Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 121 of 276
Found at i:38813528 original size:17 final size:18
Alignment explanation
Indices: 38813502--38813540 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38813492 TAATGTGTGG
38813502 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
38813518 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
38813536 AAAAT
1 AAAAT
38813541 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:38817084 original size:15 final size:15
Alignment explanation
Indices: 38817074--38817103 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38817064 TCCCTTCTTG
38817074 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
38817089 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
38817104 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:38817871 original size:17 final size:18
Alignment explanation
Indices: 38817845--38817883 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38817835 CAAATTGTGG
38817845 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
38817861 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
38817879 AAAAT
1 AAAAT
38817884 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:38818060 original size:15 final size:15
Alignment explanation
Indices: 38818040--38818070 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
38818030 AAAACAATAT
38818040 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
38818055 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
38818070 A
1 A
38818071 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:38819246 original size:19 final size:19
Alignment explanation
Indices: 38819201--38819247 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
38819191 ATCAAATTAA
*
38819201 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
38819220 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
38819239 AATAAAAAT
1 AATAAAAAT
38819248 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:38827256 original size:14 final size:14
Alignment explanation
Indices: 38827237--38827266 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38827227 AAATCAAAGG
38827237 GATGGAGATTTAGA
1 GATGGAGATTTAGA
38827251 GATGGAGATTTAGA
1 GATGGAGATTTAGA
38827265 GA
1 GA
38827267 AGCAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (14 bp):
GATGGAGATTTAGA
Found at i:38827353 original size:14 final size:14
Alignment explanation
Indices: 38827334--38827363 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38827324 AATGGTGGAA
*
38827334 GGATTTTGATTTGG
1 GGATTTCGATTTGG
38827348 GGATTTCGATTTGG
1 GGATTTCGATTTGG
38827362 GG
1 GG
38827364 GAAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:38827410 original size:13 final size:13
Alignment explanation
Indices: 38827392--38827425 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38827382 TGGGGATACC
38827392 GATTTTAGGGGGA
1 GATTTTAGGGGGA
38827405 GATTTTAGGGGGA
1 GATTTTAGGGGGA
*
38827418 AATTTTAG
1 GATTTTAG
38827426 ACGTTCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (13 bp):
GATTTTAGGGGGA
Found at i:38829114 original size:40 final size:41
Alignment explanation
Indices: 38828936--38829135 Score: 314
Period size: 41 Copynumber: 4.9 Consensus size: 41
38828926 ATTATATGAC
* *
38828936 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
38828977 TTTTAGCGGCGTTTTTCCAAATA-CGCCGCTAATGCTCTGGA
1 TTTTAGCGGCGTTTTACCAAA-AGCGCCGCTAATGCTCTGGT
38829018 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
38829059 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
38829099 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
38829136 CGTGTTTTAT
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.25
41 109 0.74
42 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:38833098 original size:37 final size:37
Alignment explanation
Indices: 38833048--38833126 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38833038 TTATTACGAA
* * *
38833048 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38833085 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38833122 GTCTT
1 GTCTT
38833127 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38833323 original size:47 final size:47
Alignment explanation
Indices: 38833245--38833655 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
38833235 CCCTTCGGGA
* * * * * *
38833245 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38833292 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833339 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833433 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833480 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833527 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833574 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38833621 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
38833656 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38849555 original size:47 final size:46
Alignment explanation
Indices: 38849445--38849564 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 46
38849435 ACTTGTGTAA
38849445 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCCACATTATGAGAGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG--CACATTATGAGAGC
* *
38849493 -C-AGTGTAAGACCATGTTTGGGACATGGCATTG-ACATTGA-GACGAGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCACATT-ATGA-GAGC
*
38849539 GCTAGTGTAAGACATGTCTAGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
38849565 ACATTGGTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
45 7 0.11
46 14 0.23
47 27 0.44
48 14 0.23
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCACATTATGAGAGC
Found at i:38849661 original size:46 final size:44
Alignment explanation
Indices: 38849493--38849664 Score: 132
Period size: 46 Copynumber: 3.7 Consensus size: 44
38849483 TTATGAGAGC
* * * *
38849493 CAGTGTAAGACCATGTTTGGGACATGGCATTGAC-ATTGAGACGAGCG
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCTA-TGAGATGTG-T
* * *
38849540 CTAGTGTAAGACATGTCTAGGACATACATTGG-TATCGAGATGTAAGT
1 C-AGTGTAAGACATGTTTGGGACATGCATTGGCTAT-GAGATGT--GT
* ** * *
38849587 CAATGTAAGACATGTACGAGACATGCATTGGCTATGAAATGTGT
1 CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
38849631 CAGTGTAAGACCATGTTTGGGACATGGCATTGGC
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
38849665 AACTTACCCT
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
44 11 0.11
45 12 0.12
46 49 0.49
47 17 0.17
48 10 0.10
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
Found at i:38853846 original size:542 final size:542
Alignment explanation
Indices: 38852824--38853908 Score: 2170
Period size: 542 Copynumber: 2.0 Consensus size: 542
38852814 CAAGTGTCTG
38852824 AGTTGAAGATTGAATCGGTACCAGTGGTTTGTGAGTTTACAGACGTGTTTCCGGATGAATTACCC
1 AGTTGAAGATTGAATCGGTACCAGTGGTTTGTGAGTTTACAGACGTGTTTCCGGATGAATTACCC
38852889 GGATTACCTCCAGTGAGGGAAGTTGAGTTTGGAGCCGAGTTGGTCCTCGGTACGACACCCATCTT
66 GGATTACCTCCAGTGAGGGAAGTTGAGTTTGGAGCCGAGTTGGTCCTCGGTACGACACCCATCTT
38852954 CATTGCTCCGTATAGGATGGCTCCTATGGAGTTAAAAGAGTTGAAAGCTCAACTACAAGAGTTAA
131 CATTGCTCCGTATAGGATGGCTCCTATGGAGTTAAAAGAGTTGAAAGCTCAACTACAAGAGTTAA
38853019 CTGACAAGGGCTTTGCGAGACCGAGCTTTTCCCCGTGGGGTGCTCCGGTTCTCTTTGTGAAAAAG
196 CTGACAAGGGCTTTGCGAGACCGAGCTTTTCCCCGTGGGGTGCTCCGGTTCTCTTTGTGAAAAAG
38853084 AAAGATGGGTCGATGAGGTTATGTATCGACTATAGATAGCTCGATAAGGTAAAAGTAAAGAACAA
261 AAAGATGGGTCGATGAGGTTATGTATCGACTATAGATAGCTCGATAAGGTAAAAGTAAAGAACAA
38853149 GTATCCTTTGCCAAGGATCGATGACCTGTTTGATTAGTTAAAGGGAGCCACTATATTTTCCAAGA
326 GTATCCTTTGCCAAGGATCGATGACCTGTTTGATTAGTTAAAGGGAGCCACTATATTTTCCAAGA
38853214 TTGACCTGAGGTTAGGATACTACCAGTTAAGGGTGAAAGAGCAAAATGTACTGAAGACTGCGTTT
391 TTGACCTGAGGTTAGGATACTACCAGTTAAGGGTGAAAGAGCAAAATGTACTGAAGACTGCGTTT
38853279 CGGACGAGATATGGGCATTATAAGTTCCTTGTCATGCCCTTTGGTTTGACTAATGCCTCGGCGGT
456 CGGACGAGATATGGGCATTATAAGTTCCTTGTCATGCCCTTTGGTTTGACTAATGCCTCGGCGGT
38853344 GTTTATGGATTTGATGAACCGC
521 GTTTATGGATTTGATGAACCGC
38853366 AGTTGAAGATTGAATCGGTACCAGTGGTTTGTGAGTTTACAGACGTGTTTCCGGATGAATTACCC
1 AGTTGAAGATTGAATCGGTACCAGTGGTTTGTGAGTTTACAGACGTGTTTCCGGATGAATTACCC
38853431 GGATTACCTCCAGTGAGGGAAGTTGAGTTTGGAGCCGAGTTGGTCCTCGGTACGACACCCATCTT
66 GGATTACCTCCAGTGAGGGAAGTTGAGTTTGGAGCCGAGTTGGTCCTCGGTACGACACCCATCTT
38853496 CATTGCTCCGTATAGGATGGCTCCTATGGAGTTAAAAGAGTTGAAAGCTCAACTACAAGAGTTAA
131 CATTGCTCCGTATAGGATGGCTCCTATGGAGTTAAAAGAGTTGAAAGCTCAACTACAAGAGTTAA
38853561 CTGACAAGGGCTTTGCGAGACCGAGCTTTTCCCCGTGGGGTGCTCCGGTTCTCTTTGTGAAAAAG
196 CTGACAAGGGCTTTGCGAGACCGAGCTTTTCCCCGTGGGGTGCTCCGGTTCTCTTTGTGAAAAAG
38853626 AAAGATGGGTCGATGAGGTTATGTATCGACTATAGATAGCTCGATAAGGTAAAAGTAAAGAACAA
261 AAAGATGGGTCGATGAGGTTATGTATCGACTATAGATAGCTCGATAAGGTAAAAGTAAAGAACAA
38853691 GTATCCTTTGCCAAGGATCGATGACCTGTTTGATTAGTTAAAGGGAGCCACTATATTTTCCAAGA
326 GTATCCTTTGCCAAGGATCGATGACCTGTTTGATTAGTTAAAGGGAGCCACTATATTTTCCAAGA
38853756 TTGACCTGAGGTTAGGATACTACCAGTTAAGGGTGAAAGAGCAAAATGTACTGAAGACTGCGTTT
391 TTGACCTGAGGTTAGGATACTACCAGTTAAGGGTGAAAGAGCAAAATGTACTGAAGACTGCGTTT
38853821 CGGACGAGATATGGGCATTATAAGTTCCTTGTCATGCCCTTTGGTTTGACTAATGCCTCGGCGGT
456 CGGACGAGATATGGGCATTATAAGTTCCTTGTCATGCCCTTTGGTTTGACTAATGCCTCGGCGGT
38853886 GTTTATGGATTTGATGAACCGC
521 GTTTATGGATTTGATGAACCGC
38853908 A
1 A
38853909 TTTGTAACAC
Statistics
Matches: 543, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
542 543 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (542 bp):
AGTTGAAGATTGAATCGGTACCAGTGGTTTGTGAGTTTACAGACGTGTTTCCGGATGAATTACCC
GGATTACCTCCAGTGAGGGAAGTTGAGTTTGGAGCCGAGTTGGTCCTCGGTACGACACCCATCTT
CATTGCTCCGTATAGGATGGCTCCTATGGAGTTAAAAGAGTTGAAAGCTCAACTACAAGAGTTAA
CTGACAAGGGCTTTGCGAGACCGAGCTTTTCCCCGTGGGGTGCTCCGGTTCTCTTTGTGAAAAAG
AAAGATGGGTCGATGAGGTTATGTATCGACTATAGATAGCTCGATAAGGTAAAAGTAAAGAACAA
GTATCCTTTGCCAAGGATCGATGACCTGTTTGATTAGTTAAAGGGAGCCACTATATTTTCCAAGA
TTGACCTGAGGTTAGGATACTACCAGTTAAGGGTGAAAGAGCAAAATGTACTGAAGACTGCGTTT
CGGACGAGATATGGGCATTATAAGTTCCTTGTCATGCCCTTTGGTTTGACTAATGCCTCGGCGGT
GTTTATGGATTTGATGAACCGC
Found at i:38863356 original size:49 final size:49
Alignment explanation
Indices: 38863251--38863379 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
38863241 CTTCGGGACT
* * * *
38863251 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
38863298 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
38863347 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
38863380 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:38869461 original size:46 final size:44
Alignment explanation
Indices: 38869293--38869464 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 44
38869283 TTATGAGAGC
* * *
38869293 CAGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATTGAGACGAGCG
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCTA-TGAGATGTG-T
* * *
38869340 CTAGTGTAAGACATGTCTAGGACATACATTGG-TATCGAGATGTAAGT
1 C-AGTGTAAGACATGTTTGGGACATGCATTGGCTAT-GAGATGT--GT
* ** * *
38869387 CAATGTAAGACATGTACGAGACATGCATTGGCTATGAAATGTGT
1 CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
38869431 CAGTGTAAGACCATGTTTGGGACATGGCATTGGC
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
38869465 AACTTACCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
44 11 0.11
45 12 0.12
46 50 0.50
47 17 0.17
48 10 0.10
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
Found at i:38885810 original size:48 final size:48
Alignment explanation
Indices: 38885739--38886093 Score: 453
Period size: 48 Copynumber: 7.4 Consensus size: 48
38885729 CACTACTATT
* * * *
38885739 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGAAATGGGATCGACATT
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * * *
38885787 ATTACGAGAGCCAGTGTAGGACCATATTTGGGATATGGCATCGGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* *
38885835 ATTATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCGACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
**
38885883 ATTATGTGAGCCAACGTAAGACCATGTTTGGGACATGGCATC-AGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CATC
*
38885931 ATTATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * *
38885979 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * * *
38886027 ATTATGAGAGCTAGTGTAAGAACATATCTGGGATATGGCATCGACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
*
38886075 ATTAT-TAGAGCCAATGTAA
1 ATTATGT-GAGCCAGTGTAA
38886094 TACCGTAACT
Statistics
Matches: 266, Mismatches: 38, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.00
48 264 0.99
49 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (48 bp):
ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
Found at i:38889531 original size:14 final size:15
Alignment explanation
Indices: 38889473--38889533 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
38889463 GATATAGTAT
*
38889473 TTTATCTTGGGTTTC
1 TTTATCTTGGATTTC
38889488 TTTAT-TCTGGATTTC
1 TTTATCT-TGGATTTC
*
38889503 TCTATCTTGGATTTC
1 TTTATCTTGGATTTC
*
38889518 TTTA-CTTGGTTTTC
1 TTTATCTTGGATTTC
38889532 TT
1 TT
38889534 GTTATCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.30
15 27 0.68
16 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (15 bp):
TTTATCTTGGATTTC
Found at i:38892082 original size:48 final size:48
Alignment explanation
Indices: 38891981--38892409 Score: 484
Period size: 48 Copynumber: 9.0 Consensus size: 48
38891971 CACTGCTATT
* * * *
38891981 ATTATGTGAGCCAGTGTAAGACCATATCT-GGGCATGGCATCAGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * *
38892028 ATTACGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * * *
38892076 ATTACGAGAGCCAGTGTAAGGCTATATCTAGGATATGGCATTGGCATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * * *
38892124 ATTATGTGAGCCAGTGTAAGGCCATATCTGGGACATGACATCGACATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * *
38892172 ATTA-GTGAGCCAGTGTAAGACCATGTATAGGACATGGCATCGACATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * *
38892219 ATTATAAGAGGCAGTGTAAGACCATGTCTAGGACAAGGCATCGGCATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
** ** * * ** *
38892267 ATTATCTGAGATAGTCTAAGACCATGTCCGGGACATGGCATCGGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * **
38892315 ATTATGAGAGCCAGTGTAAGACCATATCTGGGATATGTCATCGAAATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
*
38892363 ATTATGAGAGCCAGTGTAAGACCATATCTAGGATATGGCATCGGCAT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCAT
38892410 TGATATGTGT
Statistics
Matches: 327, Mismatches: 53, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
47 69 0.21
48 258 0.79
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
Found at i:38892249 original size:143 final size:144
Alignment explanation
Indices: 38891981--38892409 Score: 560
Period size: 143 Copynumber: 3.0 Consensus size: 144
38891971 CACTGCTATT
38891981 ATTATGTGAGCCAGTGTAAGACCATATCTGGG-CATGGCATC-AGCATTATTACGAGAGCCAGTG
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGA-CATTATTACGAGAGCCAGTG
* * * *
38892044 TAAGACCATATCTAGGACATGGCATC-AGCATTATTACGAGAGCCAGTGTAAGGCTATATCTAGG
65 TAAGACCATATCTAGGACATGGCATCGA-CATCATTATGAGAGCCAGTGTAAGACCATATCTAGG
*
38892108 ATATGGCATTGGCATC
129 ATATGGCATCGGCATC
* * * *
38892124 ATTATGTGAGCCAGTGTAAGGCCATATCTGGGACATGACATCGACATCATTA-GTGAGCCAGTGT
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
* * * * * *
38892188 AAGACCATGTATAGGACATGGCATCGACATCATTATAAGAGGCAGTGTAAGACCATGTCTAGGAC
66 AAGACCATATCTAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
*
38892253 AAGGCATCGGCATC
131 ATGGCATCGGCATC
* ** * * * * *
38892267 ATTATCTGAGATAGTCTAAGACCATGTCCGGGACATGGCATCGGCATTATTATGAGAGCCAGTGT
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
* * * *
38892332 AAGACCATATCTGGGATATGTCATCGAAATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
66 AAGACCATATCTAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
38892397 ATGGCATCGGCAT
131 ATGGCATCGGCAT
38892410 TGATATGTGT
Statistics
Matches: 244, Mismatches: 38, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
143 149 0.61
144 94 0.39
145 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (144 bp):
ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
AAGACCATATCTAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
ATGGCATCGGCATC
Found at i:38894888 original size:46 final size:47
Alignment explanation
Indices: 38894821--38895182 Score: 241
Period size: 50 Copynumber: 7.6 Consensus size: 47
38894811 TAGGATGCCA
* * *
38894821 ATGCCATGGCCCATACATGGTCTTACACT-GCTCATACATCAAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATCAAGTCG
* * **
38894867 ATGACATGTCCCAGACATGGTCTTACATTGGCTC-TCACATATCCGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-AC--AT-CAAGTCG
* **
38894917 ATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCACATATCCGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-AC--AT-CAAGTCG
** * *
38894967 ATGCCATGTCCCAGACATGGTCTTACACTAACACAT-C-TCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATCA-AGTCG
* * * * * *
38895013 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA-CATCAAGTCG
*
38895061 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTCAA-TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACA--TCAAGT-C-G
* *
38895109 ATGCCATGT-CCAGACATTGG-CTTACAGTGGCTC-T-CAT-AATGTGGCCT
1 ATGCCATGTCCCAGACA-TGGTCTTACACTGGCTCATACATCAA-GT---CG
38895156 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
38895183 AGCACACATG
Statistics
Matches: 261, Mismatches: 34, Indels: 42
0.77 0.10 0.12
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 75 0.29
47 40 0.15
48 51 0.20
49 5 0.02
50 83 0.32
51 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATCAAGTCG
Found at i:38894933 original size:50 final size:49
Alignment explanation
Indices: 38894816--38895182 Score: 295
Period size: 46 Copynumber: 7.7 Consensus size: 49
38894806 TAAGGTAGGA
* * * *
38894816 TGCCAATGCCATGGCCCATACATGGTCTTACACT-GCTCAT-ACATCA-AG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAT-ATCG
* * *
38894864 T--CAATGACATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT-CG
* *
38894912 TGTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT-CG
* ** * *
38894962 TGTCGATGCCATGTCCCAGACATGGTCTTACA----CTAACACATCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCG
* * *
38895007 TAGCCGATGCCATGTCCTAGACATGGTCTTACACTGG--CTCACATCTTG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCG
* * * *
38895055 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATC-G
* * *
38895104 TGCTGATGCCATGT-CCAGACATTGG-CTTACAGTGGCTCTCATA-AT-G
1 TGCCGATGCCATGTCCCAGACA-TGGTCTTACACTGGCTCTCACATATCG
*
38895150 TGGCCTATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
38895183 AGCACACATG
Statistics
Matches: 266, Mismatches: 32, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
45 3 0.01
46 80 0.30
47 39 0.15
48 64 0.24
49 1 0.00
50 79 0.30
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCG
Found at i:38895015 original size:96 final size:94
Alignment explanation
Indices: 38894815--38895188 Score: 313
Period size: 96 Copynumber: 3.9 Consensus size: 94
38894805 ATAAGGTAGG
* * * * * *
38894815 ATGCCAATGCCATGGCCCATACATGGTCTTACACT-GCTCAT-ACATCAAGT--CAATGACATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAT-ATGTGCCGATGCCATGT
** * *
38894876 CCCAGACATGGTCTTACATTGGCTCTCACATATCC
64 CCCAGACATGGTCTTACA----CTAACACATCTCA
* * * *
38894911 GTGTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCGTGTCGATGCCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT--GTGCCGATGCCATGT
38894976 CCCAGACATGGTCTTACACTAACACATCTC-
64 CCCAGACATGGTCTTACACTAACACATCTCA
* * *
38895006 ATAGCCGATGCCATGTCCTAGACATGGTCTTACACTGG--CTCACATCTTGAGGCCGATGCCATG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-ATG-TGCCGATGCCATG
* *
38895069 TCCCAGACATGGTCTTACACTAGCTCTCATCTCA
63 TCCCAGACATGGTCTTACACTA--ACACATCTCA
* * * *
38895103 ATGCTGATGCCATGT-CCAGACATTGG-CTTACAGTGGCTCTCATA-ATGTGGCCTATG-CATGT
1 ATGCCGATGCCATGTCCCAGACA-TGGTCTTACACTGGCTCTCACATATGT-GCCGATGCCATGT
*
38895164 CCCAGACAT-GTCTTACACTAGCACA
64 CCCAGACATGGTCTTACACTAACACA
38895189 CATGTCACCT
Statistics
Matches: 232, Mismatches: 30, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
91 3 0.01
93 12 0.05
94 54 0.23
95 25 0.11
96 94 0.41
97 15 0.06
98 2 0.01
100 27 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATGTGCCGATGCCATGTCC
CAGACATGGTCTTACACTAACACATCTCA
Found at i:38895090 original size:94 final size:92
Alignment explanation
Indices: 38894915--38895188 Score: 304
Period size: 94 Copynumber: 2.9 Consensus size: 92
38894905 ATATCCGTGT
* * * *
38894915 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCGTGTCGATGCCATGTCCCA
1 CGATGCCATGT-CCAGACATGGTCTTACACTGG--CTCACATAT-TGGGCCGATGCCATGTCCCA
38894980 GACATGGTCTTACACTAACACATCTC-ATAGC
62 GACATGGTCTTACACTAACACATCTCAAT-GC
*
38895011 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTTGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCC-AGACATGGTCTTACACTGGCTCACATATTG-GGCCGATGCCATGTCCCAGA
* *
38895076 CATGGTCTTACACTAGCTCTCATCTCAATGC
64 CATGGTCTTACACTA--ACACATCTCAATGC
* * * * *
38895107 TGATGCCATGTCCAGACATTGG-CTTACAGTGGCTCTCATAATGTGGCCTATG-CATGTCCCAGA
1 CGATGCCATGTCCAGACA-TGGTCTTACACTGGCTCACATATTG-GGCCGATGCCATGTCCCAGA
*
38895170 CAT-GTCTTACACTAGCACA
64 CATGGTCTTACACTAACACA
38895189 CATGTCACCT
Statistics
Matches: 156, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
91 3 0.02
93 12 0.08
94 55 0.35
95 31 0.20
96 53 0.34
97 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCCATGTCCAGACATGGTCTTACACTGGCTCACATATTGGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAACACATCTCAATGC
Found at i:38901564 original size:96 final size:96
Alignment explanation
Indices: 38901464--38901736 Score: 299
Period size: 96 Copynumber: 2.9 Consensus size: 96
38901454 ACCAAGGTCT
*
38901464 ATGCCATGTTCTAGACATGGTCTTACATTGGCTTTCACATATCTGTACCGATGCCATGTCCCAGA
1 ATGCCATGTCCTAGACATGGTCTTACATTGGC-TTCACATATCTG-ACCGATGCCATGTCCCAGA
* * *
38901529 CATGGTCTTACACTGGCACATCTC-ATA-GCCG
64 CATGGTCTTACACTAGCACATCTCTAAATGCCA
** * *
38901560 ATGCCATGTCCTAGACATGGTCTTACATTAAC-TCACATCTC-GAGGCCGATACCATGTCCCAGA
1 ATGCCATGTCCTAGACATGGTCTTACATTGGCTTCACATATCTGA--CCGATGCCATGTCCCAGA
* * *
38901623 CATGGTCTTACACTAGCTCTTGTCTAAATGCCA
64 CATGGTCTTACACTAGCACATCTCTAAATGCCA
* * * * *
38901656 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGACTGATG-CATGTCCCAGAC
1 ATGCCATGTCCTAGACATGGTCTTACATTGGCTTCACAT-ATCTGACCGATGCCATGTCCCAGAC
*
38901719 AT-GTTTTACACTAGCACA
65 ATGGTCTTACACTAGCACA
38901737 CATGTCACCC
Statistics
Matches: 148, Mismatches: 23, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
92 1 0.01
93 1 0.01
94 58 0.39
95 16 0.11
96 69 0.47
97 1 0.01
98 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCTAGACATGGTCTTACATTGGCTTCACATATCTGACCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCACATCTCTAAATGCCA
Found at i:38901690 original size:48 final size:47
Alignment explanation
Indices: 38901364--38901689 Score: 235
Period size: 48 Copynumber: 6.8 Consensus size: 47
38901354 AGGCTAGGAT
* * *
38901364 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCATA-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATC-TAAA
* * * * * * * * *
38901411 GTCGATGCCCTGTCCCAAACATGATCTTACACTAACTATCACAACCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCATATCTAAA
* * * * * * **
38901460 GTCTATGCCATGTTCTAGACATGGTCTTACATTGGCTTTCACATATCTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--T--CATATCTAAA
* * * *
38901511 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTC-ATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTAAA
* * * * * *
38901556 GCCGATGCCATGTCCTAGACATGGTCTTACATTAACTCACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCT-AAA
* * *
38901604 GCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTAAA
* *
38901651 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
38901690 TCATAATGTG
Statistics
Matches: 213, Mismatches: 57, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
45 2 0.01
46 40 0.19
47 30 0.14
48 72 0.34
49 34 0.16
50 31 0.15
51 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTAAA
Found at i:38903411 original size:55 final size:53
Alignment explanation
Indices: 38903324--38903578 Score: 252
Period size: 55 Copynumber: 4.8 Consensus size: 53
38903314 ATTAGGGTTT
*
38903324 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * * ** *
38903379 AAGGAAATCTTGTAAGACCATGTCAATACATGGCATTGACAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
38903434 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
38903487 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * *
38903536 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38903579 GTACCCGCGT
Statistics
Matches: 166, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 42 0.25
54 10 0.06
55 63 0.38
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:38903791 original size:16 final size:16
Alignment explanation
Indices: 38903770--38903800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38903760 ATAAATTTGA
38903770 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38903786 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38903801 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38906291 original size:25 final size:25
Alignment explanation
Indices: 38906263--38906319 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
38906253 TAGAGCACCT
* *
38906263 GCGAGGACTTATGCTATCCGTGCTC
1 GCGAAGACTTACGCTATCCGTGCTC
*
38906288 GCGAAGNCTTACGCTATCCGTGCTC
1 GCGAAGACTTACGCTATCCGTGCTC
38906313 GCGAAGA
1 GCGAAGA
38906320 GGCATCCTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.23
Consensus pattern (25 bp):
GCGAAGACTTACGCTATCCGTGCTC
Found at i:38910704 original size:55 final size:54
Alignment explanation
Indices: 38910617--38910871 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
38910607 ATTAGGGTTT
*
38910617 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
38910672 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
38910727 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
38910780 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
38910829 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
38910872 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:38910823 original size:108 final size:110
Alignment explanation
Indices: 38910624--38910824 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
38910614 TTTAAGGATA
*
38910624 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
38910689 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
38910734 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
38910796 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38910825 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:38911084 original size:16 final size:16
Alignment explanation
Indices: 38911063--38911093 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38911053 ATAAATTTGA
38911063 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38911079 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38911094 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38922116 original size:40 final size:40
Alignment explanation
Indices: 38922061--38922218 Score: 257
Period size: 40 Copynumber: 4.0 Consensus size: 40
38922051 NNNNNNNNNN
38922061 ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
38922101 ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
*
38922141 -TTCTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGC
1 ATT-TGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
* * *
38922181 ATTTGTGCAAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
38922219 TACTTGGGTT
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.15
40 92 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
ATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:38925378 original size:20 final size:18
Alignment explanation
Indices: 38925296--38925405 Score: 57
Period size: 20 Copynumber: 5.9 Consensus size: 18
38925286 TTCTAAAATT
* *
38925296 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
38925315 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* * *
38925332 AATACATATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
38925351 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
38925370 AAGTGATT-ATCTTAATATTT
1 AA-T-ATTAAT-TTAATATTA
38925390 AAT-TTAATTTAATATT
1 AATATTAATTTAATATT
38925406 TATCTTGTAG
Statistics
Matches: 70, Mismatches: 12, Indels: 20
0.69 0.12 0.20
Matches are distributed among these distances:
17 21 0.30
18 6 0.09
19 21 0.30
20 22 0.31
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:38925462 original size:12 final size:12
Alignment explanation
Indices: 38925445--38925469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38925435 AATAAGATTC
38925445 AATATTATATTT
1 AATATTATATTT
38925457 AATATTATATTT
1 AATATTATATTT
38925469 A
1 A
38925470 TCTTAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTATATTT
Found at i:38925497 original size:20 final size:21
Alignment explanation
Indices: 38925457--38925497 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38925447 TATTATATTT
* *
38925457 AATATTATATTTATCTTAATA
1 AATATTACATTAATCTTAATA
38925478 AATATTACATTAAT-TTAATA
1 AATATTACATTAATCTTAATA
38925498 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTACATTAATCTTAATA
Found at i:38929156 original size:15 final size:15
Alignment explanation
Indices: 38929111--38929218 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
38929101 CCAATATCTC
38929111 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
38929126 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
38929141 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
38929156 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
38929171 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
38929186 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
38929201 GATACCCATATCTTT
1 GATACCCATATCTTT
38929216 GAT
1 GAT
38929219 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:38929225 original size:30 final size:30
Alignment explanation
Indices: 38929101--38929224 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
38929091 TTTTATTATG
*
38929101 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
38929132 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
38929162 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
38929192 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
38929222 CCA
1 CCA
38929225 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:38933840 original size:30 final size:30
Alignment explanation
Indices: 38933794--38933917 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
38933784 TTTTATTATG
*
38933794 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
38933825 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
38933855 ACAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
38933885 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
38933915 CCA
1 CCA
38933918 TAAATATGGA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 77 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:38933849 original size:15 final size:15
Alignment explanation
Indices: 38933804--38933911 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
38933794 CCAATATCTC
38933804 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
38933819 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
38933834 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
38933849 GACTTTACA-ATATTT
1 GA-TACCCATATCTTT
*
38933864 GATACTCATATCTTT
1 GATACCCATATCTTT
** * *
38933879 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
38933894 GATACCCATATCTTT
1 GATACCCATATCTTT
38933909 GAT
1 GAT
38933912 TTTCCATAAA
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.67
16 10 0.16
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:38937200 original size:47 final size:48
Alignment explanation
Indices: 38936924--38937232 Score: 444
Period size: 48 Copynumber: 6.5 Consensus size: 48
38936914 TTAAACCCAT
* *
38936924 ATGTGAAAGTGTATATATATGTG-ATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
38936973 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
38937021 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
38937069 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
*** *
38937117 ATGTGAAAGTGTATATGCATG-ATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
** * * * * *
38937164 ATGTGAAAGTGTATATATGTG-ACGGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
* *
38937211 ATGTGAAAGTGCATAAATGTGA
1 ATGTGAAAGTGTATATATGTGA
38937233 TAAGTCCCGA
Statistics
Matches: 239, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
47 90 0.38
48 138 0.58
49 11 0.05
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (48 bp):
ATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
Found at i:38937411 original size:37 final size:37
Alignment explanation
Indices: 38937355--38937433 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38937345 CCGAGCTCTA
* * *
38937355 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38937392 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38937429 AAGAC
1 AAGAC
38937434 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38939989 original size:23 final size:22
Alignment explanation
Indices: 38939946--38940001 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
38939936 AAAGGATATC
* *
38939946 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38939967 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
38939990 TACATATCATAT
1 TACAAATCATAT
38940002 ATAAGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38942333 original size:26 final size:26
Alignment explanation
Indices: 38942267--38942333 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
38942257 CTTTACATAT
*
38942267 ATGCTCACACGAGCTATGAAAAAAGT
1 ATGCTCACACGAGCTATGAAAAAAGC
** **
38942293 ATGCTCACAAAAGCTAT-AAAATGGGC
1 ATGCTCACACGAGCTATGAAAA-AAGC
*
38942319 CTGCTCACACGAGCT
1 ATGCTCACACGAGCT
38942334 GTAGGTCGGA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (26 bp):
ATGCTCACACGAGCTATGAAAAAAGC
Found at i:38944192 original size:48 final size:48
Alignment explanation
Indices: 38944123--38944404 Score: 241
Period size: 48 Copynumber: 5.9 Consensus size: 48
38944113 GGGGATACAG
* * * *
38944123 TGATATGGCTACGGGCCATGATGTTAGTACTTCGGGTGCGAGTTACTT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
* * * * *
38944171 TGATTTGGCTTTGGGCAATGATATTGGCACTTCGAGTGCGAGCTT-CAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG-TTACTT
* *
38944219 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTTCGAGTTACTT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
** * * *
38944267 TGATTTGGCTTCAAGCCTTGATATTGGCACCTT-GGGTGAGAGCTTCAC--
1 TGATTTGGCTTCGGGCCATGATATTAGCA-CTTCGGGTGCGAG-TT-ACTT
* * * *
38944315 AGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCAAGATA-TAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACT-T
* ** * * * *
38944363 TGAGTTGGCTTTAGGCCATAATATTGGCACTTAGTGTGCGAG
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG
38944405 ACTCCTGAGT
Statistics
Matches: 183, Mismatches: 42, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
46 1 0.01
47 6 0.03
48 167 0.91
49 7 0.04
50 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (48 bp):
TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
Found at i:38944292 original size:96 final size:95
Alignment explanation
Indices: 38944123--38944404 Score: 359
Period size: 96 Copynumber: 2.9 Consensus size: 95
38944113 GGGGATACAG
* * * * *
38944123 TGATATGGCTACGGGCCATGATGTTAGTACTTCGGGTGCGAGTTACTTTGATTTGGCTTTGGGCA
1 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAGGCC
*
38944188 ATGATATTGGCACTTCGAGTGCGAGCTTCAT
66 ATGATATTGGCACTT-GAGTGCGAGCTTCAC
* * *
38944219 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTTCGAGTTACTTTGATTTGGCTTCAAGCC
1 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAGGCC
* * *
38944284 TTGATATTGGCACCTTGGGTGAGAGCTTCAC
66 ATGATATTGGCA-CTTGAGTGCGAGCTTCAC
* * * *
38944315 AGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCAAGATA-TATTGAGTTGGCTTTAGGC
1 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACT-TTGATTTGGCTTTAGGC
* *
38944379 CATAATATTGGCACTTAGTGTGCGAG
65 CATGATATTGGCACTT-GAGTGCGAG
38944405 ACTCCTGAGT
Statistics
Matches: 160, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 4 0.03
96 153 0.96
97 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (95 bp):
TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAGGCC
ATGATATTGGCACTTGAGTGCGAGCTTCAC
Found at i:38979680 original size:93 final size:93
Alignment explanation
Indices: 38979521--38979705 Score: 334
Period size: 93 Copynumber: 2.0 Consensus size: 93
38979511 AACACATTGA
* *
38979521 TTCAAAATACAATTTTGATACTCACCTTCGCTTGAGGTCAACTTAGGAATACAGGCTCCGGGTTT
1 TTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCAGGTTT
*
38979586 AAAAACATGGTTTTGATCGGTCGTTCCG
66 AAAAACATGGTTTTGATCGGTCATTCCG
38979614 TTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCAGGTTT
1 TTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCAGGTTT
*
38979679 AAAAACATGGTTTTGATTGGTCATTCC
66 AAAAACATGGTTTTGATCGGTCATTCC
38979706 ATAACGTAAC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (93 bp):
TTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCAGGTTT
AAAAACATGGTTTTGATCGGTCATTCCG
Found at i:38982496 original size:22 final size:22
Alignment explanation
Indices: 38982465--38982529 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
38982455 ACCTTTTTGA
*
38982465 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
38982488 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
38982510 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
38982530 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:38983581 original size:19 final size:20
Alignment explanation
Indices: 38983534--38983571 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38983524 AACATTTTCG
38983534 ATTCAGCTCATTCGAGCTCA
1 ATTCAGCTCATTCGAGCTCA
38983554 ATTCAGCTCATT-GAGCTC
1 ATTCAGCTCATTCGAGCTC
38983572 GTATTAGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTCAGCTCATTCGAGCTCA
Found at i:38987278 original size:11 final size:11
Alignment explanation
Indices: 38987238--38987277 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
38987228 TACGAGATTG
38987238 TAAAAAAATTC
1 TAAAAAAATTC
38987249 TAAAAAAATTC
1 TAAAAAAATTC
38987260 TAAAAAAATTC
1 TAAAAAAATTC
38987271 -AAAAAAA
1 TAAAAAAA
38987278 AAGTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:38990496 original size:39 final size:39
Alignment explanation
Indices: 38990401--38990702 Score: 355
Period size: 39 Copynumber: 7.6 Consensus size: 39
38990391 TTGAATGATG
*
38990401 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
38990439 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
38990480 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38990519 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
38990558 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
38990598 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38990637 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
38990676 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
38990703 AACGAGGAGC
Statistics
Matches: 232, Mismatches: 23, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
39 128 0.55
40 92 0.40
41 11 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38990609 original size:118 final size:119
Alignment explanation
Indices: 38990401--38990702 Score: 427
Period size: 118 Copynumber: 2.6 Consensus size: 119
38990391 TTGAATGATG
* * *
38990401 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
* *
38990462 TTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
*
38990519 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
38990583 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
38990637 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
38990701 TG
65 TG
38990703 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
117 10 0.06
118 99 0.60
119 55 0.33
120 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38990735 original size:79 final size:79
Alignment explanation
Indices: 38990401--38990702 Score: 393
Period size: 79 Copynumber: 3.8 Consensus size: 79
38990391 TTGAATGATG
* * * *
38990401 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCGGGCTAAG-CCCGAAGGCA
* *
38990462 TTTGTGCGAGATACTAAT
62 TTTGTGCGAGTTACTAAA
* *
38990480 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
38990544 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
38990558 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
38990623 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* * *
38990637 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
38990700 TTG
63 TTG
38990703 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 11, Indels: 15
0.89 0.05 0.07
Matches are distributed among these distances:
78 46 0.23
79 132 0.65
80 25 0.12
81 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:38992656 original size:15 final size:14
Alignment explanation
Indices: 38992629--38992671 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
38992619 TCTATTGAGC
38992629 AAGAAAAAGAAAAA
1 AAGAAAAAGAAAAA
38992643 AAGAAAAAGAAAAA
1 AAGAAAAAGAAAAA
* *
38992657 GAGTGAAAAGAAAAA
1 AAG-AAAAAGAAAAA
38992672 GAAAGAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:38992672 original size:15 final size:14
Alignment explanation
Indices: 38992633--38992683 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
38992623 TTGAGCAAGA
* *
38992633 AAAAGAAAAAAAGA
1 AAAAGAAAAAGAGG
38992647 AAAAGAAAAAGAGTG
1 AAAAGAAAAAGAG-G
*
38992662 AAAAGAAAAAGAAAG
1 AAAAGAAAAAG-AGG
38992677 AAAAGAA
1 AAAAGAA
38992684 TGAGGAGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.38
15 19 0.59
16 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAAGAAAAAGAGG
Found at i:38996636 original size:34 final size:34
Alignment explanation
Indices: 38996598--38996694 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 34
38996588 TAAAGTCATG
38996598 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
38996632 CATTA---AA--TT-AAGTCAAGTT-AGTTT--A-
1 CATTATGTAACTTTCATGT-TAGTTAAGTTTGCAT
38996657 -ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
38996690 CATTA
1 CATTA
38996695 AATTAAGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 24
0.63 0.05 0.32
Matches are distributed among these distances:
24 4 0.09
26 1 0.02
27 2 0.04
28 8 0.17
29 12 0.26
30 8 0.17
31 2 0.04
32 1 0.02
34 9 0.19
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:38996689 original size:58 final size:58
Alignment explanation
Indices: 38996599--38996746 Score: 280
Period size: 58 Copynumber: 2.6 Consensus size: 58
38996589 AAAGTCATGC
38996599 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCAAGTTAGTTTA
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCAAGTTAGTTTA
38996657 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCAAGTTAGTTTA
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCAAGTTAGTTTA
*
38996715 ATTATGTAACTTT-ATGTTAGTTAAATTTGCAT
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
38996747 TTCAAAACCA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
57 18 0.20
58 71 0.80
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (58 bp):
ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCAAGTTAGTTTA
Found at i:39006884 original size:56 final size:55
Alignment explanation
Indices: 39006768--39006885 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
39006758 TGCATGCTTT
* * * *
39006768 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
39006822 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
39006878 CATTAAAT
1 CATTAAAT
39006886 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:39006964 original size:74 final size:74
Alignment explanation
Indices: 39006881--39007027 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
39006871 TGCTGCACAT
*
39006881 TAAATCAGCAAGCAGCTTCTTTAATTTCGTCCATTAAATGGCCACATGAAAAAGCACAAACAACT
1 TAAATCAGCAAGCAGCTTCTTTAATTTCGTCCATTAAATGGCCACATGAAAAAGCACAAACAAAT
39006946 CCTTTAATC
66 CCTTTAATC
*
39006955 TAAATCAGCAAGCAGCTTCTTTAATTTCGTCCATTAAATGGCCATATGAAAAAGCACAAACAAAT
1 TAAATCAGCAAGCAGCTTCTTTAATTTCGTCCATTAAATGGCCACATGAAAAAGCACAAACAAAT
39007020 CCTTTAAT
66 CCTTTAAT
39007028 GCCGTTCCTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (74 bp):
TAAATCAGCAAGCAGCTTCTTTAATTTCGTCCATTAAATGGCCACATGAAAAAGCACAAACAAAT
CCTTTAATC
Found at i:39007608 original size:20 final size:20
Alignment explanation
Indices: 39007583--39007726 Score: 110
Period size: 20 Copynumber: 6.8 Consensus size: 20
39007573 ACGAGTTAAA
* *
39007583 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
39007603 TTGAGCTCGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
39007623 TTGAGCTCGAATGAGTTGAACCAC
1 TTGAGCTCGAATGAGCT--A--AC
** * *
39007647 ACGAAAAGAAATTCAAATGAGCTAA-
1 TTG---AG---CTCGAATGAGCTAAC
* *
39007672 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
39007692 TTGAGCTCGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
39007712 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
39007727 TTGAACCACA
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
19 10 0.10
20 67 0.69
22 3 0.03
24 3 0.03
25 1 0.01
26 1 0.01
27 2 0.02
28 1 0.01
30 9 0.09
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:39007732 original size:89 final size:89
Alignment explanation
Indices: 39007581--39007760 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
39007571 CAACGAGTTA
39007581 AATTGAGCTTGAATGAGCTGACTTGAGCTCGAATGAGCTAACTTGAGCTCGAATGAGTTGAACCA
1 AATTGAGCTTGAATGAGCTGACTTGAGCTCGAATGAGCTAACTTGAGCTCGAATGAGTTGAACCA
*
39007646 CACGAAAAGAAATTCAAATGAGCT
66 CACGAAAAGAAATTCAAATAAGCT
39007670 AATTGAGCTTGAATGAGCTGACTTGAGCTCGAATGAGCTAACTTGAGCTCGAATGAGTTGAACCA
1 AATTGAGCTTGAATGAGCTGACTTGAGCTCGAATGAGCTAACTTGAGCTCGAATGAGTTGAACCA
39007735 CACGAAAAGAAATTCAAATAAGCT
66 CACGAAAAGAAATTCAAATAAGCT
39007759 AA
1 AA
39007761 AAATTAGCTT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (89 bp):
AATTGAGCTTGAATGAGCTGACTTGAGCTCGAATGAGCTAACTTGAGCTCGAATGAGTTGAACCA
CACGAAAAGAAATTCAAATAAGCT
Found at i:39009657 original size:13 final size:13
Alignment explanation
Indices: 39009639--39009666 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39009629 AGTGGATGTT
39009639 TTTGACCATTCGG
1 TTTGACCATTCGG
39009652 TTTGACCATTCGG
1 TTTGACCATTCGG
39009665 TT
1 TT
39009667 ACCTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (13 bp):
TTTGACCATTCGG
Found at i:39010213 original size:16 final size:15
Alignment explanation
Indices: 39010187--39010216 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39010177 TTTCAATCCA
39010187 TCATCCCAATCAAAG
1 TCATCCCAATCAAAG
39010202 TCATCACCAATCAAA
1 TCATC-CCAATCAAA
39010217 AATTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
TCATCCCAATCAAAG
Found at i:39011542 original size:21 final size:21
Alignment explanation
Indices: 39011516--39011578 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
39011506 TTGGTATTTG
39011516 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
39011537 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
39011558 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
39011579 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:39012672 original size:10 final size:10
Alignment explanation
Indices: 39012657--39012698 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
39012647 TTTGCAAGTT
39012657 TTGAGCTAAA
1 TTGAGCTAAA
* *
39012667 TTGAGCTGAT
1 TTGAGCTAAA
*
39012677 TTGAGCT-CA
1 TTGAGCTAAA
39012686 TTGAGCTAAA
1 TTGAGCTAAA
39012696 TTG
1 TTG
39012699 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:39018507 original size:29 final size:29
Alignment explanation
Indices: 39018472--39018547 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
39018462 ATGAGATTGA
* **
39018472 CACTAAGTGTGCGGGTTTAAATTGTATGG
1 CACTAAGTGTGCGGGTTTAAAGTACATGG
* *
39018501 CACTAAGTGTGTGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGGGTTTAAAGTACATGG
39018530 CACTAAGTGTGCGCGGTT
1 CACTAAGTGTGCG-GGTT
39018548 GATTATTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (29 bp):
CACTAAGTGTGCGGGTTTAAAGTACATGG
Found at i:39018765 original size:174 final size:174
Alignment explanation
Indices: 39018497--39019001 Score: 965
Period size: 174 Copynumber: 2.9 Consensus size: 174
39018487 TTTAAATTGT
39018497 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
1 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
39018562 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
66 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
* *
39018627 CGATTTTGGACAGCGAAAAACGTAAGTGTGCGAACTTGAAATGC
131 CGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGC
39018671 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
1 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
39018736 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
66 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
*
39018801 CGATTTTGGATAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGC
131 CGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGC
39018845 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
1 ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
*
39018910 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGT
66 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
*
39018975 CAATTTTGGACAGCGGAAAAGGTAAGT
131 CGATTTTGGACAGCGGAAAAGGTAAGT
39019002 ACCTTGAGTT
Statistics
Matches: 325, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 325 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
ATGGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGT
CGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGC
Found at i:39023224 original size:83 final size:80
Alignment explanation
Indices: 39023124--39023284 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 80
39023114 TGTGTCTGCG
* * * *
39023124 GGTCATTGAATTCGGCTACTTAATGGCTAAGGAGACATGCATTTAAGGTGCTGTTAACATGCAAG
1 GGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCA--TAAGGAGATGTTAACATGCAAG
39023189 GAACGGCATTTAAAGAA
64 GAACGGCATTTAAAGAA
** *
39023206 GGTCATTGAAATTCGGCTACTTAATGGCAAAGGAAACATGCATAAGGAGATGTTCCCATGCATGG
1 GGTCATTG-AATTCGGCTACTTAATGGCAAAGGAAACATGCATAAGGAGATGTTAACATGCAAGG
*
39023271 AACGGTATTTAAAG
65 AACGGCATTTAAAG
39023285 GGAAGCAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 31 0.44
82 8 0.11
83 31 0.44
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (80 bp):
GGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCATAAGGAGATGTTAACATGCAAGGA
ACGGCATTTAAAGAA
Found at i:39029941 original size:76 final size:76
Alignment explanation
Indices: 39029815--39029967 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
39029805 AGTCACGGGA
39029815 AACTCCTACGAAAACCCTAAACAATCAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAACTT
1 AACTCCTACGAAAACCCTAAACAATCAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAACTT
39029880 TGAATTTCCAG
66 TGAATTTCCAG
* **
39029891 AACTCCTACGAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTT
1 AACTCCTACGAAAACCCTAAACAATCAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAACTT
*
39029956 TGAATTTTCAG
66 TGAATTTCCAG
39029967 A
1 A
39029968 TCTGAAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (76 bp):
AACTCCTACGAAAACCCTAAACAATCAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAACTT
TGAATTTCCAG
Found at i:39037189 original size:10 final size:9
Alignment explanation
Indices: 39037163--39037187 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39037153 TCGGTATTGT
39037163 AAAAAAATA
1 AAAAAAATA
39037172 AAAAAAATA
1 AAAAAAATA
39037181 AAAAAAA
1 AAAAAAA
39037188 ATTCGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:39037297 original size:19 final size:18
Alignment explanation
Indices: 39037273--39037318 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
39037263 AAAAAAAGAG
*
39037273 AAAAAAAAGTTTCAGAAGT
1 AAAAAAAAATTTCA-AAGT
* *
39037292 AAAAAAAAATTTGAAATT
1 AAAAAAAAATTTCAAAGT
39037310 AAAAAAAAA
1 AAAAAAAAA
39037319 AGAGAAGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAAAAAAATTTCAAAGT
Found at i:39047023 original size:39 final size:39
Alignment explanation
Indices: 39046980--39047162 Score: 294
Period size: 39 Copynumber: 4.7 Consensus size: 39
39046970 GCACGTGGCT
* * *
39046980 TGCGGACTTCAAGTCCGGATATATTTCTAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
*
39047019 TGCGGACCTCATGTCCGGATATATTCCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
*
39047058 TGCGGACTTCATGTCCGGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* **
39047097 TACGGACCTCATGTCTAGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
39047136 TGCGGACCTCATGTCCGGATATATTTC
1 TGCGGACCTCATGTCCGGATATATTTC
39047163 AAATACCATG
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
Found at i:39051086 original size:2 final size:2
Alignment explanation
Indices: 39051079--39051111 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39051069 AGTTATTCGT
39051079 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
39051112 TCTGTCGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:39055425 original size:40 final size:39
Alignment explanation
Indices: 39055367--39055452 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
39055357 TATATACATA
* **
39055367 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* *
39055407 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
39055446 TAGCCGA
1 TAGCCGA
39055453 TAAGTTGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:39070211 original size:32 final size:32
Alignment explanation
Indices: 39070170--39070232 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
39070160 TTTCTCAAGC
39070170 TCTCGTCATGGAAAAAGATACCCTGGTTTGGG
1 TCTCGTCATGGAAAAAGATACCCTGGTTTGGG
*
39070202 TCTCGTCATGGAAGAAGATACCCTGGTTTGG
1 TCTCGTCATGGAAAAAGATACCCTGGTTTGG
39070233 ACGGAAGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (32 bp):
TCTCGTCATGGAAAAAGATACCCTGGTTTGGG
Found at i:39072209 original size:19 final size:19
Alignment explanation
Indices: 39072181--39072219 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
39072171 AGAGCGAAAG
39072181 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
39072199 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
39072219 A
1 A
39072220 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:39073870 original size:46 final size:48
Alignment explanation
Indices: 39073798--39073917 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
39073788 GATAGGACAG
* *
39073798 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
* * *
39073844 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
**
39073892 GACAGGAATGATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
39073918 GTCGAAGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 25 0.39
47 1 0.02
48 38 0.59
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
Found at i:39084618 original size:38 final size:38
Alignment explanation
Indices: 39084570--39084653 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
39084560 GGCACGAAGG
* * *
39084570 CCCGAATATAATA-CTAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATATC-AGCACGAAGCCTGCGGGATTTAA
*
39084608 CCCGGATATAATATCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATATCAGCACGAAGCCTGCGGGATTTAA
39084646 CCCGAATA
1 CCCGAATA
39084654 CACATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATATCAGCACGAAGCCTGCGGGATTTAA
Found at i:39089717 original size:43 final size:43
Alignment explanation
Indices: 39089669--39089780 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
39089659 CCGACATTAC
*
39089669 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCCCGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
39089712 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
39089755 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
39089781 TAATACTAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.29, C:0.34, G:0.27, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:39089821 original size:38 final size:38
Alignment explanation
Indices: 39089773--39089856 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
39089763 GGCACGAAGG
* * * *
39089773 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
39089811 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
39089849 CCCGAATA
1 CCCGAATA
39089857 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:39095000 original size:32 final size:32
Alignment explanation
Indices: 39094959--39095023 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
39094949 AGGAATAATT
39094959 TAGGATACAATATGACATGTCACTAGAAACTA
1 TAGGATACAATATGACATGTCACTAGAAACTA
39094991 TAGGATACAATATGACATGTCACTAGAAACTA
1 TAGGATACAATATGACATGTCACTAGAAACTA
39095023 T
1 T
39095024 GTGATTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (32 bp):
TAGGATACAATATGACATGTCACTAGAAACTA
Found at i:39096161 original size:37 final size:37
Alignment explanation
Indices: 39096111--39096189 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
39096101 TTATTACGAA
* *
39096111 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
39096148 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
39096185 GTCTT
1 GTCTT
39096190 TAGAGCTCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:39096386 original size:47 final size:47
Alignment explanation
Indices: 39096308--39096534 Score: 346
Period size: 47 Copynumber: 4.8 Consensus size: 47
39096298 CCCTTCGGGA
* * * * * *
39096308 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39096355 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39096402 CTTATCACATATATACACTTTCACATTCATCACATCCGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39096449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39096496 CGTATCACATATATATACACTTTCACATTCATCACATCG
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCG
39096535 CACTTTCACA
Statistics
Matches: 165, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 136 0.82
49 29 0.18
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39096541 original size:22 final size:22
Alignment explanation
Indices: 39096513--39096556 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
39096503 CATATATATA
39096513 CACTTTCACATTCATCACATCG
1 CACTTTCACATTCATCACATCG
39096535 CACTTTCACATTCATCACATCG
1 CACTTTCACATTCATCACATCG
39096557 GCCATTAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.05, T:0.32
Consensus pattern (22 bp):
CACTTTCACATTCATCACATCG
Found at i:39096541 original size:71 final size:71
Alignment explanation
Indices: 39096464--39096605 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
39096454 CACATATATA
39096464 CACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATATACACTTTCACATTCATC
39096529 ACATCG
66 ACATCG
*
39096535 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATATACACTTTCACATTCATC
39096600 ACATCG
66 ACATCG
39096606 GCCATTAGGC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (71 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACATATATATACACTTTCACATTCATC
ACATCG
Found at i:39096550 original size:118 final size:117
Alignment explanation
Indices: 39096417--39096650 Score: 391
Period size: 118 Copynumber: 2.0 Consensus size: 117
39096407 CACATATATA
39096417 CACTTTCACATTCATCACATCCGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCA
1 CACTTTCACATTCATCACATCCGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCA
*
39096481 CATCGGCCATTAGGCCGTATCACATATATATACACT-TTCACATTCATCACATCG
66 CATCGGCCATTAGGCCGTATCAC--ATATATACA-TGTTCACATCCATCACATCG
*
39096535 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCCGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATC
*
39096600 ACATCGGCCATTAGGCCTTATCACATATATACATGTTCACATCCATCACAT
65 ACATCGGCCATTAGGCCGTATCACATATATACATGTTCACATCCATCACAT
39096651 AGAATCCTAA
Statistics
Matches: 110, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
117 1 0.01
118 63 0.57
120 46 0.42
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (117 bp):
CACTTTCACATTCATCACATCCGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCGTATCACATATATACATGTTCACATCCATCACATCG
Found at i:39096647 original size:47 final size:48
Alignment explanation
Indices: 39096535--39096650 Score: 191
Period size: 49 Copynumber: 2.4 Consensus size: 48
39096525 CATCACATCG
39096535 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
39096584 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
*
39096631 CA-TGTTCACATCCATCACAT
1 CACT-TTCACATTCATCACAT
39096651 AGAATCCTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
46 1 0.02
47 24 0.37
49 40 0.62
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (48 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
Found at i:39099275 original size:29 final size:29
Alignment explanation
Indices: 39099217--39099276 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
39099207 AAGGATTCAA
* * *
39099217 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAATTTATGT
*
39099246 AGATGGATTTATGGATATAAAATTTTTGT
1 AGATGGATTTATGGATATAAAATTTATGT
39099275 AG
1 AG
39099277 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAATTTATGT
Found at i:39102930 original size:41 final size:41
Alignment explanation
Indices: 39102873--39102953 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
39102863 CTGACCCAAC
* *
39102873 AGTAGGTCCATAGTCGTCTTGGGTGACCCATGCAACCTTAT
1 AGTAGGTCCACAGTCGTCTCGGGTGACCCATGCAACCTTAT
*
39102914 AGTAGGTCCACAGTCGTCTCGGGTGACCCGTGCAACCTTA
1 AGTAGGTCCACAGTCGTCTCGGGTGACCCATGCAACCTTA
39102954 ACGGTCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.26
Consensus pattern (41 bp):
AGTAGGTCCACAGTCGTCTCGGGTGACCCATGCAACCTTAT
Found at i:39103128 original size:16 final size:16
Alignment explanation
Indices: 39103107--39103137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39103097 TTTACCCGTG
39103107 TGGGCCCACAAGCCCA
1 TGGGCCCACAAGCCCA
*
39103123 TGGGCCCACAGGCCC
1 TGGGCCCACAAGCCC
39103138 GTTTTGGCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.45, G:0.29, T:0.06
Consensus pattern (16 bp):
TGGGCCCACAAGCCCA
Found at i:39107377 original size:40 final size:40
Alignment explanation
Indices: 39107331--39107427 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
39107321 GGCATGTTTT
*
39107331 ACATGCTTACGGTAACATATTCAA-TTAATGGAATGCTTAA
1 ACATGCTTATGGTAACATATTCAATTTAATGGAATGCTT-A
* * * **
39107371 ACATGCTCATAGTAACATATTCAATTTAGTGGTGTGCTTA
1 ACATGCTTATGGTAACATATTCAATTTAATGGAATGCTTA
39107411 ACATGCTTATGGTAACA
1 ACATGCTTATGGTAACA
39107428 GTTTTAGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 37 0.77
41 11 0.23
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (40 bp):
ACATGCTTATGGTAACATATTCAATTTAATGGAATGCTTA
Found at i:39108385 original size:26 final size:26
Alignment explanation
Indices: 39108356--39108414 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
39108346 CACCATGGAC
39108356 GGCACAAAAAGGGGCTGCTTAGGGAT
1 GGCACAAAAAGGGGCTGCTTAGGGAT
*
39108382 GGCACAAAGAGGGGCTGCTTAGGGAT
1 GGCACAAAAAGGGGCTGCTTAGGGAT
39108408 GGCACAA
1 GGCACAA
39108415 GGAAGAGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.39, T:0.14
Consensus pattern (26 bp):
GGCACAAAAAGGGGCTGCTTAGGGAT
Found at i:39111228 original size:33 final size:33
Alignment explanation
Indices: 39111186--39111253 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
39111176 GGGTGGCTGG
39111186 CCAAGCCATATAAATAGGCCTTTCAAATGTTTT
1 CCAAGCCATATAAATAGGCCTTTCAAATGTTTT
39111219 CCAAGCCATATAAATAGGCCTTTCAAATGTTTT
1 CCAAGCCATATAAATAGGCCTTTCAAATGTTTT
39111252 CC
1 CC
39111254 TAATTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (33 bp):
CCAAGCCATATAAATAGGCCTTTCAAATGTTTT
Found at i:39136393 original size:208 final size:208
Alignment explanation
Indices: 39136033--39136438 Score: 559
Period size: 208 Copynumber: 1.9 Consensus size: 208
39136023 AGCTTTATTC
* *
39136033 TTGTTCTCCAATATGAGTAGTTGGTGCCATTGAATAAAGAAGGCTTCAAGGTGGAATGCCCTTCT
1 TTGTTCTCCAATATGAGTAGTTGGTGCCATTGAATAAAGAAGGCCTCAAGATGGAAT--CCTTCT
* * * * *
39136098 CCAATGTCATGAAGCAAATTTCTTGACTTATGGTTTCCATCTTGATATCTCGAGGATCTTCTCTC
64 CCAATGTCATGAAACAAATTTCTTGAATTATGGCTTACATCTTGATATCTCGAAGATCTTCTCTC
*** *
39136163 TTGGTGGTAAAACTGTCTCTAGAGTTCTAGCTTTGATACCAATTATTAAGATCGAAATACACCAA
129 TTGGTGGTAAAACTGTCTCTAGAGTTCTAGCTCCAATACCAATTATTAAGATCAAAATACACCAA
39136228 GAGAGGGGTAAATTT
194 GAGAGGGGTAAATTT
* * *
39136243 TTGTTCTCCAATATGAGTAGTTGGTGTCATTGAATAAATG-AGGCCTCATGATGGAAT-TTTGCT
1 TTGTTCTCCAATATGAGTAGTTGGTGCCATTGAATAAA-GAAGGCCTCAAGATGGAATCCTT-CT
* * *
39136306 CCAATG-CAATGAAACGAATTTCTTGAATTATGGCTTACATCTTGATATCTTGAATATCTTCTCT
64 CCAATGTC-ATGAAACAAATTTCTTGAATTATGGCTTACATCTTGATATCTCGAAGATCTTCTCT
* *
39136370 CTTGGTGGTAAAA-TCGTCTCTAGAGTTCTAGCTCCAATACCAATTGTTAAGATTAAAATACACC
128 CTTGGTGGTAAAACT-GTCTCTAGAGTTCTAGCTCCAATACCAATTATTAAGATCAAAATACACC
39136434 AAGAG
192 AAGAG
39136439 GTGGCGAATT
Statistics
Matches: 173, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
207 4 0.02
208 117 0.68
210 51 0.29
211 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (208 bp):
TTGTTCTCCAATATGAGTAGTTGGTGCCATTGAATAAAGAAGGCCTCAAGATGGAATCCTTCTCC
AATGTCATGAAACAAATTTCTTGAATTATGGCTTACATCTTGATATCTCGAAGATCTTCTCTCTT
GGTGGTAAAACTGTCTCTAGAGTTCTAGCTCCAATACCAATTATTAAGATCAAAATACACCAAGA
GAGGGGTAAATTT
Found at i:39158168 original size:40 final size:40
Alignment explanation
Indices: 39158124--39158215 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
39158114 TAACAACCAG
* *
39158124 CACGAATGCCTTCGAGACTTAACCCGGTTATAATAACCTA
1 CACGAATGCCTTCGAGACTTAACCCGATTATAATAACCCA
* *
39158164 CACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCG
1 CACGAATGCCTTCGAGACTTAACCCGATTATAATAACCCA
39158204 CACGAATGCCTT
1 CACGAATGCCTT
39158216 GCACATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (40 bp):
CACGAATGCCTTCGAGACTTAACCCGATTATAATAACCCA
Found at i:39161344 original size:26 final size:26
Alignment explanation
Indices: 39161313--39161420 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
39161303 TGAAATGCCC
*
39161313 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
39161339 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
39161365 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
39161391 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
39161417 ATCA
1 ATCA
39161421 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39164815 original size:26 final size:24
Alignment explanation
Indices: 39164783--39164844 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
39164773 TTAGTCTCTA
39164783 ACTAACTAAGTACAGTTTTAGAAAGT
1 ACTAACTAAGT--AGTTTTAGAAAGT
*
39164809 ACTAACTATAGTATTTTTAGAAAGT
1 ACTAACTA-AGTAGTTTTAGAAAGT
* *
39164834 TCTATCTAAGT
1 ACTAACTAAGT
39164845 TCAGAAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 3 0.09
25 18 0.56
26 8 0.25
27 3 0.09
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (24 bp):
ACTAACTAAGTAGTTTTAGAAAGT
Found at i:39165633 original size:13 final size:14
Alignment explanation
Indices: 39165596--39165636 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
39165586 TTAACAAATA
39165596 CAGATAT-CAGAAT
1 CAGATATACAGAAT
* *
39165609 CAGGTGTACAGAAT
1 CAGATATACAGAAT
39165623 -AGATATACAGAAT
1 CAGATATACAGAAT
39165636 C
1 C
39165637 TTACCCCTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:39165847 original size:13 final size:13
Alignment explanation
Indices: 39165829--39165856 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39165819 CACCCTAAAC
39165829 ACAGATACAGAAT
1 ACAGATACAGAAT
39165842 ACAGATACAGAAT
1 ACAGATACAGAAT
39165855 AC
1 AC
39165857 GGAAATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (13 bp):
ACAGATACAGAAT
Found at i:39172451 original size:14 final size:14
Alignment explanation
Indices: 39172432--39172464 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
39172422 TGATAGGAAA
39172432 TTAGAAAATACTCT
1 TTAGAAAATACTCT
39172446 TTAGAAAATACTCT
1 TTAGAAAATACTCT
39172460 TTAGA
1 TTAGA
39172465 TAGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (14 bp):
TTAGAAAATACTCT
Found at i:39173102 original size:18 final size:20
Alignment explanation
Indices: 39173079--39173125 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
39173069 GGACCCAATT
39173079 GAAGGAAAA-AG-GAAAAGA
1 GAAGGAAAAGAGTGAAAAGA
*
39173097 GAAGGACAAAGAGTGAGAAGA
1 GAAGGA-AAAGAGTGAAAAGA
39173118 GAA-GAAAA
1 GAAGGAAAA
39173126 TATTTCATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 4 0.16
21 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (20 bp):
GAAGGAAAAGAGTGAAAAGA
Found at i:39175759 original size:23 final size:23
Alignment explanation
Indices: 39175729--39175773 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39175719 TGAATTGAAA
39175729 ATTGATTGAAAA-GTGAAAAATG
1 ATTGATTGAAAATGTGAAAAATG
*
39175751 ATTGAATTGAAAATGTGACAAAT
1 ATTG-ATTGAAAATGTGAAAAAT
39175774 TGTGACTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (23 bp):
ATTGATTGAAAATGTGAAAAATG
Found at i:39175952 original size:22 final size:23
Alignment explanation
Indices: 39175897--39175960 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
39175887 GCCGATCAAA
39175897 CACTTTATGTGTCGTATATCAGG
1 CACTTTATGTGTCGTATATCAGG
* *
39175920 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCGTATATCAGG
39175943 CAC-TTATGTGTCGTATAT
1 CACTTTATGTGTCGTATAT
39175961 TGATCAGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 14 0.37
23 24 0.63
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (23 bp):
CACTTTATGTGTCGTATATCAGG
Found at i:39185535 original size:23 final size:23
Alignment explanation
Indices: 39185486--39185602 Score: 117
Period size: 23 Copynumber: 4.6 Consensus size: 23
39185476 TTGTGCTATT
39185486 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-T-TA-TA
*
39185513 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGGA-T-TA---TA
*
39185543 CTGGTGTGTTTTGGAAGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
39185566 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
39185589 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
39185603 TTGGACATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
23 38 0.47
26 2 0.02
27 1 0.01
28 24 0.30
29 14 0.17
30 2 0.02
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.45
Consensus pattern (23 bp):
CTGGTGTGTTTTGGAGGATTATA
Found at i:39185535 original size:28 final size:28
Alignment explanation
Indices: 39185482--39185588 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
39185472 CACTTTGTGC
39185482 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
39185511 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
39185539 GATACTGGTGTGTTTTGGAAGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
39185564 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
39185589 CTGGTGTGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.25
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 27 0.39
29 18 0.26
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:39185830 original size:22 final size:23
Alignment explanation
Indices: 39185793--39185837 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
39185783 GCTTTACTGA
39185793 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
39185816 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
39185838 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:39191258 original size:21 final size:21
Alignment explanation
Indices: 39191234--39191298 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
39191224 ACAATTGTAA
39191234 ATTTTATTTAAATTAGTAGAT
1 ATTTTATTTAAATTAGTAGAT
*
39191255 ATTTATTATTT--ATT-NTA-AT
1 A-TT-TTATTTAAATTAGTAGAT
39191274 ATTTTATTTAAATTAGTAGAT
1 ATTTTATTTAAATTAGTAGAT
39191295 ATTT
1 ATTT
39191299 ATTATTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 6 0.17
18 2 0.06
19 6 0.17
20 4 0.11
21 10 0.28
22 2 0.06
23 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTATTTAAATTAGTAGAT
Found at i:39191261 original size:20 final size:20
Alignment explanation
Indices: 39191236--39191301 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
39191226 AATTGTAAAT
39191236 TTTATTTAAATTAGTAGATA
1 TTTATTTAAATTAGTAGATA
** *
39191256 TTTATTATTTATT-NTA-ATA
1 TTTATT-TAAATTAGTAGATA
39191275 TTTTATTTAAATTAGTAGATA
1 -TTTATTTAAATTAGTAGATA
39191296 TTTATT
1 TTTATT
39191302 ATTTATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 7 0.19
20 22 0.61
21 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTATTTAAATTAGTAGATA
Found at i:39191265 original size:23 final size:23
Alignment explanation
Indices: 39191237--39191306 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
39191227 ATTGTAAATT
39191237 TTATTTAAATTAGTAGATATTTA
1 TTATTTAAATTAGTAGATATTTA
*
39191260 TTATTT--ATT-NTA-ATA-TT-
1 TTATTTAAATTAGTAGATATTTA
39191277 TTATTTAAATTAGTAGATATTTA
1 TTATTTAAATTAGTAGATATTTA
39191300 TTATTTA
1 TTATTTA
39191307 TTATTATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
17 6 0.15
18 2 0.05
19 6 0.15
20 4 0.10
21 6 0.15
22 2 0.05
23 13 0.33
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TTATTTAAATTAGTAGATATTTA
Found at i:39191267 original size:44 final size:42
Alignment explanation
Indices: 39191227--39191307 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 42
39191217 TATTTATACA
39191227 ATTGTAA-ATTTTATTTAAATTAGTAGATATTTATTA-TT-T
1 ATTGTAATATTTTATTTAAATTAGTAGATATTTATTATTTAT
*
39191266 ATTNTAATATTTTATTTAAATTAGTAGATATTTATTATTTAT
1 ATTGTAATATTTTATTTAAATTAGTAGATATTTATTATTTAT
39191308 TATTATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 6 0.16
40 29 0.76
41 2 0.05
42 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (42 bp):
ATTGTAATATTTTATTTAAATTAGTAGATATTTATTATTTAT
Found at i:39191298 original size:33 final size:33
Alignment explanation
Indices: 39191261--39191335 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
39191251 AGATATTTAT
* *
39191261 TATTTATTNTAATATT-TTATTTAAATT-AGTAGA
1 TATTTATTAT-ATATTATTATTAAAATTAAG-AGA
*
39191294 TATTTATTATTTATTATTATTAAAATTAAGAGA
1 TATTTATTATATATTATTATTAAAATTAAGAGA
39191327 TATTTATTA
1 TATTTATTA
39191336 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 4 0.11
33 31 0.84
34 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (33 bp):
TATTTATTATATATTATTATTAAAATTAAGAGA
Found at i:39191357 original size:33 final size:33
Alignment explanation
Indices: 39191277--39191357 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
39191267 TTNTAATATT
* * *
39191277 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
39191310 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
39191345 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
39191358 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Found at i:39191927 original size:23 final size:23
Alignment explanation
Indices: 39191897--39191941 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39191887 TGAATTGAAA
39191897 ATTGATTGAAAA-GTGAAAAATG
1 ATTGATTGAAAATGTGAAAAATG
*
39191919 ATTGAATTGAAAATGTGAGAAAT
1 ATTG-ATTGAAAATGTGAAAAAT
39191942 TGTGACTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (23 bp):
ATTGATTGAAAATGTGAAAAATG
Found at i:39192086 original size:23 final size:23
Alignment explanation
Indices: 39192059--39192148 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
39192049 GGCTTTGCCG
39192059 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
39192082 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
39192105 TTCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
39192127 -TCAAGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
39192148 A
1 A
39192149 CTGATTAGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.16
21 8 0.14
22 1 0.02
23 40 0.69
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:39200540 original size:28 final size:28
Alignment explanation
Indices: 39200478--39200570 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
39200468 CCACAATTTG
*
39200478 ATTCTCAATTTCTTGTTCTCGA-TTTTT
1 ATTCTCAATTGCTTGTTCTCGATTTTTT
*
39200505 ATTCTCAATTGCTTGTTCTCAATTTTTT
1 ATTCTCAATTGCTTGTTCTCGATTTTTT
*
39200533 ATTCTCAATTG-TTAATTCTCGATTTTTT
1 ATTCTCAATTGCTT-GTTCTCGATTTTTT
*
39200561 ATTCTAAATT
1 ATTCTCAATT
39200571 CCCAATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
27 22 0.37
28 37 0.63
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (28 bp):
ATTCTCAATTGCTTGTTCTCGATTTTTT
Found at i:39200564 original size:14 final size:14
Alignment explanation
Indices: 39200478--39200570 Score: 89
Period size: 14 Copynumber: 6.7 Consensus size: 14
39200468 CCACAATTTG
*
39200478 ATTCTCAATTTCTT
1 ATTCTCAATTTTTT
* *
39200492 GTTCTCGA-TTTTT
1 ATTCTCAATTTTTT
**
39200505 ATTCTCAATTGCTT
1 ATTCTCAATTTTTT
*
39200519 GTTCTCAATTTTTT
1 ATTCTCAATTTTTT
* *
39200533 ATTCTCAATTGTTA
1 ATTCTCAATTTTTT
*
39200547 ATTCTCGATTTTTT
1 ATTCTCAATTTTTT
*
39200561 ATTCTAAATT
1 ATTCTCAATT
39200571 CCCAATTTTT
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
13 10 0.17
14 50 0.83
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTCTCAATTTTTT
Found at i:39202285 original size:23 final size:22
Alignment explanation
Indices: 39202236--39202299 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
39202226 CCTGATCAGT
*
39202236 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
39202258 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
39202280 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
39202300 GATCAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:39202300 original size:23 final size:23
Alignment explanation
Indices: 39202236--39202301 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
39202226 CCTGATCAGT
39202236 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
39202258 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
39202280 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
39202302 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:39203877 original size:4 final size:4
Alignment explanation
Indices: 39203868--39203892 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
39203858 TATATAATAA
39203868 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
39203893 TTACCATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:39205490 original size:63 final size:63
Alignment explanation
Indices: 39205391--39205657 Score: 180
Period size: 63 Copynumber: 4.2 Consensus size: 63
39205381 ACAATACGTA
* * * * * * * * * * *
39205391 CAATCATTCCCTGCATCTACACATTCAAC-TTCAGTTTATTTTTCACATGTACTTTAGCACAGG
1 CAATCATTCCCTACATCAACACATACAGCAAT-AGTTTATTTTCCACAAGCACCTCAGCACACG
* *
39205454 CAATCATTCCCTACATCAATACATACAGCAATAGTTTATTTTCCACAAGCACCTCAGCACTCG
1 CAATCATTCCCTACATCAACACATACAGCAATAGTTTATTTTCCACAAGCACCTCAGCACACG
* ** * * * * *
39205517 CAATCATTCCCTACATCAACACATACAACACCAATTTATCTTCCACAAGCA-TTACTGCACGCG
1 CAATCATTCCCTACATCAACACATACAGCAATAGTTTATTTTCCACAAGCACCT-CAGCACACG
** * * * * * * * * * * *
39205580 CAATCATTTACTAC-TCTGACACATTCATCACTAATTTATTTTACATAAGAACCACAACACGCG
1 CAATCATTCCCTACATC-AACACATACAGCAATAGTTTATTTTCCACAAGCACCTCAGCACACG
39205643 CAATCATTCCCTACA
1 CAATCATTCCCTACA
39205658 CCAATACAGT
Statistics
Matches: 161, Mismatches: 38, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
62 3 0.02
63 157 0.98
64 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (63 bp):
CAATCATTCCCTACATCAACACATACAGCAATAGTTTATTTTCCACAAGCACCTCAGCACACG
Done.