Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 91 of 311
Found at i:29256853 original size:20 final size:20
Alignment explanation
Indices: 29256828--29256875 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
29256818 TTAATTTCAT
29256828 TTATCTTTAATTATATT-TAA
1 TTATCTTTAATTAT-TTGTAA
* *
29256848 TTATCTTTATTTATTTGTAT
1 TTATCTTTAATTATTTGTAA
29256868 TTATCTTT
1 TTATCTTT
29256876 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATCTTTAATTATTTGTAA
Found at i:29260583 original size:8 final size:7
Alignment explanation
Indices: 29260538--29260594 Score: 51
Period size: 8 Copynumber: 7.3 Consensus size: 7
29260528 TTTATTTTCT
29260538 TTATTTA
1 TTATTTA
29260545 TTATTTA
1 TTATTTA
*
29260552 TTTATTCA
1 -TTATTTA
29260560 TTACTTTA
1 TTA-TTTA
29260568 TTTTATTTTA
1 --TTA-TTTA
29260578 TTATTTA
1 TTATTTA
29260585 TTACTTTA
1 TTA-TTTA
29260593 TT
1 TT
29260595 TTGTTTGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 17 0.40
8 18 0.43
10 7 0.17
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTTA
Found at i:29262344 original size:28 final size:28
Alignment explanation
Indices: 29262300--29262374 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
29262290 TGGCCCCTTT
* *
29262300 AGGCCCAATCTCATTCATATGGCCAATC
1 AGGCACAATCACATTCATATGGCCAATC
* *
29262328 GGGCACAATCACATTCATATGGCCCATC
1 AGGCACAATCACATTCATATGGCCAATC
* *
29262356 AGGCCCAATCACTTTCATA
1 AGGCACAATCACATTCATA
29262375 GTCATGAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCACAATCACATTCATATGGCCAATC
Found at i:29262679 original size:38 final size:38
Alignment explanation
Indices: 29262628--29262705 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
29262618 TTTCAGGATT
29262628 TGTCGGTCTACTCTGTGTGTGCAGTGTATGTACACACC
1 TGTCGGTCTACTCTGTGTGTGCAGTGTATGTACACACC
29262666 TGTCGGTCTACTCTGTGTGTGCAGTGTATGTACACACC
1 TGTCGGTCTACTCTGTGTGTGCAGTGTATGTACACACC
29262704 TG
1 TG
29262706 ACTAAAACGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (38 bp):
TGTCGGTCTACTCTGTGTGTGCAGTGTATGTACACACC
Found at i:29263854 original size:16 final size:16
Alignment explanation
Indices: 29263829--29263859 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29263819 TAACTTTCGG
*
29263829 CTTTTTGGCATTTTGA
1 CTTTTCGGCATTTTGA
29263845 CTTTTCGGCATTTTG
1 CTTTTCGGCATTTTG
29263860 GATTTGCCAG
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:0.10, C:0.16, G:0.19, T:0.55
Consensus pattern (16 bp):
CTTTTCGGCATTTTGA
Found at i:29270397 original size:28 final size:28
Alignment explanation
Indices: 29270353--29270455 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
29270343 TGGCCCCTTT
*
29270353 AGGCCCAATCTCATTCATATGGCCAATC
1 AGGCCCAATCACATTCATATGGCCAATC
* * *
29270381 GGGCACAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCAATC
*
29270409 AGGCCCAATCACTTTCATATGGCCAATC
1 AGGCCCAATCACATTCATATGGCCAATC
29270437 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
29270456 GTCATGAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCAATC
Found at i:29270693 original size:16 final size:16
Alignment explanation
Indices: 29270672--29270706 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
29270662 GCCAAACTTC
29270672 CAGCTTTTCGGCATTT
1 CAGCTTTTCGGCATTT
*
29270688 CAGCTTTTCTGCATTT
1 CAGCTTTTCGGCATTT
29270704 CAG
1 CAG
29270707 GATTTGTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (16 bp):
CAGCTTTTCGGCATTT
Found at i:29272876 original size:96 final size:98
Alignment explanation
Indices: 29272707--29272908 Score: 311
Period size: 96 Copynumber: 2.1 Consensus size: 98
29272697 CACTAATCGG
*
29272707 AAATAAAAAACTTAAGAATATGTTGGGCTGAGTAATCGGGGTGAGGTGCTTGGCTGTCATCTCTC
1 AAAT-AAAAACTTAAGAATATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTC
* *
29272772 TTCACGTCAAAAGGTTC-GTTATGTTCTTAAGC-A
65 TTCACGTCAAAAGGTTCAG-TATATTCTTAACCAA
* *
29272805 AAATAAAAA-TTAAGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCT
1 AAATAAAAACTTAAGAATATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCT
*
29272869 TCGCGTCAAAAGGTTCAGTATATTCTTAACCAA
66 TCACGTCAAAAGGTTCAGTATATTCTTAACCAA
29272902 AAATAAA
1 AAATAAA
29272909 TAAATAAATA
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
96 78 0.81
97 14 0.15
98 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (98 bp):
AAATAAAAACTTAAGAATATGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCT
TCACGTCAAAAGGTTCAGTATATTCTTAACCAA
Found at i:29277811 original size:24 final size:25
Alignment explanation
Indices: 29277758--29277826 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 25
29277748 TCTGAGATAT
* * *
29277758 ATAA-CGAGAAGCTCA-TATGAGCC
1 ATAATCGAGAAGCTCACAAAGAACC
*
29277781 ATAATCGAGAAGTTCACAAAGAACC
1 ATAATCGAGAAGCTCACAAAGAACC
* *
29277806 AT-ATCGGGAAGCTCATAAAGA
1 ATAATCGAGAAGCTCACAAAGA
29277827 GCCTATCAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 4 0.11
24 26 0.70
25 7 0.19
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (25 bp):
ATAATCGAGAAGCTCACAAAGAACC
Found at i:29293026 original size:40 final size:40
Alignment explanation
Indices: 29292971--29293151 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
29292961 TATTCGGATG
* * * *
29292971 ATATCCGGGCTAAGTCCCAAAGGCATTTGTACAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
29293011 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
29293051 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
29293091 ATATCCGGGCTAAGACTCGAAGGAATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
29293131 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29293152 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:29295598 original size:24 final size:24
Alignment explanation
Indices: 29295566--29295642 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
29295556 AAGTCTGTCA
*
29295566 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
29295590 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
29295614 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
29295638 GGAGA
1 GGAGA
29295643 ACAGTGTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:29297085 original size:27 final size:27
Alignment explanation
Indices: 29297045--29297142 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
29297035 AGGAAGCGTC
*
29297045 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
29297072 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
29297099 CTGGTGGCTCTGCCACGATTATCTGCT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
29297126 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
29297143 TTACCTGTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 59 0.94
28 2 0.03
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:29297129 original size:54 final size:53
Alignment explanation
Indices: 29297045--29297151 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 53
29297035 AGGAAGCGTC
* *
29297045 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TACCTGTT
* * * *
29297099 CTGGTGGCTCTGCCACGATTATCTGCTCTGGTGACTCTGTCACATTACCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTACCTGTT
29297152 TTGGCAGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 7 0.15
54 40 0.85
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTACCTGTT
Found at i:29298927 original size:29 final size:28
Alignment explanation
Indices: 29298890--29298945 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
29298880 ATATCTTTCA
*
29298890 TATGGCCCATTAAGCCCAAATCACATTCT
1 TATGACCCATTAAGCCC-AATCACATTCT
*
29298919 TATGACCCATTAGGCCCAATCACATTC
1 TATGACCCATTAAGCCCAATCACATTC
29298946 ATAGTCATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (28 bp):
TATGACCCATTAAGCCCAATCACATTCT
Found at i:29301656 original size:29 final size:28
Alignment explanation
Indices: 29301609--29301688 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
29301599 ACCCACTTGG
*
29301609 CCCAATCTCATTTATATGGCCCATCAGA
1 CCCAATCACATTTATATGGCCCATCAGA
* * * *
29301637 CCCAATTCACATTCATATGGCCTATTAGG
1 CCCAA-TCACATTTATATGGCCCATCAGA
*
29301666 CCCAAATCACTTTTATATGGCCC
1 CCC-AATCACATTTATATGGCCC
29301689 GTTAGGCCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.12
29 35 0.83
30 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (28 bp):
CCCAATCACATTTATATGGCCCATCAGA
Found at i:29301693 original size:29 final size:29
Alignment explanation
Indices: 29301643--29301704 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
29301633 CAGACCCAAT
* *
29301643 TCACATTCATATGGCCTATTAGGCCCAAA
1 TCACATTTATATGGCCCATTAGGCCCAAA
* *
29301672 TCACTTTTATATGGCCCGTTAGGCCCAAA
1 TCACATTTATATGGCCCATTAGGCCCAAA
29301701 TCAC
1 TCAC
29301705 CTTATATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
TCACATTTATATGGCCCATTAGGCCCAAA
Found at i:29303932 original size:38 final size:38
Alignment explanation
Indices: 29303889--29304172 Score: 264
Period size: 38 Copynumber: 7.0 Consensus size: 38
29303879 TTTCAAATTA
* *
29303889 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
*
29303927 ACATGTTTAACCATGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
*
29303965 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGA
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCAC----AT-T
* ** *
29304008 ATCAATATATGTAACCGTGACATATCCACTTAGCACCACGTT
1 A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACATT
*
29304050 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
* * *
29304088 A-ATGAATCAATAAATGTAACCATGGCATATCCACTTAGCACCACGTT
1 ACATG------T---T-TAACCGTGGTATATCCACTTAGCACCACATT
**
29304135 ACATGTTTAACAATGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
29304173 TTTTTTATTC
Statistics
Matches: 208, Mismatches: 18, Indels: 40
0.78 0.07 0.15
Matches are distributed among these distances:
37 3 0.01
38 127 0.61
39 2 0.01
40 3 0.01
41 1 0.00
42 4 0.02
43 3 0.01
44 1 0.00
45 3 0.01
46 2 0.01
47 56 0.27
48 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
Found at i:29304041 original size:47 final size:47
Alignment explanation
Indices: 29303972--29304135 Score: 211
Period size: 47 Copynumber: 3.7 Consensus size: 47
29303962 ATTACATGTT
*
29303972 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
29304019 TAACCGTGACATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
29304057 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAAATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
29304104 TAACCATGGCATATCCACTTAGCACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
29304136 CATGTTTAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
38 27 0.27
39 2 0.02
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 2 0.02
46 2 0.02
47 57 0.58
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:29304044 original size:85 final size:85
Alignment explanation
Indices: 29303934--29304169 Score: 400
Period size: 85 Copynumber: 2.8 Consensus size: 85
29303924 ATTACATGTT
** *
29303934 TAACCATGGTATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCATGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
29303999 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATAAATG
*
29304019 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCATGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
29304084 CGTTAATGAATCAATAAATG
66 CGTTAATGAATCAATAAATG
* **
29304104 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACAATGGTATATCCACTTAGCACCA
1 TAACCATGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
29304169 C
66 C
29304170 ATTTTTTTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 142 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (85 bp):
TAACCATGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATAAATG
Found at i:29306529 original size:16 final size:16
Alignment explanation
Indices: 29306510--29306541 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29306500 GATTTCAAGA
29306510 TTTTAGGATTTTTGGG
1 TTTTAGGATTTTTGGG
*
29306526 TTTTGGGATTTTTGGG
1 TTTTAGGATTTTTGGG
29306542 GCGTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTTAGGATTTTTGGG
Found at i:29314712 original size:23 final size:22
Alignment explanation
Indices: 29314686--29314731 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29314676 CGAGTTGATA
29314686 AGTTACCAAACTAGAAAAAAATT
1 AGTTACCAAACTA-AAAAAAATT
* * *
29314709 AGTTGCCGAATTAAAAAAAATT
1 AGTTACCAAACTAAAAAAAATT
29314731 A
1 A
29314732 CATCGACAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (22 bp):
AGTTACCAAACTAAAAAAAATT
Found at i:29320302 original size:28 final size:29
Alignment explanation
Indices: 29320228--29320316 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 29
29320218 CAGCATGGCT
* * * *
29320228 ACCAGATACAGA-AA-ATGTGACAGAGTC
1 ACCAGATACAGATAATTTGTGGCATAGCC
*
29320255 ACCAGATACAGATATTTTGTGGCAGT-GCC
1 ACCAGATACAGATAATTTGTGGCA-TAGCC
29320284 ACCAGA-ACAGATAATTTGTGGCATAGCC
1 ACCAGATACAGATAATTTGTGGCATAGCC
29320312 ACCAG
1 ACCAG
29320317 GACACTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.25
28 25 0.48
29 14 0.27
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (29 bp):
ACCAGATACAGATAATTTGTGGCATAGCC
Found at i:29320469 original size:28 final size:28
Alignment explanation
Indices: 29320422--29320486 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29320412 AAATTAACCC
*
29320422 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
29320450 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
29320478 TAGGGGTAT
1 TAGGGGTAT
29320487 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:29328025 original size:24 final size:24
Alignment explanation
Indices: 29328010--29328169 Score: 275
Period size: 24 Copynumber: 6.7 Consensus size: 24
29328000 CGGATTTGAG
*
29328010 TGGCACTATGTGTGCGTAATTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
29328034 TGACACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
29328058 TGGAACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
29328082 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
29328106 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
* *
29328130 TGGCACTATGTGTGCATATATGTA
1 TGGCACTATGTGTGCGTATTTGTA
29328154 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
29328170 GAGTTGAATC
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 128 1.00
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.39
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTATTTGTA
Found at i:29328163 original size:12 final size:12
Alignment explanation
Indices: 29328078--29328164 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 12
29328068 TGTGCGTATT
29328078 TGTATGGCACTA
1 TGTATGGCACTA
* * *
29328090 TGTGTGCGTA-TT
1 TGTATG-GCACTA
29328102 TGTATGGCACTA
1 TGTATGGCACTA
* * *
29328114 TGTGTGCGTA-TT
1 TGTATG-GCACTA
29328126 TGTATGGCACTA
1 TGTATGGCACTA
* *
29328138 TGTGT-GCATATA
1 TGTATGGCA-CTA
29328150 TGTATGGCACTA
1 TGTATGGCACTA
29328162 TGT
1 TGT
29328165 GTGCGGAGTT
Statistics
Matches: 53, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
11 7 0.13
12 39 0.74
13 7 0.13
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.40
Consensus pattern (12 bp):
TGTATGGCACTA
Found at i:29335204 original size:40 final size:39
Alignment explanation
Indices: 29335128--29335344 Score: 181
Period size: 40 Copynumber: 5.5 Consensus size: 39
29335118 AGAGGTGTCC
* * * **
29335128 TAAGTCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGAC
1 TAAGTCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGT
*
29335167 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
29335207 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* ** *
29335247 TAAGTCCCGAAGGCATTCGTGCGATTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
29335287 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
29335326 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
29335345 AACGAGGAGC
Statistics
Matches: 148, Mismatches: 23, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
39 37 0.25
40 99 0.67
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:29335335 original size:39 final size:39
Alignment explanation
Indices: 29335173--29335342 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
29335163 GGACTAAGAT
* * *
29335173 CCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ATCCGGGTTAAGTC
* *
29335213 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
29335253 CCGAAGGCATTCGTGCGATTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
29335293 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTC
29335332 CCGAAGGCATT
1 CCGAAGGCATT
29335343 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.32
40 75 0.66
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:29335362 original size:79 final size:80
Alignment explanation
Indices: 29335200--29335377 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
29335190 AGATACAAGT
* * * *
29335200 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
29335265 GTGCGATTTATTAAA
66 GAACGATGGACTAAA
* * * *
29335280 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
29335344 GAACGA-GGAGCTATA
66 GAACGATGGA-CTAAA
*
29335359 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29335378 TACGTGATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.20
79 47 0.57
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGATGGACTAAA
Found at i:29343224 original size:39 final size:39
Alignment explanation
Indices: 29343020--29343242 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
29343010 TTGAATGCTG
* * * * * *
29343020 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
29343060 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
29343100 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
29343140 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
29343180 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
29343219 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29343243 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:29343262 original size:79 final size:80
Alignment explanation
Indices: 29343100--29343277 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
29343090 AGATACAAGT
* * * *
29343100 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
29343165 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
29343180 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
29343244 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
29343259 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29343278 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:29346451 original size:42 final size:41
Alignment explanation
Indices: 29346357--29346564 Score: 283
Period size: 42 Copynumber: 5.0 Consensus size: 41
29346347 TAAAGCCTAG
* * * **
29346357 TATAATACACCAGCACAGAA-CCTGGTAGGCAATAGGCCTAA
1 TATAATACACCAGCATA-AAGCCTGCTAGGCAATAAGCCCGA
*
29346398 TATAATACACCAGTATAAAGCCTGCTAGGCAATAAAGCCCGA
1 TATAATACACCAGCATAAAGCCTGCTAGGCAAT-AAGCCCGA
**
29346440 TATAATACACCAGCATAAAGCCTGCTAGGCAATGAAGCCTAA
1 TATAATACACCAGCATAAAGCCTGCTAGGCAAT-AAGCCCGA
29346482 TATAATACACCAGCATAAAGCCTGCTAGGCAATAAGCCCGA
1 TATAATACACCAGCATAAAGCCTGCTAGGCAATAAGCCCGA
* *
29346523 TATAATACACCAGCATAAAGCATGCCAGGCAATAAAGCCCGA
1 TATAATACACCAGCATAAAGCCTGCTAGGCAAT-AAGCCCGA
29346565 ATATCACCGA
Statistics
Matches: 150, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.01
41 64 0.43
42 84 0.56
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (41 bp):
TATAATACACCAGCATAAAGCCTGCTAGGCAATAAGCCCGA
Found at i:29346561 original size:83 final size:83
Alignment explanation
Indices: 29346357--29346557 Score: 316
Period size: 83 Copynumber: 2.4 Consensus size: 83
29346347 TAAAGCCTAG
* * * *
29346357 TATAATACACCAGCACAGAA-CCTGGTAGGCAATAGGCCTAATATAATACACCAGTATAAAGCCT
1 TATAATACACCAGCATA-AAGCCTGCTAGGCAATAAGCCTAATATAATACACCAGCATAAAGCCT
29346421 GCTAGGCAATAAAGCCCGA
65 GCTAGGCAATAAAGCCCGA
29346440 TATAATACACCAGCATAAAGCCTGCTAGGCAATGAAGCCTAATATAATACACCAGCATAAAGCCT
1 TATAATACACCAGCATAAAGCCTGCTAGGCAAT-AAGCCTAATATAATACACCAGCATAAAGCCT
29346505 GCTAGGCAAT-AAGCCCGA
65 GCTAGGCAATAAAGCCCGA
* *
29346523 TATAATACACCAGCATAAAGCATGCCAGGCAATAA
1 TATAATACACCAGCATAAAGCCTGCTAGGCAATAA
29346558 AGCCCGAATA
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
82 4 0.04
83 67 0.61
84 39 0.35
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (83 bp):
TATAATACACCAGCATAAAGCCTGCTAGGCAATAAGCCTAATATAATACACCAGCATAAAGCCTG
CTAGGCAATAAAGCCCGA
Found at i:29348067 original size:19 final size:19
Alignment explanation
Indices: 29348021--29348068 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
29348011 GTATATATTT
29348021 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
29348039 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
29348058 TAAGTTTTATT
1 TAAATTTTATT
29348069 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:29348145 original size:42 final size:42
Alignment explanation
Indices: 29348085--29348170 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
29348075 CTAGGAATAT
29348085 TTTTATTTTATCGTTTAGTAGTTTATTAGAATAAGAGAACTA
1 TTTTATTTTATCGTTTAGTAGTTTATTAGAATAAGAGAACTA
*
29348127 TTTTCTTTTAT-GTTTTAGTAGTTTATTAGAATAAGAGAACTA
1 TTTTATTTTATCG-TTTAGTAGTTTATTAGAATAAGAGAACTA
29348169 TT
1 TT
29348171 GTCCCAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (42 bp):
TTTTATTTTATCGTTTAGTAGTTTATTAGAATAAGAGAACTA
Found at i:29352804 original size:42 final size:42
Alignment explanation
Indices: 29352745--29352833 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
29352735 CTAGGAATAT
*
29352745 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
*
29352787 TTTTCTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
29352829 TTTTC
1 TTTTC
29352834 CCAATTAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.52
Consensus pattern (42 bp):
TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
Found at i:29369635 original size:26 final size:25
Alignment explanation
Indices: 29369577--29369686 Score: 154
Period size: 26 Copynumber: 4.4 Consensus size: 25
29369567 CTGGAGGCCT
29369577 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
29369601 AGCCCTTTTAGGTAAACTGGGGCATA
1 AGCCCTTTTA-ATAAACTGGGGCATA
29369627 AGCCCTTTTAAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
29369653 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
29369679 A-CCCTTTT
1 AGCCCTTTT
29369687 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
23 6 0.08
24 5 0.06
25 17 0.22
26 50 0.63
27 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:29369761 original size:20 final size:20
Alignment explanation
Indices: 29369736--29369782 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
29369726 TTATGAATAC
29369736 ATCATGTGCATATCATAT-A
1 ATCATGTGCATATCATATCA
29369755 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
29369776 ATCATGT
1 ATCATGT
29369783 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:29370157 original size:20 final size:21
Alignment explanation
Indices: 29370132--29370172 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29370122 AAGGGCCTGA
29370132 CAGCCCATTG-GGCCCAACTT
1 CAGCCCATTGAGGCCCAACTT
*
29370152 CAGCCCCTTGAGGCCCAACTT
1 CAGCCCATTGAGGCCCAACTT
29370173 ACCGTAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20
Consensus pattern (21 bp):
CAGCCCATTGAGGCCCAACTT
Found at i:29380141 original size:26 final size:26
Alignment explanation
Indices: 29380096--29380192 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
29380086 CTCTTTTAGT
**
29380096 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
29380121 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
29380147 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
29380173 AATTGGGGCAT-AGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
29380193 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 19 0.28
26 49 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:29380252 original size:20 final size:20
Alignment explanation
Indices: 29380227--29380273 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
29380217 CCCAAAATAC
29380227 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
29380246 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
29380267 ATCATGT
1 ATCATGT
29380274 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:29387315 original size:15 final size:15
Alignment explanation
Indices: 29387276--29387352 Score: 72
Period size: 15 Copynumber: 5.4 Consensus size: 15
29387266 GTATCTTGGG
*
29387276 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
29387291 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
29387306 TTTCTTTATTCCGG-
1 TTTCTTTATTCTGGA
* *
29387320 TTT-TCTA-TCTTGA
1 TTTCTTTATTCTGGA
*
29387333 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
29387347 TTTCTT
1 TTTCTT
29387353 GTTATCTTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 13 0.27
15 27 0.55
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:29389796 original size:46 final size:46
Alignment explanation
Indices: 29389743--29389918 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
29389733 TATTTGGGCA
*
29389743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
29389789 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
29389834 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
29389882 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29389919 GCAGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:29389898 original size:93 final size:93
Alignment explanation
Indices: 29389739--29389911 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
29389729 GGGATATTTG
* *
29389739 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29389804 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
29389832 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29389897 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
29389912 CTTATGGGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:29396670 original size:40 final size:40
Alignment explanation
Indices: 29396539--29396765 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
29396529 CGGATGATAA
* *
29396539 CGGGCTAAGT-CCGAAGGCA-TTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
29396577 CGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
29396615 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
29396655 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
**
29396695 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
29396735 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
29396766 AGCTATATCC
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 30 0.17
39 45 0.25
40 103 0.58
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:29396772 original size:40 final size:38
Alignment explanation
Indices: 29396539--29396791 Score: 316
Period size: 40 Copynumber: 6.5 Consensus size: 38
29396529 CGGATGATAA
*
29396539 CGGGCTAAGT-CCGAAGGCA-TTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAA-TC
* *
29396577 CGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATC
29396615 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAA-TC
29396655 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-ATC
*
29396695 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTA-ATC
*
29396735 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTA-ATC
* *
29396775 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
29396792 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
38 31 0.16
39 55 0.28
40 112 0.56
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (38 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATC
Found at i:29404634 original size:40 final size:40
Alignment explanation
Indices: 29404579--29404808 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
29404569 GATGATAACG
* *
29404579 GGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* * *
29404619 GGGCTAAGTCCCGAAGGCATCTATGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
29404659 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
29404699 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCC
*
29404739 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCC
*
29404779 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
29404809 AGCTATATCC
Statistics
Matches: 178, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.02
40 172 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:29404815 original size:40 final size:39
Alignment explanation
Indices: 29404579--29404834 Score: 313
Period size: 40 Copynumber: 6.4 Consensus size: 39
29404569 GATGATAACG
* *
29404579 GGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
* * *
29404619 GGGCTAAGTCCCGAAGGCATCTATGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
29404659 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
29404699 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
*
29404739 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
29404779 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
29404819 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
29404835 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 19 0.09
40 180 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:29410569 original size:38 final size:38
Alignment explanation
Indices: 29410518--29410670 Score: 261
Period size: 38 Copynumber: 4.0 Consensus size: 38
29410508 AACATATGAT
29410518 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
1 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
29410556 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
1 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
*
29410594 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCCG
1 GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
* *
29410632 GTATTATATCCGGGTTTAAAGTCTCGCAGGCTTTATGCT
1 GTATTATATCCGGG-TTAAA-TCCCGCAGGCTTAATGCT
29410671 AGTGACTAGA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
38 89 0.82
39 5 0.05
40 15 0.14
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
GTATTATATCCGGGTTAAATCCCGCAGGCTTAATGCTG
Found at i:29418127 original size:38 final size:37
Alignment explanation
Indices: 29418084--29418236 Score: 207
Period size: 38 Copynumber: 4.0 Consensus size: 37
29418074 AACATATGAT
29418084 GTATTATATATGGGTTAAATCCCGCAGGCTTAATGCTG
1 GTATTATAT-TGGGTTAAATCCCGCAGGCTTAATGCTG
29418122 GTATTATATTCGGGTTAAATCCCGCAGGCTTAATGCTG
1 GTATTATATT-GGGTTAAATCCCGCAGGCTTAATGCTG
* *
29418160 GTATTATATCCGGGTTAAATCCCGCAGGCTTAACGCTG
1 GTATTATAT-TGGGTTAAATCCCGCAGGCTTAATGCTG
** *
29418198 GTATTATATTCGGGTTTAAAGTGTCGCAGGCTTTATGCT
1 GTATTATATT-GGG-TTAAA-TCCCGCAGGCTTAATGCT
29418237 AGTGACTAGA
Statistics
Matches: 103, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
37 1 0.01
38 83 0.81
39 5 0.05
40 14 0.14
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (37 bp):
GTATTATATTGGGTTAAATCCCGCAGGCTTAATGCTG
Found at i:29418176 original size:76 final size:78
Alignment explanation
Indices: 29418084--29418236 Score: 238
Period size: 76 Copynumber: 2.0 Consensus size: 78
29418074 AACATATGAT
* *
29418084 GTATTATATATGGGTTAAATCCCGCAGGCTTAATGCTGGTATTATATTCGGG-TTAAA-TCCCGC
1 GTATTATATACGGGTTAAATCCCGCAGGCTTAACGCTGGTATTATATTCGGGTTTAAAGTCCCGC
29418147 AGGCTTAATGCTG
66 AGGCTTAATGCTG
* **
29418160 GTATTATATCCGGGTTAAATCCCGCAGGCTTAACGCTGGTATTATATTCGGGTTTAAAGTGTCGC
1 GTATTATATACGGGTTAAATCCCGCAGGCTTAACGCTGGTATTATATTCGGGTTTAAAGTCCCGC
*
29418225 AGGCTTTATGCT
66 AGGCTTAATGCT
29418237 AGTGACTAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
76 49 0.71
77 5 0.07
78 15 0.22
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (78 bp):
GTATTATATACGGGTTAAATCCCGCAGGCTTAACGCTGGTATTATATTCGGGTTTAAAGTCCCGC
AGGCTTAATGCTG
Found at i:29430778 original size:19 final size:19
Alignment explanation
Indices: 29430754--29430792 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
29430744 GTGCTCTGGG
29430754 AAGTGTCTAAGAAGTCCTA
1 AAGTGTCTAAGAAGTCCTA
29430773 AAGTGTCTAAGAAGTCCTA
1 AAGTGTCTAAGAAGTCCTA
29430792 A
1 A
29430793 GTTCAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (19 bp):
AAGTGTCTAAGAAGTCCTA
Found at i:29433499 original size:49 final size:49
Alignment explanation
Indices: 29433443--29433616 Score: 267
Period size: 49 Copynumber: 3.5 Consensus size: 49
29433433 CAGGTACGCA
29433443 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* ** * * *
29433492 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* *
29433542 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
29433591 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
29433617 CGTGGCCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
49 67 0.61
50 42 0.39
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:29435498 original size:26 final size:26
Alignment explanation
Indices: 29435466--29435515 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
29435456 CATATACTGA
29435466 TACTGGCAGCTTTGCTGCAATATTAT
1 TACTGGCAGCTTTGCTGCAATATTAT
*
29435492 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCAATATT
29435516 GGTGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCAATATTAT
Found at i:29443515 original size:28 final size:28
Alignment explanation
Indices: 29443483--29443540 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
29443473 GTATAGGGAC
29443483 TTAGTCAATTGTGAATGTGTTATTATGA
1 TTAGTCAATTGTGAATGTGTTATTATGA
*
29443511 TTAGTCAATTTTGAATGTGTTATTATGA
1 TTAGTCAATTGTGAATGTGTTATTATGA
29443539 TT
1 TT
29443541 TAGCCAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (28 bp):
TTAGTCAATTGTGAATGTGTTATTATGA
Found at i:29446037 original size:51 final size:49
Alignment explanation
Indices: 29445960--29446092 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 49
29445950 ACATGTAGCA
* * * *
29445960 CATCAATAACGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGTATCG
1 CATCCATAATGAACTCAGACCACTCAACGAGCTC-GATGTTACATG-ATCG
* * *
29446011 CATCCATTATGAACTCAGACCACTCAACGAG--C----TTAGATGCTCG
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCGATGTTACATGATCG
29446054 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATG
1 CATCCATAATGAACTCAGACCACTCAACGAGCTC-GATG
29446093 CCACATATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
43 33 0.49
44 6 0.09
45 1 0.01
49 1 0.01
51 26 0.39
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (49 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCGATGTTACATGATCG
Found at i:29446121 original size:42 final size:43
Alignment explanation
Indices: 29446019--29446172 Score: 177
Period size: 43 Copynumber: 3.6 Consensus size: 43
29446009 CGCATCCATT
* * ** *
29446019 ATGAACTCAGACCACTCAACGAGCTTAGATGCTCGCATCCATA
1 ATGAACTCAGACCACTCAACGAGCTCAGATGCTCACATATATC
29446062 ATGAACTCAGACCACTCAACGAGCTCAGATGC-CACATATATC
1 ATGAACTCAGACCACTCAACGAGCTCAGATGCTCACATATATC
* * * *
29446104 ATGAACAT-GGACCACTCAACAAGCTCAGATTCTAACATATATC
1 ATGAAC-TCAGACCACTCAACGAGCTCAGATGCTCACATATATC
* * *
29446147 ACGAACTCAGACCGCTCAACAAGCTC
1 ATGAACTCAGACCACTCAACGAGCTC
29446173 GGATTTCTTA
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 34 0.35
43 62 0.65
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (43 bp):
ATGAACTCAGACCACTCAACGAGCTCAGATGCTCACATATATC
Found at i:29449942 original size:40 final size:40
Alignment explanation
Indices: 29449859--29450201 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
29449849 TTGAATGCTG
* * * * * *
29449859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29449899 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29449939 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
29449979 TCCGGGTAAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29450019 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29450059 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
29450099 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29450139 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29450178 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29450202 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29452293 original size:48 final size:48
Alignment explanation
Indices: 29452241--29452461 Score: 255
Period size: 48 Copynumber: 4.6 Consensus size: 48
29452231 ATGGCATTGC
* ** *
29452241 GATCCCGTGTAAGACCATGTCCCGGACATAGCATTGGCATCGATGTGT
1 GATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGT
* *
29452289 GATCCCATGTAAGACCATGTCTGGGACATCA-CATTGGCATCAACATGT
1 GATCCCATGTAAGACCATGTCTGGGACAT-AGCATTGGCATCGATATGT
* * * * *
29452337 AATCTCATGTAAGACCATGTCTAGGTCATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGT
* * * *
29452385 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGT
** * *
29452433 GATTTCGTGTAAGACCATGTCTAGGACAT
1 GATCCCATGTAAGACCATGTCTGGGACAT
29452462 GCCATTAATA
Statistics
Matches: 145, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
48 144 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATATGT
Found at i:29452420 original size:96 final size:96
Alignment explanation
Indices: 29452248--29452467 Score: 296
Period size: 96 Copynumber: 2.3 Consensus size: 96
29452238 TGCGATCCCG
** * * *
29452248 TGTAAGACCATGTCCCGGACATAGCATTGGCATCGATGTGTGATCCCATGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGG
29452313 GACATCACATTGGCATCAACATGTAATCTCA
66 GACATCACATTGGCATCAACATGTAATCTCA
*
29452344 TGTAAGACCATGTCTAGGTCATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGG
1 TGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGG
* ** *** * * *
29452409 GATATGGCATTGGCATCGTTATGTGATTTCG
66 GACATCACATTGGCATCAACATGTAATCTCA
*
29452440 TGTAAGACCATGTCTAGGACATGCCATT
1 TGTAAGACCATGTCTAGGACATGGCATT
29452468 AATATAAGAC
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 107 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (96 bp):
TGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGG
GACATCACATTGGCATCAACATGTAATCTCA
Found at i:29456731 original size:27 final size:27
Alignment explanation
Indices: 29456695--29456920 Score: 303
Period size: 27 Copynumber: 8.4 Consensus size: 27
29456685 ATATATACAT
29456695 CACAT-AGGGCAAAACAGTCATCTT-AC
1 CACATAAGGGCAAAACAGTCAT-TTCAC
*
29456721 CAAATAAGGGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTCAC
* *
29456748 CACATAAGGGAAAAACAATCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTCAC
* *
29456775 CACATAAAGGCAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTCAC
29456802 CACATAAGGGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTCAC
* * **
29456829 CATATAAGGGCAAAATAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTCAC
* * *
29456856 CAAATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTCAC
* *
29456883 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTCAC
29456910 CACATAAGGGC
1 CACATAAGGGC
29456921 TCTAGGTAAA
Statistics
Matches: 179, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
26 6 0.03
27 173 0.97
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTCAC
Found at i:29465520 original size:21 final size:21
Alignment explanation
Indices: 29465479--29465522 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29465469 ACGGCCTAAT
*
29465479 TAAATAAAAAGGATAATTAAA
1 TAAATAAAAAGGATAAATAAA
*
29465500 TAAAT-AAAATGATACAATAAA
1 TAAATAAAAAGGATA-AATAAA
29465521 TA
1 TA
29465523 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (21 bp):
TAAATAAAAAGGATAAATAAA
Found at i:29468685 original size:43 final size:42
Alignment explanation
Indices: 29468624--29468726 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
29468614 TAATGTTGAC
* * * ***
29468624 GTCCCGGACATGGTCTTACATGTAATTCA-ATATCGATGCTTCT
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA-CGATGCCGAT
*
29468667 GTCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGAT
29468709 GTCCCAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
29468727 TACATAAATC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGAT
Found at i:29471563 original size:27 final size:27
Alignment explanation
Indices: 29471533--29471593 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
29471523 TCAAAGTACG
* * *
29471533 CTCGATTTATAGAATTACTGTTTTA-C
1 CTCGATTTACAAAATTACCGTTTTATC
29471559 TCTCGATTTACAAAATTACCGTTTTATC
1 -CTCGATTTACAAAATTACCGTTTTATC
29471587 CTCGATT
1 CTCGATT
29471594 GTGAAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (27 bp):
CTCGATTTACAAAATTACCGTTTTATC
Found at i:29471655 original size:27 final size:27
Alignment explanation
Indices: 29471625--29471762 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
29471615 TATAGGATAG
*
29471625 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCTCTAATTTGTAA
* * *
29471652 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCTCTAATTTGTAA
*
29471679 AATTACCGAAATACC-CTCAATTTGTAA
1 AATTACCAAAATACCTCT-AATTTGTAA
* **
29471706 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCTCTAATTTGTAA
* *
29471733 AATTA-CAGAAATACCTTTGACTTTGTAA
1 AATTACCA-AAATACCTCT-AATTTGTAA
29471761 AA
1 AA
29471763 ATTATAGAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
26 4 0.04
27 80 0.85
28 10 0.11
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAATTTGTAA
Found at i:29471663 original size:54 final size:53
Alignment explanation
Indices: 29471592--29471721 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 53
29471582 TTATCCTCGA
* * *
29471592 TTGTGAAATTACTAAAATACCCTTA-TAGGAT-AGAATTACCAAAATA-CCTCTAGT
1 TTGTAAAATTACCAAAATACCC-TAGTAGG-TGA-AATTACCAAAATACCCTC-AAT
** *
29471646 TTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACC-CTAGTAGGTGAAATTACCAAAATACCCTCAAT
29471700 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
29471722 CTAATTTACA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
53 1 0.02
54 57 0.86
55 8 0.12
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCTAGTAGGTGAAATTACCAAAATACCCTCAAT
Found at i:29471693 original size:81 final size:81
Alignment explanation
Indices: 29471592--29471747 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
29471582 TTATCCTCGA
* * * * * **
29471592 TTGTGAAATTACTAAAATACCCT-TATAGGATAGAATTACCAAAATACCTCTAGTTTGTAAAATT
1 TTGTGAAATTACCAAAATACCCTCAATAGG-TAAAATTACCAAAATACCCCTAATTTACAAAATT
29471656 ACCA-AAATACCACTAGT
65 A-CAGAAATACCACTAGT
* **
29471673 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTACCAAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
29471738 CAGAAATACC
66 CAGAAATACC
29471748 TTTGACTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 58 0.92
82 3 0.05
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCAAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTAGT
Found at i:29471736 original size:54 final size:54
Alignment explanation
Indices: 29471625--29471805 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
29471615 TATAGGATAG
* * ***
29471625 AATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTACAA
* *
29471679 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTACAA
* * * * * * *
29471733 AATTACAGAAATACCTTTGACTTTGTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACC-CTCAATTTGT-AAAATTACCA-AAATACCACTAGTTTACAA
*
29471789 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
29471806 TGGTTTGTAG
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
54 56 0.53
55 13 0.12
56 36 0.34
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTACAA
Found at i:29471799 original size:27 final size:27
Alignment explanation
Indices: 29471726--29471811 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
29471716 ATACCCCTAA
* * *
29471726 TTTACAAAATTACAGAAATACCTTTGACT
1 TTTACAAAATTACTGAAATACCATTG--G
29471755 TTGTA-AAAATTA-TAGAAATACCATTGG
1 TT-TACAAAATTACT-GAAATACCATTGG
*
29471782 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
29471809 TTT
1 TTT
29471812 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 2 0.04
27 24 0.49
28 1 0.02
29 20 0.41
30 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:29471929 original size:27 final size:27
Alignment explanation
Indices: 29471852--29471929 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
29471842 AAATGACTAA
* *
29471852 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
29471879 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
29471906 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
29471930 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:29472821 original size:24 final size:24
Alignment explanation
Indices: 29472739--29472821 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
29472729 AGGAAGTGCT
* *
29472739 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
29472763 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
29472788 AGAAAGGGCTTTGCCCTAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
29472812 AAAAGAGGCT
1 AAAAG-GGCT
29472822 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:29473077 original size:31 final size:31
Alignment explanation
Indices: 29473028--29473110 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
29473018 CGCTTACAGT
29473028 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
29473058 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
29473089 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
29473111 TCGAGACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:29474183 original size:28 final size:28
Alignment explanation
Indices: 29474116--29474214 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
29474106 CGATGTCTCA
* * * * * *
29474116 CACACTATGTACCATACTCGATACCTCG
1 CACACTAAGTGCCATCCTGGATACTTTG
* * * **
29474144 CACGCTAAGTGCTATTCTGGATGTTTTG
1 CACACTAAGTGCCATCCTGGATACTTTG
*
29474172 CACACTAAGTGCCATCCTTGATACTTTG
1 CACACTAAGTGCCATCCTGGATACTTTG
*
29474200 CATACTAAGTGCCAT
1 CACACTAAGTGCCAT
29474215 TTATATATAT
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATCCTGGATACTTTG
Found at i:29474298 original size:40 final size:39
Alignment explanation
Indices: 29474226--29474311 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
29474216 TATATATATA
*
29474226 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCA-TTT
* * * * * *
29474266 TAGCCGCAGCTATTTCGAATCGTACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
29474305 TAGCCGA
1 TAGCCGA
29474312 TAAGTCGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTT
Found at i:29476300 original size:20 final size:19
Alignment explanation
Indices: 29476268--29476314 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
29476258 TAAGATTCCA
29476268 AAGTGCAACAGAGGCACTG
1 AAGTGCAACAGAGGCACTG
*
29476287 AAGTGCACACAGAGGCACAG
1 AAGTGCA-ACAGAGGCACTG
*
29476307 ATGTGCAA
1 AAGTGCAA
29476315 ATTGAGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.11
Consensus pattern (19 bp):
AAGTGCAACAGAGGCACTG
Found at i:29476328 original size:59 final size:59
Alignment explanation
Indices: 29476223--29476352 Score: 161
Period size: 59 Copynumber: 2.2 Consensus size: 59
29476213 TCTATAGAAA
* * * * **
29476223 CACCGAAGTACACACAGAGGCATAAATGTTCAACTTAAGATTCCAAAGTGCAACAGAGG
1 CACCGAAGTGCACACAGAGGCACAAATGTGCAAATTAAGACACCAAAGTGCAACAGAGG
* * * *
29476282 CACTGAAGTGCACACAGAGGCACAGATGTGCAAATTGAGACACCAAAGTGTAACAGAGG
1 CACCGAAGTGCACACAGAGGCACAAATGTGCAAATTAAGACACCAAAGTGCAACAGAGG
*
29476341 CACCGAAATGCA
1 CACCGAAGTGCA
29476353 ATCCCGTACA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (59 bp):
CACCGAAGTGCACACAGAGGCACAAATGTGCAAATTAAGACACCAAAGTGCAACAGAGG
Found at i:29480817 original size:21 final size:20
Alignment explanation
Indices: 29480793--29480831 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
29480783 ATGTGTTTTG
29480793 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
29480814 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
29480832 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:29480841 original size:21 final size:21
Alignment explanation
Indices: 29480793--29480839 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29480783 ATGTGTTTTG
*
29480793 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
29480814 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
29480835 A-GTTT
1 ATGTTT
29480840 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:29481319 original size:11 final size:11
Alignment explanation
Indices: 29481303--29481331 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29481293 TACGGATATG
29481303 TTCGACAATGA
1 TTCGACAATGA
29481314 TTCGACAATGA
1 TTCGACAATGA
29481325 TTCGACA
1 TTCGACA
29481332 TTCGAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:29484975 original size:9 final size:9
Alignment explanation
Indices: 29484948--29485005 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
29484938 CCCCTAATGG
29484948 AAAAT-TTC
1 AAAATCTTC
29484956 -AAATCTCTC
1 AAAATCT-TC
*
29484965 AAAACCTTC
1 AAAATCTTC
29484974 AAAATCTTC
1 AAAATCTTC
*
29484983 AAAATCTCCC
1 AAAATCT-TC
29484993 AAAATCTTC
1 AAAATCTTC
29485002 AAAA
1 AAAA
29485006 GTATCATAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 4 0.10
8 1 0.02
9 24 0.57
10 13 0.31
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATCTTC
Found at i:29484980 original size:19 final size:19
Alignment explanation
Indices: 29484956--29485005 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
29484946 GGAAAATTTC
*
29484956 AAATCTCTCAAAACCT-TCA
1 AAATCT-TCAAAACCTCCCA
*
29484975 AAATCTTCAAAATCTCCCA
1 AAATCTTCAAAACCTCCCA
29484994 AAATCTTCAAAA
1 AAATCTTCAAAA
29485006 GTATCATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATCTTCAAAACCTCCCA
Found at i:29484989 original size:28 final size:26
Alignment explanation
Indices: 29484948--29485005 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
29484938 CCCCTAATGG
*
29484948 AAAATTTCAAATCTCTCAAAACCTTC
1 AAAATTTCAAATCTCCCAAAACCTTC
*
29484974 AAAATCTTCAAAATCTCCCAAAATCTTC
1 AAAAT-TTC-AAATCTCCCAAAACCTTC
29485002 AAAA
1 AAAA
29485006 GTATCATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
27 3 0.11
28 20 0.71
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATTTCAAATCTCCCAAAACCTTC
Found at i:29486151 original size:17 final size:17
Alignment explanation
Indices: 29486131--29486265 Score: 54
Period size: 17 Copynumber: 7.4 Consensus size: 17
29486121 ATTTCAAGAC
29486131 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
29486148 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
29486167 CTTATGTAATGGTTTTAA
1 -TTATGTAATGTTTTTAA
** **
29486185 TTATGTTGTGATTCATAGA
1 TTATGTAATG-TTTTTA-A
*
29486204 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
29486222 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
29486241 CTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
29486259 TTATGTA
1 TTATGTA
29486266 GTGATTCAGT
Statistics
Matches: 80, Mismatches: 29, Indels: 18
0.63 0.23 0.14
Matches are distributed among these distances:
17 32 0.40
18 12 0.15
19 11 0.14
20 25 0.31
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:29486167 original size:37 final size:37
Alignment explanation
Indices: 29486126--29486273 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
29486116 TGTTAATTTC
29486126 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
29486163 AAGACTTATGTAATGGTTTTAATTATGTTGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
29486200 TAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
29486237 AAGACTTATGTAATGCTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
29486274 GTTTGGGTAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:29486173 original size:20 final size:20
Alignment explanation
Indices: 29486148--29486273 Score: 81
Period size: 17 Copynumber: 6.8 Consensus size: 20
29486138 ATGTTTTTAA
*
29486148 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATAGAC
* * *
29486168 TTATGTAATGGTT-TTA-A-
1 TTATGTAGTGATTCATAGAC
*
29486185 TTATGTTGTGATTCATAGAC
1 TTATGTAGTGATTCATAGAC
* **
29486205 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCATAGAC
*
29486222 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATAGAC
* * *
29486242 TTATGTAATGCTT-TTA-A-
1 TTATGTAGTGATTCATAGAC
29486259 TTATGTAGTGATTCA
1 TTATGTAGTGATTCA
29486274 GTTTGGGTAA
Statistics
Matches: 76, Mismatches: 23, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
17 29 0.38
18 9 0.12
19 9 0.12
20 29 0.38
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (20 bp):
TTATGTAGTGATTCATAGAC
Found at i:29486298 original size:18 final size:18
Alignment explanation
Indices: 29486275--29486366 Score: 116
Period size: 18 Copynumber: 5.2 Consensus size: 18
29486265 AGTGATTCAG
29486275 TTTGGGTAATTCGAG-TAA
1 TTTGGGTAATTCG-GTTAA
29486293 TTTGGGTAA-TCGGTTAA
1 TTTGGGTAATTCGGTTAA
*
29486310 TTTGGTTAATTCGGTTAA
1 TTTGGGTAATTCGGTTAA
**
29486328 TTTGGGTAATTCATTTAA
1 TTTGGGTAATTCGGTTAA
* *
29486346 TTCGGTTAATTCGGTTAA
1 TTTGGGTAATTCGGTTAA
29486364 TTT
1 TTT
29486367 TTAACCAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
16 1 0.02
17 14 0.22
18 48 0.76
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.47
Consensus pattern (18 bp):
TTTGGGTAATTCGGTTAA
Found at i:29486354 original size:9 final size:9
Alignment explanation
Indices: 29486281--29486365 Score: 84
Period size: 9 Copynumber: 9.6 Consensus size: 9
29486271 TCAGTTTGGG
29486281 TAATTCGAG-
1 TAATTCG-GT
* *
29486290 TAATTTGGG
1 TAATTCGGT
29486299 TAA-TCGGT
1 TAATTCGGT
*
29486307 TAATTTGGT
1 TAATTCGGT
29486316 TAATTCGGT
1 TAATTCGGT
* *
29486325 TAATTTGGG
1 TAATTCGGT
**
29486334 TAATTCATT
1 TAATTCGGT
29486343 TAATTCGGT
1 TAATTCGGT
29486352 TAATTCGGT
1 TAATTCGGT
29486361 TAATT
1 TAATT
29486366 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
8 7 0.11
9 54 0.89
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:29487138 original size:46 final size:46
Alignment explanation
Indices: 29487085--29487290 Score: 179
Period size: 46 Copynumber: 4.4 Consensus size: 46
29487075 TTGACGGCTA
*
29487085 GTGTAAGACATGTCTGAGACATGCATCAGCCAC-AGTATGAGAGCCT
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGAGCCT
** * *
29487131 GTGTAAGACCATGTCTGGGACATGGCATC-GGTATCGAGACGAGTG-CT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGAGCCT
* * *
29487178 AGTGTAAGACATGTCCGGGACATGCATCAGCCTCGAGACAT-A-AGCCA
1 -GTGTAAGACATGTCTGGGACATGCATCAGCCACGAG--ATGAGAGCCT
* * * * *
29487225 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCT
*
29487271 GTGTAAGACCATATCTGGGA
1 GTGTAAGA-CATGTCTGGGA
29487291 TATGGAATTG
Statistics
Matches: 130, Mismatches: 18, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 62 0.48
47 43 0.33
48 20 0.15
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCT
Found at i:29488818 original size:31 final size:31
Alignment explanation
Indices: 29488776--29488839 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
29488766 CCTTTTCATA
*
29488776 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
29488807 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
29488838 TT
1 TT
29488840 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:29489085 original size:24 final size:24
Alignment explanation
Indices: 29489033--29489198 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
29489023 GCTTTATCAT
*
29489033 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
29489058 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
29489082 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
29489105 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
29489129 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
29489153 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29489176 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29489199 TTGCTTCCTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 43 0.34
24 72 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29489109 original size:47 final size:48
Alignment explanation
Indices: 29489032--29489198 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
29489022 TGCTTTATCA
* *
29489032 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
29489081 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
29489128 GATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
29489175 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
29489199 TTGCTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 68 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:29489133 original size:71 final size:71
Alignment explanation
Indices: 29489033--29489198 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
29489023 GCTTTATCAT
* * *
29489033 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
29489097 GCCCTTTA
64 GCCCTTTA
* * *
29489105 ATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
29489170 CCTTTA
66 CCTTTA
29489176 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29489199 TTGCTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 75 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:29489339 original size:25 final size:25
Alignment explanation
Indices: 29489311--29489358 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29489301 ATACATAAAC
* * *
29489311 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
29489336 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
29489359 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:29490617 original size:27 final size:27
Alignment explanation
Indices: 29490517--29490600 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
29490507 GGGCATATTC
* *
29490517 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
29490544 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
29490571 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
29490598 GTC
1 GTC
29490601 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:29490748 original size:27 final size:27
Alignment explanation
Indices: 29490718--29490880 Score: 145
Period size: 27 Copynumber: 6.0 Consensus size: 27
29490708 GTAACTTTGT
29490718 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
29490745 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
29490772 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
*
29490799 AAA-CTAAGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
29490826 AAAT-TGAGGGTATTTCT-ATAATTTTAC
1 AAATCAG-GGGTATTT-TGGTAATTTTAC
* ** * *
29490853 AAACCAATGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
29490880 A
1 A
29490881 GACTAGGGTA
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.03
27 104 0.95
28 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:29490784 original size:54 final size:54
Alignment explanation
Indices: 29490726--29490867 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
29490716 GTAAATCAGG
* *
29490726 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGT
* * **
29490780 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATTGAG-
1 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAA-CCAGT
* * *
29490834 GGTATTTCT-ATAATTTTACAAACCAATGGTATTT
1 GGTATTT-TGGTAATTTTACAAACTAAGGGTATTT
29490868 TAGCAATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 74 0.96
55 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGT
Found at i:29490821 original size:81 final size:80
Alignment explanation
Indices: 29490725--29490903 Score: 268
Period size: 81 Copynumber: 2.2 Consensus size: 80
29490715 TGTAAATCAG
* * *
29490725 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAATGGTATTTTAG
*
29490790 TAATTTTACAAACTAA
66 CAATTTTACAAACT-A
* *
29490806 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAATGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAATGGTATTTTAG
*
29490871 CAATTTTACAGACTA
66 CAATTTTACAAACTA
* *
29490886 GGGTATTCTAGTAATTTT
1 GGGTATTTTGGTAATTTT
29490904 GTAAATCGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 17 0.19
81 72 0.81
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAATGGTATTTTAG
CAATTTTACAAACTA
Found at i:29490868 original size:54 final size:53
Alignment explanation
Indices: 29490725--29490903 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 53
29490715 TGTAAATCAG
* * *** ** * * *
29490725 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTA
* * * * * *
29490778 GTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTCTAGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACT-A
* *
29490833 GGGTATTTCTA-TAATTTTACAAACCAATGGTATTTTAGCAATTTTACAGACTA
1 GGGTA-TTCTAGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTA
29490886 GGGTATTCTAGTAATTTT
1 GGGTATTCTAGTAATTTT
29490904 GTAAATCGAT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
52 5 0.05
53 14 0.13
54 84 0.78
55 5 0.05
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (53 bp):
GGGTATTCTAGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTA
Found at i:29490924 original size:27 final size:27
Alignment explanation
Indices: 29490894--29491052 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 27
29490884 TAGGGTATTC
* *
29490894 TAGTAATTTTGTAAATCGATGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
29490921 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
29490948 CAGTACTTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * *
29490975 CGGTAATTCCGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
29491002 TGGTAATTATGTAAATC-AGGGTTAAAA
1 TAGTAATTCTGTAAATCGAGGG-TAAAA
* *
29491029 TGGTAATTCTGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
29491053 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.04
27 104 0.94
28 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:29491052 original size:54 final size:54
Alignment explanation
Indices: 29490895--29491045 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
29490885 AGGGTATTCT
* * * *
29490895 AGTAATTTTGTAAATCGATGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
* * * * * *
29490949 AGTACTTCTGTAAGTCGAGGGTAAAACGGTAATTCCGTAAATCAAGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
*
29491003 GGTAATTATGTAAATC-AGGGTTAAAATGGTAATTCTGTAAATC
1 AGTAATTATGTAAATCGAGGG-TAAAATGGTAATTCTGTAAATC
29491046 GGGGGTACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (54 bp):
AGTAATTATGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:29491063 original size:81 final size:81
Alignment explanation
Indices: 29490904--29491052 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
29490894 TAGTAATTTT
* * * * *
29490904 GTAAATCGATGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTACTTCTGTAAGTCGAGG
1 GTAAATCAAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGG
29490969 GTAAAACGGTAATTCC
66 GTAAAACGGTAATTCC
* * ** *
29490985 GTAAATCAAGGGTAAAATGGTAATTATGTAAATC-AGGGTTAAAATGGTAATTCTGTAAATCGGG
1 GTAAATCAAGGGTAAAATAGTAATTATATAAATCAAGGG-TAAAACAGTAATTCTGTAAATCGAG
29491049 GGTA
65 GGTA
29491053 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.07
81 53 0.93
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAAATCAAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGG
GTAAAACGGTAATTCC
Found at i:29491154 original size:28 final size:27
Alignment explanation
Indices: 29491058--29491156 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 27
29491048 GGGTACTTTG
* * *
29491058 GTAATTTTACAAGTCGAAG-GTATATCA
1 GTAATTTTACAA-ACTAAGCGTATTTCA
* *
29491085 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGCGTATTTCA
* *
29491112 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGCGTATTTCA
*
29491139 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
29491157 AGTATTCTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 48 0.83
28 8 0.14
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGCGTATTTCA
Found at i:29492533 original size:21 final size:22
Alignment explanation
Indices: 29492494--29492534 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29492484 TCAAATTGGT
29492494 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
29492516 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
29492535 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:29503152 original size:21 final size:23
Alignment explanation
Indices: 29503108--29503152 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
29503098 TATGTCTTTC
* *
29503108 AAAAGAAAATAATAAAATTGAAA
1 AAAAGAAAATAATAAAAATAAAA
29503131 AAAAG-AAA-AATAAAAATAAAA
1 AAAAGAAAATAATAAAAATAAAA
29503152 A
1 A
29503153 GATAAGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAAGAAAATAATAAAAATAAAA
Found at i:29510817 original size:14 final size:13
Alignment explanation
Indices: 29510793--29510822 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
29510783 GGTTGTTTAT
29510793 TAAACTAATTAAC
1 TAAACTAATTAAC
29510806 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
29510820 TAA
1 TAA
29510823 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:29516206 original size:16 final size:16
Alignment explanation
Indices: 29516182--29516216 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
29516172 TTTCATAGTG
29516182 ATCAGGAATTCATAAT
1 ATCAGGAATTCATAAT
*
29516198 ATCATGAATTCATAAT
1 ATCAGGAATTCATAAT
29516214 ATC
1 ATC
29516217 TTAAAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (16 bp):
ATCAGGAATTCATAAT
Found at i:29523006 original size:20 final size:20
Alignment explanation
Indices: 29522861--29523030 Score: 153
Period size: 20 Copynumber: 8.8 Consensus size: 20
29522851 GATTGTGGAC
*
29522861 CTACTGATGGCTTTGTGCCG
1 CTACTGATGGCTTTGTGCCA
29522881 CTA-TAGATGGCTTTGTGCCA
1 CTACT-GATGGCTTTGTGCCA
* *
29522901 CTATTGATGGCTTTGTGCCG
1 CTACTGATGGCTTTGTGCCA
* *
29522921 CTATTGATGGC-TTGTTACCA
1 CTACTGATGGCTTTG-TGCCA
*
29522941 -TAATTGATGGCTTTGTGCCA
1 CT-ACTGATGGCTTTGTGCCA
29522961 CTACTGATGGCTTTG-G--A
1 CTACTGATGGCTTTGTGCCA
29522978 C--CT-A-GGCTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
* * *
29522994 CTACTGAAGGCTTCGTGCCG
1 CTACTGATGGCTTTGTGCCA
*
29523014 CTACTCATGGCTTTGTG
1 CTACTGATGGCTTTGTG
29523031 TCAAATACTA
Statistics
Matches: 126, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
13 7 0.06
14 2 0.02
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 7 0.06
20 97 0.77
21 5 0.04
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.36
Consensus pattern (20 bp):
CTACTGATGGCTTTGTGCCA
Found at i:29523098 original size:26 final size:27
Alignment explanation
Indices: 29523045--29523098 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29523035 ATACTAATAT
* *
29523045 TATTACTGGCAGCTTTGGCTGCGTTAC
1 TATTACTAGCAGCTTTGGCTGCGATAC
*
29523072 TATTACTAGCAGCTTT-GCTGTGATAC
1 TATTACTAGCAGCTTTGGCTGCGATAC
29523098 T
1 T
29523099 GGTGTGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (27 bp):
TATTACTAGCAGCTTTGGCTGCGATAC
Found at i:29526052 original size:50 final size:49
Alignment explanation
Indices: 29525988--29526372 Score: 401
Period size: 50 Copynumber: 7.7 Consensus size: 49
29525978 GTACGCATAC
* *
29525988 TAGCCTACACTTAGTACTACACATGTGACCTAACAATCAGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-GGTACACGTAG
* * **
29526038 TAGCCTGCACTTAGTACTACACACATGACCTAACTATCAAATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-GGTACACGTAG
* * * * ** *
29526088 TAGCCTCCACTTAGTACTACACACGTGATCGAAGCTATCGAGTATGCATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCG-GTACACGTAG
* * * *
29526139 TAGCTTGCACTTAGTACCACACATGCGACCTAACAATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-GGTACACGTAG
* * *
29526189 TAGCCTGCACTTAGTACTACACACGTGACCTTACCATCGAATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCG-GTACACGTAG
* * ** * *
29526239 TAGCCTGCACTTAGTACTACACACGTGATCGAAGGTATCGGGTACCCATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATC-GGTACACGTAG
* * * *
29526290 TAGCCTTCAATTAGTACTACACATGCGACCTAACAATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-GGTACACGTAG
* *
29526340 TAGCCTGCACTTAATACTACACACATGACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
29526373 AACTGTCTTA
Statistics
Matches: 271, Mismatches: 58, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.00
50 194 0.72
51 75 0.28
52 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCGGTACACGTAG
Found at i:29526241 original size:151 final size:151
Alignment explanation
Indices: 29525978--29526372 Score: 621
Period size: 151 Copynumber: 2.6 Consensus size: 151
29525968 AAGCTCTCTG
* * * * *
29525978 GTACGCATACTAGCCTACACTTAGTACTACACATGTGACCTAACAATCAGGTACACGTAGTAGCC
1 GTACCCATAGTAGCCTTCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
*
29526043 TGCACTTAGTACTACACACATGACCTAACTATCAAATACACGTAGTAGCCTCCACTTAGTACTAC
66 TGCACTTAGTACTACACACATGACCTAACCATCAAATACACGTAGTAGCCTCCACTTAGTACTAC
29526108 ACACGTGATCGAAGCTATCGA
131 ACACGTGATCGAAGCTATCGA
** *
29526129 GTATGCATAGTAG-CTTGCACTTAGTACCACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GTACCCATAGTAGCCTT-CACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* * * *
29526193 CTGCACTTAGTACTACACACGTGACCTTACCATCGAATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACATGACCTAACCATCAAATACACGTAGTAGCCTCCACTTAGTACTA
* *
29526258 CACACGTGATCGAAGGTATCGG
130 CACACGTGATCGAAGCTATCGA
*
29526280 GTACCCATAGTAGCCTTCAATTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
1 GTACCCATAGTAGCCTTCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
*
29526345 TGCACTTAATACTACACACATGACCTAA
66 TGCACTTAGTACTACACACATGACCTAA
29526373 AACTGTCTTA
Statistics
Matches: 222, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
150 2 0.01
151 217 0.98
152 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (151 bp):
GTACCCATAGTAGCCTTCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGACCTAACCATCAAATACACGTAGTAGCCTCCACTTAGTACTAC
ACACGTGATCGAAGCTATCGA
Found at i:29526283 original size:101 final size:100
Alignment explanation
Indices: 29525988--29526372 Score: 423
Period size: 101 Copynumber: 3.8 Consensus size: 100
29525978 GTACGCATAC
*
29525988 TAGCCTACACTTAGTACTACACATGTGACCTAACAATC-AGGTACACGTAGTAGCCTGCACTTAG
1 TAGCCTACACTTAGTACTACACACGTGACCTAACAATCGA-GTACACGTAGTAGCCTGCACTTAG
* **
29526052 TACTACACACATGACCTAACTATCAAATACACGTAG
65 TACTACACACGTGACCTAACTATCAGGTACACGTAG
* * * * ** * *
29526088 TAGCCTCCACTTAGTACTACACACGTGATCGAAGCTATCGAGTATGCATAGTAGCTTGCACTTAG
1 TAGCCTACACTTAGTACTACACACGTGACCTAA-CAATCGAGTACACGTAGTAGCCTGCACTTAG
* * * * *
29526153 TACCACACATGCGACCTAACAATCTGGTACACGTAG
65 TACTACACACGTGACCTAACTATCAGGTACACGTAG
* * * *
29526189 TAGCCTGCACTTAGTACTACACACGTGACCTTACCATCGAATACACGTAGTAGCCTGCACTTAGT
1 TAGCCTACACTTAGTACTACACACGTGACCTAACAATCGAGTACACGTAGTAGCCTGCACTTAGT
* * * * * *
29526254 ACTACACACGTGATCGAAGGTATCGGGTACCCATAG
66 ACTACACACGTGACCTAA-CTATCAGGTACACGTAG
* * * * *
29526290 TAGCCTTCAATTAGTACTACACATGCGACCTAACAATCTG-GTACACGTAGTAGCCTGCACTTAA
1 TAGCCTACACTTAGTACTACACACGTGACCTAACAATC-GAGTACACGTAGTAGCCTGCACTTAG
*
29526354 TACTACACACATGACCTAA
65 TACTACACACGTGACCTAA
29526373 AACTGTCTTA
Statistics
Matches: 233, Mismatches: 48, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
100 68 0.29
101 163 0.70
102 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (100 bp):
TAGCCTACACTTAGTACTACACACGTGACCTAACAATCGAGTACACGTAGTAGCCTGCACTTAGT
ACTACACACGTGACCTAACTATCAGGTACACGTAG
Found at i:29533193 original size:50 final size:50
Alignment explanation
Indices: 29533128--29533345 Score: 190
Period size: 50 Copynumber: 4.3 Consensus size: 50
29533118 AAGCTCTCTA
* *
29533128 GTACACATACTAGCCTGCACTTTGTACTACACATGCAACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTG
* * *
29533178 GTACATATAGTAGCCTGCAATTAGTACTACACA--CATGACCTAACCATC-G
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCA--ACCTAACAATCTG
* * * * ** * * * *
29533227 AATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGCTATCGG
1 -GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA-CAATCTG
** * * *
29533279 GTATGCATAGTAGCCTGAACCTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTG
*
29533329 GTACACGTAGTAGCCTG
1 GTACACATAGTAGCCTG
29533346 GACTGTAATA
Statistics
Matches: 131, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
48 2 0.02
49 1 0.01
50 90 0.69
51 37 0.28
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTG
Found at i:29534692 original size:46 final size:46
Alignment explanation
Indices: 29534642--29534814 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
29534632 TGGTTGAGCA
*
29534642 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
29534688 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
29534735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
29534781 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29534815 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:29534798 original size:93 final size:93
Alignment explanation
Indices: 29534639--29534809 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
29534629 GGATGGTTGA
* * *
29534639 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
29534704 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
29534732 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
29534797 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29534810 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29548220 original size:20 final size:20
Alignment explanation
Indices: 29548192--29548235 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
29548182 AACTAACTTG
* *
29548192 CAACTTACCATAATCTTTCA
1 CAACATACCATAAGCTTTCA
*
29548212 CAACATACCATAGGCTTTCA
1 CAACATACCATAAGCTTTCA
29548232 CAAC
1 CAAC
29548236 TTAAACATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (20 bp):
CAACATACCATAAGCTTTCA
Found at i:29548430 original size:41 final size:42
Alignment explanation
Indices: 29548321--29548441 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
29548311 TACCATACTA
* *
29548321 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
29548363 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
29548406 AT-TCATATCCCAGATATGATCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
29548442 ACTAACCCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
41 26 0.38
42 8 0.12
43 33 0.49
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:29551876 original size:70 final size:70
Alignment explanation
Indices: 29551744--29551876 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
29551734 ACGAATATAG
* * * * *
29551744 TGATTGGTAGTAATTCCACATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGTATAAG
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
29551809 CTTAA
66 CTTAA
** *
29551814 TGATTGGTAGTAATTCTGCATATGTTATGGATTACCGTAGCTCTATGTGAGCATCAAAGTATA
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATA
29551877 TGATTTTCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (70 bp):
TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
CTTAA
Found at i:29562586 original size:42 final size:41
Alignment explanation
Indices: 29562506--29562609 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
29562496 GAGCTTGGTC
29562506 TCGAAGGGCTTTTGAGCCAGTGTTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGTTAATAACCGAACTTAGTT
* *
29562547 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGTTAATAACCGAACTTAGTT
* * * *
29562589 CCAAAGGGCCTTCGAGCCAGT
1 TCGAAGGGCTTTTGAGCCAGT
29562610 AGTCTAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 8 0.15
41 11 0.20
42 27 0.49
43 9 0.16
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGTTAATAACCGAACTTAGTT
Found at i:29567665 original size:53 final size:54
Alignment explanation
Indices: 29567597--29567803 Score: 197
Period size: 53 Copynumber: 3.8 Consensus size: 54
29567587 TTCCTTTTTA
* *
29567597 AACTTACCATTTCCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTATAG
* * * * * *
29567650 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACA-AGGTATCCTTGCCTTATAG
** * * *
29567704 TAGTTTATCAATGCCATGTCTTGACATGGTCTTATACAA--TTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGACATGGTC-T-TACAAGGTATCCTTGCCTTATAG
* * **
29567759 AACTTACCAATGGCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGGTATCCTT
29567804 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
52 3 0.02
53 45 0.37
54 35 0.28
55 34 0.28
56 2 0.02
57 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTATAG
Found at i:29567737 original size:55 final size:53
Alignment explanation
Indices: 29567609--29567803 Score: 171
Period size: 54 Copynumber: 3.6 Consensus size: 53
29567599 CTTACCATTT
* *
29567609 CCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTATGAACTCACCATTT
1 CCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
29567662 CCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACA-AGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * *
29567717 CCATGTCTTGACATGGTCTTATACAA--TTTCCTTGCCTTGTAGAACTTACCAATG
1 CCATGTCTTGACATGGTC-T-TACAAGGTATCCTTGCCTTAT-GAACTCACCAATG
* * **
29567771 GCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACAAGGTATCCTT
29567804 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
52 3 0.03
53 34 0.30
54 35 0.31
55 34 0.30
56 2 0.02
57 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACAAGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:29574078 original size:162 final size:163
Alignment explanation
Indices: 29573890--29574201 Score: 549
Period size: 163 Copynumber: 1.9 Consensus size: 163
29573880 TCGGTATTCC
*
29573890 AGGTGCAGTGCACTGACTATGAATAATAC-GACTTAATATGCCGCC-AGTACTCCATAG-AACTC
1 AGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCGCCGA-TACTCCA-AGAAACTC
* *
29573952 CTCCGTCAACCACAAAATCCCAACCCATTGCATATGCAATATGTCACACAATCTCATACATAATC
64 CTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCATACATAATC
29574017 ATGTCTCAATACTTTTCACATTTGATCGGTACGCT
129 ATGTCTCAATACTTTTCACATTTGATCGGTACGCT
*
29574052 AGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCGCCGATACTCCACGAAACTCCT
1 AGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCGCCGATACTCCAAGAAACTCCT
29574117 CCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCATACATAATCAT
66 CCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCATACATAATCAT
29574182 GTCTCAATACTTTTCACATT
131 GTCTCAATACTTTTCACATT
29574202 CATTTGACAT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
162 29 0.20
163 113 0.79
164 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (163 bp):
AGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCGCCGATACTCCAAGAAACTCCT
CCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCATACATAATCAT
GTCTCAATACTTTTCACATTTGATCGGTACGCT
Done.