -TTTT-TA
*
10544433 TTTATA TTTTT
1 TTTTTA TTTTT
10544444 GTATATTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
5 10 0.21
6 17 0.35
7 19 0.40
8 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:10544411 original size:23 final size:24
Alignment explanation
Indices: 10544384--10544429 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10544374 TCCACCATTT
10544384 TTTTACTTT-TTATTTTTA-TTTTA
1 TTTTA-TTTATTATTTTTACTTTTA
10544407 TTTTATTTATTATTTTTACTTTT
1 TTTTATTTATTATTTTTACTTTT
10544430 CTATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 14 0.67
24 4 0.19
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTATTTATTATTTTTACTTTTA
Found at i:10544419 original size:17 final size:16
Alignment explanation
Indices: 10544391--10544422 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10544381 TTTTTTTACT
10544391 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
10544407 TTTTATTTATTATTTT
1 TTTTATTT-TTATTTT
10544423 TACTTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:10544443 original size:14 final size:13
Alignment explanation
Indices: 10544390--10544461 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
10544380 ATTTTTTTAC
10544390 TTTTTATTT-T-T
1 TTTTTATTTATAT
*
10544401 ATTTTATTT-TAT
1 TTTTTATTTATAT
* *
10544413 TTATTATTTTTACT
1 TTTTTATTTATA-T
*
10544427 TTTCTATTTATAT
1 TTTTTATTTATAT
10544440 TTTTGTATATTATAT
1 TTTT-TAT-TTATAT
10544455 TTTTTAT
1 TTTTTAT
10544462 GCCTAATTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.18
12 8 0.16
13 6 0.12
14 16 0.33
15 10 0.20
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:10550410 original size:41 final size:41
Alignment explanation
Indices: 10550353--10550431 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
10550343 TATTCACCCA
* * *
10550353 TTGTACTTTGTATTGAGTGATTTTAGATTATAGTTGGTCTG
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTCTG
10550394 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGT
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGT
10550432 TAAACATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.49
Consensus pattern (41 bp):
TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTCTG
Found at i:10557646 original size:121 final size:120
Alignment explanation
Indices: 10557462--10557695 Score: 423
Period size: 121 Copynumber: 1.9 Consensus size: 120
10557452 TTTTATAGTA
* *
10557462 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
10557527 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
66 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
* *
10557582 TTATTGTATTATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTTA
1 TTATAGTATTATATATTATGATTTTAGTAAATTAATA-TAAGAATATCTAATATTAAGAATTTTA
10557647 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
65 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
10557696 ATATGATTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
120 34 0.31
121 75 0.69
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
TTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAAGAATTTTAT
TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATT
Found at i:10557921 original size:45 final size:44
Alignment explanation
Indices: 10557836--10557929 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
10557826 ATTACAACAT
*
10557836 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
* *
10557880 CATTACATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
10557925 CATTA
1 CATTA
10557930 TGTCTCTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:10563151 original size:20 final size:19
Alignment explanation
Indices: 10563128--10563166 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10563118 CCAAACAAAT
10563128 AAAAAATAATATAATAACCC
1 AAAAAATAATATAA-AACCC
* *
10563148 AAAACATTATATAAAACCC
1 AAAAAATAATATAAAACCC
10563167 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:10575674 original size:12 final size:11
Alignment explanation
Indices: 10575655--10575685 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
10575645 TGTATAAAAC
10575655 TTATTTTATTA
1 TTATTTTATTA
10575666 TTAATTTTATTA
1 TT-ATTTTATTA
10575678 TTATTTTA
1 TTATTTTA
10575686 AAGGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:10575725 original size:30 final size:30
Alignment explanation
Indices: 10575666--10575725 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10575656 TATTTTATTA
**
10575666 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
* *
10575696 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
10575726 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGACATTTG
Found at i:10575874 original size:12 final size:11
Alignment explanation
Indices: 10575847--10575880 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10575837 TATATATATT
*
10575847 TAAAAATTATA
1 TAAAAATAATA
10575858 TAAAAATAATA
1 TAAAAATAATA
10575869 TAAAAAATAATA
1 T-AAAAATAATA
10575881 CGGGCGGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:10579720 original size:517 final size:515
Alignment explanation
Indices: 10578747--10579783 Score: 1662
Period size: 517 Copynumber: 2.0 Consensus size: 515
10578737 CTAAACCGTG
* * * *
10578747 TAACAATCTATTTTGGCTCACACAGTCATGTCGCAGGCCATGTGTTAGGTCGTGTAGATATTGCA
1 TAACAATCTATTTTGGCTCACACAGTCATGTCGCAAGCCATGTGCTAGCTCGTGTAGATACTGCA
* *
10578812 CCTATAATCAATAATTACACAAGGCCGTGCGTGGTGACCGTATGTGGCACATGGCCGTATGCATC
66 CCGATAATCAATAATTACACAAGGCCGTGCGTGGTGACCGTATGTGGCACATGGCCGTATGCACC
* *
10578877 CTTTTTGACCCCTAAATCAAGCAATGTCATGCATTATTCCTTGCACAATAAGACATTCCATATCT
131 CTTTTTGACCCCTAAATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCT
* * **
10578942 AGATCAAATCCTAGGTTCAAAAACGCATTTAAATCATCAAATACATGCTAAATTTTAATTCATTT
196 AGATCAAATCCTAGGCTCAAAAACACATTTAAATCATCAAATACATGCTAAAAATTAATTCATTT
* *
10579007 CACGCCTAACCAATATGCCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCT
261 CACGCCTAACCAATATGCCATTCAAATGCACCACAATTAAAGATCAGTAAATTACTAATTTAGCT
* * *
10579072 AAGTAAGCACATGACATTAAACATCTATTCATGCCCAACCATCAACCAAATTAACCAACGTGCAA
326 AAGTAAACACATGACATTAAACATCTATTCATGCCCAACCATCAACCAAATTAACCAAAGTACAA
10579137 ACATATTCAAAACTTACCATTTCAAAGTATTAACACTTAGCTCTTAACCATTAAGAATCAATCCA
391 ACATATTCAAAACTTACCATTTCAAAGTATTAACACTTAGCTCTTAACCATTAAGAATCAATCCA
*
10579202 ACCAAAAACACTTTAAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTA
456 ACCAAAAACACTTTAAACAC--ATTCAAAACCAAACATTTCACTAGGAACACCATTATAATA
* ** * * *
10579264 TAACAATCTGTTTTGGCTCACATGGTCGTGTTGCAAGCCATGTGCTACGCT-GTGTGGATACTGC
1 TAACAATCTATTTTGGCTCACACAGTCATGTCGCAAGCCATGTGCTA-GCTCGTGTAGATACTGC
* * * * * *
10579328 ACCGATAATCAATAATTACACACGGCTGTGCGTGGTGACTGTGTGTGGTACATGGCCGTGTGCAC
65 ACCGATAATCAATAATTACACAAGGCCGTGCGTGGTGACCGTATGTGGCACATGGCCGTATGCAC
* * * *
10579393 CCTTTTTGACCTCTAAATTAAGTAATGTCATGCATTGTTCCTTGCACAACAAGACATGCCATATC
130 CCTTTTTGACCCCTAAATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATC
* *
10579458 TAGATCAATTCCTAGGCTCAAAAACACATTTAAATCATCAAATACATGTTAAAAATTAATTCATT
195 TAGATCAAATCCTAGGCTCAAAAACACATTTAAATCATCAAATACATGCTAAAAATTAATTCATT
* *
10579523 TCACGCCTAACTAATATGCCATTCAAATGCACCACAATTAAATATCAGTAAATTACTAATTTAGC
260 TCACGCCTAACCAATATGCCATTCAAATGCACCACAATTAAAGATCAGTAAATTACTAATTTAGC
*
10579588 TAAGTAAACACATGACATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACA
325 TAAGTAAACACATGACATTAAACATCTATTCATGCCCAACCATCAACCAAATTAACCAAAGTACA
* *
10579653 AACATATTCAAAACTTACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCC
390 AACATATTCAAAACTTACCATTTCAAAGTATTAACACTTAGCTCTTAACCATTAAGAATCAATCC
*
10579718 AACCAAAAACGCTTTAAACACATTCAAAACCAAACATTTCACTAGGAACACCATTATAATA
455 AACCAAAAACACTTTAAACACATTCAAAACCAAACATTTCACTAGGAACACCATTATAATA
10579779 TAACA
1 TAACA
10579784 TTTACATATT
Statistics
Matches: 477, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
515 44 0.09
517 431 0.90
518 2 0.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (515 bp):
TAACAATCTATTTTGGCTCACACAGTCATGTCGCAAGCCATGTGCTAGCTCGTGTAGATACTGCA
CCGATAATCAATAATTACACAAGGCCGTGCGTGGTGACCGTATGTGGCACATGGCCGTATGCACC
CTTTTTGACCCCTAAATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCT
AGATCAAATCCTAGGCTCAAAAACACATTTAAATCATCAAATACATGCTAAAAATTAATTCATTT
CACGCCTAACCAATATGCCATTCAAATGCACCACAATTAAAGATCAGTAAATTACTAATTTAGCT
AAGTAAACACATGACATTAAACATCTATTCATGCCCAACCATCAACCAAATTAACCAAAGTACAA
ACATATTCAAAACTTACCATTTCAAAGTATTAACACTTAGCTCTTAACCATTAAGAATCAATCCA
ACCAAAAACACTTTAAACACATTCAAAACCAAACATTTCACTAGGAACACCATTATAATA
Found at i:10580963 original size:20 final size:20
Alignment explanation
Indices: 10580914--10581024 Score: 91
Period size: 20 Copynumber: 5.6 Consensus size: 20
10580904 ACATAAGTAT
* * *
10580914 CGAAGTACAAACAGAGACA-
1 CGAAGTGCAATCAGAGGCAC
*
10580933 CGAATGTGCAATCAGCGGCAC
1 CGAA-GTGCAATCAGAGGCAC
* * **
10580954 TGAAGTGCAAACAGAGATAC
1 CGAAGTGCAATCAGAGGCAC
*
10580974 CGAAGTGTAAT-AGAGGCAC
1 CGAAGTGCAATCAGAGGCAC
* *
10580993 CAAAGTGCAAACAGAGGCAC
1 CGAAGTGCAATCAGAGGCAC
*
10581013 TGAAGTGCAATC
1 CGAAGTGCAATC
10581025 CCATACAAGC
Statistics
Matches: 69, Mismatches: 20, Indels: 5
0.73 0.21 0.05
Matches are distributed among these distances:
19 18 0.26
20 48 0.70
21 3 0.04
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.13
Consensus pattern (20 bp):
CGAAGTGCAATCAGAGGCAC
Found at i:10580999 original size:39 final size:40
Alignment explanation
Indices: 10580916--10581024 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 40
10580906 ATAAGTATCG
* * **
10580916 AAGTACAAACAGAGACACGAATGTGCAATCAGCGGCACTG
1 AAGTGCAAACAGAGACACGAATGTGCAATCAGAGGCACCA
* *
10580956 AAGTGCAAACAGAGATACCGAA-GTGTAAT-AGAGGCACCA
1 AAGTGCAAACAGAGACA-CGAATGTGCAATCAGAGGCACCA
*
10580995 AAGTGCAAACAGAGGCACTGAA-GTGCAATC
1 AAGTGCAAACAGAGACAC-GAATGTGCAATC
10581025 CCATACAAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.02
39 31 0.54
40 21 0.37
41 4 0.07
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (40 bp):
AAGTGCAAACAGAGACACGAATGTGCAATCAGAGGCACCA
Found at i:10586239 original size:92 final size:92
Alignment explanation
Indices: 10586069--10586251 Score: 276
Period size: 92 Copynumber: 2.0 Consensus size: 92
10586059 CTCTCCTCGA
* * *
10586069 TCACGCCATCCGAGGCTCCTCGTCCCGAGGCTTGACAAGCCCCTGCCGCCATTTCACCAAAATGG
1 TCACACCACCCGAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGG
* *
10586134 CAAGGGCATCCTTCTCTCCCCGCCGTC
66 CAAAGGCACCCTTCTCTCCCCGCCGTC
* * * *
10586161 TCACACCACCCGAGGCTCCTTGTCCCGAGGCCTGACACGCTCCTGCTGCCATTTCACCAAAATGG
1 TCACACCACCCGAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGG
*
10586226 CAAAGGCGCCCTTCTCTCCCCGCCGT
66 CAAAGGCACCCTTCTCTCCCCGCCGT
10586252 TGACCGCACG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (92 bp):
TCACACCACCCGAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGG
CAAAGGCACCCTTCTCTCCCCGCCGTC
Found at i:10587535 original size:3 final size:3
Alignment explanation
Indices: 10587508--10587585 Score: 72
Period size: 3 Copynumber: 26.3 Consensus size: 3
10587498 TGTATCCCTC
* *
10587508 TTA TCA TTA TT- TTA TCTA CTTA TTA TTA TTA TTA TTA TTA -TA TGA
1 TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
10587553 TTA TTA ATA TTA TTA TTA -CA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10587586 AGTATTCCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 5 0.08
3 50 0.83
4 4 0.07
5 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10587555 original size:23 final size:23
Alignment explanation
Indices: 10587508--10587585 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
10587498 TGTATCCCTC
* *
10587508 TTATCATTATT-TTATCTAC-TTA
1 TTATTATTATTATTAT-TACATGA
*
10587530 TTATTATTATTATTATTATATGA
1 TTATTATTATTATTATTACATGA
* *
10587553 TTATTAATATTATTATTACATTA
1 TTATTATTATTATTATTACATGA
*
10587576 TTATTGTTAT
1 TTATTATTAT
10587586 AGTATTCCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.26
23 34 0.74
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (23 bp):
TTATTATTATTATTATTACATGA
Found at i:10587585 original size:20 final size:20
Alignment explanation
Indices: 10587509--10587585 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
10587499 GTATCCCTCT
10587509 TATCATTATT-TTATCTACTTA
1 TATCATTATTATTAT-TA-TTA
10587530 T-T-ATTATTATTATTATTA
1 TATCATTATTATTATTATTA
* *
10587548 TATGATTATTAATATTATTA
1 TATCATTATTATTATTATTA
*
10587568 T-TACATTATTATTGTTAT
1 TAT-CATTATTATTATTAT
10587586 AGTATTCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 4 0.08
19 10 0.21
20 33 0.69
21 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
TATCATTATTATTATTATTA
Found at i:10593687 original size:21 final size:20
Alignment explanation
Indices: 10593663--10593716 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
10593653 AATAAAAAGG
10593663 ATAAATTTTAAAACAATGTTA
1 ATAAATTTTAAAAC-ATGTTA
* *
10593684 ATAAACTCT-AAACATGTTA
1 ATAAATTTTAAAACATGTTA
10593703 ATAATAATTTTAAA
1 AT-A-AATTTTAAA
10593717 TAACGATGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 11 0.42
22 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
ATAAATTTTAAAACATGTTA
Found at i:10601871 original size:23 final size:23
Alignment explanation
Indices: 10601837--10601887 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
10601827 AGGAATGGTG
*
10601837 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
10601860 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
10601883 AGTAA
1 TGTAA
10601888 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:10605133 original size:3 final size:3
Alignment explanation
Indices: 10605125--10605163 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10605115 TAAATAAATA
10605125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10605164 TTTAGAGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10605273 original size:27 final size:27
Alignment explanation
Indices: 10605243--10605303 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
10605233 AAATACACTC
10605243 TTCAAACCCTAATCAAATTTTAAGGAA
1 TTCAAACCCTAATCAAATTTTAAGGAA
*
10605270 TTCAAACCCTAATCGAATTTTAAGGAA
1 TTCAAACCCTAATCAAATTTTAAGGAA
10605297 TTCAAAC
1 TTCAAAC
10605304 TTCCCTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
TTCAAACCCTAATCAAATTTTAAGGAA
Found at i:10610424 original size:30 final size:29
Alignment explanation
Indices: 10610361--10610450 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 29
10610351 TAATAGTGAG
*
10610361 GTATATAATAAGATAATTAAATTAATTAT
1 GTATATAATAAGATAATTAAATTAATAAT
* *
10610390 -TATATAATATGATTAAATTGAATTAA-AAT
1 GTATATAATAAGA-T-AATTAAATTAATAAT
*
10610419 GTATATAATTAA-ATTAAATTAAGTTAATAAT
1 GTATATAA-TAAGA-T-AATTAAATTAATAAT
10610450 G
1 G
10610451 GATCCTATGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
28 11 0.22
29 3 0.06
30 30 0.60
31 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (29 bp):
GTATATAATAAGATAATTAAATTAATAAT
Found at i:10615832 original size:2 final size:2
Alignment explanation
Indices: 10615825--10615876 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10615815 AATGTCACTG
10615825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10615867 AT AT AT AT AT
1 AT AT AT AT AT
10615877 TAAGTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10621166 original size:65 final size:65
Alignment explanation
Indices: 10621062--10621191 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
10621052 CTAAAGTTAG
10621062 CATCTCCCAGTTGGTAAGAAATGCTTAGTTCTGCCTTGTTAATTTTAGCAAAACGTTATCATCAA
1 CATCTCCCAGTTGGTAAGAAATGCTTAGTTCTGCCTTGTTAATTTTAGCAAAACGTTATCATCAA
10621127 CATCTCCCAGTTGGTAAGAAATGCTTAGTTCTGCCTTGTTAATTTTAGCAAAACGTTATCATCAA
1 CATCTCCCAGTTGGTAAGAAATGCTTAGTTCTGCCTTGTTAATTTTAGCAAAACGTTATCATCAA
10621192 TAAAGCAATC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (65 bp):
CATCTCCCAGTTGGTAAGAAATGCTTAGTTCTGCCTTGTTAATTTTAGCAAAACGTTATCATCAA
Found at i:10625738 original size:26 final size:24
Alignment explanation
Indices: 10625693--10625740 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
10625683 AAATTATTGG
10625693 TATATAAAAATTGAATTAAAATTT
1 TATATAAAAATTGAATTAAAATTT
* *
10625717 TATATATACAATTGTATATAAAAT
1 TATATA-AAAATTGAAT-TAAAAT
10625741 CAAAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 8 0.40
26 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TATATAAAAATTGAATTAAAATTT
Found at i:10628279 original size:2 final size:2
Alignment explanation
Indices: 10628272--10628303 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10628262 AAACATGTAC
10628272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10628304 TAGACCATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10637138 original size:18 final size:19
Alignment explanation
Indices: 10637115--10637152 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10637105 TTCTTAAAAA
10637115 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
10637133 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
10637152 T
1 T
10637153 GAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:10637727 original size:21 final size:21
Alignment explanation
Indices: 10637702--10637767 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
10637692 TAGACGATTA
*
10637702 AAATAAGAAAATTTGTAATTT
1 AAATAAAAAAATTTGTAATTT
*** * **
10637723 AAATATTCAAGTTACATAATTT
1 AAATAAAAAAATT-TGTAATTT
10637745 AAATAAAAAAATTTGTAATTT
1 AAATAAAAAAATTTGTAATTT
10637766 AA
1 AA
10637768 TAATCTTAAT
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (21 bp):
AAATAAAAAAATTTGTAATTT
Found at i:10642621 original size:2 final size:2
Alignment explanation
Indices: 10642614--10642643 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10642604 GATTTACAGC
10642614 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10642644 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10651992 original size:3 final size:3
Alignment explanation
Indices: 10651984--10652024 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10651974 TGCAAAACAA
10651984 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10652025 AGTAATGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10655060 original size:20 final size:19
Alignment explanation
Indices: 10655033--10655071 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
10655023 GACTTTTACA
10655033 CATCATCTTCATTT-TTTTC
1 CATCATCTTC-TTTATTTTC
10655052 CATCTATCTTCTTTATTTTC
1 CATC-ATCTTCTTTATTTTC
10655072 TCCTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (19 bp):
CATCATCTTCTTTATTTTC
Found at i:10662768 original size:28 final size:29
Alignment explanation
Indices: 10662736--10662790 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
10662726 CCTTCTTGTT
10662736 TTTGTTTTTCAACCTATAACAT-TCTGCC
1 TTTGTTTTTCAACCTATAACATGTCTGCC
10662764 TTTGTTTTTCAACCTATAACATGTCTG
1 TTTGTTTTTCAACCTATAACATGTCTG
10662791 GTCACAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (29 bp):
TTTGTTTTTCAACCTATAACATGTCTGCC
Found at i:10666937 original size:11 final size:11
Alignment explanation
Indices: 10666921--10666967 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
10666911 ACGAAGGAAA
10666921 AAAAGAAAAAG
1 AAAAGAAAAAG
10666932 AAAAG-AAAAG
1 AAAAGAAAAAG
*
10666942 AATGAGAAAAA-
1 AA-AAGAAAAAG
10666953 AATAAGAAAAAG
1 AA-AAGAAAAAG
10666965 AAA
1 AAA
10666968 GAAGGGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:10679547 original size:2 final size:2
Alignment explanation
Indices: 10679540--10679579 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10679530 TTGTATTAGA
10679540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10679580 GTGTGTGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10679746 original size:25 final size:25
Alignment explanation
Indices: 10679718--10679797 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
10679708 ACTTTAGCAC
* *
10679718 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTACTAGCACGTCAGT
10679743 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
* * *
10679768 GCTTTCTG-TT--TAGCACATCTGT
1 GCTCTCTGATTACTAGCACGTCAGT
10679790 GCTCTCTG
1 GCTCTCTG
10679798 TATAACACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 17 0.35
24 2 0.04
25 30 0.61
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTCAGT
Found at i:10679791 original size:22 final size:22
Alignment explanation
Indices: 10679730--10679818 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 22
10679720 TCTCTGATTA
* *
10679730 TTAGCACGTTAGTGCTCTCTGAT
1 TTAGCACATCAGTGCTCTCTG-T
* *
10679753 TACTAGCACGTCAGTGCTTTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
10679777 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* * * *
10679799 ATAACACTTCAATGCTCTCT
1 TTAGCACATCAGTGCTCTCT
10679819 ATTCATTAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
22 33 0.61
23 1 0.02
24 2 0.04
25 18 0.33
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:10681410 original size:20 final size:21
Alignment explanation
Indices: 10681375--10681432 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
10681365 GAACAAAAAT
*
10681375 CAAAGGTATCGATACCTTTC-A
1 CAAA-GTATCAATACCTTTCTA
* *
10681396 TAAAGTATCAGTACC-TTCTA
1 CAAAGTATCAATACCTTTCTA
10681416 CAAAGTATCAATACCTT
1 CAAAGTATCAATACCTT
10681433 ACCCCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAAGTATCAATACCTTTCTA
Found at i:10683648 original size:17 final size:17
Alignment explanation
Indices: 10683626--10683658 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10683616 AGTTTACTTT
10683626 TATAATTTATAA-TTTAA
1 TATAA-TTATAAGTTTAA
10683643 TATAATTATAAGTTTA
1 TATAATTATAAGTTTA
10683659 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAATTATAAGTTTAA
Found at i:10684964 original size:32 final size:32
Alignment explanation
Indices: 10684928--10684996 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
10684918 TTTGGGTAGA
* **
10684928 GGTTGCTTGATTCTCTCTATGTTTGATTCAGT
1 GGTTGCTTGATTCTCTCAATGACTGATTCAGT
*
10684960 GGTTGCTTGATTCTCTCAATGACTGATTCGGT
1 GGTTGCTTGATTCTCTCAATGACTGATTCAGT
10684992 GGTTG
1 GGTTG
10684997 AGATAGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (32 bp):
GGTTGCTTGATTCTCTCAATGACTGATTCAGT
Found at i:10689969 original size:63 final size:63
Alignment explanation
Indices: 10689890--10690053 Score: 220
Period size: 63 Copynumber: 2.6 Consensus size: 63
10689880 CATGGGTTAA
* ** *
10689890 GGACACAGGCGCGTGTCCATACCTTGTGACTCACTGTTCACCAATTAGAGACATATAGGCCAG
1 GGACACGGGCGCGTGTCCAGGCCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCCAG
* *
10689953 GGACACGGGCGCGTGTCCAGGCCTTGTGACTCACTATTCAAGAATTAGAGACATATAGGCCAG
1 GGACACGGGCGCGTGTCCAGGCCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCCAG
* * * * * *
10690016 AGACCCGGGTGCATGTCCAGGCCGTGTGACTTACTGTT
1 GGACACGGGCGCGTGTCCAGGCCTTGTGACTCACTGTT
10690054 GCATAGTAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 88 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (63 bp):
GGACACGGGCGCGTGTCCAGGCCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCCAG
Found at i:10694574 original size:15 final size:14
Alignment explanation
Indices: 10694540--10694583 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10694530 TTTATACTTT
10694540 AATTAATTAATTAA
1 AATTAATTAATTAA
10694554 AATTAATTTAATTAA
1 AATTAA-TTAATTAA
** *
10694569 CCTTAAATAATTAA
1 AATTAATTAATTAA
10694583 A
1 A
10694584 TTATAAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTAATTAATTAA
Found at i:10695724 original size:9 final size:9
Alignment explanation
Indices: 10695707--10695743 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10695697 TGAGTTTTCG
10695707 AATTCGAAT
1 AATTCGAAT
*
10695716 AACTCGAAT
1 AATTCGAAT
10695725 AATTCGAAT
1 AATTCGAAT
10695734 AATTCGAAT
1 AATTCGAAT
10695743 A
1 A
10695744 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10696076 original size:20 final size:20
Alignment explanation
Indices: 10696037--10696076 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10696027 ATCTACCCCA
*
10696037 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
10696057 AAAC-TTTTATTTCTCACCCT
1 AAACTTTTTATTT-TCACCCT
10696077 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:10700722 original size:21 final size:21
Alignment explanation
Indices: 10700698--10700804 Score: 51
Period size: 21 Copynumber: 5.1 Consensus size: 21
10700688 AACGAAAACC
10700698 CATAAGGGTTAAACAGAAGCT
1 CATAAGGGTTAAACAGAAGCT
* * *
10700719 CAT-AGGAGATT-AATAGAAACC
1 CATAAGG-G-TTAAACAGAAGCT
*
10700740 CATAAGGGTTAATATA-AAGCT
1 CATAAGGGTTAA-ACAGAAGCT
* * * * * *
10700761 CAGAAGAGCTAAACTGAAACC
1 CATAAGGGTTAAACAGAAGCT
*
10700782 CATTAGGGTTAAACTA-AAGCT
1 CATAAGGGTTAAAC-AGAAGCT
10700803 CA
1 CA
10700805 AAAGAGCTGA
Statistics
Matches: 60, Mismatches: 19, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
20 6 0.10
21 46 0.77
22 8 0.13
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (21 bp):
CATAAGGGTTAAACAGAAGCT
Found at i:10700753 original size:20 final size:20
Alignment explanation
Indices: 10700693--10700753 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
10700683 TGCTAAACGA
*
10700693 AAACCCATAAGGGTTAAACAG
1 AAACCCATAAGGGTT-AATAG
* *
10700714 AAGCTCAT-AGGAGATTAATAG
1 AAACCCATAAGG-G-TTAATAG
10700735 AAACCCATAAGGGTTAATA
1 AAACCCATAAGGGTTAATA
10700754 TAAAGCTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.28
21 18 0.56
22 5 0.16
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
AAACCCATAAGGGTTAATAG
Done.