Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 20 of 59
Found at i:7310508 original size:18 final size:18
Alignment explanation
Indices: 7310485--7310521 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7310475 AGAATGAGAG
*
7310485 TATGAGCTCCTTGAAAAA
1 TATGAGCTCCCTGAAAAA
*
7310503 TATGAGTTCCCTGAAAAA
1 TATGAGCTCCCTGAAAAA
7310521 T
1 T
7310522 GTGATCCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (18 bp):
TATGAGCTCCCTGAAAAA
Found at i:7312432 original size:60 final size:55
Alignment explanation
Indices: 7312357--7312498 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 55
7312347 CCACGCCTCT
*
7312357 ATATAAATCAGGGCTTCAGGTCCCCCTTTACCTACTC-GCGGAAACTACCCACGTCACC
1 ATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCTG-GGAAACTACCCA---CACC
* * *
7312415 AAATATAAATCGGGGCTTCAGGTCCCCCTTTGCCTACTCTGGGGAACTGCCCACACC
1 --ATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCTGGGAAACTACCCACACC
*
7312472 ATATAAATCGGGGCTTCAAGTCCCCCT
1 ATATAAATCGGGGCTTCAGGTCCCCCT
7312499 ACAAAATCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
55 26 0.34
57 4 0.05
60 45 0.59
61 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (55 bp):
ATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCTGGGAAACTACCCACACC
Found at i:7313030 original size:22 final size:23
Alignment explanation
Indices: 7312995--7313037 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7312985 TACTTAGCTA
7312995 TTCTCTCTTCTTTTTCATTTTTC
1 TTCTCTCTTCTTTTTCATTTTTC
* *
7313018 TTCT-TCTTTTTTTTCCTTTT
1 TTCTCTCTTCTTTTTCATTTT
7313038 GTGTCGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCTCTCTTCTTTTTCATTTTTC
Found at i:7313146 original size:58 final size:60
Alignment explanation
Indices: 7313067--7313182 Score: 157
Period size: 58 Copynumber: 2.0 Consensus size: 60
7313057 TCTTTTTTTT
* * *
7313067 TTCTTTCTTCCCCTTCTTCGCCGTGCTCCCTCTTTCCTTCTCCTTCT-TTT-TCTTTCTC
1 TTCTTTCTTCCCCTTCATCGCCGTGCTCCATCTCTCCTTCTCCTTCTCTTTCTCTTTCTC
* *
7313125 TTCTTTCTTCTCCCTT-ATCGCCGTGCTCCATCTCTCCTTTTTCTTCTCTTTCTCTTTC
1 TTCTTTCTTC-CCCTTCATCGCCGTGCTCCATCTCTCCTTCTCCTTCTCTTTCTCTTTC
7313183 CTTTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 36 0.72
59 8 0.16
60 6 0.12
ACGTcount: A:0.02, C:0.40, G:0.05, T:0.53
Consensus pattern (60 bp):
TTCTTTCTTCCCCTTCATCGCCGTGCTCCATCTCTCCTTCTCCTTCTCTTTCTCTTTCTC
Found at i:7313244 original size:17 final size:19
Alignment explanation
Indices: 7313209--7313251 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
7313199 TCGTGCTCTC
*
7313209 TCTCTCTCTCATTTCTTCT
1 TCTCTTTCTCATTTCTTCT
7313228 TCTCTTTCTC-TTT-TTCT
1 TCTCTTTCTCATTTCTTCT
7313245 TCTCTTT
1 TCTCTTT
7313252 TTCCTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTCTTTCTCATTTCTTCT
Found at i:7313245 original size:20 final size:21
Alignment explanation
Indices: 7313204--7313265 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
7313194 CTCTGTCGTG
* *
7313204 CTCTCTCTCTCTCTCATTTCTT
1 CTCTCTTTC-CTCTCTTTTCTT
7313226 CTTCTCTTT-CTCT-TTTTCTT
1 C-TCTCTTTCCTCTCTTTTCTT
*
7313246 CTCTTTTTCCTCTCTTTTCT
1 CTCTCTTTCCTCTCTTTTCT
7313266 CTCCCTCGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 6 0.18
20 11 0.32
21 10 0.29
22 1 0.03
23 6 0.18
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (21 bp):
CTCTCTTTCCTCTCTTTTCTT
Found at i:7313247 original size:11 final size:11
Alignment explanation
Indices: 7313233--7313263 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7313223 CTTCTTCTCT
7313233 TTCTCTTTTTC
1 TTCTCTTTTTC
7313244 TTCTCTTTTTC
1 TTCTCTTTTTC
*
7313255 CTCTCTTTT
1 TTCTCTTTT
7313264 CTCTCCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTCTTTTTC
Found at i:7313380 original size:190 final size:194
Alignment explanation
Indices: 7313084--7313470 Score: 629
Period size: 190 Copynumber: 2.0 Consensus size: 194
7313074 TTCCCCTTCT
* * *
7313084 TCGCCGTGCTCCCTCTTTCCTTCTCCTTCTTTTTCTTTCTCTTCTTTCTTCTCCCTTATCGCCGT
1 TCGCCGTGCTCCCTCTCTCATTCTCCTTCTTTTTCTTTCTCTTCTTTCATCTCCCTTATCGCCGT
7313149 GCTCCATCTCTCCTTTTTCTTCTCTTTCTCTTTC-CTTTTTTTTTGCTCTGTCGTG-CTCTCTCT
66 GCTCCATCTCTCCTTTTTCTTCTCTTTCTCTTTCTCTTTTTTTTTGCTCTGTCGTGCCTCTCTCT
*
7313212 CTCTCTCATTTCTTCTTCTCTTTCTCTTTTTCTTCTCTTTTT-C-CTCTCTTTTCTCTCCCTCG
131 CTCTCTCATTTCTTCTTATCTTTCTCTTTTTCTTCTCTTTTTCCTCTCTCTTTTCTCTCCCTCG
* *
7313274 TCGCCGTGCTCCCTCTCTCATTCTCCTTCTTTTTCTTTCTCTTCTTTCATCTCCCTTGTCGTCGT
1 TCGCCGTGCTCCCTCTCTCATTCTCCTTCTTTTTCTTTCTCTTCTTTCATCTCCCTTATCGCCGT
* * *
7313339 GCTCCCTCTCTCCTTTTTCTTCTTTTTCTCTTTCTTTTTTTTTTTGCTCTGTCGTGCTCTCTCTC
66 GCTCCATCTCTCCTTTTTCTTCTCTTTCTCTTTCTCTTTTTTTTTGCTCTGTCGTG--C-CTCTC
*
7313404 TCTCTCTCTCCTTTCTTCTTATCTTTCTCTTTTTCTTCTCTTTTTCCTCTCTCTTTTCTCTCCCT
128 TCTCTCTCTCATTTCTTCTTATCTTTCTCTTTTTCTTCTCTTTTTCCTCTCTCTTTTCTCTCCCT
7313469 CG
193 CG
7313471 GGCCCTCCAC
Statistics
Matches: 180, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
190 92 0.51
191 20 0.11
195 48 0.27
196 1 0.01
197 19 0.11
ACGTcount: A:0.02, C:0.36, G:0.06, T:0.56
Consensus pattern (194 bp):
TCGCCGTGCTCCCTCTCTCATTCTCCTTCTTTTTCTTTCTCTTCTTTCATCTCCCTTATCGCCGT
GCTCCATCTCTCCTTTTTCTTCTCTTTCTCTTTCTCTTTTTTTTTGCTCTGTCGTGCCTCTCTCT
CTCTCTCATTTCTTCTTATCTTTCTCTTTTTCTTCTCTTTTTCCTCTCTCTTTTCTCTCCCTCG
Found at i:7313437 original size:55 final size:55
Alignment explanation
Indices: 7313334--7313437 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 55
7313324 CTCCCTTGTC
* * * * *
7313334 GTCGTGCTCCCTCTCTCCTTTTTCTTCTTTTTCTCTTTCTTTTTTTTTTTGCTCT
1 GTCGTGCTCCCTCTCTCCTCTCTCTCCTTTTTCTCTATCTTTTCTTTTTTGCTCT
*
7313389 GTCGTGCTCTCTCTCT-CTCTCTCTCCTTTCTTCT-TATCTTTCTCTTTTT
1 GTCGTGCTCCCTCTCTCCTCTCTCTCCTTT-TTCTCTATCTTT-TCTTTTT
7313438 CTTCTCTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
54 16 0.39
55 25 0.61
ACGTcount: A:0.01, C:0.32, G:0.07, T:0.61
Consensus pattern (55 bp):
GTCGTGCTCCCTCTCTCCTCTCTCTCCTTTTTCTCTATCTTTTCTTTTTTGCTCT
Found at i:7313445 original size:17 final size:19
Alignment explanation
Indices: 7313404--7313464 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 19
7313394 GCTCTCTCTC
*
7313404 TCTCTCTCTCCTTTCTTCT
1 TCTCTTTCTCCTTTCTTCT
*
7313423 TATCTTTCT-CTTT-TTCT
1 TCTCTTTCTCCTTTCTTCT
*
7313440 TCTCTTTTTCCTCTCTCTT-T
1 TCTCTTTCTCCT-T-TCTTCT
7313460 TCTCT
1 TCTCT
7313465 CCCTCGGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 11 0.32
18 6 0.18
19 8 0.24
20 7 0.21
21 2 0.06
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (19 bp):
TCTCTTTCTCCTTTCTTCT
Found at i:7313458 original size:13 final size:11
Alignment explanation
Indices: 7313428--7313462 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
7313418 CTTCTTATCT
7313428 TTCTCTTTTTC
1 TTCTCTTTTTC
7313439 TTCTCTTTTTC
1 TTCTCTTTTTC
*
7313450 CTCTCTCTTTTC
1 TTCTCT-TTTTC
7313462 T
1 T
7313463 CTCCCTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
TTCTCTTTTTC
Found at i:7313515 original size:13 final size:13
Alignment explanation
Indices: 7313489--7313521 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7313479 ACTCTCTTCC
7313489 TTCTC-TTTTCTT
1 TTCTCTTTTTCTT
*
7313501 TTCTCTTTTTTTT
1 TTCTCTTTTTCTT
7313514 TTCTCTTT
1 TTCTCTTT
7313522 CTCCCTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTCTTTTTCTT
Found at i:7314088 original size:20 final size:20
Alignment explanation
Indices: 7314063--7314135 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
7314053 AGGAGAGTAT
7314063 AATGGGTGCAGGAACCAGAG
1 AATGGGTGCAGGAACCAGAG
*
7314083 AATGGGTGCA-GAACCAGAA
1 AATGGGTGCAGGAACCAGAG
*
7314102 AATGGGTGCAATG-ACCAGAG
1 AATGGGTGC-AGGAACCAGAG
*
7314122 AATGGGTGTAGGAA
1 AATGGGTGCAGGAA
7314136 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 19 0.41
20 26 0.57
21 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.37, T:0.14
Consensus pattern (20 bp):
AATGGGTGCAGGAACCAGAG
Found at i:7323917 original size:20 final size:20
Alignment explanation
Indices: 7323892--7323933 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
7323882 GCTATAAATA
*
7323892 TCATTTTTCTAGCAGCTTCT
1 TCATTTCTCTAGCAGCTTCT
7323912 TCATTTCTCTAGCAGCTTCT
1 TCATTTCTCTAGCAGCTTCT
7323932 TC
1 TC
7323934 TTCTTCTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (20 bp):
TCATTTCTCTAGCAGCTTCT
Found at i:7324701 original size:2 final size:2
Alignment explanation
Indices: 7324694--7324797 Score: 118
Period size: 2 Copynumber: 51.0 Consensus size: 2
7324684 TGTTATGTTG
* * * **
7324694 AT AT AT AT AT AT AT AT AT AT AC CT AT AT AT AT AT AT AT ANN NN
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
7324737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7324779 AT CT AA AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT -AT AT
7324798 GTATTGATAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 84 0.98
3 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7325510 original size:19 final size:19
Alignment explanation
Indices: 7325486--7325526 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7325476 CTAGTTTTAG
7325486 TGAGAAACCCTCGACCAGT
1 TGAGAAACCCTCGACCAGT
* *
7325505 TGAGAAACCCTTGGCCAGT
1 TGAGAAACCCTCGACCAGT
7325524 TGA
1 TGA
7325527 TGCTTTGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (19 bp):
TGAGAAACCCTCGACCAGT
Found at i:7343254 original size:28 final size:27
Alignment explanation
Indices: 7343218--7343270 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7343208 ATATCCTGGT
*
7343218 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
7343245 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
7343271 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:7343338 original size:20 final size:20
Alignment explanation
Indices: 7343315--7343360 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7343305 CTTCTAAACC
7343315 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
7343335 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
7343355 TCAAAT
1 TCAAAT
7343361 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:7347485 original size:43 final size:43
Alignment explanation
Indices: 7347436--7347546 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
7347426 ATTGACTCAA
7347436 CTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCC-G
1 CTATGTGCGAGTAGGGAGTGCGCATAA-CCAAGTGATGACCCAG
* *
7347478 ATTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAG
1 -CTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCAG
* *
7347522 CCATGTGCGAATAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
7347547 GAGCTGGTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 4 0.07
43 56 0.92
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCAG
Found at i:7347921 original size:39 final size:40
Alignment explanation
Indices: 7347842--7347934 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 40
7347832 GGCCGAAAAC
* * * * *
7347842 TCGCTGCAGCGAGAAACTTTTTATTTTCTAGGTTGCAATT
1 TCGCTACAGCGAGAAACATTCTATTTTCTAGGTAGAAATT
*
7347882 TCGCTATAGCGAGAAACATTCTA-TTTCTAGGTAGAAATT
1 TCGCTACAGCGAGAAACATTCTATTTTCTAGGTAGAAATT
*
7347921 TCGCTGCAGCGAGA
1 TCGCTACAGCGAGA
7347935 TTGAATCTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 26 0.58
40 19 0.42
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (40 bp):
TCGCTACAGCGAGAAACATTCTATTTTCTAGGTAGAAATT
Found at i:7350210 original size:60 final size:60
Alignment explanation
Indices: 7350090--7350387 Score: 422
Period size: 60 Copynumber: 5.0 Consensus size: 60
7350080 AGACATCATC
* * * * *
7350090 ACCTACTCGTGGGAACTGCCCACGCCACC--ATATGAATCGGGGCTTCAAGTCCTCATTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* * *
7350148 ACCTATTCATGGGAACTACCCATGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* *
7350208 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCAGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
* * *
7350268 ACCTACTCGTGGGAACTACGCATGCCACCATACT-TAAATCGGAGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATA-TATAAATCGGGGCTTCAGGTCCCCCTTT
* * *
7350328 ACCTACTCGTGGGAACTACCTACGCCGCCATATATAAATCGGGGCTTCAGGTCCCACTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
7350388 TTAAATCAAA
Statistics
Matches: 212, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
58 25 0.12
59 1 0.00
60 185 0.87
61 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:7351154 original size:8 final size:8
Alignment explanation
Indices: 7351141--7351189 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
7351131 CTCCTAATTC
7351141 TTTTTATT
1 TTTTTATT
7351149 TTTTTATT
1 TTTTTATT
*
7351157 ATTTTA-T
1 TTTTTATT
*
7351164 TATTTATT
1 TTTTTATT
*
7351172 TTATTATT
1 TTTTTATT
*
7351180 TGTTTATT
1 TTTTTATT
7351188 TT
1 TT
7351190 ATTCCCTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 5 0.16
8 27 0.84
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:7351172 original size:12 final size:12
Alignment explanation
Indices: 7351143--7351180 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
7351133 CCTAATTCTT
*
7351143 TTTATTTTTTTA
1 TTTATTTTATTA
7351155 -TTATTTTATTA
1 TTTATTTTATTA
7351166 TTTATTTTATTA
1 TTTATTTTATTA
7351178 TTT
1 TTT
7351181 GTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:7351173 original size:23 final size:23
Alignment explanation
Indices: 7351143--7351187 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7351133 CCTAATTCTT
*
7351143 TTTATTTTTTTATTAT-TTTATTA
1 TTTATTTTATTATT-TGTTTATTA
7351166 TTTATTTTATTATTTGTTTATT
1 TTTATTTTATTATTTGTTTATT
7351188 TTATTCCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTATTTTATTATTTGTTTATTA
Found at i:7351571 original size:19 final size:18
Alignment explanation
Indices: 7351549--7351591 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7351539 TTAATATTTC
7351549 AATATTATTTTATTTACAA
1 AATATTATTTTATTT-CAA
* *
7351568 AATAATATTTTATTTTAA
1 AATATTATTTTATTTCAA
7351586 AATATT
1 AATATT
7351592 TTTCTCACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATTTCAA
Found at i:7356267 original size:19 final size:19
Alignment explanation
Indices: 7356243--7356284 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7356233 CATTATAATT
7356243 TTAATTTACAATTCTTAGA
1 TTAATTTACAATTCTTAGA
* * *
7356262 TTAATTTAGAGTTTTTAGA
1 TTAATTTACAATTCTTAGA
7356281 TTAA
1 TTAA
7356285 ATTTCATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
TTAATTTACAATTCTTAGA
Found at i:7364510 original size:21 final size:21
Alignment explanation
Indices: 7364464--7364519 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
7364454 TAAGTTGATA
*
7364464 ATTATTCATC-AAAGGTCACC
1 ATTATTCATCAAAAGATCACC
* * *
7364484 ACTATTCACCAAAAGATCATC
1 ATTATTCATCAAAAGATCACC
*
7364505 ATTATTTATCAAAAG
1 ATTATTCATCAAAAG
7364520 TTATCACGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (21 bp):
ATTATTCATCAAAAGATCACC
Found at i:7366123 original size:16 final size:15
Alignment explanation
Indices: 7366092--7366140 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
7366082 TATAATTTTC
*
7366092 TTATATTTAGTTATT
1 TTATAATTAGTTATT
7366107 TTATAATTAGTTTATT
1 TTATAATTAG-TTATT
*
7366123 TT-TAAGTGAGTTATT
1 TTATAA-TTAGTTATT
7366138 TTA
1 TTA
7366141 ATTTTATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTATAATTAGTTATT
Found at i:7367303 original size:75 final size:74
Alignment explanation
Indices: 7367184--7367326 Score: 252
Period size: 75 Copynumber: 1.9 Consensus size: 74
7367174 TAAGATCTAA
*
7367184 ATTAAGTGTGAGGGATATTGTAATCTTAGGCTTGTTTGATTTGATATTTACTTGAGTTATTATTA
1 ATTAAGTGTGAGGGATATTGTAATCCTAGGCTTGTTTGATTTGATATTTACTTGAGTTATTATTA
7367249 TTTNATTTAG
66 TTT-ATTTAG
7367259 ATTAAGTGTG-GAGGATATTGTAATCCTAGGCTTGTTTGATTTGATATTTACTTGAGTTATTATT
1 ATTAAGTGTGAG-GGATATTGTAATCCTAGGCTTGTTTGATTTGATATTTACTTGAGTTATTATT
7367323 ATTT
65 ATTT
7367327 TGATTTTTCG
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 1 0.02
75 65 0.98
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.49
Consensus pattern (74 bp):
ATTAAGTGTGAGGGATATTGTAATCCTAGGCTTGTTTGATTTGATATTTACTTGAGTTATTATTA
TTTATTTAG
Found at i:7368405 original size:59 final size:58
Alignment explanation
Indices: 7368342--7368477 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 58
7368332 TAAGTGTTTG
* * *
7368342 GTCTTAATTTAGACAAGAAAATATATTTATCTTAATTTAAGATAAGA-AAAAGACTTTTT
1 GTCTTAATTTAGACAAGAAAACATATTTATCTCAATTTAA-ACAAGATAAAAGA-TTTTT
* * * *
7368401 GTCTTAATCTAGATAAGAAAACATATTTGTCTCAATTTAAACAAGATAAAATATTTTT
1 GTCTTAATTTAGACAAGAAAACATATTTATCTCAATTTAAACAAGATAAAAGATTTTT
* *
7368459 GTTTTAATTAAAGACAAGA
1 GTCTTAATT-TAGACAAGA
7368478 GTTGTCTTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 17 0.27
59 47 0.73
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (58 bp):
GTCTTAATTTAGACAAGAAAACATATTTATCTCAATTTAAACAAGATAAAAGATTTTT
Found at i:7368446 original size:28 final size:27
Alignment explanation
Indices: 7368342--7368456 Score: 95
Period size: 28 Copynumber: 4.0 Consensus size: 27
7368332 TAAGTGTTTG
*
7368342 GTCTTAATTTAGACAAGAAAATATATTT
1 GTCTTAATTTAAACAAGAAAA-ATATTT
* * *
7368370 ATCTTAATTTAAGATAAGAAAAAGACTTTTT
1 GTCTTAATTTAA-ACAAG-AAAA-A-TATTT
* * *
7368401 GTCTTAATCTAGATAAGAAAACATATTT
1 GTCTTAATTTAAACAAGAAAA-ATATTT
*
7368429 GTCTCAATTTAAACAAGATAAAATATTT
1 GTCTTAATTTAAACAAGA-AAAATATTT
7368457 TTGTTTTAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 34 0.49
29 12 0.17
30 10 0.14
31 13 0.19
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (27 bp):
GTCTTAATTTAAACAAGAAAAATATTT
Found at i:7369808 original size:16 final size:16
Alignment explanation
Indices: 7369787--7369821 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7369777 AAGCTTGAAT
7369787 AAAAATAAAAATAATA
1 AAAAATAAAAATAATA
**
7369803 AAAAATCCAAATAATA
1 AAAAATAAAAATAATA
7369819 AAA
1 AAA
7369822 GCTTGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATAATA
Found at i:7370063 original size:13 final size:14
Alignment explanation
Indices: 7370033--7370070 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
7370023 GAATTAATGC
7370033 ATAAATTAAAATTAA
1 ATAAA-TAAAATTAA
7370048 ATAAATAAAA-TAA
1 ATAAATAAAATTAA
*
7370061 ATAATTAAAA
1 ATAAATAAAA
7370071 AGTAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATAAAATTAA
Found at i:7370375 original size:45 final size:45
Alignment explanation
Indices: 7370324--7370415 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
7370314 AAAGCAAGAG
7370324 AACACTCCAATGAAGGGAAAAAAATTCTAGATCCATCACATTAGA
1 AACACTCCAATGAAGGGAAAAAAATTCTAGATCCATCACATTAGA
7370369 AACACTCCAATGAAGGGAAAAAAATTCTAGATCCATCACATTAGA
1 AACACTCCAATGAAGGGAAAAAAATTCTAGATCCATCACATTAGA
7370414 AA
1 AA
7370416 AAGACGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.20
Consensus pattern (45 bp):
AACACTCCAATGAAGGGAAAAAAATTCTAGATCCATCACATTAGA
Found at i:7379876 original size:2 final size:2
Alignment explanation
Indices: 7379869--7379917 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
7379859 TTTAAGTTTT
7379869 TA TA TA TA TA T- TA TA CTA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7379910 TA CA TA TA
1 TA TA TA TA
7379918 AAAGACTCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.90
3 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7381243 original size:2 final size:2
Alignment explanation
Indices: 7381221--7381277 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
7381211 GATGAGTCTT
*
7381221 TA TA TG TA TA -A TA TA -A TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7381260 TA TA TA -A AA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
7381278 ANNNNNNNNN
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
1 5 0.11
2 42 0.89
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:7381256 original size:15 final size:15
Alignment explanation
Indices: 7381227--7381277 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
7381217 TCTTTATATG
7381227 TATA-ATATA-AT-A
1 TATATATATATATAA
7381239 TATATATATATATAA
1 TATATATATATATAA
*
7381254 TATATATATATAAAA
1 TATATATATATATAA
7381269 TA-ATATATA
1 TATATATATA
7381278 ANNNNNNNNN
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
12 4 0.11
13 5 0.14
14 9 0.26
15 17 0.49
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:7381528 original size:29 final size:30
Alignment explanation
Indices: 7381474--7381530 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7381464 NNNNNNNNNN
7381474 ATGTGAAAAAAAAAATATTGTGTACACGCT
1 ATGTGAAAAAAAAAATATTGTGTACACGCT
* * *
7381504 ATGTTAAAAAAATATTATTGT-TACACG
1 ATGTGAAAAAAAAAATATTGTGTACACG
7381531 GCATATACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.32
Consensus pattern (30 bp):
ATGTGAAAAAAAAAATATTGTGTACACGCT
Found at i:7384812 original size:2 final size:2
Alignment explanation
Indices: 7384807--7384832 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7384797 ACACACACAC
7384807 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
7384833 CACAGGCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7389129 original size:18 final size:18
Alignment explanation
Indices: 7389089--7389131 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
7389079 TTAATATTTT
7389089 AATATTATTTTATTCATAA
1 AATATTATTTTATTCA-AA
7389108 AATATTATTTTATTTC-AA
1 AATATTATTTTA-TTCAAA
7389126 AATATT
1 AATATT
7389132 CCTTTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
20 3 0.13
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATTCAAA
Found at i:7393879 original size:19 final size:20
Alignment explanation
Indices: 7393852--7393897 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7393842 AAGAGACAAG
*
7393852 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
7393871 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
7393890 ATAATATT
1 ATAATATT
7393898 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:7411074 original size:32 final size:32
Alignment explanation
Indices: 7411033--7411096 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
7411023 AAGGAGTTTG
*
7411033 CCAAATACTATTACTTGATATATGGAGAATAT
1 CCAAATACTATTACTTGAAATATGGAGAATAT
*
7411065 CCAAATACTATTGCTTGAAATATGGAGAATAT
1 CCAAATACTATTACTTGAAATATGGAGAATAT
7411097 TGTTACTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (32 bp):
CCAAATACTATTACTTGAAATATGGAGAATAT
Found at i:7418420 original size:43 final size:43
Alignment explanation
Indices: 7418347--7418428 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
7418337 CACTTACCCT
* * *
7418347 TGTGGCATAGGTCATAATCATAACAGAAACCATAATTAATACC
1 TGTGGCATAGGTCATAATCACAACAAAAACCACAATTAATACC
* * *
7418390 TGTGGCATGGGTCATAATTACATCAAAAACCACAATTAA
1 TGTGGCATAGGTCATAATCACAACAAAAACCACAATTAA
7418429 CCCCAATGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (43 bp):
TGTGGCATAGGTCATAATCACAACAAAAACCACAATTAATACC
Found at i:7419995 original size:169 final size:168
Alignment explanation
Indices: 7419717--7420058 Score: 535
Period size: 169 Copynumber: 2.0 Consensus size: 168
7419707 GAATGATTCT
* * * *
7419717 TCAAAGCTTGATGGAAGACTAAGATGAAGGCTAGAGAGGAAAAATAAGCTTTAGGATTTCTCTTT
1 TCAAAGCTTCATGGAAGACTAAGATGAAGGCTAAAGAGGAAAAAAAAGCTTTAGGATCTCTCTTT
7419782 AGGGTTTTCCAAGTAAGTGCTAGTCTTCTCTCTTTTCCAAATGACTTAAAGGTAACTTTTTATAG
66 AGGGTTTTCCAAGTAAGTGCTAGTCTTCTCTCTTTTCCAAATGACTTAAAGGTAACTTTTTATAG
7419847 CTGATGTGAAGTTTGGAATCGTTAAACACAAGCTTGAA
131 CTGATGTGAAGTTTGGAATCGTTAAACACAAGCTTGAA
*
7419885 TCAAAGCTTCATGGAAGACTAAGATGAAGGCTAAA-AGGGAAAAAAAAAGCTTTAGGATCTCTTT
1 TCAAAGCTTCATGGAAGACTAAGATGAAGGCTAAAGA-GG-AAAAAAAAGCTTTAGGATCTCTCT
* * * * *
7419949 TTAGGGTTTTCCAGGTGAGTGCTAGTCTTTTCTCTCTTT-CAAATGACTTAAGGGTAGCTTTTTA
64 TTAGGGTTTTCCAAGTAAGTGCTAGTCTTCTCTCT-TTTCCAAATGACTTAAAGGTAACTTTTTA
* *
7420013 TAGCTGATGTGAAGTTTGGAATTGTTAAACACAAGTTTGAA
128 TAGCTGATGTGAAGTTTGGAATCGTTAAACACAAGCTTGAA
7420054 TCAAA
1 TCAAA
7420059 TCGGTCCATT
Statistics
Matches: 159, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
167 1 0.01
168 35 0.22
169 120 0.75
170 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (168 bp):
TCAAAGCTTCATGGAAGACTAAGATGAAGGCTAAAGAGGAAAAAAAAGCTTTAGGATCTCTCTTT
AGGGTTTTCCAAGTAAGTGCTAGTCTTCTCTCTTTTCCAAATGACTTAAAGGTAACTTTTTATAG
CTGATGTGAAGTTTGGAATCGTTAAACACAAGCTTGAA
Found at i:7420838 original size:40 final size:40
Alignment explanation
Indices: 7420780--7420858 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
7420770 TTGTGAAAGA
*
7420780 CACCAATCGTGACGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
* * **
7420820 CACCAATCTTGGCAAGGTTGAAAACCCTTCTAAGGTGAA
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAA
7420859 AAATAGCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:7429106 original size:42 final size:42
Alignment explanation
Indices: 7429043--7429128 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
7429033 TCAAGGGTCC
7429043 TCTTTATAATATTATAAGCCCAAATCCTAATAAAACTCTACT
1 TCTTTATAATATTATAAGCCCAAATCCTAATAAAACTCTACT
* *
7429085 TCTTTATAGTATTATAGGCCCAAATCCTAATAAAACTCTACT
1 TCTTTATAATATTATAAGCCCAAATCCTAATAAAACTCTACT
7429127 TC
1 TC
7429129 ATGTTGTCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (42 bp):
TCTTTATAATATTATAAGCCCAAATCCTAATAAAACTCTACT
Found at i:7433917 original size:42 final size:42
Alignment explanation
Indices: 7433858--7433938 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
7433848 TCAAGCAATA
* *
7433858 ACCCTTAAACTAGTTTTTTCATGAGATCAAACGATAACCCTC
1 ACCCTTAAACCAGTTTTTTCACGAGATCAAACGATAACCCTC
* *
7433900 ACCCTTACACCAGTTTTTTCACGAGATCAAGCGATAACC
1 ACCCTTAAACCAGTTTTTTCACGAGATCAAACGATAACC
7433939 TTTACATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.28
Consensus pattern (42 bp):
ACCCTTAAACCAGTTTTTTCACGAGATCAAACGATAACCCTC
Found at i:7436756 original size:20 final size:20
Alignment explanation
Indices: 7436731--7436776 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7436721 CTTCTAAACC
7436731 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
7436751 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
7436771 TCAAAT
1 TCAAAT
7436777 GGGATCAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:7437731 original size:28 final size:28
Alignment explanation
Indices: 7437699--7437786 Score: 95
Period size: 29 Copynumber: 3.1 Consensus size: 28
7437689 TGACAGCTTT
*
7437699 AACATGTTCATCTTAATTTAGACAAGAA
1 AACATGTTCGTCTTAATTTAGACAAGAA
* * *
7437727 AACATATTTGGTTTTAATTTAGACAAGAA
1 AACAT-GTTCGTCTTAATTTAGACAAGAA
* * *
7437756 AATATGTTTGTCTTAATTTAAGGCAAGAA
1 AACATGTTCGTCTTAATTT-AGACAAGAA
7437785 AA
1 AA
7437787 ATATTTTTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 16 0.33
29 33 0.67
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (28 bp):
AACATGTTCGTCTTAATTTAGACAAGAA
Found at i:7437743 original size:29 final size:27
Alignment explanation
Indices: 7437709--7437872 Score: 130
Period size: 29 Copynumber: 5.6 Consensus size: 27
7437699 AACATGTTCA
7437709 TCTTAATTTAGACAAGAAAACATATTTGG
1 TCTTAATTTAGACAAGAAAA-ATATTT-G
* *
7437738 TTTTAATTTAGACAAGAAAATATGTTTG
1 TCTTAATTTAGACAAGAAAA-ATATTTG
*
7437766 TCTTAATTTAAGGCAAGAAAAATATTTTTTG
1 TCTTAATTT-AGACAAGAAAAATA---TTTG
* * * *
7437797 TCTTAATCTAGATAGGAAAACATATTTT
1 TCTTAATTTAGACAAGAAAA-ATATTTG
* *
7437825 TCTCAATTTAGAGAAGATAAAATATTTTTG
1 TCTTAATTTAGACAAGA-AAAATA--TTTG
*
7437855 TCTTAATTAAAGACAAGA
1 TCTTAATT-TAGACAAGA
7437873 GTTGTCTTAA
Statistics
Matches: 107, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
28 30 0.28
29 37 0.35
30 18 0.17
31 22 0.21
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (27 bp):
TCTTAATTTAGACAAGAAAAATATTTG
Found at i:7439153 original size:36 final size:35
Alignment explanation
Indices: 7439111--7439198 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
7439101 TATGACTATT
* *
7439111 AATTTTTTTAAGAAAAAAAATTTTTTCTTGTATCA
1 AATTTTTTTAAGAAAAAAAAGTTTTCCTTGTATCA
* *
7439146 ATTTTTTTTTAAG-AAAAAGAGTTTTCCTTGTATCA
1 A-ATTTTTTTAAGAAAAAAAAGTTTTCCTTGTATCA
7439181 AATTTTTTTAAGAAAAAA
1 AATTTTTTTAAGAAAAAA
7439199 GGTTTTTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 10 0.22
35 26 0.57
36 10 0.22
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (35 bp):
AATTTTTTTAAGAAAAAAAAGTTTTCCTTGTATCA
Found at i:7439163 original size:35 final size:34
Alignment explanation
Indices: 7439111--7439208 Score: 133
Period size: 34 Copynumber: 2.8 Consensus size: 34
7439101 TATGACTATT
*
7439111 AATTTTTTTAAGAAAAAAAATTTTTTCTTGTATCA
1 AATTTTTTTAAG-AAAAAAAGTTTTTCTTGTATCA
* * *
7439146 ATTTTTTTTTAAGAAAAAGAGTTTTCCTTGTATCA
1 A-ATTTTTTTAAGAAAAAAAGTTTTTCTTGTATCA
*
7439181 AATTTTTTTAAGAAAAAAGGTTTTTCTT
1 AATTTTTTTAAGAAAAAAAGTTTTTCTT
7439209 ACATTAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 23 0.43
35 21 0.39
36 10 0.19
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (34 bp):
AATTTTTTTAAGAAAAAAAGTTTTTCTTGTATCA
Found at i:7439219 original size:35 final size:35
Alignment explanation
Indices: 7439111--7439219 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 35
7439101 TATGACTATT
** *
7439111 AATTTTTTTAAGAAAAAAAATTTTTTCTTGTATCAA
1 AATTTTTTTAAG-AAAAAAGGTTTTTCTTGTATTAA
** * *
7439147 TTTTTTTTTAAG-AAAAAGAGTTTTCCTTGTA-TCA
1 AATTTTTTTAAGAAAAAAG-GTTTTTCTTGTATTAA
**
7439181 AATTTTTTTAAGAAAAAAGGTTTTTCTTACATTAA
1 AATTTTTTTAAGAAAAAAGGTTTTTCTTGTATTAA
7439216 AATT
1 AATT
7439220 CTATTATTAT
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
34 25 0.44
35 22 0.39
36 10 0.18
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (35 bp):
AATTTTTTTAAGAAAAAAGGTTTTTCTTGTATTAA
Found at i:7441716 original size:18 final size:17
Alignment explanation
Indices: 7441679--7441717 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7441669 ATAGGAATGA
*
7441679 AAGCACTAAAAGAGTTG
1 AAGCACTAAAAGACTTG
*
7441696 AAGCACTAGAAGACTTGG
1 AAGCACTAAAAGACTT-G
7441714 AAGC
1 AAGC
7441718 TTAGTAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (17 bp):
AAGCACTAAAAGACTTG
Found at i:7443703 original size:20 final size:20
Alignment explanation
Indices: 7443680--7443719 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7443670 GTTTAAATTC
7443680 TTTT-TAATTAGATTTAGTTA
1 TTTTATAATT-GATTTAGTTA
*
7443700 TTTTATAATTTATTTAGTTA
1 TTTTATAATTGATTTAGTTA
7443720 CTTGATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTATAATTGATTTAGTTA
Found at i:7445598 original size:7 final size:7
Alignment explanation
Indices: 7445575--7445624 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
7445565 TTTCTAATTT
7445575 TGCTTCC
1 TGCTTCC
*
7445582 TACTTCCC
1 TGCTT-CC
7445590 TGCTTCC
1 TGCTTCC
*
7445597 TGATTCC
1 TGCTTCC
*
7445604 TACTTCC
1 TGCTTCC
7445611 TGCTTCC
1 TGCTTCC
7445618 TGCTTCC
1 TGCTTCC
7445625 CTACTTCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.06, C:0.42, G:0.10, T:0.42
Consensus pattern (7 bp):
TGCTTCC
Found at i:7445624 original size:36 final size:34
Alignment explanation
Indices: 7445575--7445641 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 34
7445565 TTTCTAATTT
*
7445575 TGCTTCCTACTTCCCTGCTTCCTGATTCCTACTTCC
1 TGCTTCCTACTTCCCTACTTCCT-ATT-CTACTTCC
*
7445611 TGCTTCCTGCTTCCCTACTTCCTATTCTACT
1 TGCTTCCTACTTCCCTACTTCCTATTCTACT
7445642 CCCATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 3 0.10
36 21 0.72
ACGTcount: A:0.09, C:0.40, G:0.07, T:0.43
Consensus pattern (34 bp):
TGCTTCCTACTTCCCTACTTCCTATTCTACTTCC
Found at i:7445633 original size:22 final size:21
Alignment explanation
Indices: 7445575--7445633 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 21
7445565 TTTCTAATTT
7445575 TGCTTCCTACTTCCCTGCTTCC
1 TGCTTCCTACTT-CCTGCTTCC
*
7445597 TGATTCCTACTTCCTGCTTCC
1 TGCTTCCTACTTCCTGCTTCC
7445618 TGCTTCCCTACTTCCT
1 TGCTT-CCTACTTCCT
7445634 ATTCTACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 13 0.38
22 21 0.62
ACGTcount: A:0.07, C:0.42, G:0.08, T:0.42
Consensus pattern (21 bp):
TGCTTCCTACTTCCTGCTTCC
Found at i:7445634 original size:7 final size:7
Alignment explanation
Indices: 7445577--7445634 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
7445567 TCTAATTTTG
7445577 CTTCCTA
1 CTTCCTA
*
7445584 CTTCCCTG
1 CTT-CCTA
7445592 CTTCCTGA
1 CTTCCT-A
7445600 -TTCCTA
1 CTTCCTA
*
7445606 CTTCCTG
1 CTTCCTA
*
7445613 CTTCCTG
1 CTTCCTA
7445620 CTTCCCTA
1 CTT-CCTA
7445628 CTTCCTA
1 CTTCCTA
7445635 TTCTACTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 1 0.02
7 30 0.70
8 12 0.28
ACGTcount: A:0.09, C:0.43, G:0.07, T:0.41
Consensus pattern (7 bp):
CTTCCTA
Found at i:7455034 original size:2 final size:2
Alignment explanation
Indices: 7455027--7455064 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7455017 CATTATGATG
7455027 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
7455065 GTTGTGCATG
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:7455272 original size:40 final size:38
Alignment explanation
Indices: 7455182--7455287 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 38
7455172 ATAGTGCTCG
* * *
7455182 TGTGCATGATGTAGGGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGAT
* *
7455220 TGTGCACGATGTGGGGGGATGCACATGATGGTGC-CTGCT
1 TGTGCACGATGTGGGGGGATGTACATGAT-G-GCACTGAT
7455259 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
7455288 GCCGGGTGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 25 0.42
39 5 0.08
40 29 0.49
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACTGAT
Found at i:7462904 original size:27 final size:28
Alignment explanation
Indices: 7462844--7462905 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
7462834 TTGGAGTATA
* * *
7462844 AGAGCAAAAATGGTAATTTTGCCACCCCT
1 AGAGC-AAAACGGTAATTTTGACACCCAT
7462873 AGAGCAAAACGGTAATTTT-ACACCCAT
1 AGAGCAAAACGGTAATTTTGACACCCAT
7462900 AGAGCA
1 AGAGCA
7462906 TTTTTCCAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 12 0.40
28 13 0.43
29 5 0.17
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (28 bp):
AGAGCAAAACGGTAATTTTGACACCCAT
Found at i:7465439 original size:22 final size:22
Alignment explanation
Indices: 7465405--7465456 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
7465395 TTCAGTTGGT
* *
7465405 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
7465427 ATCAAAGCCTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
7465449 ATCAAAGC
1 ATCAAAGC
7465457 ACAAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (22 bp):
ATCAAAGCCTTTGGTTTTAAAG
Found at i:7469185 original size:81 final size:81
Alignment explanation
Indices: 7469035--7469187 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
7469025 TCGATGTAGC
* * * ** * *
7469035 GGTAAGAATACCACAAAGTTAAACTTGGCCAACATGCCATCTTTTCTCTTTTTGTATGCTAGCTT
1 GGTAAGAATACCACAAAGTTAAACTTAGCCAACATGCCATCCTTTCCCCCTTTCTATGCTAGCTC
7469100 TAGTCCCAATATGGGG
66 TAGTCCCAATATGGGG
* * * ** * *
7469116 GGTAAGAATACCAGAAGGTTAAGCTTAGCCAATTTGCCATCCTTTCCCCCTTTCTATGTTGGCTC
1 GGTAAGAATACCACAAAGTTAAACTTAGCCAACATGCCATCCTTTCCCCCTTTCTATGCTAGCTC
7469181 TAGTCCC
66 TAGTCCC
7469188 GGTGTGGGGT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (81 bp):
GGTAAGAATACCACAAAGTTAAACTTAGCCAACATGCCATCCTTTCCCCCTTTCTATGCTAGCTC
TAGTCCCAATATGGGG
Found at i:7470425 original size:20 final size:20
Alignment explanation
Indices: 7470402--7470439 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7470392 AAGAACGTTA
7470402 AAGG-AGGATAAAGAGGGATT
1 AAGGAAGGATAAAG-GGGATT
*
7470422 AAGGAAGGCTAAAGGGGA
1 AAGGAAGGATAAAGGGGA
7470440 CTGAACAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.45, C:0.03, G:0.42, T:0.11
Consensus pattern (20 bp):
AAGGAAGGATAAAGGGGATT
Found at i:7488233 original size:2 final size:2
Alignment explanation
Indices: 7488226--7488258 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7488216 TATGATGTTG
*
7488226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7488259 CTATGTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7498596 original size:28 final size:27
Alignment explanation
Indices: 7498550--7498603 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
7498540 ATGTCTTGGT
** *
7498550 GGTGGAAAATTACTGTTTTGCCCCTAG
1 GGTGGAAAATTACCATTTTACCCCTAG
7498577 GGTGGTAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACCATTTTACCCCTA
7498604 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTACCCCTAG
Found at i:7503084 original size:16 final size:15
Alignment explanation
Indices: 7503060--7503094 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7503050 TAAAAATATA
7503060 AAAAAAATCAAAATCC
1 AAAAAAATCAAAAT-C
*
7503076 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
7503091 AAAA
1 AAAA
7503095 TTTTGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.71, C:0.14, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAATCAAAATC
Found at i:7508819 original size:21 final size:21
Alignment explanation
Indices: 7508793--7508834 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7508783 AGACAGAAAG
*
7508793 TTTCTCGCTGTAGCGAGATTC
1 TTTCTCACTGTAGCGAGATTC
*
7508814 TTTCTCACTGTAGTGAGATTC
1 TTTCTCACTGTAGCGAGATTC
7508835 AAGCGGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (21 bp):
TTTCTCACTGTAGCGAGATTC
Found at i:7513642 original size:55 final size:55
Alignment explanation
Indices: 7513553--7513714 Score: 227
Period size: 55 Copynumber: 2.9 Consensus size: 55
7513543 ATCTCACGGT
* * * *
7513553 TGTTCCTGGCATGTTGTGGGTTAACTAGTTTTATGGGTTTTTGGCGTGTCACCGC
1 TGTTACTGGCGTGTCGTGGGTTAACTAGTTTTATGGGTTTTTGACGTGTCACCGC
* *
7513608 TGTTACTGGCGTGTCGTGGGTTAACT-GAATTTATGGGTTTTTGACGTGTCACGGC
1 TGTTACTGGCGTGTCGTGGGTTAACTAG-TTTTATGGGTTTTTGACGTGTCACCGC
* * *
7513663 TGTTACTGACGTGTCGTGGGTTAACTAGTTTTTTGGGTTTTTAACGTGTCAC
1 TGTTACTGGCGTGTCGTGGGTTAACTAGTTTTATGGGTTTTTGACGTGTCAC
7513715 TGTTGTTGGT
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.01
55 93 0.98
56 1 0.01
ACGTcount: A:0.14, C:0.15, G:0.30, T:0.41
Consensus pattern (55 bp):
TGTTACTGGCGTGTCGTGGGTTAACTAGTTTTATGGGTTTTTGACGTGTCACCGC
Found at i:7513788 original size:31 final size:31
Alignment explanation
Indices: 7513750--7513826 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
7513740 TTACAGTGAT
*
7513750 TGGCGTGTCACAACATTTGAC-TTGATATGCA
1 TGGCGTGTAACAACATTTGACATT-ATATGCA
* *
7513781 TGGCGTGTTACAACATTTTACATTATATGCA
1 TGGCGTGTAACAACATTTGACATTATATGCA
7513812 TGGCGTGTAACAACA
1 TGGCGTGTAACAACA
7513827 CGACTGACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 40 0.95
32 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (31 bp):
TGGCGTGTAACAACATTTGACATTATATGCA
Found at i:7517839 original size:31 final size:31
Alignment explanation
Indices: 7517803--7518165 Score: 173
Period size: 31 Copynumber: 11.7 Consensus size: 31
7517793 TGAGAAAAGT
*
7517803 CATGCAAAACAAGTAAAATGTTATGACACGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* *
7517834 CATGCATAACAA-TTAAAT-TTCACTGACCCGC
1 CATGCATAACAAGTAAAATGTT-A-TGACACGC
* *
7517865 CATGCATAACAAGTTAAACATG--GTGACACAC
1 CATGCATAACAAG-TAAA-ATGTTATGACACGC
* *
7517896 CATGCATAACAA-TTAAAT-TTCACTGACCCGC
1 CATGCATAACAAGTAAAATGTT-A-TGACACGC
* * * **
7517927 GATGCATAACAAGTTAAACGTGGTGACACGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * * *
7517958 CATGCATAACAATTAAATTGTTCTGAC-CTAC
1 CATGCATAACAAGTAAAATGTTATGACAC-GC
* * * * * * *
7517989 CATGCATAAGAAGTTAATTGTTCTAACCCAC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * * **
7518020 CATGCATAAGAAGTTAAACGTGGTGACACGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * * * * * *
7518051 CATTCATAATAATTAAATTGTTCTAACCCGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * * * * *
7518082 CATGCATAAGAAGTTAATTGTTCTAACCCGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * * **
7518113 CATGCATAAGAAGTTAAACGTGGTGACACGC
1 CATGCATAACAAGTAAAATGTTATGACACGC
* * *
7518144 CATTCATAACAATTAAATTGTT
1 CATGCATAACAAGTAAAATGTT
7518166 CGAAACAATT
Statistics
Matches: 256, Mismatches: 62, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
28 2 0.01
29 5 0.02
30 7 0.03
31 230 0.90
32 6 0.02
33 4 0.02
34 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (31 bp):
CATGCATAACAAGTAAAATGTTATGACACGC
Found at i:7517962 original size:93 final size:91
Alignment explanation
Indices: 7517857--7518164 Score: 388
Period size: 93 Copynumber: 3.3 Consensus size: 91
7517847 TAAATTTCAC
* * * * *
7517857 TGACCCGCCATGCATAACAAGTTAAACATG-GTGACACACCATGCATAACAA-TTAAATT-TCAC
1 TGACACGCCATGCATAACAA-TTAAA-TTGTCTGAC-CACCATGCATAAGAAGTT-AATTGT-TC
* * *
7517919 TGACCCGCGATGCATAACAAGTTAAACGTGG
61 TAACCCGCCATGCATAAGAAGTTAAACGTGG
7517950 TGACACGCCATGCATAACAATTAAATTGTTCTGACCTACCATGCATAAGAAGTTAATTGTTCTAA
1 TGACACGCCATGCATAACAATTAAATTG-TCTGACC-ACCATGCATAAGAAGTTAATTGTTCTAA
*
7518015 CCCACCATGCATAAGAAGTTAAACGTGG
64 CCCGCCATGCATAAGAAGTTAAACGTGG
* * * *
7518043 TGACACGCCATTCATAATAATTAAATTGTTCTAACCCGCCATGCATAAGAAGTTAATTGTTCTAA
1 TGACACGCCATGCATAACAATTAAATTG-TCTGA-CCACCATGCATAAGAAGTTAATTGTTCTAA
7518108 CCCGCCATGCATAAGAAGTTAAACGTGG
64 CCCGCCATGCATAAGAAGTTAAACGTGG
*
7518136 TGACACGCCATTCATAACAATTAAATTGT
1 TGACACGCCATGCATAACAATTAAATTGT
7518165 TCGAAACAAT
Statistics
Matches: 194, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
91 2 0.01
92 7 0.04
93 180 0.93
94 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (91 bp):
TGACACGCCATGCATAACAATTAAATTGTCTGACCACCATGCATAAGAAGTTAATTGTTCTAACC
CGCCATGCATAAGAAGTTAAACGTGG
Found at i:7518163 original size:62 final size:62
Alignment explanation
Indices: 7517803--7518166 Score: 324
Period size: 62 Copynumber: 5.9 Consensus size: 62
7517793 TGAGAAAAGT
* * * ** *
7517803 CATGCAAAACAAGTAAAATGTTATGACACGCCATGCATAACAATTAAATT-TCACTGACCCGC
1 CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGT-TCTGACCCGC
* * *
7517865 CATGCATAACAAGTTAAACATGGTGACACACCATGCATAACAATTAAATT-TCACTGACCCGC
1 CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGT-TCTGACCCGC
* **
7517927 GATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGTTCTGACCTAC
1 CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGTTCTGACCCGC
* ** ** * * * * * ** *
7517989 CATGCATAAGAAGTTAATTGTTCTAACCCACCATGCATAAGAAGTTAAA-CGTGGTGACACGC
1 CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAA-TTAAATTGTTCTGACCCGC
* * * ** * * * *
7518051 CATTCATAATAA-TTAAATTGTTCTAACCCGCCATGCATAAGAAGTT-AATTGTTCTAACCCGC
1 CATGCATAACAAGTTAAA-CGTGGTGACACGCCATGCATAACAA-TTAAATTGTTCTGACCCGC
* *
7518113 CATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTC
1 CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGTTC
7518167 GAAACAATTA
Statistics
Matches: 249, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
61 8 0.03
62 230 0.92
63 11 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (62 bp):
CATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGTTCTGACCCGC
Found at i:7518165 original size:93 final size:93
Alignment explanation
Indices: 7517921--7518166 Score: 420
Period size: 93 Copynumber: 2.6 Consensus size: 93
7517911 AATTTCACTG
* * * *
7517921 ACCCGCGATGCATAACAAGTTAAACGTGGTGACACGCCATGCATAACAATTAAATTGTTCTGACC
1 ACCCGCCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTCTAACC
*
7517986 TACCATGCATAAGAAGTTAATTGTTCTA
66 CACCATGCATAAGAAGTTAATTGTTCTA
* *
7518014 ACCCACCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAATAATTAAATTGTTCTAACC
1 ACCCGCCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTCTAACC
*
7518079 CGCCATGCATAAGAAGTTAATTGTTCTA
66 CACCATGCATAAGAAGTTAATTGTTCTA
7518107 ACCCGCCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTC
1 ACCCGCCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTC
7518167 GAAACAATTA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 143 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (93 bp):
ACCCGCCATGCATAAGAAGTTAAACGTGGTGACACGCCATTCATAACAATTAAATTGTTCTAACC
CACCATGCATAAGAAGTTAATTGTTCTA
Found at i:7518409 original size:31 final size:31
Alignment explanation
Indices: 7518366--7518469 Score: 129
Period size: 31 Copynumber: 3.4 Consensus size: 31
7518356 TCAATTGTTC
*
7518366 TGACACGTTGAGTGGAAGCAGATTTATGGGG
1 TGACACGCTGAGTGGAAGCAGATTTATGGGG
* * * *
7518397 TGACACGCTGAGTGCAACCAAATGTATGTGGG
1 TGACACGCTGAGTGGAAGCAGATTTATG-GGG
*
7518429 -GACACGCTAAGTGGAAGCAGATTTATGGGG
1 TGACACGCTGAGTGGAAGCAGATTTATGGGG
*
7518459 TGACATGCTGA
1 TGACACGCTGA
7518470 CTTCTTGTGA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 3 0.05
31 53 0.90
32 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (31 bp):
TGACACGCTGAGTGGAAGCAGATTTATGGGG
Found at i:7520259 original size:31 final size:31
Alignment explanation
Indices: 7520221--7520452 Score: 188
Period size: 31 Copynumber: 7.6 Consensus size: 31
7520211 AACCTTAAAT
*
7520221 AGTAAAATGTTGTGACACGCCGTGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * *
7520252 AGTAAAATGTTGTCACACGCCATCCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * * * *
7520283 AG-ATAAAGGTTGTGGCATGCCATCCATAACA
1 AGTA-AAATGTTGTGACACGCCATGCATATCA
* * * * * * *
7520314 AGCAAATTGTTATCACACGCCAAGGATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* *
7520345 AGCAAAATGTTGTGACACGCCATGCATCTCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * * *
7520376 AATCAAACGTTGTGACACTCCATG-A-AT-A
1 AGTAAAATGTTGTGACACGCCATGCATATCA
*
7520404 A--AAAATGTTGTAACACGCCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* *
7520433 AGTCAAATGTTGTCACACGC
1 AGTAAAATGTTGTGACACGC
7520453 TAAGGCTGAC
Statistics
Matches: 158, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
26 17 0.11
27 1 0.01
28 4 0.03
29 3 0.02
30 2 0.01
31 130 0.82
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATATCA
Found at i:7522941 original size:31 final size:31
Alignment explanation
Indices: 7522587--7522928 Score: 361
Period size: 31 Copynumber: 11.2 Consensus size: 31
7522577 ATAAATAAGG
*
7522587 GTAAAATATTGTGACACGCCATGCATAACAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
7522618 GTAAAATGTTGTGACACGCCATGCATAACAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * * *
7522649 GCAAAATATTATGACACGCCATTCATAACAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* *
7522680 GCAAAATGTTGTGACACGCCATGCTTAACAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
*
7522711 GTAAAATGTTGTGACACACCATGCATAACAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * * *
7522742 GTCAAACGTGGTGACACGCCATGCATAACAC
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * * *
7522773 GTAAAATGATGTGACATGACATGCATAAAAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * * *
7522804 GAAAAAT-TCTATCACACGCCATGCATATCAA
1 GTAAAATGT-TGTGACACGCCATGCATAACAA
* * *
7522835 CT-AAA-G-T-TCACACGCCATGCATATCAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * * * *
7522862 GTAAAGTGCTATCACACGCCATGCATATCAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
* * *
7522893 GTAAAGTGTTGTCACACGCCATGCATATCAA
1 GTAAAATGTTGTGACACGCCATGCATAACAA
7522924 GTAAA
1 GTAAA
7522929 GTGCTGTCAC
Statistics
Matches: 266, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
27 21 0.08
28 3 0.01
29 1 0.00
30 4 0.02
31 237 0.89
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (31 bp):
GTAAAATGTTGTGACACGCCATGCATAACAA
Found at i:7523699 original size:47 final size:47
Alignment explanation
Indices: 7523519--7523884 Score: 265
Period size: 47 Copynumber: 7.9 Consensus size: 47
7523509 TAAACCACGA
* * * **
7523519 CCATGGCGTGTCACCAACTATGAACTCTAGCATGTCACATCTTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* * * ** * ** * *
7523566 CCATGGCGTGTCACCAACTTTTAACTTTGGTGTGACATAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* * * * * *
7523613 CCACGGC--AT-ACTAACTCTGAAGGCTGGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* *
7523657 CCATGGCGTCTCACCAACTCTGATCGCTAGCATGTC-CTAGATTCCTT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCAC-AGATTCCCT
* * * * * * * *
7523704 CCATGGCATGTCATCAACTCTTAACTCTGGCGTGTCACAGATTCCAT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* * * * *
7523751 CCATGGCATCTTACCAACTCTGAAGGCTGGCATGTCACAGATTCCCA
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* * * * * * *
7523798 CCATGGCGTGTCACCAACTCTTATCTCTAGCGTCTTACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
* * *
7523845 CCATGGTGTCTCACCAACTCTGAGCGGT-GCCATGTCACAG
1 CCATGGCGTCTCACCAACTCTGAACGCTAG-CATGTCACAG
7523885 TCTTGTCACA
Statistics
Matches: 245, Mismatches: 68, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
44 32 0.13
45 1 0.00
46 3 0.01
47 208 0.85
48 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.28
Consensus pattern (47 bp):
CCATGGCGTCTCACCAACTCTGAACGCTAGCATGTCACAGATTCCCT
Found at i:7523756 original size:94 final size:94
Alignment explanation
Indices: 7523518--7523884 Score: 321
Period size: 94 Copynumber: 3.9 Consensus size: 94
7523508 ATAAACCACG
* * * * * ** *
7523518 ACCATGGCGTGTCACCAACTATGAACTCTAGCATGTCACATCTTCCCTCCATGGCGTGTCACCAA
1 ACCATGGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
* * ** * ** * *
7523583 CTTTTAACTTTGGTGTGACATAGATTCCC
66 CTCTGAACGCTAGCATGTCACAGATTCCC
* * * * **
7523612 TCCACGGCA--T-ACTAACTCTGAAGGCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
1 ACCATGGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
* *
7523674 CTCTGATCGCTAGCATGTC-CTAGATTCCT
66 CTCTGAACGCTAGCATGTCAC-AGATTCCC
* * * * *
7523703 TCCATGGCATGTCATCAACTCTTAACTCTGGCGTGTCACAGATTCCATCCATGGCATCTTACCAA
1 ACCATGGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
* *
7523768 CTCTGAAGGCTGGCATGTCACAGATTCCC
66 CTCTGAACGCTAGCATGTCACAGATTCCC
* * * * * *
7523797 ACCATGGCGTGTCACCAACTCTTATCTCTAGCGTCTTACAGATTCCCTCCATGGTGTCTCACCAA
1 ACCATGGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
* *
7523862 CTCTGAGCGGT-GCCATGTCACAG
66 CTCTGAACGCTAG-CATGTCACAG
7523885 TCTTGTCACA
Statistics
Matches: 217, Mismatches: 50, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
91 68 0.31
92 1 0.00
93 2 0.01
94 145 0.67
95 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.28
Consensus pattern (94 bp):
ACCATGGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
CTCTGAACGCTAGCATGTCACAGATTCCC
Found at i:7523881 original size:141 final size:140
Alignment explanation
Indices: 7523625--7523884 Score: 333
Period size: 141 Copynumber: 1.8 Consensus size: 140
7523615 ACGGCATACT
* *
7523625 AACTCTGAAGGCTGGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGATCGCTAGCAT
1 AACTCTGAAGGCTGGCATGTCACAGATTCCCACCATGGCGTCTCACCAACTCTGATCGCTAGCA-
* * * * * * *
7523690 GTCCTAGATTCCTTCCATGGCATGTCATCAACTCTTAACTCTGGCGTGTCACAGATTCCATCCAT
65 GTCCTAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGCCATGTCACAGATTCCATCCAT
7523755 GGCATCTTACC
130 GGCATCTTACC
* * *
7523766 AACTCTGAAGGCTGGCATGTCACAGATTCCCACCATGGCGTGTCACCAACTCTTATCTCTAGC-G
1 AACTCTGAAGGCTGGCATGTCACAGATTCCCACCATGGCGTCTCACCAACTCTGATCGCTAGCAG
* ** * *
7523830 TCTTACAGATTCCCTCCATGGTGTCTCACCAACTCTGAGCGGTGCCATGTCACAG
66 TCCT--AGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGCCATGTCACAG
7523885 TCTTGTCACA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
139 4 0.04
141 96 0.96
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (140 bp):
AACTCTGAAGGCTGGCATGTCACAGATTCCCACCATGGCGTCTCACCAACTCTGATCGCTAGCAG
TCCTAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGCCATGTCACAGATTCCATCCATG
GCATCTTACC
Found at i:7525189 original size:35 final size:34
Alignment explanation
Indices: 7525111--7525225 Score: 151
Period size: 34 Copynumber: 3.4 Consensus size: 34
7525101 TATCAACATC
* * *
7525111 AAAATCAGAAGCTAAGCTGCTCTATTTTTCCTCA
1 AAAATCAGCAGCTAAGCTGCTCTATTCTCCCTCA
7525145 AAAATCAGCAGCTAAGCTGCTCTATTCTCCCTCCA
1 AAAATCAGCAGCTAAGCTGCTCTATTCTCCCT-CA
*
7525180 AAAATCAGCAGCCAAGCTGCTCT-TTCCTCCCTCA
1 AAAATCAGCAGCTAAGCTGCTCTATT-CTCCCTCA
* *
7525214 AAACTCGGCAGC
1 AAAATCAGCAGC
7525226 CAAAGCTTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 43 0.59
35 30 0.41
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (34 bp):
AAAATCAGCAGCTAAGCTGCTCTATTCTCCCTCA
Found at i:7525232 original size:35 final size:34
Alignment explanation
Indices: 7525081--7525228 Score: 149
Period size: 34 Copynumber: 4.3 Consensus size: 34
7525071 CCAAAACTTT
** *
7525081 TCAGCAGCCAAAGCTGCTC-ATATCAACATC-AAAA
1 TCAGCAGCC-AAGCTGCTCTAT-TCTCCCTCAAAAA
* * * *
7525115 TCAGAAGCTAAGCTGCTCTATTTTTCCTCAAAAA
1 TCAGCAGCCAAGCTGCTCTATTCTCCCTCAAAAA
*
7525149 TCAGCAGCTAAGCTGCTCTATTCTCCCTCCAAAAA
1 TCAGCAGCCAAGCTGCTCTATTCTCCCT-CAAAAA
*
7525184 TCAGCAGCCAAGCTGCTCT-TTCCTCCCTCAAAAC
1 TCAGCAGCCAAGCTGCTCTATT-CTCCCTCAAAAA
*
7525218 TCGGCAGCCAA
1 TCAGCAGCCAA
7525229 AGCTTCAAAG
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
33 13 0.13
34 55 0.56
35 30 0.31
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (34 bp):
TCAGCAGCCAAGCTGCTCTATTCTCCCTCAAAAA
Found at i:7525295 original size:35 final size:35
Alignment explanation
Indices: 7525231--7525317 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 35
7525221 GCAGCCAAAG
* * *
7525231 CTTCAAAGATCAGCAGCCAAAACTGCACCTTTCAGC
1 CTTCAAA-ATCAGCAGCAAAAACTACACCTTACAGC
* *
7525267 CTTCAAAATCAGTAGCAAAAATTACACCTTACAGC
1 CTTCAAAATCAGCAGCAAAAACTACACCTTACAGC
7525302 CTTCAAAATCAGCAGC
1 CTTCAAAATCAGCAGC
7525318 TAAAGCTGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
35 38 0.84
36 7 0.16
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (35 bp):
CTTCAAAATCAGCAGCAAAAACTACACCTTACAGC
Found at i:7526395 original size:42 final size:42
Alignment explanation
Indices: 7526331--7526440 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
7526321 GGGTATTACA
* *
7526331 TATGCGCACTCCTACTCGCACATAGCC-AGGTCAGCATCGGCT
1 TATGCACACTCCTACTCGCACATAGCCGA-GTCAGCATCAGCT
* * *
7526373 TATGCACACTCCCACTCACACATAGTCGAGTCAGCATCAGCT
1 TATGCACACTCCTACTCGCACATAGCCGAGTCAGCATCAGCT
*
7526415 TATGCACACTTCTACTCGCACATAGC
1 TATGCACACTCCTACTCGCACATAGC
7526441 TGGGTCAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.23
Consensus pattern (42 bp):
TATGCACACTCCTACTCGCACATAGCCGAGTCAGCATCAGCT
Found at i:7529409 original size:43 final size:43
Alignment explanation
Indices: 7529353--7529464 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
7529343 TATTGATTCG
* *
7529353 GCTATGTGTGAGTAGGGAGTGCGCATAAGCCGATGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCA
* * *
7529396 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCA
*
7529439 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
7529465 GAGTTGGGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCA
Found at i:7532107 original size:12 final size:12
Alignment explanation
Indices: 7532071--7532107 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
7532061 TTTGAAAAAA
7532071 ATGTATCGATAC
1 ATGTATCGATAC
7532083 AT-TAT-GA-AC
1 ATGTATCGATAC
7532092 ATGTATCGATAC
1 ATGTATCGATAC
7532104 ATGT
1 ATGT
7532108 TCATCAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.18
10 5 0.23
11 5 0.23
12 8 0.36
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:7532359 original size:16 final size:16
Alignment explanation
Indices: 7532335--7532365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7532325 TTAAAATATA
7532335 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
7532351 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
7532366 TAAATTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:7533654 original size:38 final size:38
Alignment explanation
Indices: 7533593--7533706 Score: 158
Period size: 38 Copynumber: 3.0 Consensus size: 38
7533583 TACACTCAAC
*
7533593 TCATGTGCACTCCTTACAT-GCACAAGGCAATATCATCA
1 TCATGTGCACTCCCTAC-TCGCACAAGGCAATATCATCA
*
7533631 TCATGTGCACTCCCTACTCGCACAAGGTAATATCATCA
1 TCATGTGCACTCCCTACTCGCACAAGGCAATATCATCA
* ***
7533669 TCATGTGCACTCCCTACTCACACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACAAGGCAATATCATCA
7533707 CACGCACTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 67 0.99
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.28
Consensus pattern (38 bp):
TCATGTGCACTCCCTACTCGCACAAGGCAATATCATCA
Found at i:7541426 original size:38 final size:38
Alignment explanation
Indices: 7541361--7541498 Score: 206
Period size: 38 Copynumber: 3.6 Consensus size: 38
7541351 CACACACAGC
* * *
7541361 TCATATGCACTCCCTACACGCATAAGGCAATATCATCA
1 TCATGTGCACTCCCTACATGCACAAGGCAATATCATCA
7541399 TCATGTGCACTCCCTACATGCACAAGGCAATATCATCA
1 TCATGTGCACTCCCTACATGCACAAGGCAATATCATCA
*
7541437 TCATGTGCACTCCCTAC-TCGCACAAGGCAATATCATTA
1 TCATGTGCACTCCCTACAT-GCACAAGGCAATATCATCA
* *
7541475 TCATGTGCACTTCCTACTTGCACA
1 TCATGTGCACTCCCTACATGCACA
7541499 TTTCACTATC
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
37 1 0.01
38 91 0.98
39 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (38 bp):
TCATGTGCACTCCCTACATGCACAAGGCAATATCATCA
Found at i:7550235 original size:38 final size:38
Alignment explanation
Indices: 7550151--7550250 Score: 114
Period size: 38 Copynumber: 2.6 Consensus size: 38
7550141 CCGGCTCATA
7550151 TACATCCCCCCACATCGTGCACATAGTCGGCACCATCGTG
1 TACATCCCCCCACATCGTGCACATAGTC-G-ACCATCGTG
* *
7550191 TGCATCCCCCCACATTGTGCACAATTAGT-G-CCATCGTG
1 TACATCCCCCCACATCGTGCAC-A-TAGTCGACCATCGTG
* *
7550229 TACATCCCCCCGCATCTTGCAC
1 TACATCCCCCCACATCGTGCAC
7550251 TGAGCACTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
38 26 0.50
40 21 0.40
41 1 0.02
42 4 0.08
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (38 bp):
TACATCCCCCCACATCGTGCACATAGTCGACCATCGTG
Found at i:7552942 original size:29 final size:28
Alignment explanation
Indices: 7552882--7552948 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
7552872 CATAGCATAC
* * **
7552882 TCATTTAAGTGCCAACATGTGCACTATT
1 TCATTTAAGTGCCAACATATGCACAACA
*
7552910 TCATTTAGGTGCCTAACATATGCACAACA
1 TCATTTAAGTGCC-AACATATGCACAACA
7552939 TCATTTAAGT
1 TCATTTAAGT
7552949 CTTTAAATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (28 bp):
TCATTTAAGTGCCAACATATGCACAACA
Found at i:7563052 original size:2 final size:2
Alignment explanation
Indices: 7563045--7563171 Score: 151
Period size: 2 Copynumber: 65.5 Consensus size: 2
7563035 TATGTTTGAA
7563045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7563085 AT -T AT AT AT AT AT AT AT ANT GT -T AGT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
* *
7563126 AT AT AT AT AT AT AT AT AT AT ACT -T AT AT TT AT GT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
7563167 AT AT A
1 AT AT A
7563172 CAGGAATTCT
Statistics
Matches: 110, Mismatches: 5, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
1 7 0.06
2 99 0.90
3 4 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7564296 original size:13 final size:13
Alignment explanation
Indices: 7564280--7564313 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
7564270 TCTTCTTCTT
7564280 CCCATTTCTCCTC
1 CCCATTTCTCCTC
7564293 CCCATTTCTCCTC
1 CCCATTTCTCCTC
7564306 CCCATTTC
1 CCCATTTC
7564314 CAACTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.53, G:0.00, T:0.38
Consensus pattern (13 bp):
CCCATTTCTCCTC
Found at i:7566669 original size:43 final size:43
Alignment explanation
Indices: 7566553--7566689 Score: 193
Period size: 43 Copynumber: 3.2 Consensus size: 43
7566543 GTTGTGTGTT
* * * * *
7566553 GATGATGACCTGGCTATGTTCGAGTAGGGACTGTGCATAAGTT
1 GATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTC
*
7566596 GATGATGACCTAGCTATGTGCGAGTAAGGAGTGCGCATAAGTC
1 GATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTC
* * *
7566639 GATGATGACCTGGCTATGTGCGAGTAAGGAGAGCACATAAGCC
1 GATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTC
7566682 GATGATGA
1 GATGATGA
7566690 TGATCTGACT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (43 bp):
GATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTC
Found at i:7566986 original size:22 final size:22
Alignment explanation
Indices: 7566954--7567002 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
7566944 CCAGCCCTGT
*
7566954 TTCTCATTGCATCAAAAAAGAA
1 TTCTCACTGCATCAAAAAAGAA
*
7566976 TTCTCACTGCATCGAAAAAGAA
1 TTCTCACTGCATCAAAAAAGAA
7566998 TTCTC
1 TTCTC
7567003 GCTACAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (22 bp):
TTCTCACTGCATCAAAAAAGAA
Found at i:7567013 original size:22 final size:22
Alignment explanation
Indices: 7566968--7567014 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7566958 CATTGCATCA
* *
7566968 AAAAAGAATTCTCACTGCATCG
1 AAAAAGAATTCTCACTACAACG
*
7566990 AAAAAGAATTCTCGCTACAACG
1 AAAAAGAATTCTCACTACAACG
7567012 AAA
1 AAA
7567015 GATTTCACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAAAGAATTCTCACTACAACG
Found at i:7574037 original size:43 final size:43
Alignment explanation
Indices: 7573990--7574115 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
7573980 TGTGTGTTGA
* * * *
7573990 TGATGACCCGGCTATGTGCGTGTAGGGAGTGTGCATAAGCCAT
1 TGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGCCAG
* * *
7574033 TGATGACCCGGCTATGTGCGAGTAAGAAGTGCGCGTAAGCCGG
1 TGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGCCAG
** *
7574076 TGATGACCTAGCTATGTGCGAGTAAGGAGTGCACATAAGC
1 TGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGC
7574116 TAATAATGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (43 bp):
TGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGCCAG
Found at i:7576394 original size:5 final size:5
Alignment explanation
Indices: 7576386--7576413 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7576376 GCACATTTTA
7576386 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
7576414 TTCAACCTGC
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:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:7583290 original size:14 final size:15
Alignment explanation
Indices: 7583266--7583310 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
7583256 AATTCAAGAT
*
7583266 TTTCATTTTCTTTTC
1 TTTCGTTTTCTTTTC
7583281 TTT-GTTTTC-TTTC
1 TTTCGTTTTCTTTTC
*
7583294 TTTCTTTTTCTTTTC
1 TTTCGTTTTCTTTTC
7583309 TT
1 TT
7583311 ACTCCTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 10 0.38
15 9 0.35
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTCGTTTTCTTTTC
Found at i:7584180 original size:52 final size:52
Alignment explanation
Indices: 7584118--7584321 Score: 282
Period size: 52 Copynumber: 3.9 Consensus size: 52
7584108 GCACATGACG
* *
7584118 GTGATAGTGGCGTGCTGTGTGAATGCACACAATGATGATATATGCCATGTGC
1 GTGATAGTGGCGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
* * * *
7584170 GTGATAGTGGCATGCTGTGTGAGTGCACATACTAATGATATATGCAATGTGC
1 GTGATAGTGGCGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
* * * *
7584222 ATGATAGTGGTGTGTTGTGTGAGTGCACACACTGATGATATTTGCCATGTGC
1 GTGATAGTGGCGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
* * * *
7584274 GTCATAGTGGTGTGTTGTGTGAGTGCAAACACTGATGATATATGCCAT
1 GTGATAGTGGCGTGCTGTGTGAGTGCACACACTGATGATATATGCCAT
7584322 CTGTGAGGGG
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 134 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (52 bp):
GTGATAGTGGCGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
Found at i:7593060 original size:15 final size:15
Alignment explanation
Indices: 7593038--7593082 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
7593028 TGTTATCTTC
*
7593038 CCTGCAATCACATTG
1 CCTGCAATCACATTA
*
7593053 CTTGCAATCACATTA
1 CCTGCAATCACATTA
*
7593068 CCTGTAATCACATTA
1 CCTGCAATCACATTA
7593083 TATTGTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (15 bp):
CCTGCAATCACATTA
Found at i:7593161 original size:36 final size:36
Alignment explanation
Indices: 7593121--7593200 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 36
7593111 TATGATTGCT
*
7593121 ATATGAGTATAAAGGGCAAATGTGGGGTGTTGTACC
1 ATATGAGTATAAAGGCCAAATGTGGGGTGTTGTACC
* *
7593157 ATATGTG-A-AAAGGCCAGATGTGGGGTGTTGTACC
1 ATATGAGTATAAAGGCCAAATGTGGGGTGTTGTACC
*
7593191 ACATGAGTAT
1 ATATGAGTAT
7593201 TTGGGACCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 29 0.78
35 2 0.05
36 6 0.16
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.28
Consensus pattern (36 bp):
ATATGAGTATAAAGGCCAAATGTGGGGTGTTGTACC
Found at i:7596901 original size:10 final size:9
Alignment explanation
Indices: 7596865--7596925 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
7596855 GAGAAAATAG
7596865 ATATTTTTA
1 ATATTTTTA
* *
7596874 TTAATTATTA
1 AT-ATTTTTA
7596884 ATTATTTTTA
1 A-TATTTTTA
7596894 TATATTTTTA
1 -ATATTTTTA
*
7596904 A-ATGTTTA
1 ATATTTTTA
7596912 TATATTTTTA
1 -ATATTTTTA
7596922 ATAT
1 ATAT
7596926 AATTAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
8 6 0.15
9 7 0.17
10 26 0.63
11 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
ATATTTTTA
Found at i:7596904 original size:20 final size:20
Alignment explanation
Indices: 7596866--7596923 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 20
7596856 AGAAAATAGA
*
7596866 TATTTTTAT-TAATTATTAAT
1 TATTTTTATAT-ATTTTTAAT
7596886 TATTTTTATATATTTTTAA-
1 TATTTTTATATATTTTTAAT
*
7596905 -ATGTTTATATATTTTTAAT
1 TATTTTTATATATTTTTAAT
7596924 ATAATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 17 0.50
20 16 0.47
21 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTTATATATTTTTAAT
Found at i:7599923 original size:35 final size:35
Alignment explanation
Indices: 7599883--7599972 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
7599873 TATAGAAAAT
* *
7599883 AACTAGAACAAGTAAAACAGTACTTCACATAGAAC
1 AACTAGAACAAGTAGAACAGTACTCCACATAGAAC
* * * * *
7599918 AACTAGAATAAGTAGAGCATTACTCCATATGGAAC
1 AACTAGAACAAGTAGAACAGTACTCCACATAGAAC
7599953 AACTA-ATACAAGTAGAACAG
1 AACTAGA-ACAAGTAGAACAG
7599973 CTATTTCGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
34 1 0.02
35 43 0.98
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (35 bp):
AACTAGAACAAGTAGAACAGTACTCCACATAGAAC
Found at i:7600167 original size:35 final size:35
Alignment explanation
Indices: 7600093--7600178 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
7600083 TGGTACAGAG
* * * * *
7600093 AACAACTAAAACAAGTGAAGCGCTATTTCATGCAT
1 AACAACTAGAACAAGTGAAGCACTACTTCACGCAA
* *
7600128 AACAATTAGAACAAGTGAAGTACTACTTCACGCAA
1 AACAACTAGAACAAGTGAAGCACTACTTCACGCAA
*
7600163 AACAACTAGAATAAGT
1 AACAACTAGAACAAGT
7600179 AGAGTATTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (35 bp):
AACAACTAGAACAAGTGAAGCACTACTTCACGCAA
Found at i:7600480 original size:35 final size:35
Alignment explanation
Indices: 7600432--7600517 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
7600422 TTGTATAGAA
* * *
7600432 AACAACTAAAACAAGTGAAGCGCTACTTCATGTAG
1 AACAACTAGAACAAGTGAAGCACTACTTCATGCAG
7600467 AACAACTAGAACAAGTGAAGCACTACTTCATGCAG
1 AACAACTAGAACAAGTGAAGCACTACTTCATGCAG
*
7600502 AACAACTAGAATAAGT
1 AACAACTAGAACAAGT
7600518 AGAGCAATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (35 bp):
AACAACTAGAACAAGTGAAGCACTACTTCATGCAG
Found at i:7600537 original size:339 final size:339
Alignment explanation
Indices: 7599915--7600586 Score: 1053
Period size: 339 Copynumber: 2.0 Consensus size: 339
7599905 CTTCACATAG
*
7599915 AACAACTAGAATAAGTAGAGCATTACTCCATATGGAACAACTAATACAAGTAGAACAGCTATTTC
1 AACAACTAGAATAAGTAGAGCATTACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTC
7599980 GAATAGAATAACCACTTCACTTGGATGACAGTGAAAACAACTAGGAATAAGTGACAAGGTTCATG
66 GAATAGAATAACCACTTCACTTGGATGACAGTGAAAACAACTAGGAATAAGTGACAAGGTTCATG
* *
7600045 GGTTACTTTCTTCTTAAGAATTATGTTACAACATAATATGGTACAGAGAACAACTAAAACAAGTG
131 GGTTACTTTCATCTTAAGAATTATGTTACAACATAATATGGTACAGAAAACAACTAAAACAAGTG
* * * *
7600110 AAGCGCTATTTCATGCATAACAATTAGAACAAGTGAAGTACTACTTCACGCAAAACAACTAGAAT
196 AAGCGCTACTTCATGCAGAACAACTAGAACAAGTGAAGCACTACTTCACGCAAAACAACTAGAAT
* * * *
7600175 AAGTAGAGTATTACTCTATATGG-ACAACTAATACAAGTAGAACAGCTACTTCGAATAGAATAAC
261 AAGTAGAGCAATACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTCAAATAGAATAAC
7600239 CNCTACTTCACGCAA
326 C-CTACTTCACGCAA
* *
7600254 AACAACTAGAATAAGTAGAGTATTACTCTATATGGAACAACTAATACAAGTAGAACAGCTACTTC
1 AACAACTAGAATAAGTAGAGCATTACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTC
* * ** * ** *
7600319 GAATAGAATAACCATTTTACTTGGATGACAGTGAAAGTAACTCGGAATAAGTGGGAGGGTTCATG
66 GAATAGAATAACCACTTCACTTGGATGACAGTGAAAACAACTAGGAATAAGTGACAAGGTTCATG
* *
7600384 GGTTACTTTCATCTTAAGAATTATGTTACAACATAATATTGTATAGAAAACAACTAAAACAAGTG
131 GGTTACTTTCATCTTAAGAATTATGTTACAACATAATATGGTACAGAAAACAACTAAAACAAGTG
* * *
7600449 AAGCGCTACTTCATGTAGAACAACTAGAACAAGTGAAGCACTACTTCATGCAGAACAACTAGAAT
196 AAGCGCTACTTCATGCAGAACAACTAGAACAAGTGAAGCACTACTTCACGCAAAACAACTAGAAT
* * *
7600514 AAGTAGAGCAATACTCCATATGGAATAACTAATACTAGTAGAATAGCTACTTCAAATAGAATAA-
261 AAGTAGAGCAATACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTCAAATAGAATAAC
7600578 CC-ACTTCAC
326 CCTACTTCAC
7600587 TTGGATGATA
Statistics
Matches: 303, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
337 7 0.02
338 1 0.00
339 259 0.85
340 36 0.12
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (339 bp):
AACAACTAGAATAAGTAGAGCATTACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTC
GAATAGAATAACCACTTCACTTGGATGACAGTGAAAACAACTAGGAATAAGTGACAAGGTTCATG
GGTTACTTTCATCTTAAGAATTATGTTACAACATAATATGGTACAGAAAACAACTAAAACAAGTG
AAGCGCTACTTCATGCAGAACAACTAGAACAAGTGAAGCACTACTTCACGCAAAACAACTAGAAT
AAGTAGAGCAATACTCCATATGGAACAACTAATACAAGTAGAACAGCTACTTCAAATAGAATAAC
CCTACTTCACGCAA
Found at i:7600792 original size:29 final size:29
Alignment explanation
Indices: 7600777--7600888 Score: 136
Period size: 29 Copynumber: 3.9 Consensus size: 29
7600767 TCACATGCAC
* *
7600777 CTTCTTCTCTTGTACCTATTCATGTATAG
1 CTTCTTCTCTTGTACCTATTCACGTACAG
* * * *
7600806 GTTTTTCTCTTGTACCTATTCTCGTATAG
1 CTTCTTCTCTTGTACCTATTCACGTACAG
* *
7600835 CTTCTTCTCTTGTACTTGTTCACGTACAG
1 CTTCTTCTCTTGTACCTATTCACGTACAG
7600864 CTTCTTCTCTTGTACCT-TTACACGT
1 CTTCTTCTCTTGTACCTATT-CACGT
7600889 GTACCGCTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.03
29 69 0.97
ACGTcount: A:0.14, C:0.26, G:0.12, T:0.48
Consensus pattern (29 bp):
CTTCTTCTCTTGTACCTATTCACGTACAG
Found at i:7602905 original size:13 final size:13
Alignment explanation
Indices: 7602870--7602905 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7602860 TATATATAGT
7602870 ATAAAAATAATATA
1 ATAAAAA-AATATA
*
7602884 ATAATAAAATATA
1 ATAAAAAAATATA
7602897 ATAAAAAAA
1 ATAAAAAAA
7602906 CCAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
ATAAAAAAATATA
Found at i:7603349 original size:20 final size:19
Alignment explanation
Indices: 7603320--7603360 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
7603310 CTCAATCCAT
*
7603320 AAATAAAAAAGATACCCAAA
1 AAATAAAAAAAATA-CCAAA
*
7603340 AAATACAAAAAATACCAAA
1 AAATAAAAAAAATACCAAA
7603359 AA
1 AA
7603361 TCAATCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.73, C:0.15, G:0.02, T:0.10
Consensus pattern (19 bp):
AAATAAAAAAAATACCAAA
Found at i:7604268 original size:15 final size:15
Alignment explanation
Indices: 7604243--7604292 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
7604233 AAGTAACTCT
7604243 TAAAAATATATAAAAA
1 TAAAAA-ATATAAAAA
*
7604259 TAAAAAATAT-AAAT
1 TAAAAAATATAAAAA
7604273 TAAAAAAATATAAATAA
1 T-AAAAAATATAAA-AA
7604290 TAA
1 TAA
7604293 TATGCCGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 10 0.34
17 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:7606261 original size:35 final size:35
Alignment explanation
Indices: 7606215--7606359 Score: 200
Period size: 35 Copynumber: 4.1 Consensus size: 35
7606205 AGTGTGGATA
7606215 ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
1 ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
*
7606250 ATGATGTTGAAGTGTGCGAGTAGGGTGTGCACACG
1 ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
* * *
7606285 ATGATGTTGAGGTGTGCGAGTAGGGAATGCACACA
1 ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
* * * * * *
7606320 ATGATATAGAAATCTGCAAGTAGGGAGTGCACATG
1 ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
7606355 ATGAT
1 ATGAT
7606360 ATATAGTGTG
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 96 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.24
Consensus pattern (35 bp):
ATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACG
Found at i:7614176 original size:477 final size:477
Alignment explanation
Indices: 7613270--7614210 Score: 1747
Period size: 477 Copynumber: 2.0 Consensus size: 477
7613260 AAGTACCAAG
* *
7613270 CCTTTACCATAAGCACATCTGAATGAAAAAAGCATCCACATTAGTCACAACTTTGTAACGCCCAG
1 CCTTTACCATAAGCACATCTGAATGAAAAAAGCATCCACATTAGTCAAAACTTTGTAACGCCCAA
7613335 CTGACTCGACGATTTTGAGTTGGTACAAGTCTAGCCTCTTATATATAGATCCTAAATACAATGGA
66 CTGACTCGACGATTTTGAGTTGGTACAAGTCTAGCCTCTTATATATAGATCCTAAATACAATGGA
* *
7613400 GCAAGAGGAAAATGTATTCCCTTAATAATTTTTATTGCTAAAGGAACAACTGCTGAAAAGATACC
131 GCAAGAGGAAAACGTATTCCCTTAACAATTTTTATTGCTAAAGGAACAACTGCTGAAAAGATACC
7613465 ATCATCTGGACACCCTGCTAGTATGTGTCGTGCCAACCAAAAGATTATTAAAGCCACTAAATCAT
196 ATCATCTGGACACCCTGCTAGTATGTGTCGTGCCAACCAAAAGATTATTAAAGCCACTAAATCAT
7613530 GCTTATGGTCTGGATACTCAAGAAGGGCAATCTCAATTCCCTTAGCATTGAACTTCTTATTAGAT
261 GCTTATGGTCTGGATACTCAAGAAGGGCAATCTCAATTCCCTTAGCATTGAACTTCTTATTAGAT
7613595 ACCCCTATCCCACTAGAGAACCGTGCAACCTTTGAAGTTTTACTCAAACTCTTGAGTAGATCAAA
326 ACCCCTATCCCACTAGAGAACCGTGCAACCTTTGAAGTTTTACTCAAACTCTTGAGTAGATCAAA
* *
7613660 GAAAAAGTCTCAAATACACATCTTTTCTTCAGAAAGTTTAATAGAGTGAAAATCTTGCTTCCCTA
391 GAAAAAGTCTCAAATACACATATTTTCTTCAGAAAGTTTAATAGAGTGAAAATCATGCTTCCCTA
7613725 TACAAAGAAAGTTTTACTCAAA
456 TACAAAGAAAGTTTTACTCAAA
* *
7613747 CCTTTCCCATAGGCACATCTGAATGAAAAAAGCATCCACATTAGTCAAAACTTTGTAACGCCCAA
1 CCTTTACCATAAGCACATCTGAATGAAAAAAGCATCCACATTAGTCAAAACTTTGTAACGCCCAA
*
7613812 CTGACTCGACGGTTTTGAGTTGGTACAAGTCTAGCCTCTTATATATAGATCCTAAATACAATGGA
66 CTGACTCGACGATTTTGAGTTGGTACAAGTCTAGCCTCTTATATATAGATCCTAAATACAATGGA
*
7613877 GCAAGAGGAAAACGTATTCCCTTAACAATTTTTATTGCTAAAGGAACAACTGCTGAAACGATACC
131 GCAAGAGGAAAACGTATTCCCTTAACAATTTTTATTGCTAAAGGAACAACTGCTGAAAAGATACC
* *
7613942 ATCATCTGGACACCCTGGTAGTATGTGTCGTGCCAACCAAAAGATTATTAAAGCCACTAAGTCAT
196 ATCATCTGGACACCCTGCTAGTATGTGTCGTGCCAACCAAAAGATTATTAAAGCCACTAAATCAT
7614007 GCTTATGGTCTGGATACTCAAGAAGGGCAATCTCAATTCCCTTAGCATTGAACTTCTTATTAGAT
261 GCTTATGGTCTGGATACTCAAGAAGGGCAATCTCAATTCCCTTAGCATTGAACTTCTTATTAGAT
*
7614072 ACCCCTATCCCACTAGAGAACCGTGCAACCTTTGAAGTTTTGCTCAAACTCTTGAGTAGATCAAA
326 ACCCCTATCCCACTAGAGAACCGTGCAACCTTTGAAGTTTTACTCAAACTCTTGAGTAGATCAAA
* *
7614137 GCAAAAGTCTCAAATACACATATTTTCTTCAGAAAGTTTAATATAGTGAAAATCATGCTTCCCTA
391 GAAAAAGTCTCAAATACACATATTTTCTTCAGAAAGTTTAATAGAGTGAAAATCATGCTTCCCTA
7614202 TACAAAGAA
456 TACAAAGAA
7614211 GTTCTAAGAG
Statistics
Matches: 449, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
477 449 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (477 bp):
CCTTTACCATAAGCACATCTGAATGAAAAAAGCATCCACATTAGTCAAAACTTTGTAACGCCCAA
CTGACTCGACGATTTTGAGTTGGTACAAGTCTAGCCTCTTATATATAGATCCTAAATACAATGGA
GCAAGAGGAAAACGTATTCCCTTAACAATTTTTATTGCTAAAGGAACAACTGCTGAAAAGATACC
ATCATCTGGACACCCTGCTAGTATGTGTCGTGCCAACCAAAAGATTATTAAAGCCACTAAATCAT
GCTTATGGTCTGGATACTCAAGAAGGGCAATCTCAATTCCCTTAGCATTGAACTTCTTATTAGAT
ACCCCTATCCCACTAGAGAACCGTGCAACCTTTGAAGTTTTACTCAAACTCTTGAGTAGATCAAA
GAAAAAGTCTCAAATACACATATTTTCTTCAGAAAGTTTAATAGAGTGAAAATCATGCTTCCCTA
TACAAAGAAAGTTTTACTCAAA
Found at i:7616366 original size:35 final size:35
Alignment explanation
Indices: 7616318--7616398 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
7616308 TTGTACAGAG
* ** *
7616318 AACAACTAAAACAAGGGAAGCGTTACTTCACGCAT
1 AACAACTAGAACAAGGGAAGCACTACTTCACGCAA
* *
7616353 AACAATTAGAACAAGTGAAGCACTACTTCACGCAA
1 AACAACTAGAACAAGGGAAGCACTACTTCACGCAA
7616388 AACAACTAGAA
1 AACAACTAGAA
7616399 TAAGTAGAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.16
Consensus pattern (35 bp):
AACAACTAGAACAAGGGAAGCACTACTTCACGCAA
Found at i:7616704 original size:29 final size:29
Alignment explanation
Indices: 7616638--7616774 Score: 100
Period size: 29 Copynumber: 4.7 Consensus size: 29
7616628 TCTTACCTTG
* * ** *
7616638 TTCTCGTATACCTATTCACATACACCTTC
1 TTCTCTTATATCTATTCATGTACAGCTTC
* * * *
7616667 TTTTGTTGTATCTATTCATGTACAGCTAC
1 TTCTCTTATATCTATTCATGTACAGCTTC
* * *
7616696 TTCTCTTGTACCTATTTTCA--TATAGCTTC
1 TTCTCTTATATCTA--TTCATGTACAGCTTC
*
7616725 TTCTCTTATA-CTTGTTCATGTACAGCTTC
1 TTCTCTTATATC-TATTCATGTACAGCTTC
*
7616754 TTCTCTTATATCTTTTCATGT
1 TTCTCTTATATCTATTCATGT
7616775 GTACCTTTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
27 4 0.05
28 1 0.01
29 74 0.88
30 1 0.01
31 4 0.05
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.49
Consensus pattern (29 bp):
TTCTCTTATATCTATTCATGTACAGCTTC
Found at i:7616711 original size:58 final size:58
Alignment explanation
Indices: 7616646--7616760 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 58
7616636 TGTTCTCGTA
* * *
7616646 TACCTATTCACATACACCTTCTTTTGTTGTA-TCTATTCATGTACAGCTACTTCTCTTG
1 TACCTATTCACATACACCTTCTTCTCTTATACT-TATTCATGTACAGCTACTTCTCTTG
** * * * *
7616704 TACCTATTTTCATATAGCTTCTTCTCTTATACTTGTTCATGTACAGCTTCTTCTCTT
1 TACCTATTCACATACACCTTCTTCTCTTATACTTATTCATGTACAGCTACTTCTCTT
7616761 ATATCTTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 46 0.98
59 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.48
Consensus pattern (58 bp):
TACCTATTCACATACACCTTCTTCTCTTATACTTATTCATGTACAGCTACTTCTCTTG
Found at i:7622438 original size:76 final size:75
Alignment explanation
Indices: 7622345--7622495 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 75
7622335 TGAAATTGTG
7622345 GTAGCATGAATGACTGAAATTGTGGTTTTGTGAATTATATAAATTGTTTTGTCTTACATTGACAG
1 GTAGCATGAATGACTGAAATTGTGGTTTTGTGAATTATATAAATTGTTTTGTCTTACATTGACAG
7622410 GTTGGATAGT
66 GTTGGATAGT
* *
7622420 NGTAGCATGAATGGCTGAAATTGTGGTTTTGTGAATTATATAAATTGTTTTGTCTTATATTGACA
1 -GTAGCATGAATGACTGAAATTGTGGTTTTGTGAATTATATAAATTGTTTTGTCTTACATTGACA
7622485 GGTTGGATAGT
65 GGTTGGATAGT
7622496 ACTATATTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (75 bp):
GTAGCATGAATGACTGAAATTGTGGTTTTGTGAATTATATAAATTGTTTTGTCTTACATTGACAG
GTTGGATAGT
Found at i:7636844 original size:20 final size:21
Alignment explanation
Indices: 7636819--7636858 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7636809 GAATATCATT
7636819 ATTTTA-TTCAAACAATTATA
1 ATTTTATTTCAAACAATTATA
*
7636839 ATTTTATTTCAAATAATTAT
1 ATTTTATTTCAAACAATTAT
7636859 TTTAGACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTATTTCAAACAATTATA
Done.