Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 120 of 292
Found at i:36152654 original size:40 final size:40
Alignment explanation
Indices: 36152595--36152736 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
36152585 AAATTGAATG
* * *
36152595 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
36152635 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
36152675 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
36152715 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
36152737 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:36152760 original size:40 final size:39
Alignment explanation
Indices: 36152633--36152762 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
36152623 ATGCTGGAAA
* * *
36152633 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
36152674 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
36152712 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
36152753 TTATATCCGG
1 TTATATCCGG
36152763 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:36161843 original size:27 final size:27
Alignment explanation
Indices: 36161813--36161966 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
36161803 ATAGTGAATC
36161813 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
36161840 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
36161868 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
36161895 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
36161924 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
36161953 TGCACACTTAGTGC
1 CGCACACTTAGTGC
36161967 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:36161860 original size:29 final size:28
Alignment explanation
Indices: 36161813--36161966 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
36161803 ATAGTGAATC
36161813 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
36161840 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
36161868 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
36161895 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
36161924 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
36161953 TGCACACTTAGTGC
1 CGCACACTTAGTGC
36161967 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:36161884 original size:55 final size:55
Alignment explanation
Indices: 36161813--36161916 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
36161803 ATAGTGAATC
36161813 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
36161868 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
36161917 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:36164202 original size:24 final size:24
Alignment explanation
Indices: 36164153--36164205 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
36164143 ATCGAATTTT
*
36164153 CACACATAGTGCTCGTCACACTCG
1 CACACATAGTGCTAGTCACACTCG
36164177 CACACATAGTGCCATAGT-ACAC-CG
1 CACACATAGTG-C-TAGTCACACTCG
36164201 CACAC
1 CACAC
36164206 TCAGTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 18 0.69
25 5 0.19
26 3 0.12
ACGTcount: A:0.30, C:0.38, G:0.15, T:0.17
Consensus pattern (24 bp):
CACACATAGTGCTAGTCACACTCG
Found at i:36176006 original size:68 final size:70
Alignment explanation
Indices: 36175934--36176079 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 70
36175924 ACACCCTGTA
* * *
36175934 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
36175996 ATAAAT
65 ATAAAT
* *
36176002 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
36176067 ATAAAT
65 ATAAAT
36176073 GTAGCTA
1 GTAGCTA
36176080 ATGCGTGATT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
68 24 0.35
69 3 0.04
70 1 0.01
71 41 0.59
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:36181876 original size:74 final size:77
Alignment explanation
Indices: 36181763--36181919 Score: 234
Period size: 74 Copynumber: 2.1 Consensus size: 77
36181753 TATGATAACC
36181763 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTT-GCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCAC-ATTGCCTTCGGGCTTAGCC
36181827 C-GATA-CACAGCT
65 CGGATATCACA-CT
* *
36181839 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCACAACTCGCACATTGCCTTCGGGCTTAGCCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACATTGCCTTCGGGCTTAGCCC
*
36181902 GGATATCACATT
66 GGATATCACACT
36181914 CGCACA
1 CGCACA
36181920 TATCATACAC
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
73 15 0.20
74 29 0.39
75 13 0.17
76 18 0.24
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (77 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACATTGCCTTCGGGCTTAGCCC
GGATATCACACT
Found at i:36181896 original size:38 final size:39
Alignment explanation
Indices: 36181733--36181919 Score: 233
Period size: 40 Copynumber: 4.9 Consensus size: 39
36181723 TGTTCAAACA
* * * * * *
36181733 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
36181773 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
36181813 CCTTCGGGCTT-GCCC-GATA-CACAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
36181849 CCTTC-GGCTTAGCCCGGATATCACAACTCGCAC-ATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
36181886 CCTTCGGGCTTAGCCCGGATATCAC-ATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
36181920 TATCATACAC
Statistics
Matches: 131, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
35 5 0.04
36 25 0.19
37 24 0.18
38 33 0.25
39 3 0.02
40 41 0.31
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:36189802 original size:39 final size:40
Alignment explanation
Indices: 36189694--36189847 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
36189684 TGTTCAAACA
* * * * * *
36189694 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
*
36189734 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
36189774 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
*
36189813 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACA
36189848 TTCATACACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:36189807 original size:79 final size:79
Alignment explanation
Indices: 36189694--36189847 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
36189684 TGTTCAAACA
* * *
36189694 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATATCA
36189759 CAACTCGCACAATTG
65 CAACTCGCACAATTG
* * * *
36189774 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCAC
*
36189838 AATTCGCACA
66 AACTCGCACA
36189848 TTCATACACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCAC
AACTCGCACAATTG
Found at i:36194966 original size:49 final size:49
Alignment explanation
Indices: 36194898--36195276 Score: 699
Period size: 49 Copynumber: 7.8 Consensus size: 49
36194888 GGCCAATGCG
36194898 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
* *
36194947 ATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
*
36194996 ATGTGAAAGTG-ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
*
36195044 ATGTGAAAGTG-ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
36195092 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
36195141 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
36195190 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
*
36195239 ATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
1 ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGC
36195277 TAATGTAAAA
Statistics
Matches: 324, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
48 95 0.29
49 229 0.71
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
Found at i:36195016 original size:26 final size:26
Alignment explanation
Indices: 36194987--36195069 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
36194977 CTAATGGCCG
36194987 ATGTGATGAATGTGAAAGTGATGTAT
1 ATGTGATGAATGTGAAAGTGATGTAT
* *** ***
36195013 ATGTGATG-AGGCCTAA-TG--GCCG
1 ATGTGATGAATGTGAAAGTGATGTAT
36195035 ATGTGATGAATGTGAAAGTGATGTAT
1 ATGTGATGAATGTGAAAGTGATGTAT
36195061 ATGTGATGA
1 ATGTGATGA
36195070 GGCCTAATGG
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
25 4 0.10
26 18 0.46
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (26 bp):
ATGTGATGAATGTGAAAGTGATGTAT
Found at i:36195428 original size:37 final size:37
Alignment explanation
Indices: 36195378--36195499 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
36195368 GGAATATGTT
*
36195378 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
36195415 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
36195452 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
36195489 CCGGGTAAGAC
1 CCGGGTAAGAC
36195500 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:36207698 original size:26 final size:26
Alignment explanation
Indices: 36207635--36207811 Score: 158
Period size: 27 Copynumber: 6.7 Consensus size: 26
36207625 TACTTAGACC
* *
36207635 CCCTTTGTGGTAAAATGACTGTATTG
1 CCCTTTGTGGTAAAATGACTATTTTG
* *
36207661 CCCCTGTATGGTAAAATGACTATTTTG
1 -CCCTTTGTGGTAAAATGACTATTTTG
* * *
36207688 CCCTTTGTGGTAAAATGACTGTATTA
1 CCCTTTGTGGTAAAATGACTATTTTG
*
36207714 CCC-CTGTGGTAAAATGACTATTTTG
1 CCCTTTGTGGTAAAATGACTATTTTG
* * * *
36207739 GCCTTTATGGTTAAATGACTAATTTG
1 CCCTTTGTGGTAAAATGACTATTTTG
* ** *
36207765 CCCCTATAAGGTAAAATGACTATTTTT
1 -CCCTTTGTGGTAAAATGACTATTTTG
* *
36207792 CCCTTATGTTGTGAAATGAC
1 CCCTT-TGTGGTAAAATGAC
36207812 CGTTTTGCTC
Statistics
Matches: 118, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
25 20 0.17
26 46 0.39
27 52 0.44
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (26 bp):
CCCTTTGTGGTAAAATGACTATTTTG
Found at i:36207718 original size:53 final size:53
Alignment explanation
Indices: 36207635--36207811 Score: 225
Period size: 53 Copynumber: 3.4 Consensus size: 53
36207625 TACTTAGACC
36207635 CCCTTTGTGGTAAAATGACTGTATTGCCCCTGTATGGTAAAATGACTATTTTG
1 CCCTTTGTGGTAAAATGACTGTATTGCCCCTGTATGGTAAAATGACTATTTTG
*
36207688 CCCTTTGTGGTAAAATGACTGTATTACCCCTG--TGGTAAAATGACTATTTTG
1 CCCTTTGTGGTAAAATGACTGTATTGCCCCTGTATGGTAAAATGACTATTTTG
* * * * * * *
36207739 GCCTTTATGGTTAAATGACT-AATTTGCCCCTATAAGGTAAAATGACTATTTTT
1 CCCTTTGTGGTAAAATGACTGTA-TTGCCCCTGTATGGTAAAATGACTATTTTG
* *
36207792 CCCTTATGTTGTGAAATGAC
1 CCCTT-TGTGGTAAAATGAC
36207812 CGTTTTGCTC
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.01
51 43 0.40
53 52 0.49
54 11 0.10
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (53 bp):
CCCTTTGTGGTAAAATGACTGTATTGCCCCTGTATGGTAAAATGACTATTTTG
Found at i:36212988 original size:19 final size:19
Alignment explanation
Indices: 36212964--36213001 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36212954 GACTTCAGGT
36212964 CCGCAGGCTATAAGCGAGA
1 CCGCAGGCTATAAGCGAGA
*
36212983 CCGCAGGCTATATGCGAGA
1 CCGCAGGCTATAAGCGAGA
36213002 ATTATATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.13
Consensus pattern (19 bp):
CCGCAGGCTATAAGCGAGA
Found at i:36213087 original size:39 final size:39
Alignment explanation
Indices: 36212983--36213075 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
36212973 ATAAGCGAGA
*
36212983 CCGCAGGCTATATGCGAGAATTATATCCGGACTTCATGT
1 CCGCAGGCTATATGCGAGAATTATATCCGGACTTCAGGT
*
36213022 CCGCAGGCTATATGCGAGAATTATATCCGGACTTTAGGT
1 CCGCAGGCTATATGCGAGAATTATATCCGGACTTCAGGT
*
36213061 CCGCAGGCTACATGC
1 CCGCAGGCTATATGC
36213076 TGGACATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATATGCGAGAATTATATCCGGACTTCAGGT
Found at i:36214904 original size:27 final size:27
Alignment explanation
Indices: 36214872--36214962 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
36214862 CCGCTTTGTG
*
36214872 GTAAAATGACTTTAATGCCCCTGTGTT
1 GTAAAATGACTTTATTGCCCCTGTGTT
*
36214899 GTAAAATGACTATT-TTG-CCCTTTG-T
1 GTAAAATGACT-TTATTGCCCCTGTGTT
* * *
36214924 GTTAAAATGACTGTATTACCCCTGTGTG
1 G-TAAAATGACTTTATTGCCCCTGTGTT
36214952 GTAAAATGACT
1 GTAAAATGACT
36214963 ATTTTTCCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.06
26 18 0.34
27 29 0.55
28 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAAAATGACTTTATTGCCCCTGTGTT
Found at i:36214929 original size:26 final size:26
Alignment explanation
Indices: 36214865--36215097 Score: 211
Period size: 26 Copynumber: 8.9 Consensus size: 26
36214855 CCTAGACCCG
*
36214865 CTTTGTGGTAAAATGACT-TTAATGCCC
1 CTTTGTGGTAAAATGACTATT-TTG-CC
* *
36214892 CTGTGTTGTAAAATGACTATTTTGCC
1 CTTTGTGGTAAAATGACTATTTTGCC
* * **
36214918 CTTTGTGTTAAAATGACTGTATTACCC
1 CTTTGTGGTAAAATGACTAT-TTTGCC
* *
36214945 CTGTGTGGTAAAATGACTATTTTTCC
1 CTTTGTGGTAAAATGACTATTTTGCC
* *
36214971 CTTTGTGGTTAAATGGCTATTTTGCC
1 CTTTGTGGTAAAATGACTATTTTGCC
*
36214997 CTTTGTGGTTAAATGACTATTTTGCC
1 CTTTGTGGTAAAATGACTATTTTGCC
** * *
36215023 CCATGAGGTAAAATGACTGTTGTT-CC
1 CTTTGTGGTAAAATGACTATT-TTGCC
* * *
36215049 CTTAGGTGGTGAAATGACTGTTTTGCC
1 CTT-TGTGGTAAAATGACTATTTTGCC
* *
36215076 CTTTATGGTAAGATGAC-ATTTT
1 CTTTGTGGTAAAATGACTATTTT
36215098 ACCCCTATGT
Statistics
Matches: 167, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
25 4 0.02
26 100 0.60
27 61 0.37
28 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (26 bp):
CTTTGTGGTAAAATGACTATTTTGCC
Found at i:36214930 original size:53 final size:53
Alignment explanation
Indices: 36214865--36215079 Score: 206
Period size: 53 Copynumber: 4.1 Consensus size: 53
36214855 CCTAGACCCG
* * *
36214865 CTTTGTGGTAAAATGACTTTAATGCCCCTGTGTTGTAAAATGACTATTTTGCC
1 CTTTGTGTTAAAATGACTTTATTGCCCCTGTGTGGTAAAATGACTATTTTGCC
* * *
36214918 CTTTGTGTTAAAATGACTGTATTACCCCTGTGTGGTAAAATGACTATTTTTCC
1 CTTTGTGTTAAAATGACTTTATTGCCCCTGTGTGGTAAAATGACTATTTTGCC
* * *
36214971 CTTTGTGGTT-AAATGGCTATT-TTG-CCCTTTGTGGTTAAATGACTATTTTGCC
1 CTTTGT-GTTAAAATGACT-TTATTGCCCCTGTGTGGTAAAATGACTATTTTGCC
** * * * * * *
36215023 CCATGAGGTAAAATGACTGTTGTT-CCCTTAG-GTGGTGAAATGACTGTTTTGCC
1 CTTTGTGTTAAAATGACT-TTATTGCCCCT-GTGTGGTAAAATGACTATTTTGCC
36215076 CTTT
1 CTTT
36215080 ATGGTAAGAT
Statistics
Matches: 132, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
51 2 0.02
52 37 0.28
53 89 0.67
54 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (53 bp):
CTTTGTGTTAAAATGACTTTATTGCCCCTGTGTGGTAAAATGACTATTTTGCC
Found at i:36215000 original size:79 final size:79
Alignment explanation
Indices: 36214902--36215102 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
36214892 CTGTGTTGTA
* * *
36214902 AAATGACTATTTTGCCCTTTGT-GTTAAAATGACTGTATTACCCCTGTGTGGTAAAATGACTATT
1 AAATGACTATTTTGCCCTTTGTGGTT-AAATGACTATATTACCCC-ATGAGGTAAAATGACTATT
* * *
36214966 TTTCCCTT-TGTGGTT
64 GTTCCCTTAGGTGGTG
* * * *
36214981 AAATGGCTATTTTGCCCTTTGTGGTTAAATGACTATTTTGCCCCATGAGGTAAAATGACTGTTGT
1 AAATGACTATTTTGCCCTTTGTGGTTAAATGACTATATTACCCCATGAGGTAAAATGACTATTGT
36215046 TCCCTTAGGTGGTG
66 TCCCTTAGGTGGTG
* * *
36215060 AAATGACTGTTTTGCCCTTTATGG-TAAGATGAC-ATTTTACCCC
1 AAATGACTATTTTGCCCTTTGTGGTTAA-ATGACTATATTACCCC
36215103 TATGTGATGT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 35 0.33
79 67 0.64
80 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (79 bp):
AAATGACTATTTTGCCCTTTGTGGTTAAATGACTATATTACCCCATGAGGTAAAATGACTATTGT
TCCCTTAGGTGGTG
Found at i:36216024 original size:24 final size:24
Alignment explanation
Indices: 36215971--36216024 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
36215961 GAAATTGAGT
* *
36215971 CATTTTTGTATTCTCTCTACTTCT
1 CATTTTTGTATTCTCCCTACTTCG
* *
36215995 CATTTTGGTATTCTCCCT-CTTGG
1 CATTTTTGTATTCTCCCTACTTCG
36216018 CATTTTT
1 CATTTTT
36216025 ATTACTCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.11, C:0.24, G:0.09, T:0.56
Consensus pattern (24 bp):
CATTTTTGTATTCTCCCTACTTCG
Found at i:36221409 original size:45 final size:44
Alignment explanation
Indices: 36221314--36221630 Score: 399
Period size: 45 Copynumber: 7.1 Consensus size: 44
36221304 TTTTCTCAAA
* * * * *
36221314 TCACTGGCATTTTA-CCTGCTAGGCTCGAGGCCCG-AT-ATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAAT-ATC
* *
36221356 TCACCGGCATTATAGCCTGTTAGGCTCGAAAG-CCGAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCG-AATAATATC
*
36221401 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAATATC
36221446 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAATATC
* * *
36221491 TCACCGGCATTATAGACTGCTAGGCTCAAAGACCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAG-CCCGAATAATATC
* *
36221536 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAATATC
* *
36221581 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAATATC
36221626 TCACC
1 TCACC
36221631 AGTTCTTTCC
Statistics
Matches: 250, Mismatches: 15, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
42 12 0.05
43 14 0.06
44 9 0.04
45 208 0.83
46 7 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAATATC
Found at i:36221462 original size:90 final size:89
Alignment explanation
Indices: 36221314--36221630 Score: 453
Period size: 90 Copynumber: 3.6 Consensus size: 89
36221304 TTTTCTCAAA
* * * * *
36221314 TCACTGGCATTTTA-CCTGCTAGGCTC-GAGGCCCG-ATATCATTTCACCGGCATTATAGCCTGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATAGCCTGC
*
36221376 TAGGCTCGAAAG-CCGAAATAGTATC
66 TAGGCTC-AAAGCCCG-AATAATATC
* * *
36221401 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATCTCACCGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATAGCCTGC
36221466 TAGGCTCAAAGGCCCGAATAATATC
66 TAGGCTCAAA-GCCCGAATAATATC
* *
36221491 TCACCGGCATTATAGACTGCTAGGCTCAAAGACCCGAATAACATTTCACCGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATAGCCTGC
* *
36221556 TAGGCTCAAAAGCCCGAATAACATT
66 TAGGCTC-AAAGCCCGAATAATATC
36221581 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
36221631 AGTTCTTTCC
Statistics
Matches: 206, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
87 12 0.06
88 12 0.06
89 9 0.04
90 167 0.81
91 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (89 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATAGCCTGC
TAGGCTCAAAGCCCGAATAATATC
Found at i:36221598 original size:135 final size:135
Alignment explanation
Indices: 36221314--36221630 Score: 439
Period size: 135 Copynumber: 2.4 Consensus size: 135
36221304 TTTTCTCAAA
* * * *
36221314 TCACTGGCATTTTA-CCTGCTAGGCTC-GAGGCCCG-AT-ATCATTTCACCGGCATTATAGCCTG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATTTCACCGGCATTATAGACTG
* ** *
36221375 TTAGGCTCGAAAGCCGAAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAAT
65 CTAGGCTCGAAAGCCGAAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCAAAT
*
36221440 AATATC
130 AACATC
*
36221446 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATAGACTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACCGGCATTATAGACTGC
* *
36221511 TAGGCTC-AAAGACCCG-AATAACATTTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAA
66 TAGGCTCGAAAG--CCGAAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCAAA
*
36221574 TAACATT
129 TAACATC
*
36221581 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACC
36221631 AGTTCTTTCC
Statistics
Matches: 164, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
132 12 0.07
133 12 0.07
134 11 0.07
135 124 0.76
136 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (135 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACCGGCATTATAGACTGC
TAGGCTCGAAAGCCGAAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCAAATA
ACATC
Found at i:36222819 original size:2 final size:2
Alignment explanation
Indices: 36222812--36222841 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36222802 ACTTTCAAAA
36222812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36222842 TCAACTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36228799 original size:40 final size:40
Alignment explanation
Indices: 36228703--36228921 Score: 267
Period size: 40 Copynumber: 5.5 Consensus size: 40
36228693 TGAATGGTAT
* * * * * *
36228703 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
36228744 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
36228784 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACAAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
36228824 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
36228864 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
36228904 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
36228922 ACAATCGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
40 131 0.85
41 24 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:36228942 original size:40 final size:40
Alignment explanation
Indices: 36228862--36228942 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
36228852 GAGTTACCAA
* * * *
36228862 AACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATCACTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
* * *
36228902 AACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
36228942 A
1 A
36228943 TCCGATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.20
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
Found at i:36234682 original size:39 final size:39
Alignment explanation
Indices: 36234628--36234818 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
36234618 AATGTTCGAG
36234628 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
36234667 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
36234706 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * * *
36234745 TGATACCCGGGCTAAGCCCGAAGGCTATTGTGCTAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
36234784 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
36234819 GGTTACCATA
Statistics
Matches: 139, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 124 0.89
40 15 0.11
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:36240284 original size:78 final size:80
Alignment explanation
Indices: 36240150--36240366 Score: 285
Period size: 78 Copynumber: 2.7 Consensus size: 80
36240140 TGAATGGTAT
* * * * * * *
36240150 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTT
36240215 GTGCGAGTTACCAAAA
65 GTGCGAGTTACCAAAA
* *
36240231 CCGGGTTAAG-CCC-AAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
36240294 TGCGAGTTACCAAAA
66 TGCGAGTTACCAAAA
* * * * *
36240309 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAG
36240367 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
78 56 0.47
79 15 0.13
80 39 0.33
81 9 0.08
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACCAAAA
Found at i:36240299 original size:40 final size:40
Alignment explanation
Indices: 36240150--36240366 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
36240140 TGAATGGTAT
* * * * * *
36240150 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
36240191 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
36240231 CCGGGTTAAG-CCC-AAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
36240269 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
36240309 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
36240349 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
36240367 ACAATCGAGC
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.22
39 6 0.04
40 92 0.59
41 24 0.15
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:36240387 original size:40 final size:40
Alignment explanation
Indices: 36240307--36240392 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
36240297 GAGTTACCAA
* * * *
36240307 AACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATCACTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
* * *
36240347 AACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
*
36240387 ATCCGG
1 AACCGG
36240393 TTAAATTCCG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
Found at i:36242517 original size:21 final size:22
Alignment explanation
Indices: 36242465--36242517 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
36242455 AAATAAAGTC
*
36242465 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
36242486 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
36242508 CATGTATCAT
1 CATGTATCAT
36242518 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:36250340 original size:21 final size:21
Alignment explanation
Indices: 36250314--36250357 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36250304 GATGTGCGGC
36250314 ACAATGTGTTGAGATTCTGGG
1 ACAATGTGTTGAGATTCTGGG
36250335 ACAATGTGTTGAGATTCTGGG
1 ACAATGTGTTGAGATTCTGGG
36250356 AC
1 AC
36250358 TTAACTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (21 bp):
ACAATGTGTTGAGATTCTGGG
Found at i:36255195 original size:27 final size:27
Alignment explanation
Indices: 36255147--36255198 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36255137 CAGTAATAGT
* *
36255147 TGGGCCTAGCCCATTAATAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
36255174 TGGGCCTAAGCCCAAT-ACAGAATCA
1 TGGGCCT-AGCCCAATAACAGAATCA
36255199 ATATCAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:36255368 original size:22 final size:22
Alignment explanation
Indices: 36255340--36255382 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36255330 CACTAAGTCA
* *
36255340 ACAGAACAGCTCAACGCCATAG
1 ACAGAACAGCTAAAAGCCATAG
*
36255362 ACAGAACGGCTAAAAGCCATA
1 ACAGAACAGCTAAAAGCCATA
36255383 AATATCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
ACAGAACAGCTAAAAGCCATAG
Found at i:36256069 original size:25 final size:24
Alignment explanation
Indices: 36256023--36256069 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
36256013 TACCCACACG
*
36256023 GGCCCATAGGCCCATTGCGGCCCA
1 GGCCCATAGGCCCATGGCGGCCCA
* *
36256047 GGCCCATGAGGCTCATGGTGGCC
1 GGCCCAT-AGGCCCATGGCGGCC
36256070 TTCCTCGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.15, C:0.36, G:0.34, T:0.15
Consensus pattern (24 bp):
GGCCCATAGGCCCATGGCGGCCCA
Found at i:36260773 original size:21 final size:18
Alignment explanation
Indices: 36260747--36260791 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
36260737 ACTATTTGTT
36260747 AACTCTTGCAACTGAGCTTTC
1 AACTCTTGCAACT---CTTTC
*
36260768 AACTCTTTCAACTCTTTC
1 AACTCTTGCAACTCTTTC
36260786 AACTCT
1 AACTCT
36260792 ATCAGAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
21 12 0.52
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.38
Consensus pattern (18 bp):
AACTCTTGCAACTCTTTC
Found at i:36260775 original size:9 final size:9
Alignment explanation
Indices: 36260763--36260791 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36260753 TGCAACTGAG
36260763 CTTTCAACT
1 CTTTCAACT
36260772 CTTTCAACT
1 CTTTCAACT
36260781 CTTTCAACT
1 CTTTCAACT
36260790 CT
1 CT
36260792 ATCAGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (9 bp):
CTTTCAACT
Found at i:36264276 original size:12 final size:12
Alignment explanation
Indices: 36264259--36264303 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
36264249 TTCCACAGAG
36264259 ATACTTTTAGAA
1 ATACTTTTAGAA
*
36264271 ATACTTTATCAGAG
1 ATACTTT-T-AGAA
36264285 ATACTTTTAGAA
1 ATACTTTTAGAA
36264297 ATACTTT
1 ATACTTT
36264304 ATCACCTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 17 0.59
13 2 0.07
14 10 0.34
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (12 bp):
ATACTTTTAGAA
Found at i:36264283 original size:26 final size:26
Alignment explanation
Indices: 36264254--36264307 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36264244 TCTTTTTCCA
36264254 CAGAGATACTTTTAGAAATACTTTAT
1 CAGAGATACTTTTAGAAATACTTTAT
36264280 CAGAGATACTTTTAGAAATACTTTAT
1 CAGAGATACTTTTAGAAATACTTTAT
36264306 CA
1 CA
36264308 CCTATCTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (26 bp):
CAGAGATACTTTTAGAAATACTTTAT
Found at i:36285475 original size:12 final size:12
Alignment explanation
Indices: 36285458--36285483 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36285448 TTTTTCTCCC
36285458 TCCTCAGTATAA
1 TCCTCAGTATAA
36285470 TCCTCAGTATAA
1 TCCTCAGTATAA
36285482 TC
1 TC
36285484 TTATGCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCCTCAGTATAA
Found at i:36292079 original size:56 final size:56
Alignment explanation
Indices: 36292013--36292229 Score: 267
Period size: 56 Copynumber: 3.9 Consensus size: 56
36292003 TACCTGGAAG
*
36292013 AATATG-TGGCATCGATATGTGACTT-TGATATATGTGTGTGAGTAAGACCACATTT
1 AATATGTTGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACATTT
* * * *
36292068 AATATGTTGGCATCGATATGTGATTCCGATATATGTGCGCGAGTAAGTCCACGTTT
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTT
* * *
36292124 AACAAGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACATTT
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTT
* * * * * * * *
36292180 CATACGTTAGTATCGATATGTGATTTTGATATGTGTTTACGAGTAAGACC
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
36292230 CTGTCTGGGA
Statistics
Matches: 140, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
55 8 0.06
56 132 0.94
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (56 bp):
AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTT
Found at i:36293697 original size:15 final size:15
Alignment explanation
Indices: 36293677--36293709 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
36293667 AAATGTTGAT
36293677 TAGGTTACATATAAA
1 TAGGTTACATATAAA
36293692 TAGGTTACATATAAA
1 TAGGTTACATATAAA
36293707 TAG
1 TAG
36293710 TTGGTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (15 bp):
TAGGTTACATATAAA
Found at i:36300086 original size:3 final size:3
Alignment explanation
Indices: 36300078--36300111 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
36300068 GAAGAAACGG
36300078 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
36300112 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:36300868 original size:24 final size:25
Alignment explanation
Indices: 36300827--36300874 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
36300817 TATATAATAG
36300827 AATAAAATTGTATCTATTT-TTAAA
1 AATAAAATTGTATCTATTTATTAAA
*
36300851 AATAAAGTTGTA-CTTATTTATTAA
1 AATAAAATTGTATC-TATTTATTAA
36300875 CTATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.76
25 4 0.19
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (25 bp):
AATAAAATTGTATCTATTTATTAAA
Found at i:36301059 original size:37 final size:36
Alignment explanation
Indices: 36300976--36301061 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
36300966 CTATATAAAA
*
36300976 TTAAATATTA-TTAAAATAAAAAGTATTAAATTAAT
1 TTAAATTTTATTTAAAATAAAAAGTATTAAATTAAT
* * * *
36301011 AT-AATGATTTATTTAAAATAGAAATTATCTAAATTATT
1 TTAAAT--TTTATTTAAAATAAAAAGTAT-TAAATTAAT
36301049 TTAAATTTTATTT
1 TTAAATTTTATTT
36301062 TAAGATCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
34 3 0.08
35 1 0.03
36 3 0.08
37 21 0.52
38 9 0.22
39 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTAAATTTTATTTAAAATAAAAAGTATTAAATTAAT
Found at i:36302063 original size:29 final size:29
Alignment explanation
Indices: 36302021--36302078 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
36302011 TTCACTAAAT
36302021 TACATAATCGCTATTTAAAATTTATTAGC
1 TACATAATCGCTATTTAAAATTTATTAGC
36302050 TACATAATCGCTATTTAAAATTTATTAGC
1 TACATAATCGCTATTTAAAATTTATTAGC
36302079 ATAAAGGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
TACATAATCGCTATTTAAAATTTATTAGC
Found at i:36303007 original size:24 final size:24
Alignment explanation
Indices: 36302967--36303014 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
36302957 TAAATTATTT
*
36302967 AATATATTTTTTATTATATTTATA
1 AATATATTTTATATTATATTTATA
36302991 AATATATCTTTAT-TTATATTTATA
1 AATATAT-TTTATATTATATTTATA
36303015 TATTTGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
AATATATTTTATATTATATTTATA
Found at i:36303009 original size:14 final size:14
Alignment explanation
Indices: 36302961--36303019 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
36302951 TAAATATAAA
36302961 TTATTTA-ATATAT
1 TTATTTATATATAT
36302974 TT-TTTAT-TATAT
1 TTATTTATATATAT
** *
36302986 TTATAAATATATCT
1 TTATTTATATATAT
*
36303000 TTATTTATATTTAT
1 TTATTTATATATAT
*
36303014 ATATTT
1 TTATTT
36303020 GTTTGTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
12 11 0.31
13 5 0.14
14 19 0.54
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTATATATAT
Found at i:36305065 original size:15 final size:15
Alignment explanation
Indices: 36305045--36305074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36305035 GAGGGCGTGA
*
36305045 GAGTTGTACCTTTAG
1 GAGTTGTACCATTAG
36305060 GAGTTGTACCATTAG
1 GAGTTGTACCATTAG
36305075 TGATAAAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (15 bp):
GAGTTGTACCATTAG
Found at i:36306679 original size:16 final size:16
Alignment explanation
Indices: 36306651--36306681 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36306641 CTTGGAATGA
*
36306651 ACCCTTAGTGGAGTGG
1 ACCCTTAGGGGAGTGG
36306667 ACCCTTAGGGGAGTG
1 ACCCTTAGGGGAGTG
36306682 TGAAAGTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.23
Consensus pattern (16 bp):
ACCCTTAGGGGAGTGG
Found at i:36306713 original size:16 final size:16
Alignment explanation
Indices: 36306692--36306731 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
36306682 TGAAAGTTGT
36306692 ACCCTTAGTGGAAT-G
1 ACCCTTAGTGGAATAG
*
36306707 AACCCTTAATGGAATAG
1 -ACCCTTAGTGGAATAG
36306724 ACCCTTAG
1 ACCCTTAG
36306732 GAGGGTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (16 bp):
ACCCTTAGTGGAATAG
Found at i:36308751 original size:40 final size:40
Alignment explanation
Indices: 36308696--36308856 Score: 173
Period size: 40 Copynumber: 4.0 Consensus size: 40
36308686 AATGATACCC
* * * *
36308696 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATGTCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
*
36308736 GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATATCCG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATATCCG
* * ** *
36308776 GGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
* * *
36308816 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
36308856 G
1 G
36308857 TTAAATCCCG
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 91 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCG
Found at i:36315418 original size:49 final size:49
Alignment explanation
Indices: 36315358--36315615 Score: 380
Period size: 49 Copynumber: 5.3 Consensus size: 49
36315348 GTATGAGATA
36315358 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
36315407 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
36315456 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AA-GTGTG
*
36315507 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
36315554 TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
36315601 TATAAATGTGATAAG
1 TATATATGTGATAAG
36315616 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 56 0.29
49 91 0.46
50 4 0.02
51 45 0.23
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:36317533 original size:38 final size:39
Alignment explanation
Indices: 36317411--36317645 Score: 255
Period size: 40 Copynumber: 6.0 Consensus size: 39
36317401 GATGATAACC
* * * **
36317411 GGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTA-ATTCCG
1 GGCTAAGTCCCGA-AGGATTTGTGCGAGTTACTATA-TCCG
*
36317451 GGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATATCCG
1 GGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATATCCG
* *
36317490 GGCTAAGTCCCGAAGG-TTTGTGCGAGCTATTATATCCG
1 GGCTAAGTCCCGAAGGATTTGTGCGAGTTACTATATCCG
36317528 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-T-TATCCG
1 GGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATATCCG
* *
36317566 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCG
1 GGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATATCCG
* * **
36317606 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCG
1 GGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATATCCG
36317646 CTAAACTCCA
Statistics
Matches: 172, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 9 0.05
38 62 0.36
39 27 0.16
40 74 0.43
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGATTTGTGCGAGTTACTATATCCG
Found at i:36317624 original size:78 final size:77
Alignment explanation
Indices: 36317448--36317645 Score: 274
Period size: 78 Copynumber: 2.5 Consensus size: 77
36317438 GTGGCTAATT
*
36317448 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGTTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGTTTGTGC
* * *
36317513 GAGCTATTATAT
66 AAGCTACTATAA
36317525 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTA-TATCCGGGCTAAGTCCCGAAGG--TTTG
*
36317588 TGCAAGTTACTATAA
63 TGCAAGCTACTATAA
* * *
36317603 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCG
36317646 CTAAACTCCA
Statistics
Matches: 108, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
75 2 0.02
76 22 0.20
77 31 0.29
78 45 0.42
80 6 0.06
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGTTTGTGC
AAGCTACTATAA
Found at i:36326337 original size:40 final size:39
Alignment explanation
Indices: 36326169--36326339 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
36326159 AGAAATTGAA
* *
36326169 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
36326209 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
36326249 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
36326289 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
36326329 TGATATCCGGG
1 TGATATCCGGG
36326340 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:36328308 original size:79 final size:82
Alignment explanation
Indices: 36328168--36328352 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
36328158 TCGAATGATG
* * *
36328168 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
36328232 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
36328248 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
36328310 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
36328328 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36328353 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:36328360 original size:40 final size:40
Alignment explanation
Indices: 36328169--36328360 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
36328159 CGAATGATGT
* * * * *
36328169 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
36328209 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
36328249 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
36328288 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
36328328 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
36328361 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:36328383 original size:79 final size:79
Alignment explanation
Indices: 36328168--36328385 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
36328158 TCGAATGATG
* * * * ** *
36328168 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
36328231 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
36328248 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
36328313 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
36328328 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
36328386 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:36336291 original size:38 final size:40
Alignment explanation
Indices: 36336194--36336381 Score: 129
Period size: 40 Copynumber: 4.8 Consensus size: 40
36336184 CGAATGATGT
* * * * * *
36336194 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTAATAAAC
* *
36336234 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA-
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTAATAAAC
* * * *
36336273 TCGGGCTAAG-CCCGAAGGCATTTGTGC-AATTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
* * *
36336311 CCGGGTTAAGTCCCG-AGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AAC
** * *
36336350 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
36336382 CGCAGCCAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
37 8 0.07
38 34 0.29
39 29 0.25
40 39 0.33
41 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAAC
Found at i:36338070 original size:40 final size:39
Alignment explanation
Indices: 36337910--36338072 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
36337900 TGTGTATGAA
*
36337910 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
36337949 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
36337988 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
36338027 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
36338067 TGTGCG
1 TGTGCG
36338073 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:36338088 original size:40 final size:39
Alignment explanation
Indices: 36337910--36338103 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
36337900 TGTGTATGAA
* *
36337910 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
36337949 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
36337988 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
36338027 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
36338067 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
36338104 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:36342294 original size:39 final size:39
Alignment explanation
Indices: 36342210--36342362 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
36342200 TATGGTAACC
** * *
36342210 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
36342250 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
36342289 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
36342328 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
36342363 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:36342332 original size:78 final size:79
Alignment explanation
Indices: 36342205--36342361 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 79
36342195 CCGGTTATGG
36342205 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
1 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
36342270 TAGCCCGGATATCA
66 TAGCCCGGATATCA
* ** * *
36342284 TAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCACAATTTGCACAATTGCCTTCGGGCT
1 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
36342348 TAGCCCGGATATCA
66 TAGCCCGGATATCA
36342362 CTCGAACATT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
78 53 0.73
79 20 0.27
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
TAGCCCGGATATCA
Found at i:36349068 original size:17 final size:17
Alignment explanation
Indices: 36349046--36349096 Score: 79
Period size: 16 Copynumber: 3.1 Consensus size: 17
36349036 TAGGAAGATA
36349046 TTATTTTAGTTTTATTT
1 TTATTTTAGTTTTATTT
*
36349063 TTATTTTAGTTTT-TAT
1 TTATTTTAGTTTTATTT
36349079 TTATTTTA-TTTTATTT
1 TTATTTTAGTTTTATTT
36349095 TT
1 TT
36349097 TATTATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 4 0.13
16 14 0.45
17 13 0.42
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (17 bp):
TTATTTTAGTTTTATTT
Found at i:36349069 original size:5 final size:5
Alignment explanation
Indices: 36349046--36349095 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
36349036 TAGGAAGATA
36349046 TTATT TTAGTT TTATTT TTATT TTAGTT TT-TAT TTATT TTATT TTATT
1 TTATT TTA-TT TTA-TT TTATT TTA-TT TTAT-T TTATT TTATT TTATT
36349094 TT
1 TT
36349096 TTATTATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
4 1 0.03
5 24 0.60
6 15 0.38
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:36349087 original size:21 final size:22
Alignment explanation
Indices: 36349056--36349100 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
36349046 TTATTTTAGT
36349056 TTTATTTTTATTTTAGTTTTTA
1 TTTATTTTTATTTTAGTTTTTA
*
36349078 TTTA-TTTTATTTTATTTTTTA
1 TTTATTTTTATTTTAGTTTTTA
36349099 TT
1 TT
36349101 ATTAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTATTTTTATTTTAGTTTTTA
Found at i:36349096 original size:11 final size:11
Alignment explanation
Indices: 36349049--36349096 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
36349039 GAAGATATTA
36349049 TTTTAGTTTTAT
1 TTTTA-TTTTAT
36349061 TTTTATTTTAGT
1 TTTTATTTTA-T
36349073 TTTTA-TTTA-
1 TTTTATTTTAT
36349082 TTTTATTTTAT
1 TTTTATTTTAT
36349093 TTTT
1 TTTT
36349097 TATTATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 13 0.39
12 11 0.33
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:36349625 original size:12 final size:12
Alignment explanation
Indices: 36349610--36349643 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36349600 TTTATATTCA
36349610 TTATTATTATCT
1 TTATTATTATCT
*
36349622 TTATTATTATTT
1 TTATTATTATCT
*
36349634 TTAGTATTAT
1 TTATTATTAT
36349644 TATTTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (12 bp):
TTATTATTATCT
Found at i:36349656 original size:15 final size:15
Alignment explanation
Indices: 36349610--36349657 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
36349600 TTTATATTCA
*
36349610 TTATTATTATCTT-TA
1 TTATTATTAT-TTATG
36349625 TTATTATT-TTTA-G
1 TTATTATTATTTATG
36349638 -TATTATTATTTATG
1 TTATTATTATTTATG
36349652 TTATTA
1 TTATTA
36349658 CTGTTACTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
12 7 0.25
13 6 0.21
14 2 0.07
15 13 0.46
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTATTATTTATG
Found at i:36349874 original size:20 final size:19
Alignment explanation
Indices: 36349849--36349894 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
36349839 TAGAATTTCC
36349849 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
36349869 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTATTAT
36349889 TTTATT
1 TTTATT
36349895 CTTGTCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:36354593 original size:39 final size:39
Alignment explanation
Indices: 36354540--36354702 Score: 199
Period size: 39 Copynumber: 4.2 Consensus size: 39
36354530 AGACTTTAGC
* * * *
36354540 CCGGACATATTTCCAGCACGTAGCCTGCGGAC-CTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACTC-TAAGT
*
36354579 CCGGTTATAATTCCAGCACATAGCCTGC-GAAC-CTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAG-ACTC-TAAGT
*
36354618 CTGGATATAATTCCCA-CACATAGCCTGCAGACTCTAAGT
1 CCGGATATAATT-CCAGCACATAGCCTGCAGACTCTAAGT
*
36354657 CCGGATATAATTCCGGCACATAGCCTGCAGACTCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACTCTAAGT
36354696 CCGGATA
1 CCGGATA
36354703 AACATCACTG
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
38 3 0.03
39 103 0.93
40 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCAGACTCTAAGT
Found at i:36355057 original size:40 final size:40
Alignment explanation
Indices: 36355002--36355291 Score: 314
Period size: 41 Copynumber: 7.1 Consensus size: 40
36354992 GCAAAAATTG
* * * *
36355002 TAAAACACAGGGCAATACCGGCG-TTTTAAGAAAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTT-AGTAAAACGCCGC
* * *
36355043 TAAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAG-TAAAACGCCGC
* *
36355084 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
* * *
36355124 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAATGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
* *
36355164 TAAAGACCAGAGCATTAGCGGCGCTTTT-GTTAAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCGCTTTTAG-TAAAACGCCGC
* * * *
36355205 GAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
* * *
36355246 TAAAGACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCAC
1 TAAA-AACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
36355287 TAAAA
1 TAAAA
36355292 GTCATATAAC
Statistics
Matches: 227, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
40 71 0.31
41 155 0.68
42 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAGTAAAACGCCGC
Found at i:36355078 original size:41 final size:40
Alignment explanation
Indices: 36355033--36355291 Score: 365
Period size: 41 Copynumber: 6.4 Consensus size: 40
36355023 CGTTTTAAGA
* * * * *
36355033 AAAACACCGCTAAAAACTGAGCAATAGCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCG-CTTTTGGT
36355074 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
36355114 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
* * *
36355154 AAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGTT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
* *
36355195 AAAACGCCGCGAAAGACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
* *
36355236 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
*
36355277 AAAACGCCACTAAAA
1 AAAACGCCGCTAAAA
36355292 GTCATATAAC
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
40 60 0.30
41 143 0.70
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:36361257 original size:42 final size:42
Alignment explanation
Indices: 36361167--36361265 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 42
36361157 AGTTCATGAT
* * *
36361167 TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTTATGG
1 TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATAG
*
36361209 TCTTTAGCGGCGTTTGT-AGAAAAAGCGGCGCTAAAAGTCATAG
1 T-TTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAAGTCATAG
*
36361252 TTTTAGCGGTGTTT
1 TTTTAGCGGCGTTT
36361266 TTTTAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 15 0.30
43 35 0.70
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATAG
Found at i:36363162 original size:20 final size:20
Alignment explanation
Indices: 36363137--36363191 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
36363127 ATGAATATAT
36363137 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
* *
36363157 CATGTGCGTATCATACATAT
1 CATGTGCATATCATACATAC
*
36363177 CATGTGCACATCATA
1 CATGTGCATATCATA
36363192 TTAATCATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:36363265 original size:25 final size:25
Alignment explanation
Indices: 36363237--36363284 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36363227 ATAAGTAAAC
* * *
36363237 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
36363262 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
36363285 CATAATATAA
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:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:36370632 original size:19 final size:18
Alignment explanation
Indices: 36370608--36370653 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
36370598 CGTTGTGTTG
36370608 TTTGAAAAGCAAGTGTCGT
1 TTTGAAAA-CAAGTGTCGT
36370627 TTTGAAAACAAGTGTCGT
1 TTTGAAAACAAGTGTCGT
*
36370645 TTTAAAAAC
1 TTTGAAAAC
36370654 GTGTCCTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (18 bp):
TTTGAAAACAAGTGTCGT
Found at i:36370652 original size:18 final size:18
Alignment explanation
Indices: 36370602--36370653 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
36370592 TCGTAACGTT
* * *
36370602 GTGTTGTTTGAAAAGCAA
1 GTGTCGTTTTAAAAACAA
*
36370620 GTGTCGTTTTGAAAACAA
1 GTGTCGTTTTAAAAACAA
36370638 GTGTCGTTTTAAAAAC
1 GTGTCGTTTTAAAAAC
36370654 GTGTCCTAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (18 bp):
GTGTCGTTTTAAAAACAA
Found at i:36371365 original size:27 final size:26
Alignment explanation
Indices: 36371260--36371383 Score: 171
Period size: 26 Copynumber: 4.8 Consensus size: 26
36371250 CCTCTTTAAT
**
36371260 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
36371285 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
36371310 AACTGGGGCATAATCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
36371336 AACTGGGGCATAAGCCATTTTTCAATA
1 AACTGGGGCATAAGCC-CTTTTCAATA
*
36371363 AACTGGGCCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
36371384 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
25 31 0.35
26 33 0.38
27 24 0.27
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:36371458 original size:20 final size:20
Alignment explanation
Indices: 36371433--36371499 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
36371423 TTATGAATAC
36371433 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
**
36371453 ATCATGTGTGTATCATACAT
1 ATCATGTGCATATCATACAT
36371473 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
36371493 ATCATGT
1 ATCATGT
36371500 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:36371562 original size:24 final size:25
Alignment explanation
Indices: 36371535--36371581 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
36371525 ATAAGTAAAC
* *
36371535 CCTAGGGGTATAAT-GTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
36371559 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
36371582 CATAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:36375003 original size:19 final size:19
Alignment explanation
Indices: 36374979--36375015 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36374969 TTTTGAGCAA
36374979 ATATTCTTTTATTCTTTAT
1 ATATTCTTTTATTCTTTAT
*
36374998 ATATTCTTTTGTTCTTTA
1 ATATTCTTTTATTCTTTA
36375016 GACTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
ATATTCTTTTATTCTTTAT
Found at i:36377527 original size:93 final size:93
Alignment explanation
Indices: 36377415--36377585 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
36377405 GCCCATAAGT
* *
36377415 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36377480 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
36377508 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36377573 CGAGTTCGGATGC
66 CGAGTTCGGATGC
36377586 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:36377601 original size:46 final size:46
Alignment explanation
Indices: 36377407--36377587 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
36377397 TGTAACCCGC
* * *
36377407 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
36377453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
36377503 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
36377546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
36377588 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:36381380 original size:40 final size:40
Alignment explanation
Indices: 36381287--36381504 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
36381277 AAGCCAAGTA
* * *
36381287 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
36381325 CCTCCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
36381365 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
36381405 CCTTCGAGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36381445 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
36381486 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36381505 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 103 0.65
41 24 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36388681 original size:40 final size:40
Alignment explanation
Indices: 36388588--36388805 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
36388578 AACCCAAGTA
* * *
36388588 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
36388626 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
36388666 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
36388706 CCTTCGGGACTTAGCTCTGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36388746 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
36388787 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36388806 TTATGATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 102 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36390462 original size:44 final size:45
Alignment explanation
Indices: 36390406--36390501 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 45
36390396 TAGATGGCGA
* * *
36390406 ATCTTATCTTCCTAAGGTAGCAAGGGAGTAGGCCGAAGATTGTAG
1 ATCTTATATTCCTAAGGTAGCAAGGAAGTAGACCGAAGATTGTAG
* * * *
36390451 -TCTTATATTCCTGATGTAGCAATGAAGTAGACTGAAGATTGTAG
1 ATCTTATATTCCTAAGGTAGCAAGGAAGTAGACCGAAGATTGTAG
36390495 ATCTTAT
1 ATCTTAT
36390502 CTCCCTGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.86
45 6 0.14
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (45 bp):
ATCTTATATTCCTAAGGTAGCAAGGAAGTAGACCGAAGATTGTAG
Found at i:36390533 original size:45 final size:44
Alignment explanation
Indices: 36390359--36390571 Score: 119
Period size: 45 Copynumber: 4.8 Consensus size: 44
36390349 GTAAATTCAC
* * *
36390359 AGATCTTATCTCCCTGATATAGCAGTGGGGCAGATCGTAGATGG
1 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGG
* * * * * ** *
36390403 CGAATCTTATCTTCCTAAGGTAGCAAG-GGAGTAGGCCGAAGATTGT
1 AG-ATCTTATCTCCCTGAGATAGC-AGTGGAGCAGATCGAAGA-TGG
* * * * * *
36390449 AG-TCTTATATTCCTGATG-TAGCAATGAAGTAGA-CTGAAGATTGT
1 AGATCTTATCTCCCTGA-GATAGCAGTGGAGCAGATC-GAAGA-TGG
*
36390493 AGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGG
1 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGG
* * * * * *
36390537 CGAATCATATCTCCTTGAGGTAGTAGGGGAGCAGA
1 AG-ATCTTATCTCCCTGAGATAGCAGTGGAGCAGA
36390572 CTTTAGCCAC
Statistics
Matches: 130, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
43 2 0.02
44 38 0.29
45 84 0.65
46 6 0.05
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGG
Found at i:36390669 original size:43 final size:45
Alignment explanation
Indices: 36390592--36390693 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 45
36390582 CAGCCTTATT
*
36390592 TCCCTGAGGTAGCAAGGGAGCAGGCCAAAGATTGT-G-TCCTATC
1 TCCCTGAGGTAGCAAGGAAGCAGGCCAAAGATTGTAGATCCTATC
* *** *
36390635 TTCCTGAGGTAGCAAGGAAGCAGATTGAAA-ATTGTAGATCTTATC
1 TCCCTGAGGTAGCAAGGAAGCAG-GCCAAAGATTGTAGATCCTATC
*
36390680 TCCCTGAGATAGCA
1 TCCCTGAGGTAGCA
36390694 GTGGAGCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 26 0.54
44 4 0.08
45 18 0.38
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (45 bp):
TCCCTGAGGTAGCAAGGAAGCAGGCCAAAGATTGTAGATCCTATC
Found at i:36390700 original size:132 final size:133
Alignment explanation
Indices: 36390544--36390831 Score: 425
Period size: 132 Copynumber: 2.2 Consensus size: 133
36390534 TGGCGAATCA
* * * *
36390544 TATCTCCTTGAGGTAGTAGGGGAGCAGACTTTAGCCACCAGCCTTATTTCCCTGAGGTAGCAAGG
1 TATCTCCTTGAGATAGCAGTGGAGCAAACTTTAGCCACCAGCCTTATTTCCCTGAGGTAGCAAGG
* *
36390609 GAGCAGGCCAAAGATTGT-GTCCTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAAATTGTAGA
66 GAGCAGGCCAAAGATTGTAGTCCTATCTTCCCGAGGTAGCAAGGAAGCAGACTGAAAATTGTAGA
36390673 TCT
131 TCT
* * * *
36390676 TATCTCCCTGAGATAGCAGTGGAGCAAATTTTAGCCACCAGCCTTATTTGCCTGAGGTAGTAAGG
1 TATCTCCTTGAGATAGCAGTGGAGCAAACTTTAGCCACCAGCCTTATTTCCCTGAGGTAGCAAGG
** * * * *
36390741 GAGCAGTTCGAAGATTGTAGTCTTATCTTCCCGAGGTATCAAGGAAGCAGACTGAAGATTGTAGA
66 GAGCAGGCCAAAGATTGTAGTCCTATCTTCCCGAGGTAGCAAGGAAGCAGACTGAAAATTGTAGA
36390806 TCT
131 TCT
36390809 TATCTCCTTGAGATAGCAGTGGA
1 TATCTCCTTGAGATAGCAGTGGA
36390832 ATAGATCAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 72 0.52
133 66 0.48
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (133 bp):
TATCTCCTTGAGATAGCAGTGGAGCAAACTTTAGCCACCAGCCTTATTTCCCTGAGGTAGCAAGG
GAGCAGGCCAAAGATTGTAGTCCTATCTTCCCGAGGTAGCAAGGAAGCAGACTGAAAATTGTAGA
TCT
Found at i:36390988 original size:45 final size:45
Alignment explanation
Indices: 36390805--36390998 Score: 135
Period size: 45 Copynumber: 4.3 Consensus size: 45
36390795 AAGATTGTAG
* * *
36390805 ATCTTATCTCCTTGAGATAGCAGTGGAATAGATCAAAGATGACAA
1 ATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAA
* * ** * * ** * *
36390850 ATCTTATCTTCTCGAGGCAGAAGGGGAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAA
* * * * * * * *
36390894 GTCTTATCTCCTTGAGGTAGCAA-AGGAGTAG-GCTGAAGATTG-TAG
1 ATCTTATCTCCTTGAGATAG-AAGTGGAGTAGATC-AAAGA-CGACAA
36390939 ATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAA
1 ATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAA
*
36390984 ATCTTATCTTCTTGA
1 ATCTTATCTCCTTGA
36390999 AGCAGCAATG
Statistics
Matches: 106, Mismatches: 36, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
44 31 0.29
45 74 0.70
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAA
Found at i:36391066 original size:134 final size:134
Alignment explanation
Indices: 36390792--36391049 Score: 392
Period size: 134 Copynumber: 1.9 Consensus size: 134
36390782 AGGAAGCAGA
* *
36390792 CTGAAGATTGTAGATCTTATCTCCTTGAGATAGCAGTGGAATAGATCAAAGATGACAAATCTTAT
1 CTGAAGATTGTAGATCTTATCTCCTTGAGATAGAAGTGGAATAGATCAAAGACGACAAATCTTAT
* * * * * *
36390857 CTTCTCGAGGCAGAAGGGGAGCAGATTTAAGCCACCAGTCTTATCTCCTTGAGGTAGCAAAGGAG
66 CTTCTCGAAGCAGAAGGGGAACAGATTTAAGCCACCAGCCTCATCTCCCTGAAGTAGCAAAGGAG
36390922 TAGG
131 TAGG
*
36390926 CTGAAGATTGTAGATCTTATCTCCTTGAGATAGAAGTGGAGTAGATCAAAGACGACAAATCTTAT
1 CTGAAGATTGTAGATCTTATCTCCTTGAGATAGAAGTGGAATAGATCAAAGACGACAAATCTTAT
* * *
36390991 CTTCTTGAAGCAGCAA-TGGAACAGATTTAGGCCACCAGCCTCATCTCCCTGAAGTAGCA
66 CTTCTCGAAGCAG-AAGGGGAACAGATTTAAGCCACCAGCCTCATCTCCCTGAAGTAGCA
36391050 GTGAGGCAGA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
134 109 0.98
135 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (134 bp):
CTGAAGATTGTAGATCTTATCTCCTTGAGATAGAAGTGGAATAGATCAAAGACGACAAATCTTAT
CTTCTCGAAGCAGAAGGGGAACAGATTTAAGCCACCAGCCTCATCTCCCTGAAGTAGCAAAGGAG
TAGG
Found at i:36393464 original size:21 final size:20
Alignment explanation
Indices: 36393435--36393482 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
36393425 AAAAGAAATG
* *
36393435 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACAAGCTAAAA-CA
*
36393456 AGCTCAAACAAGCTAAAACG
1 AGCTCAAACAAGCTAAAACA
36393476 AGCTCAA
1 AGCTCAA
36393483 GTGAGCTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (20 bp):
AGCTCAAACAAGCTAAAACA
Found at i:36394644 original size:27 final size:26
Alignment explanation
Indices: 36394604--36394690 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
36394594 AGCATGGCTG
* *
36394604 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
36394630 CCAGATACAAATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
36394657 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
36394684 CCAGAAC
1 CCAGAAC
36394691 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:36410457 original size:50 final size:51
Alignment explanation
Indices: 36410401--36410533 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 51
36410391 ATCTGATACG
**
36410401 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTTGCCATCTGA-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGCCAT-TGAGTACA
** * * * * *
36410451 TGTAGTAGCTTGCACGTT-GTACTACAGACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCAC-TTAGTACTACACACGTGATCCAAGCCATTGAGTACA
36410502 CATAGTAGCCTGCACTTAGTACTACACACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
36410534 TATTCACAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
50 31 0.47
51 35 0.53
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGCCATTGAGTACA
Found at i:36410524 original size:51 final size:50
Alignment explanation
Indices: 36410386--36410533 Score: 165
Period size: 50 Copynumber: 2.9 Consensus size: 50
36410376 CTTATAGTCG
*
36410386 AAGCTATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
** *** * * *
36410436 TTGCCATCTGATACATGTAGTAGCTTGCACGTT-GTACTACAGACGTGATCG
1 AAGCCATCTGATACGCATAGTAGCCTGCAC-TTAGTACTACACACGTGA-CC
*
36410487 AAGTCAT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 AAGCCATCTGA-TACGCATAGTAGCCTGCACTTAGTACTACACACGTG
36410534 TATTCACAAT
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
50 42 0.55
51 35 0.45
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGCCATCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:36417576 original size:49 final size:50
Alignment explanation
Indices: 36417520--36417677 Score: 178
Period size: 50 Copynumber: 3.2 Consensus size: 50
36417510 CTGATACGCA
*
36417520 TAGTAGCCTGCACTTAGTACTACATATGCGACC-AACAATCCAG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT-CAGATACACG
* * * * * *
36417569 TAGTAGCCTGTACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCAGATACACG
* * * *
36417619 TAGTAGCCTGCACTTAGTACTACACATGCAACTTAACAGT-ATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCA-GATACACG
36417669 TAGTAGCCT
1 TAGTAGCCT
36417678 TGTGACAACC
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
49 31 0.35
50 58 0.65
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCAGATACACG
Found at i:36419566 original size:39 final size:39
Alignment explanation
Indices: 36419512--36419674 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
36419502 TGTGAATGTA
36419512 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
36419551 TGTGCGAATTGTGATATCCGGGCTAAGCCTGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
36419590 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
36419629 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
36419669 TGTGCG
1 TGTGCG
36419675 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:36419690 original size:40 final size:40
Alignment explanation
Indices: 36419529--36419704 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
36419519 ATTGTGATAT
* *** *
36419529 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
36419568 CCGGGCTAAG-CCTGAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
36419607 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
36419646 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
36419686 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36419705 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 80 0.67
40 40 0.33
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:36423593 original size:27 final size:26
Alignment explanation
Indices: 36423557--36423640 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
36423547 ATGGCTGCCG
* * *
36423557 GAACAGATATTGTGACAGAGTCACCA
1 GAACAAATATTGTGGCAGAGCCACCA
36423583 GATACAAATATTGTGGCAGAGCCACCA
1 GA-ACAAATATTGTGGCAGAGCCACCA
* *
36423610 GAACAGATATTTGTGGCATAGCCACCA
1 GAACAAATA-TTGTGGCAGAGCCACCA
36423637 GAAC
1 GAAC
36423641 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
GAACAAATATTGTGGCAGAGCCACCA
Found at i:36426203 original size:15 final size:16
Alignment explanation
Indices: 36426183--36426215 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36426173 TGTTCTTTTC
36426183 TCTTTCATTTTC-TTT
1 TCTTTCATTTTCATTT
*
36426198 TCTTTCTTTTTCATTT
1 TCTTTCATTTTCATTT
36426214 TC
1 TC
36426216 ACTTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTCATTTTCATTT
Found at i:36426209 original size:21 final size:21
Alignment explanation
Indices: 36426169--36426224 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
36426159 TTTATCATAA
36426169 TTCTTGTTCTTTTCTCTTTCATT
1 TTCTT-TTC-TTTCTCTTTCATT
*
36426192 TTCTTTTCTTTCTTTTTCATT
1 TTCTTTTCTTTCTCTTTCATT
*
36426213 TTCACTTTCTTT
1 TTC-TTTTCTTT
36426225 TTCCACTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 15 0.50
22 10 0.33
23 5 0.17
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCTTTTCTTTCTCTTTCATT
Found at i:36429795 original size:20 final size:20
Alignment explanation
Indices: 36429736--36429788 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
36429726 AATGAAAAAG
*
36429736 AAATGAGCTGAAACGAGCTA
1 AAATGAGCTCAAACGAGCTA
*
36429756 AAATCAAGCTCAAACGAGCTA
1 AAAT-GAGCTCAAACGAGCTA
36429777 AAATGAGCTCAA
1 AAATGAGCTCAA
36429789 GTGAGCTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (20 bp):
AAATGAGCTCAAACGAGCTA
Found at i:36432043 original size:29 final size:29
Alignment explanation
Indices: 36432010--36432140 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
36432000 GTGACGAGAT
36432010 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36432039 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
36432068 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* * * *
36432097 TGGCACTATGTGTGCAGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
36432126 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36432141 GAAATGGAGT
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 3 0.04
29 79 0.95
30 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36436603 original size:66 final size:69
Alignment explanation
Indices: 36436473--36436603 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 69
36436463 GGGATGTATC
* * * *
36436473 CCATGTAGATAAGAGAGCTACGAGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC---AGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
36436538 AAGGACA
63 AAGGACA
* * *
36436545 CCATGTAGACAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACAGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
36436604 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 23 0.44
67 7 0.13
68 2 0.04
72 20 0.38
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACAGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAG
GACA
Found at i:36440177 original size:15 final size:15
Alignment explanation
Indices: 36440157--36440199 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
36440147 TGCTGTAAAT
36440157 TGGATTTCCTTATCA
1 TGGATTTCCTTATCA
* *
36440172 TGGATTTCTTTATCT
1 TGGATTTCCTTATCA
36440187 TGGATTTCCTTAT
1 TGGATTTCCTTAT
36440200 TCTGGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.53
Consensus pattern (15 bp):
TGGATTTCCTTATCA
Found at i:36444898 original size:68 final size:68
Alignment explanation
Indices: 36444749--36444906 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
36444739 CTAGCCGATT
* * * *
36444749 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
36444814 TTTA
65 TATA
* * *
36444818 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
36444880 CTATATA
63 C-ATATA
36444887 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
36444907 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:36452346 original size:68 final size:68
Alignment explanation
Indices: 36452197--36452354 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
36452187 CTAGCCGATT
* * * *
36452197 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
36452262 TTTA
65 TATA
* * *
36452266 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
36452328 CTATATA
63 C-ATATA
36452335 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
36452355 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:36454805 original size:89 final size:87
Alignment explanation
Indices: 36454534--36454819 Score: 222
Period size: 89 Copynumber: 3.2 Consensus size: 87
36454524 AAACCTTATC
* * * * * * *
36454534 TCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTAC-TTGAAGTTCCAGTGGA
1 TCCCTGAAGTTACAGTGGAGCAGGTTGAAACTACCAATTCTTATCT-CTTTGAAGTTTCAG-AGA
* * *
36454598 GTAGATTGAAGTTACAAATCTCTTC
64 GTAGA-TGAAGATACAAATCTTTTT
* * * * * * *
36454623 TCCCTGAAATTACATTGGAGCAGATCGAAGCCA-CAATTCTTATCTCTCTGAAGTTGT-AGAGA-
1 TCCCTGAAGTTACAGTGGAGCAGGTTGAAACTACCAATTCTTATCTCTTTGAAGTT-TCAGAGAG
* * * *
36454685 -AGGATAAAAATACACAAACCTTATT
65 TA-GATGAAGAT--ACAAATCTTTTT
* * *
36454710 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCTTTGAACTTTCAGCAGAG
1 TCCCTGAAGTTACAGTGGAGCAGGTTGAAACTACCAATTCTTATCTCTTTGAAGTTTCAG-AGAG
*
36454775 TAGATCGAAGCTACAAATCTTTTT
65 TAGAT-GAAGATACAAATCTTTTT
*
36454799 TCCCTGAAGTTACATTGGAGC
1 TCCCTGAAGTTACAGTGGAGC
36454820 GGATCGAAGC
Statistics
Matches: 148, Mismatches: 38, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
85 5 0.03
86 2 0.01
87 37 0.25
88 41 0.28
89 56 0.38
90 3 0.02
91 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (87 bp):
TCCCTGAAGTTACAGTGGAGCAGGTTGAAACTACCAATTCTTATCTCTTTGAAGTTTCAGAGAGT
AGATGAAGATACAAATCTTTTT
Found at i:36454815 original size:176 final size:176
Alignment explanation
Indices: 36454521--36454851 Score: 470
Period size: 176 Copynumber: 1.9 Consensus size: 176
36454511 GACTGAAGAC
36454521 CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
* ** * *
36454586 AGTTCCAGTGGAGTAGATTGAAGTTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
66 ACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
*
36454651 AGC-CACAATTCTTAT-CTCTCTGAAGTTGTAGAGAAGGATAAAAATA
131 AGCAC-CAATTCCTATAC-CTCTGAAGTTGTAGAGAAGGATAAAAATA
* * * * *
36454697 CACAAACCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCT-CTTTG
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTAC-TTG
* * * * *
36454761 AACTTTCAGCAGAGTAGATCGAAGCTACAAATCTTTTTTCCCTGAAGTTACATTGGAGCGGATCG
65 AACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCG
36454826 AAGCACCAATTCCTATACCTCTGAAG
130 AAGCACCAATTCCTATACCTCTGAAG
36454852 ATACAATGGA
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
175 1 0.01
176 133 0.98
177 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (176 bp):
CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
ACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
AGCACCAATTCCTATACCTCTGAAGTTGTAGAGAAGGATAAAAATA
Found at i:36455743 original size:3 final size:3
Alignment explanation
Indices: 36455730--36455918 Score: 170
Period size: 3 Copynumber: 63.3 Consensus size: 3
36455720 TTGAGTTTTA
* * * *
36455730 TAT TCAT TAT TAT TA- TAT CCAT TAT TAT TTT TGT TAT TAT T-T CTGT
1 TAT T-AT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
36455776 TAT TAC TGT TAC TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
36455824 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT CAC TAC TGT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
36455871 TAT TAT TA- TAG TAT TAT TAG TAT TAT TAT TAC TAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36455918 T
1 T
36455919 TTTTTTAAAA
Statistics
Matches: 150, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
2 7 0.05
3 137 0.91
4 6 0.04
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:36456033 original size:20 final size:19
Alignment explanation
Indices: 36456008--36456053 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
36455998 TAGAATTTCC
36456008 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
36456028 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTATTAT
36456048 TTTATT
1 TTTATT
36456054 CTTGTCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:36460695 original size:31 final size:31
Alignment explanation
Indices: 36460654--36460717 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
36460644 CCTTTTCATA
*
36460654 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
36460685 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
36460716 TT
1 TT
36460718 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:36460963 original size:24 final size:24
Alignment explanation
Indices: 36460930--36461076 Score: 226
Period size: 24 Copynumber: 6.2 Consensus size: 24
36460920 GGCCTTACCT
*
36460930 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
36460954 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
36460978 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
36461001 CTTTTGATAACTGGGGCATAAGTC
1 CTTTTAATAACTGGGGCATAAGCC
*
36461025 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
36461049 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
36461072 CTTTT
1 CTTTT
36461077 TCACTTCCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 43 0.38
24 69 0.62
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:36461011 original size:71 final size:71
Alignment explanation
Indices: 36460930--36461076 Score: 249
Period size: 71 Copynumber: 2.1 Consensus size: 71
36460920 GGCCTTACCT
* *
36460930 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCG
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
36460995 TAAGCC
66 TAAGCC
* * *
36461001 CTTTTGATAACTGGGGCATAAGTCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
36461066 TAAGCC
66 TAAGCC
36461072 CTTTT
1 CTTTT
36461077 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (71 bp):
CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
TAAGCC
Found at i:36461076 original size:47 final size:48
Alignment explanation
Indices: 36460930--36461076 Score: 226
Period size: 47 Copynumber: 3.1 Consensus size: 48
36460920 GGCCTTACCT
* *
36460930 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* * *
36460978 C-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGTC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
36461025 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
36461072 CTTTT
1 CTTTT
36461077 TCACTTCCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
47 68 0.76
48 22 0.24
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Done.