Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 741 of 770
Found at i:234842460 original size:66 final size:68
Alignment explanation
Indices: 234842384--234842570 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
234842374 TAGTACCACT
*
234842384 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
234842446 CACG
65 CACG
234842450 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
234842515 ATCACG
63 ATCACG
234842521 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
234842571 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:234842495 original size:71 final size:71
Alignment explanation
Indices: 234842407--234842570 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
234842397 CGATTTGTCT
234842407 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
234842472 CTTTCA
66 CTTTCA
234842478 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
234842543 CTTTCA
66 CTTTCA
234842549 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
234842571 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:234842608 original size:71 final size:70
Alignment explanation
Indices: 234842407--234842604 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
234842397 CGATTTGTCT
* * *
234842407 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
234842472 CTTTCA
65 CTTTCA
* * *
234842478 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
234842543 CTTTCA
65 CTTTCA
* *
234842549 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
234842605 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:234850311 original size:69 final size:70
Alignment explanation
Indices: 234850222--234850382 Score: 306
Period size: 69 Copynumber: 2.3 Consensus size: 70
234850212 GAGATGTATC
234850222 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG-
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234850286 GGACA
66 GGACA
*
234850291 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234850356 GGACA
66 GGACA
234850361 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
234850383 AGACAAATCG
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
69 63 0.70
70 27 0.30
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
GGACA
Found at i:234852782 original size:15 final size:15
Alignment explanation
Indices: 234852755--234852833 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
234852745 GTATCTTGGG
*
234852755 TTTC-TTATCCTGGA
1 TTTCTTTATTCTGGA
*
234852769 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
234852784 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
234852799 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
234852814 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
234852828 TTTCTT
1 TTTCTT
234852834 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 13 0.24
15 39 0.72
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:234852815 original size:30 final size:30
Alignment explanation
Indices: 234852746--234852832 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
234852736 CATAGTATCG
* * * *
234852746 TATCTTGGGTTTC-TTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
234852775 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
234852805 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
234852833 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 17 0.35
30 30 0.61
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:234855266 original size:46 final size:46
Alignment explanation
Indices: 234855216--234855391 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
234855206 ATGGTTGGCA
234855216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
234855262 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
234855309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
234855355 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
234855392 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:234855371 original size:93 final size:93
Alignment explanation
Indices: 234855212--234855383 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
234855202 TAGGATGGTT
* *
234855212 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
234855277 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
234855305 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
234855370 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
234855384 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:234863233 original size:29 final size:28
Alignment explanation
Indices: 234863201--234863303 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
234863191 TACTCAATCA
*
234863201 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
234863230 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
234863259 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
234863288 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
234863304 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:234866135 original size:30 final size:29
Alignment explanation
Indices: 234866041--234866142 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
234866031 TATAGTGAAT
* * *
234866041 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
234866070 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
234866098 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
234866128 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
234866143 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:234867733 original size:30 final size:32
Alignment explanation
Indices: 234867688--234867750 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
234867678 GTGGTCCGAA
234867688 CCACTTTCTGACTAGGGTCAATTT-GGGATGT
1 CCACTTTCTGACTAGGGTCAATTTAGGGATGT
234867719 CCACTTTC-GACTAGGGTCAATTTAGGGATGT
1 CCACTTTCTGACTAGGGTCAATTTAGGGATGT
234867750 C
1 C
234867751 ACAACTCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (32 bp):
CCACTTTCTGACTAGGGTCAATTTAGGGATGT
Found at i:234872194 original size:39 final size:40
Alignment explanation
Indices: 234872022--234872198 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
234872012 CCAAGGCCAA
* * * * * *
234872022 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
234872061 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
234872101 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
234872141 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
234872180 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
234872199 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:234879991 original size:40 final size:40
Alignment explanation
Indices: 234879923--234880100 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
234879913 CCAAGGCCAA
* * * *
234879923 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
234879962 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
234880002 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
234880042 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
234880082 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
234880101 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:234881819 original size:37 final size:37
Alignment explanation
Indices: 234881769--234881853 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
234881759 CTGTCACATT
*
234881769 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
234881806 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
234881843 CCGGGTAAGAC
1 CCGGGTAAGAC
234881854 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:234886497 original size:40 final size:40
Alignment explanation
Indices: 234886390--234886563 Score: 164
Period size: 39 Copynumber: 4.5 Consensus size: 40
234886380 AACCCAAGTA
* * * *
234886390 CCTTCGGAATTTAG-CCGGATATAACT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAA-TAACTCGCACAAATG
* * *
234886429 CCTTCGGG-CTT-GACCCGGTTATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAG-CCCGGATATAATAACTCGCACAAATG
*
234886468 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* * * * *
234886508 CCTTC-GG-TTTAGCCCGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
234886545 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
234886564 TTATCATCCG
Statistics
Matches: 109, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
37 20 0.18
38 15 0.14
39 43 0.39
40 30 0.28
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:234894413 original size:39 final size:40
Alignment explanation
Indices: 234894348--234894532 Score: 229
Period size: 39 Copynumber: 4.7 Consensus size: 40
234894338 ACTACTTGCT
234894348 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
234894388 CAAATGCCTTC-GGACTTAGCCCGGTTCA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
* * *
234894426 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
234894466 CAATTGCCTTCGGG-TTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
234894504 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
234894533 CATCCGAATA
Statistics
Matches: 125, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 42 0.34
39 48 0.38
40 35 0.28
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:234894432 original size:38 final size:38
Alignment explanation
Indices: 234894348--234894531 Score: 221
Period size: 38 Copynumber: 4.7 Consensus size: 38
234894338 ACTACTTGCT
234894348 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTA-A-TAACTCGCA
234894388 CAAATGCCTTC-GGACTTAGCCCGGTTCAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-AATAACTCGCA
*
234894426 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-T-TAATAACTCGCA
* * * * * *
234894466 CAATTGCCTTCGGG-TTTAGCCCGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTAATAACTCGCA
234894504 CAAATGCCTTCGGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
234894532 TCATCCGAAT
Statistics
Matches: 126, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
38 44 0.35
39 44 0.35
40 37 0.29
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTAATAACTCGCA
Found at i:234903273 original size:40 final size:40
Alignment explanation
Indices: 234903189--234903308 Score: 169
Period size: 38 Copynumber: 3.1 Consensus size: 40
234903179 AAACCAAGTA
* *
234903189 CCTTCGGGATTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
234903227 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
234903267 CCTTCGGGACTTAGCCC--ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
234903305 CCTT
1 CCTT
234903309 NNNNNNNNNN
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
38 38 0.51
39 12 0.16
40 25 0.33
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:234906035 original size:40 final size:40
Alignment explanation
Indices: 234905969--234906119 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
234905959 AAATTGAATG
* * *
234905969 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234906008 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
234906048 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
234906088 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
234906120 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234906133 original size:40 final size:40
Alignment explanation
Indices: 234906006--234906135 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
234905996 ATGCTGGAAA
* * *
234906006 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
234906046 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
234906086 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
234906126 TTATATCCGG
1 TTATATCCGG
234906136 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:234913380 original size:29 final size:29
Alignment explanation
Indices: 234913347--234913475 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
234913337 GTGACGAGAT
234913347 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
234913376 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
234913405 -GGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
234913432 T-ACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
234913460 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
234913476 AGCTCGAAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.26
28 26 0.30
29 39 0.44
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:234913417 original size:57 final size:56
Alignment explanation
Indices: 234913348--234913475 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 56
234913338 TGACGAGATT
* ** *
234913348 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA-
1 GGCACTAAGTGTGCGTGCTGGAAA-ATAT-ACACTAAGTGTGCAAGCTGGAAAAATAC
* *
234913405 GGCACTAAGTGTGCATGCTGGAAAATATACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAATATACACTAAGTGTGCAAGCTGGAAAAATAC
**
234913461 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
234913476 AGCTCGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
55 22 0.36
56 16 0.26
57 23 0.38
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (56 bp):
GGCACTAAGTGTGCGTGCTGGAAAATATACACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:234921331 original size:30 final size:30
Alignment explanation
Indices: 234921295--234921395 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
234921285 GACAAGATTG
* * *
234921295 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
234921325 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
234921353 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
234921382 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
234921396 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:234921407 original size:29 final size:28
Alignment explanation
Indices: 234921324--234921399 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
234921314 AAAATTGTAC
* *
234921324 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
234921352 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
234921381 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
234921400 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:234926782 original size:273 final size:275
Alignment explanation
Indices: 234926287--234926806 Score: 792
Period size: 273 Copynumber: 1.9 Consensus size: 275
234926277 AGAGAATATA
* *
234926287 GATATAATTAATATATGAATTTGATTCATACTAAATATTAATTCTATTTATTTTACCGAATTTAT
1 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTA-TTATTTTACCGAATTTAT
* ** **
234926352 TAATATAAATACTTATATTTATTAATTTCGATAAAAAATATAAAAGACATGGAAATTAATTTTAT
65 TAATATAAAAACTTATATGAATTAATTTCGAT-AAAAATATAAAAGACATGGAAATTAACATTAT
* * * *
234926417 TTTGGAAACAATATAATTAATATATGAATTTGATTCATACAAAATATTACTTGTATATATTTTAC
129 TTTGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCAC
* *
234926482 CGATTTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAACGACATTGAAGTT
194 CGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAACGACATTGAAGTT
234926547 AATGCTCTTTTGGAAAT
259 AATGCTCTTTTGGAAAT
* *
234926564 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTGTA-TATTTTATCGAATTTATT
1 GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTATTATTTTACCGAATTTATT
* * * * *
234926628 AATATAAAAAGTTATATGAATTAATTTTGGT-CAAATATAAAAGACATGGAAATTAACATTCTTT
66 AATATAAAAACTTATATGAATTAATTTCGATAAAAATATAAAAGACATGGAAATTAACATTATTT
* *
234926692 TGGAAAAAATATAATTAATATATGAATTTGACTCATACAAGATATTAATTGTATATATTTCACTG
131 TGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCACCG
* *
234926757 AATTTATTAATATAAACAGTTATATTAATTAATTTTAGTCAAAATATAAA
196 AATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAA
234926807 ATTAATATTC
Statistics
Matches: 219, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
273 134 0.61
275 42 0.19
277 43 0.20
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.41
Consensus pattern (275 bp):
GATATAATTAATATATGAATTTGATCCATACAAAATATTAATTCTATTATTTTACCGAATTTATT
AATATAAAAACTTATATGAATTAATTTCGATAAAAATATAAAAGACATGGAAATTAACATTATTT
TGGAAAAAATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTCACCG
AATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAACGACATTGAAGTTAA
TGCTCTTTTGGAAAT
Found at i:234926943 original size:76 final size:75
Alignment explanation
Indices: 234926811--234926958 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 75
234926801 TATAAAATTA
* * *
234926811 ATATTCTTTTGGAAAGAATATAATTTATTTTTCTAACTTTTCATTTGCCTTTTCTATCAATAAGG
1 ATATTCTTTTGGAAAAAATATAATTTATTTTTCTAACTTTTCATTTGCCTTCTCTATCAATAAAG
234926876 GAATAATTGT
66 GAATAATTGT
* *
234926886 ATATTCTTTTGGAAAAAAATATAATTTGTTTTTCTAA-TTTTCCAGTTT-CCTTCTCTATTAATA
1 ATATTCTTTTGG-AAAAAATATAATTTATTTTTCTAACTTTT-CA-TTTGCCTTCTCTATCAATA
234926949 AAGGAATAAT
63 AAGGAATAAT
234926959 CTTGGTTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
75 16 0.25
76 46 0.71
77 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (75 bp):
ATATTCTTTTGGAAAAAATATAATTTATTTTTCTAACTTTTCATTTGCCTTCTCTATCAATAAAG
GAATAATTGT
Found at i:234930189 original size:15 final size:15
Alignment explanation
Indices: 234930169--234930224 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
234930159 GTATCTTGGG
234930169 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
234930184 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
234930199 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
234930214 TTTCTTTATTC
1 TTTCTTTATTC
234930225 AGTTTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:234935108 original size:40 final size:40
Alignment explanation
Indices: 234935000--234935169 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
234934990 CGGGATTTAA
* * * * *
234935000 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234935040 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234935080 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234935120 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234935160 CCGGATATAT
1 CCGGATATAT
234935170 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234944114 original size:131 final size:130
Alignment explanation
Indices: 234943964--234944251 Score: 364
Period size: 131 Copynumber: 2.2 Consensus size: 130
234943954 TGTTCGACTA
* * *
234943964 TTTGGCAATTCGCGAAATCGTACCCTATCGTGCTAGGTTGCGATTTCCCGTTCCTTCAAAACAAT
1 TTTGGCAATTCGAGGAATCGTGCCCTATCGTGCTAGGTTGCGATTTCCCGTTCCTTCAAAACAAT
* * * *
234944029 CGAATAT-TCCTATGGAATTTCACCCATGTCT-TTAAAGATTCTATAAAACGAAGGTAATGTTTG
66 CGAATATCCCCTATAGAATTTCACCCATGTCTCTTAAA-ATTCTA-AAAAC-AAGGCAATGCTTG
234944092 ATG
128 ATG
* * * * ** *
234944095 TTTGGCAATTCGGGGAATCGTGCCCTATTGTGCTGGGTTGCGATTTCCTGTTGGTTCAAAATAAT
1 TTTGGCAATTCGAGGAATCGTGCCCTATCGTGCTAGGTTGCGATTTCCCGTTCCTTCAAAACAAT
* * *
234944160 CGAATATCCCCTTTAGAATTTCACTCATGTTTCTTAAAATTCTAAAAACAAGGCAATGCTTGATG
66 CGAATATCCCCTATAGAATTTCACCCATGTCTCTTAAAATTCTAAAAACAAGGCAATGCTTGATG
* *
234944225 TTTAGAAATTCGAGGAATCGTGCCCTA
1 TTTGGCAATTCGAGGAATCGTGCCCTA
234944252 CTGTGCTGGG
Statistics
Matches: 136, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
130 38 0.28
131 68 0.50
132 25 0.18
133 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (130 bp):
TTTGGCAATTCGAGGAATCGTGCCCTATCGTGCTAGGTTGCGATTTCCCGTTCCTTCAAAACAAT
CGAATATCCCCTATAGAATTTCACCCATGTCTCTTAAAATTCTAAAAACAAGGCAATGCTTGATG
Found at i:234945028 original size:26 final size:26
Alignment explanation
Indices: 234944992--234945045 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
234944982 ATTAAAGAAG
*
234944992 TCAGAAGTGATGTCATGTCAACTTTA
1 TCAGAAGTGATGTCATCTCAACTTTA
234945018 TCAGAAGTGATGTCATCTCAACTTTA
1 TCAGAAGTGATGTCATCTCAACTTTA
234945044 TC
1 TC
234945046 GTTTTTAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (26 bp):
TCAGAAGTGATGTCATCTCAACTTTA
Found at i:234945559 original size:23 final size:24
Alignment explanation
Indices: 234945533--234945578 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
234945523 GTTGTAGCAA
234945533 TCAAACATTGATAA-TAAATTATG
1 TCAAACATTGATAACTAAATTATG
*
234945556 TCAAACATTGATAACTAACTTAT
1 TCAAACATTGATAACTAAATTAT
234945579 TGCTCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (24 bp):
TCAAACATTGATAACTAAATTATG
Found at i:234947015 original size:22 final size:22
Alignment explanation
Indices: 234946990--234947033 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
234946980 TGATGTTGGT
234946990 GATAATT-TATAATTATTTAATA
1 GATAATTAT-TAATTATTTAATA
*
234947012 GATAATTATTATTTATTTAATA
1 GATAATTATTAATTATTTAATA
234947034 TTTTAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
GATAATTATTAATTATTTAATA
Found at i:234949336 original size:32 final size:32
Alignment explanation
Indices: 234949300--234949364 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
234949290 TGTATGCATT
234949300 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
234949332 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
234949364 T
1 T
234949365 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:234951396 original size:137 final size:137
Alignment explanation
Indices: 234951150--234951436 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
234951140 GAGTAGTCTC
234951150 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
234951215 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
234951280 ACTGTTA
131 ACTGTTA
*
234951287 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
234951352 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
234951417 ACTGTTA
131 ACTGTTA
*
234951424 CCTAAATGGGCTT
1 CCCAAATGGGCTT
234951437 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
ACTGTTA
Found at i:234954089 original size:27 final size:26
Alignment explanation
Indices: 234954052--234954166 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
234954042 AGCATGGCTG
* *
234954052 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
234954078 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
234954106 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
234954133 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
234954160 CCAGAAC
1 CCAGAAC
234954167 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:234954111 original size:54 final size:54
Alignment explanation
Indices: 234954052--234954166 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
234954042 AGCATGGCTG
*
234954052 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
234954106 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
234954160 CCAGAAC
1 CCAGAAC
234954167 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:234955809 original size:26 final size:26
Alignment explanation
Indices: 234955773--234955882 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
234955763 CATGAAATTC
234955773 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
234955799 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
234955825 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
234955851 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
234955877 TTATCA
1 TTATCA
234955883 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:234958746 original size:10 final size:10
Alignment explanation
Indices: 234958719--234958748 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
234958709 ACAGACAGAT
234958719 AATTCAGAAA
1 AATTCAGAAA
234958729 ATATTCAGAAA
1 A-ATTCAGAAA
234958740 AATTCAGAA
1 AATTCAGAA
234958749 TACTTACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (10 bp):
AATTCAGAAA
Found at i:234959860 original size:27 final size:26
Alignment explanation
Indices: 234959823--234959937 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
234959813 AGCATGGCTG
* *
234959823 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
234959849 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
234959877 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
234959904 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
234959931 CCAGAAC
1 CCAGAAC
234959938 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:234959882 original size:54 final size:54
Alignment explanation
Indices: 234959823--234959937 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
234959813 AGCATGGCTG
*
234959823 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
234959877 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
234959931 CCAGAAC
1 CCAGAAC
234959938 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:234961585 original size:25 final size:26
Alignment explanation
Indices: 234961551--234961658 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
234961541 CATGAAATTC
234961551 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
234961576 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
234961602 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
234961628 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
234961653 TTATCA
1 TTATCA
234961659 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 47 0.59
26 33 0.41
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:234961640 original size:51 final size:51
Alignment explanation
Indices: 234961551--234961658 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
234961541 CATGAAATTC
234961551 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* *
234961602 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
234961653 TTATCA
1 TTATCA
234961659 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 45 0.83
52 9 0.17
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:234962141 original size:12 final size:12
Alignment explanation
Indices: 234962109--234962142 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
234962099 CAGGCTAAGG
*
234962109 TTTTCTTTCTTT
1 TTTTCTTTTTTT
*
234962121 TCTTCTTTTTTT
1 TTTTCTTTTTTT
234962133 TTTTCTTTTT
1 TTTTCTTTTT
234962143 GAATCTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:234965205 original size:39 final size:39
Alignment explanation
Indices: 234965146--234965377 Score: 304
Period size: 39 Copynumber: 5.9 Consensus size: 39
234965136 TGTGTATGAA
* *
234965146 TGTGCGAGTTGTGA-ATCCGGGCTATGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
234965184 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
234965223 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
234965262 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
234965301 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
234965341 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
234965378 GTTTGAACGA
Statistics
Matches: 170, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 11 0.06
39 118 0.69
40 41 0.24
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:234965253 original size:78 final size:78
Alignment explanation
Indices: 234965146--234965338 Score: 352
Period size: 78 Copynumber: 2.5 Consensus size: 78
234965136 TGTGTATGAA
*
234965146 TGTGCGAGTTGTGA-ATCCGGGCTATGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
234965210 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
234965223 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
234965288 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
*
234965301 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
234965339 TTTGTGCGGG
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
77 14 0.12
78 88 0.79
79 10 0.09
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (78 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
GCCCGAAGGCAAT
Found at i:234971889 original size:40 final size:40
Alignment explanation
Indices: 234971834--234972083 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
234971824 AACATTGGAA
234971834 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234971874 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234971914 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234971954 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
234971994 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
234972033 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
234972074 CTATATCCGG
1 ATATATCCGG
234972084 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:234980065 original size:40 final size:40
Alignment explanation
Indices: 234980010--234980219 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234980000 AACATTGGAA
234980010 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234980050 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
234980090 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
234980130 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
234980169 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
234980210 CTATATCCGG
1 ATATATCCGG
234980220 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:234983527 original size:26 final size:27
Alignment explanation
Indices: 234983498--234983549 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
234983488 AACTAGGTAC
*
234983498 CTATTTTGGGCGTTACGA-GGTGCTAT
1 CTATTTTGGGCATTACGAGGGTGCTAT
234983524 CTATTTTGGGCATTACGAGGGTGCTA
1 CTATTTTGGGCATTACGAGGGTGCTA
234983550 ACCTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (27 bp):
CTATTTTGGGCATTACGAGGGTGCTAT
Found at i:234984468 original size:35 final size:35
Alignment explanation
Indices: 234984422--234984492 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
234984412 CACTTGCCTC
234984422 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
234984457 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
234984492 T
1 T
234984493 CACACACCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.17, C:0.48, G:0.11, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:234984911 original size:14 final size:14
Alignment explanation
Indices: 234984894--234984961 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
234984884 GGGAAGCAAA
234984894 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
234984908 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
234984924 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
234984939 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
234984954 AAAAAAAA
1 AAAAAAAA
234984962 AACCAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 14 0.33
16 1 0.02
17 6 0.14
19 5 0.12
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:234984938 original size:32 final size:32
Alignment explanation
Indices: 234984891--234984963 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
234984881 GAGGGGAAGC
*
234984891 AAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
* **
234984922 CCAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
234984955 AAAAAAAAA
1 AAAAAAAAA
234984964 CCAAAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 27 0.77
33 8 0.23
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.12
Consensus pattern (32 bp):
AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:234985247 original size:11 final size:11
Alignment explanation
Indices: 234985222--234985270 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
234985212 CGACCGGATT
*
234985222 TCCCTTC-CCC
1 TCCCTTCTCTC
234985232 TCCCTTCTCTC
1 TCCCTTCTCTC
234985243 TCCCTTCTCTC
1 TCCCTTCTCTC
234985254 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
234985265 TTCCTT
1 TCCCTT
234985271 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:234985826 original size:17 final size:17
Alignment explanation
Indices: 234985792--234985844 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
234985782 TTCTAATATG
*
234985792 TATATATA-TATATATA
1 TATATATATTATGTATA
*
234985808 TATATATGTGTAT-TATA
1 TATATATAT-TATGTATA
234985825 TATATATATTATGTATA
1 TATATATATTATGTATA
234985842 TAT
1 TAT
234985845 GCCATTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.31
17 19 0.59
18 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATATATATTATGTATA
Found at i:234985858 original size:31 final size:30
Alignment explanation
Indices: 234985792--234985875 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
234985782 TTCTAATATG
* **
234985792 TATATATATATA-TATATATATATGTGTAT
1 TATATATATATATTATGTATATATGTCCAT
234985821 TATATATATATATTATGTATATATG-CCAT
1 TATATATATATATTATGTATATATGTCCAT
* *
234985850 TAGTTATATATTTCTTATGTATATAT
1 TA--TATATATATATTATGTATATAT
234985876 TCTTAAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 16 0.34
30 11 0.23
31 20 0.43
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (30 bp):
TATATATATATATTATGTATATATGTCCAT
Found at i:234985860 original size:2 final size:2
Alignment explanation
Indices: 234985787--234985844 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
234985777 ATCATTTCTA
* * *
234985787 AT AT GT AT AT AT AT AT AT AT AT AT AT AT GT GT AT -T 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
*
234985828 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
234985845 GCCATTAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:234986025 original size:2 final size:2
Alignment explanation
Indices: 234986008--234986042 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
234985998 GTGTATATTT
* *
234986008 TA TA TA CA TA TG 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 TA T
234986043 TTTTGCACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:234998219 original size:70 final size:70
Alignment explanation
Indices: 234998132--234998635 Score: 967
Period size: 70 Copynumber: 7.2 Consensus size: 70
234998122 CAAGTGACAG
*
234998132 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998197 GTTTC
66 GTTTC
234998202 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998267 GTTTC
66 GTTTC
234998272 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998337 GTTTC
66 GTTTC
234998342 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-A
234998407 TGTTTC
65 TGTTTC
234998413 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998478 GTTTC
66 GTTTC
234998483 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998548 GTTTC
66 GTTTC
234998553 AAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998616 GTTTC
66 GTTTC
234998621 AAAAATCAACTCATA
1 -AAAATCAACTCATA
234998636 GGTGAGTTGA
Statistics
Matches: 431, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
68 30 0.07
69 38 0.09
70 293 0.68
71 70 0.16
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:234998495 original size:211 final size:210
Alignment explanation
Indices: 234998132--234998635 Score: 967
Period size: 211 Copynumber: 2.4 Consensus size: 210
234998122 CAAGTGACAG
*
234998132 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998197 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
234998262 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
234998327 TTCAATTTATGTTTC
196 TTCAATTTATGTTTC
234998342 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-A
234998407 TGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
65 TGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
234998472 ATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
130 ATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
234998537 TTTCAATTTATGTTTC
195 TTTCAATTTATGTTTC
234998553 AAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
234998616 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
234998636 GGTGAGTTGA
Statistics
Matches: 291, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
208 7 0.02
209 37 0.13
210 86 0.30
211 161 0.55
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (210 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
TTCAATTTATGTTTC
Found at i:234998778 original size:54 final size:52
Alignment explanation
Indices: 234998686--234998840 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
234998676 TCTACTTTCC
* *
234998686 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
234998740 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
234998791 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
234998840 A
1 A
234998841 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:234999593 original size:35 final size:35
Alignment explanation
Indices: 234999547--234999652 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
234999537 CACTTGCCTC
234999547 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
234999582 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
234999617 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
234999652 T
1 T
234999653 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:235000103 original size:32 final size:30
Alignment explanation
Indices: 235000053--235000126 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
235000043 AAAGAGGGGA
235000053 AGCAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAATCCAG-AAAAAATTTCC
**
235000083 AGCACCAAAAAAAATTTCCAGAAAAAATTTCC
1 AGCA--AAAAAAAAAATCCAGAAAAAATTTCC
235000115 AGCAAAAAAAAA
1 AGCAAAAAAAAA
235000127 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 12 0.31
31 6 0.15
32 21 0.54
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (30 bp):
AGCAAAAAAAAAAATCCAGAAAAAATTTCC
Found at i:235000109 original size:13 final size:14
Alignment explanation
Indices: 235000091--235000123 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
235000081 CCAGCACCAA
235000091 AAAAAATTTCCAG-
1 AAAAAATTTCCAGC
235000104 AAAAAATTTCCAGC
1 AAAAAATTTCCAGC
235000118 AAAAAA
1 AAAAAA
235000124 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAATTTCCAGC
Found at i:235000978 original size:22 final size:23
Alignment explanation
Indices: 235000946--235000997 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
235000936 ATTTCTAATA
235000946 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
235000969 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
235000991 TATATAT
1 TGTATAT
235000998 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:235001013 original size:2 final size:2
Alignment explanation
Indices: 235000943--235000997 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
235000933 ATCATTTCTA
* * *
235000943 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T 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
*
235000983 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
235000998 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:235001176 original size:2 final size:2
Alignment explanation
Indices: 235001159--235001193 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
235001149 GTGTATATTT
* *
235001159 TA TA TA CA TA TG 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 TA T
235001194 TTTGCACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:235005725 original size:49 final size:49
Alignment explanation
Indices: 235005659--235005988 Score: 541
Period size: 49 Copynumber: 6.9 Consensus size: 49
235005649 GTATGAGATG
*
235005659 TATATA-GTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
235005707 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
235005756 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
235005803 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
235005852 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
235005899 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
235005946 TATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
235005989 TATATGTGTG
Statistics
Matches: 267, Mismatches: 9, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
45 1 0.00
46 31 0.12
47 98 0.37
48 6 0.02
49 131 0.49
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:235005847 original size:96 final size:96
Alignment explanation
Indices: 235005665--235005988 Score: 564
Period size: 96 Copynumber: 3.4 Consensus size: 96
235005655 GATGTATATA
* *
235005665 GTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCCTAATG
235005730 GCCAATGTGATGAATGTGAAAGTGTATATACAT
64 GCCAATGTGATGAATGTGAAAGTGTATATACAT
235005763 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGC
1 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGC
235005828 CAATGTGATGAATGTGAAAGTGTATATACAT
66 CAATGTGATGAATGTGAAAGTGTATATACAT
235005859 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGC
1 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGC
* *
235005924 CGATGTGATGAATGTG-AAG-GTATATATAT
66 CAATGTGATGAATGTGAAAGTGTATATACAT
*
235005953 GTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
235005989 TATATGTGTG
Statistics
Matches: 221, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
93 30 0.14
94 14 0.06
95 3 0.01
96 136 0.62
98 38 0.17
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (96 bp):
GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGC
CAATGTGATGAATGTGAAAGTGTATATACAT
Found at i:235006050 original size:143 final size:141
Alignment explanation
Indices: 235005658--235006038 Score: 419
Period size: 145 Copynumber: 2.6 Consensus size: 141
235005648 TGTATGAGAT
* * * *
235005658 GTATATA-GTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATATGATAAA
* * * * *
235005722 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCAATGT
66 GCCGAAGGGCCAATGTGA-GAATAT-AAAGAGTAGAT--ATGTGATAAGGCCTAATGGCCAATGT
235005787 GATGAATGTGAAAGA
127 GATGAATGTGAAAGA
* *
235005802 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATATGATAAA
* * * * *
235005867 GCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGA
66 GCCGAAGGGCCAATGTGA-GAATAT-AAAGAGTAGATATGTGATAAGGCCTAATGGCCAATGTGA
*
235005932 TGAATGTGAAGGTA
129 TGAATGTGAAAG-A
* **
235005946 -TATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAATATATGTGTGATATGTATAT
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG--A-A-A-GTGT-ATATACATAT
* *
235006009 GGTAAAGCCGAAGGGCTAATGTGA-AATATA
60 GATAAAGCCGAAGGGCCAATGTGAGAATATA
235006039 TGTGTGATAT
Statistics
Matches: 214, Mismatches: 15, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
142 27 0.13
143 50 0.23
144 9 0.04
145 93 0.43
146 5 0.02
147 4 0.02
148 26 0.12
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (141 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATATGATAAA
GCCGAAGGGCCAATGTGAGAATATAAAGAGTAGATATGTGATAAGGCCTAATGGCCAATGTGATG
AATGTGAAAGA
Found at i:235006079 original size:48 final size:48
Alignment explanation
Indices: 235005980--235006129 Score: 268
Period size: 48 Copynumber: 3.2 Consensus size: 48
235005970 CGATGTGATG
*
235005980 AATGTGAAATATATGTGTGATATGTATA--TGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
235006026 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
235006074 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
235006122 AATGTGAA
1 AATGTGAA
235006130 TGTTGTAACA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 28 0.28
48 72 0.72
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:235006223 original size:37 final size:37
Alignment explanation
Indices: 235006169--235006259 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
235006159 AACTTGGAAA
*
235006169 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
235006207 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
235006244 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
235006260 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:235008835 original size:17 final size:18
Alignment explanation
Indices: 235008807--235008843 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
235008797 CATTCATAAA
235008807 ACGGATAGTTTCATATGC
1 ACGGATAGTTTCATATGC
235008825 ACGGATA-TTTCATATGC
1 ACGGATAGTTTCATATGC
235008842 AC
1 AC
235008844 AAATTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (18 bp):
ACGGATAGTTTCATATGC
Found at i:235009158 original size:40 final size:40
Alignment explanation
Indices: 235009071--235009282 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
235009061 CCTTCGGAAT
* * *
235009071 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
235009110 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
235009150 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
235009190 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
235009230 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
235009270 TTAGCCCGGATAT
1 TTAACCCGGATAT
235009283 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:235009196 original size:80 final size:80
Alignment explanation
Indices: 235009071--235009282 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
235009061 CCTTCGGAAT
* * * ** * ***
235009071 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
235009135 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
235009150 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
235009215 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
235009230 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
235009283 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:235017178 original size:40 final size:40
Alignment explanation
Indices: 235017091--235017302 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
235017081 CCTTCGGAAT
* * *
235017091 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
235017130 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTCGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
235017170 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
235017210 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * *
235017250 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
235017290 TTAGCCCGGATAT
1 TTAACCCGGATAT
235017303 CATTCCAATG
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 2 0.01
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:235017216 original size:80 final size:80
Alignment explanation
Indices: 235017091--235017302 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 80
235017081 CCTTCGGAAT
* * * ** * ***
235017091 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
235017155 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
235017170 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
235017235 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * *
235017250 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
235017303 CATTCCAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 4 0.04
80 104 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:235019999 original size:24 final size:24
Alignment explanation
Indices: 235019972--235020132 Score: 258
Period size: 24 Copynumber: 6.8 Consensus size: 24
235019962 CTTATTATGT
**
235019972 TCGCACCACATAGTGCCA-AGCGAA
1 TCGCA-CACATAGTGCCATAGTAAA
235019996 TCGCACCACATAGTGCCATAGTAAA
1 TCGCA-CACATAGTGCCATAGTAAA
235020021 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
235020045 TCGCACACATAGTGCCA-AGTAAA
1 TCGCACACATAGTGCCATAGTAAA
235020068 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
235020092 TCGCACACATAGTGCCATAG--AA
1 TCGCACACATAGTGCCATAGTAAA
235020114 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
235020133 TATTTCCAGC
Statistics
Matches: 133, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
22 21 0.16
23 23 0.17
24 80 0.60
25 9 0.07
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:235020084 original size:47 final size:47
Alignment explanation
Indices: 235019972--235020132 Score: 247
Period size: 47 Copynumber: 3.4 Consensus size: 47
235019962 CTTATTATGT
**
235019972 TCGCACCACATAGTGCCA-AGCGAATCGCACCACATAGTGCCATAGTAAA
1 TCGCA-CACATAGTGCCATAGTAAATCGCA-CACATAGTGCCA-AGTAAA
235020021 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAAGTAAA
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAAGTAAA
235020068 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCC-A-TAGAA
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAAGTA-AA
235020114 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
235020133 TATTTCCAGC
Statistics
Matches: 108, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
45 2 0.02
46 22 0.20
47 46 0.43
48 24 0.22
49 14 0.13
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (47 bp):
TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAAGTAAA
Found at i:235020094 original size:71 final size:70
Alignment explanation
Indices: 235019972--235020130 Score: 266
Period size: 71 Copynumber: 2.2 Consensus size: 70
235019962 CTTATTATGT
*
235019972 TCGCACCACATAGTGCCAAGCGAATCGCACCACATAGTGCCATAGTAAATCGCACACATAGTGCC
1 TCGCA-CACATAGTGCCAAGCAAATCGCACCACATAGTGCCATAGTAAATCGCACACATAGTGCC
235020037 ATAGTAAA
65 ATAG--AA
*
235020045 TCGCACACATAGTGCCAAGTAAATCGCA-CACATAGTGCCATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGTGCCAAGCAAATCGCACCACATAGTGCCATAGTAAATCGCACACATAGTGCCA
235020109 TAGAA
66 TAGAA
235020114 TCGCACACATAGTGCCA
1 TCGCACACATAGTGCCA
235020131 TATATTTCCA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
69 19 0.23
71 39 0.46
72 21 0.25
73 5 0.06
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (70 bp):
TCGCACACATAGTGCCAAGCAAATCGCACCACATAGTGCCATAGTAAATCGCACACATAGTGCCA
TAGAA
Found at i:235026051 original size:13 final size:13
Alignment explanation
Indices: 235026035--235026060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
235026025 CTGGACACAC
235026035 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
235026048 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
235026061 CACACGGAGA
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:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:235028018 original size:29 final size:29
Alignment explanation
Indices: 235027985--235028049 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
235027975 GTGACGAGAT
235027985 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
235028014 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
235028043 CGGCACT
1 TGGCACT
235028050 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:235036048 original size:29 final size:29
Alignment explanation
Indices: 235036015--235036079 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
235036005 GTGACGAGAT
235036015 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
235036044 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
235036073 CGGCACT
1 TGGCACT
235036080 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:235041144 original size:50 final size:50
Alignment explanation
Indices: 235041019--235041215 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
235041009 TAGCCAAAGC
* * * *
235041019 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
*
235041068 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
235041118 CATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * * * *
235041169 TATCGGGTACGCATAGTAGCCTACACTCAGTACTACACACGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
235041216 CACAATAGAT
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 42 0.34
50 46 0.37
51 37 0.30
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:235041207 original size:101 final size:99
Alignment explanation
Indices: 235041032--235041215 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
235041022 CTGGTACGCA
* * * * * *
235041032 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCGGGTACACATAGTAGCCTACACTCA
235041097 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
235041131 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATCGGGTACACATAGTAGCCTACACT
235041196 CAGTACTACACACGTGACCT
64 CAGTACTACACACGTGACCT
235041216 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 43 0.58
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCGGGTACACATAGTAGCCTACACTCA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:235049144 original size:28 final size:27
Alignment explanation
Indices: 235049081--235049150 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
235049071 ATAGTGAGTC
235049081 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
235049108 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
235049136 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235049151 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:235053880 original size:40 final size:39
Alignment explanation
Indices: 235053715--235053898 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
235053705 AAATTGAATG
* * *
235053715 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
235053755 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
235053795 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
235053835 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
235053874 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
235053899 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:235053923 original size:80 final size:81
Alignment explanation
Indices: 235053755--235053943 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
235053745 GCTGGAAATT
* * * *
235053755 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
235053820 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
235053836 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
235053899 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
235053915 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
235053944 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:235055463 original size:166 final size:167
Alignment explanation
Indices: 235055189--235055519 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 167
235055179 AACCAGTTTC
*
235055189 CGAGTTTTGAAACTCGAGATATGATTTTTAAGGCGACAGTGACGCAGTTTTTCCAGCCTGACTGG
1 CGAGTTTTGAAACTAGAGATATGATTTTTAAGGCGACAGTGACGCAGTTTTTCCAGCCTGACTGG
235055254 AAATGTCCAATGGATGGGCAAAACAAGTGAACTTGGCTTGCTAA-CCCTCGTGTCCGACACCGGC
66 AAATGTCCAATGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACACCGGC
235055318 GATGGTCTCGGGTTCGGGGTGTTACAATTTTATTGCT
131 GATGGTCTCGGGTTCGGGGTGTTACAATTTTATTGCT
235055355 CGAGTTTTGAAACTAGAGATATGATTTTTAAGGCGACAGTGACGCAGTTTTTCCAGCCTGACTGG
1 CGAGTTTTGAAACTAGAGATATGATTTTTAAGGCGACAGTGACGCAGTTTTTCCAGCCTGACTGG
235055420 AAATGTCCAATGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACACCGGC
66 AAATGTCCAATGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACACCGGC
235055485 GATGGTCTCGGGTTCGGGGTGTTACAATTTTATTG
131 GATGGTCTCGGGTTCGGGGTGTTACAATTTTATTG
235055520 GTATCAGAGC
Statistics
Matches: 163, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 108 0.66
167 55 0.34
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (167 bp):
CGAGTTTTGAAACTAGAGATATGATTTTTAAGGCGACAGTGACGCAGTTTTTCCAGCCTGACTGG
AAATGTCCAATGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACACCGGC
GATGGTCTCGGGTTCGGGGTGTTACAATTTTATTGCT
Found at i:235059573 original size:40 final size:39
Alignment explanation
Indices: 235059409--235059591 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
235059399 AAATTGAATG
* *
235059409 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
235059448 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
235059488 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
235059528 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
235059567 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
235059592 CTTGGTGTGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:235063483 original size:79 final size:81
Alignment explanation
Indices: 235063374--235063556 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
235063364 TACTCGTTCA
* *
235063374 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
235063437 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
235063454 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
235063517 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
235063533 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
235063557 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:235063556 original size:40 final size:40
Alignment explanation
Indices: 235063353--235063556 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
235063343 CGGAATTTAA
** *
235063353 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
235063393 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
235063433 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
235063472 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
235063512 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
235063552 CCGGA
1 CCGGA
235063557 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:235071585 original size:78 final size:80
Alignment explanation
Indices: 235071444--235071623 Score: 224
Period size: 78 Copynumber: 2.3 Consensus size: 80
235071434 TACTCGTTCA
* **
235071444 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
235071509 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
235071524 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* *
235071586 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
235071602 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
235071624 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 50 0.57
79 22 0.25
80 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:235071625 original size:40 final size:40
Alignment explanation
Indices: 235071423--235071625 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
235071413 CGGAATTTAA
** *
235071423 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
235071463 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
235071503 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
235071542 CCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
235071581 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
235071621 CCGGA
1 CCGGA
235071626 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.01
38 22 0.16
39 21 0.15
40 84 0.60
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:235074607 original size:40 final size:40
Alignment explanation
Indices: 235074554--235074707 Score: 173
Period size: 40 Copynumber: 3.9 Consensus size: 40
235074544 TTATAGTGAT
* * * * ***
235074554 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
235074594 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* **
235074634 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * * *
235074674 TAGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
235074708 CATTCCAATG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:235074638 original size:80 final size:80
Alignment explanation
Indices: 235074554--235074707 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
235074544 TTATAGTGAT
* * ** * *
235074554 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
235074619 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
235074634 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
235074699 CCCGGATAT
66 CCCGGATAT
235074708 CATTCCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:235083132 original size:40 final size:40
Alignment explanation
Indices: 235083024--235083233 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
235083014 CGGGATTTAA
* * * * *
235083024 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
235083064 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235083104 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235083144 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235083184 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235083224 CCGGATATAT
1 CCGGATATAT
235083234 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:235091266 original size:40 final size:40
Alignment explanation
Indices: 235091158--235091367 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
235091148 CGGGATTTAA
* * * * *
235091158 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
235091198 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235091238 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235091278 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235091318 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
235091358 CCGGATATAT
1 CCGGATATAT
235091368 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:235098699 original size:28 final size:29
Alignment explanation
Indices: 235098632--235098732 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
235098622 ATAGTGAATC
*
235098632 CGCACACTTAGTGCTATATATATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
235098661 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
235098689 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
235098719 CGCACACTTAGTGC
1 CGCACACTTAGTGC
235098733 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:235102676 original size:41 final size:41
Alignment explanation
Indices: 235102631--235102748 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235102621 TGAAAGATAA
235102631 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235102672 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235102702 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235102743 ATGTAG
1 ATGTAG
235102749 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235102687 original size:71 final size:71
Alignment explanation
Indices: 235102599--235102762 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235102589 GAGATGTATC
235102599 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235102664 AGGACA
66 AGGACA
235102670 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235102735 AGGACA
66 AGGACA
235102741 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235102763 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235108443 original size:25 final size:25
Alignment explanation
Indices: 235108414--235108461 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235108404 CCTTATAATG
* * *
235108414 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
235108439 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
235108462 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:235108606 original size:24 final size:24
Alignment explanation
Indices: 235108579--235108721 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
235108569 GAGGAAGTGA
235108579 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235108603 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235108627 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
235108650 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
235108674 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
235108698 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235108722 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:235108672 original size:47 final size:47
Alignment explanation
Indices: 235108579--235108721 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
235108569 GAGGAAGTGA
235108579 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
235108627 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
235108674 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
235108722 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:235108695 original size:71 final size:72
Alignment explanation
Indices: 235108579--235108722 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
235108569 GAGGAAGTGA
*
235108579 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
235108642 CCAGTTAT
65 CCAGTTAT
** * *
235108650 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
235108715 CAGTTAT
66 CAGTTAT
235108722 A
1 A
235108723 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:235108938 original size:20 final size:20
Alignment explanation
Indices: 235108913--235108950 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
235108903 CGTTTACAGT
235108913 AAAGGCTTCGGCCCAGTATA
1 AAAGGCTTCGGCCCAGTATA
235108933 AAAGGCTTCGGCCCAGTA
1 AAAGGCTTCGGCCCAGTA
235108951 ATATGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (20 bp):
AAAGGCTTCGGCCCAGTATA
Found at i:235108970 original size:31 final size:31
Alignment explanation
Indices: 235108932--235108996 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
235108922 GGCCCAGTAT
235108932 AAAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
*
235108963 AAAAGGCTTCGGCCCAGTATTATGAAATATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
235108994 AAA
1 AAA
235108997 TATGAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:235115003 original size:25 final size:25
Alignment explanation
Indices: 235114974--235115021 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235114964 CCTTATAATG
* * *
235114974 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
235114999 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
235115022 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:235115102 original size:11 final size:11
Alignment explanation
Indices: 235115069--235115122 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
235115059 TATGGTATGT
235115069 ATGATATGCAC
1 ATGATATGCAC
*
235115080 ATGA-ATG--T
1 ATGATATGCAC
235115088 ATGATATGCAC
1 ATGATATGCAC
*
235115099 ATGATATG--T
1 ATGATATGCAC
235115108 ATGATATGCAC
1 ATGATATGCAC
235115119 ATGA
1 ATGA
235115123 GTAATCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:235115109 original size:20 final size:20
Alignment explanation
Indices: 235115064--235115122 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
235115054 ATAAATATGG
235115064 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235115084 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235115103 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235115123 GTAATCATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:235115199 original size:24 final size:24
Alignment explanation
Indices: 235115172--235115314 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
235115162 GAGGAAGTGA
235115172 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235115196 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
235115220 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
235115243 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
235115267 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
235115291 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235115315 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:235115265 original size:47 final size:47
Alignment explanation
Indices: 235115172--235115314 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
235115162 GAGGAAGTGA
235115172 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
235115220 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
235115267 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
235115315 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:235115288 original size:71 final size:72
Alignment explanation
Indices: 235115172--235115315 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
235115162 GAGGAAGTGA
*
235115172 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
235115235 CCAGTTAT
65 CCAGTTAT
** * *
235115243 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
235115308 CAGTTAT
66 CAGTTAT
235115315 A
1 A
235115316 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:235115567 original size:31 final size:31
Alignment explanation
Indices: 235115506--235115595 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
235115496 CGTTTACAGT
235115506 AAAGGCTTCGGCCCAGT-ATA-G-AA-AT-A
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
235115532 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
235115563 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
235115594 AA
1 AA
235115596 TATGAAAAGG
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
26 17 0.29
27 3 0.05
28 1 0.02
29 2 0.03
30 2 0.03
31 33 0.57
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:235116726 original size:27 final size:28
Alignment explanation
Indices: 235116696--235116795 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 28
235116686 TTTAGTTTAC
*
235116696 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * *
235116723 TAAAAATACTAAAATACCC-TCGATTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
* * *
235116750 TAAAATTACTAAAATA-CCTTCGACTTG
1 TAAAATTACCAAAATACCCTTAGATTTG
*
235116777 TAAAATTACCAAAGTACCC
1 TAAAATTACCAAAATACCC
235116796 CCGATTTACA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTAGATTTG
Found at i:235116755 original size:54 final size:54
Alignment explanation
Indices: 235116696--235116802 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
235116686 TTTAGTTTAC
* * * *
235116696 TAAAATTACCGAAATACCCTTAG-TTTGTAAAAATACTAAAATACCCTCGATTTG
1 TAAAATTACCAAAATA-CCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
* * * *
235116750 TAAAATTACTAAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TAAAATTACCAAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTT
235116803 ACAGAACTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 5 0.11
54 39 0.89
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TAAAATTACCAAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
Found at i:235117006 original size:54 final size:54
Alignment explanation
Indices: 235116791--235117048 Score: 327
Period size: 54 Copynumber: 4.8 Consensus size: 54
235116781 ATTACCAAAG
* * * * * * * **
235116791 TACCCCCGATTTACAGAACTATCATTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
*
235116845 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
235116899 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
235116953 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * ** *
235117007 TACCCTTGATTTACAGAATTACTATTTTACCCTTGATTTACA
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACA
235117049 AAGTTACAGA
Statistics
Matches: 178, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:235117049 original size:81 final size:81
Alignment explanation
Indices: 235116791--235117050 Score: 342
Period size: 81 Copynumber: 3.2 Consensus size: 81
235116781 ATTACCAAAG
* * * * * * * *
235116791 TACCCCCGATTTACAGAACTATCATTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* **
235116856 TACAAAATTACCGTTT
66 TACAGAATTACTATTT
*
235116872 TACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
*
235116936 TTACAGAATTATTATTT
65 TTACAGAATTACTATTT
* * **
235116953 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
235117018 TACAGAATTACTATTT
66 TACAGAATTACTATTT
*
235117034 TACCCTTGATTTACAAA
1 TACCCTCGATTTACAAA
235117051 GTTACAGAAA
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 157 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTATTT
Found at i:235117055 original size:27 final size:27
Alignment explanation
Indices: 235116791--235117048 Score: 295
Period size: 27 Copynumber: 9.6 Consensus size: 27
235116781 ATTACCAAAG
* * *
235116791 TACCCCCGATTTACAGAACTA-TCATTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
235116818 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
235116845 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
235116872 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
235116899 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
235116926 TACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
235116953 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
235116980 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
235117007 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
235117034 TACCCTTGATTTACA
1 TACCCTCGATTTACA
235117049 AAGTTACAGA
Statistics
Matches: 201, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 199 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:235117128 original size:27 final size:27
Alignment explanation
Indices: 235116845--235117124 Score: 113
Period size: 27 Copynumber: 10.3 Consensus size: 27
235116835 ATTACCGTTT
* * ***
235116845 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* * ***
235116872 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* * * ***
235116899 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* * **
235116926 TACCCTTGATTTACAGAATTA-TTATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* ***
235116953 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTTGATTTACAAAATTACT-GAAA
* * * * **
235116980 TACCGTCGATTTATAGAATTACT-ATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* **
235117007 TACCCTTGATTTACAGAATTACT-ATTT
1 TACCCTTGATTTACAAAATTACTGA-AA
* *
235117034 TACCCTTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
235117061 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
235117090 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
235117117 TACCCTTG
1 TACCCTTG
235117125 GTTTGTAGAT
Statistics
Matches: 210, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
27 183 0.87
28 9 0.04
29 18 0.09
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:235117240 original size:26 final size:25
Alignment explanation
Indices: 235117180--235117240 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
235117170 ATACCCCTAT
*
235117180 TAGGTAAAAAGACCGTAAAGCCCTG
1 TAGGTAAAGAGACCGTAAAGCCCTG
*
235117205 TAGGGTAAAGTGACCGTAAAGCCCCTG
1 TA-GGTAAAGAGACCGTAAAG-CCCTG
235117232 TAGGTAAAG
1 TAGGTAAAG
235117241 GTAAAGTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 23 0.72
27 7 0.22
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (25 bp):
TAGGTAAAGAGACCGTAAAGCCCTG
Found at i:235117249 original size:32 final size:33
Alignment explanation
Indices: 235117208--235117272 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
235117198 AGCCCTGTAG
235117208 GGTAAAGTGACCGTAA-AGCCCCTGTA-GGTAAA
1 GGTAAAGTGACCGTAATA-CCCCTGTATGGTAAA
235117240 GGTAAAGTGACCGTAATACCCCTGTATGGTAAA
1 GGTAAAGTGACCGTAATACCCCTGTATGGTAAA
235117273 ATGACGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (33 bp):
GGTAAAGTGACCGTAATACCCCTGTATGGTAAA
Done.