Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 110 of 128
Found at i:36813830 original size:39 final size:39
Alignment explanation
Indices: 36813768--36813936 Score: 239
Period size: 39 Copynumber: 4.3 Consensus size: 39
36813758 CATGTTTTGA
* * * *
36813768 GTATTGTGATATATTCTTGAATGTTATGTGATTAAATAT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
* *
36813807 GTATTGTGATATATGTTTAAATGTTATGTGATTGTATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
* **
36813846 GTATCGTGATATATGCTTAAATGTTACATGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
*
36813885 GTACTGTGATATATGCTTAAATGTTATGTGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
*
36813924 GTAATGTGATATA
1 GTATTGTGATATA
36813937 CGATTAAAAG
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.47
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
Found at i:36815488 original size:18 final size:17
Alignment explanation
Indices: 36815457--36815492 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
36815447 ATATATAATG
*
36815457 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
36815474 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
36815492 A
1 A
36815493 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:36815710 original size:38 final size:39
Alignment explanation
Indices: 36815654--36815740 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 39
36815644 TAAGTAATCA
* * *
36815654 TATACATATATATGTATGTAACTATCATAAAATA-AAAG
1 TATACATATAGATATATGTAACAATCATAAAATATAAAG
* **
36815692 TATATATATAGATATATGTATGAATCATAAAATATAAAG
1 TATACATATAGATATATGTAACAATCATAAAATATAAAG
* *
36815731 AACACATATA
1 TATACATATA
36815741 TAAAATACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 28 0.72
39 11 0.28
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (39 bp):
TATACATATAGATATATGTAACAATCATAAAATATAAAG
Found at i:36815853 original size:22 final size:22
Alignment explanation
Indices: 36815810--36815857 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
36815800 TGTGTGTAAG
* *
36815810 TATATAAAAAAATATATGTATA
1 TATATAAAAAAACATATATATA
*
36815832 TATATAAAAAAACGTATATATA
1 TATATAAAAAAACATATATATA
36815854 TATA
1 TATA
36815858 AGGGCAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TATATAAAAAAACATATATATA
Found at i:36815875 original size:3 final size:3
Alignment explanation
Indices: 36815867--36815908 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
36815857 AAGGGCAATT
* *
36815867 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36815909 TTATTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36816701 original size:17 final size:17
Alignment explanation
Indices: 36816679--36816718 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
36816669 GACGTGCGGC
*
36816679 GCGGCGTCAGAACGGTG
1 GCGGCGACAGAACGGTG
*
36816696 GCGGCGACAGAATGGTG
1 GCGGCGACAGAACGGTG
36816713 GCGGCG
1 GCGGCG
36816719 CCCGGCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.50, T:0.10
Consensus pattern (17 bp):
GCGGCGACAGAACGGTG
Found at i:36818059 original size:17 final size:17
Alignment explanation
Indices: 36818037--36818070 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36818027 ATAGACAAAT
36818037 ATTAAAATTAAAAATTA
1 ATTAAAATTAAAAATTA
36818054 ATTAAAATTAAAAATTA
1 ATTAAAATTAAAAATTA
36818071 GCTCTATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTAAAATTAAAAATTA
Found at i:36820101 original size:15 final size:15
Alignment explanation
Indices: 36820081--36820110 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36820071 TTTGGCTTGC
36820081 ATGCAAGTATTATTT
1 ATGCAAGTATTATTT
*
36820096 ATGCAATTATTATTT
1 ATGCAAGTATTATTT
36820111 TTTAATGATG
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:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
ATGCAAGTATTATTT
Found at i:36844738 original size:53 final size:52
Alignment explanation
Indices: 36844601--36844931 Score: 199
Period size: 53 Copynumber: 6.2 Consensus size: 52
36844591 CCACTTTAAA
* *
36844601 ATTTATAATAAAAAATTGGATGCTGTAACACTGATGACCGACACCCTTGTACCAG
1 ATTTA-AA-AAAAAATTGGGTGCTGGAACACTGATGACCGACACCC-TGTACCAG
* * * *
36844656 A-TTAAAAAAAATTTGGGTGTTAGG-ACACTGATGACCGGCACTCCAGTACCAG
1 ATTTAAAAAAAAATTGGGTGCT-GGAACACTGATGACCGACAC-CCTGTACCAG
* * *
36844708 ATTTAAAAAAAAATTGAGTGCTGGAACACTGAT-AGCTGACACCCTTGTACTAG
1 ATTTAAAAAAAAATTGGGTGCTGGAACACTGATGA-CCGACACCC-TGTACCAG
* * * * * * * * * *
36844761 ATTTTTAAAAAAAATTAGTTGTTAGG-GCAATAATGGCCAACACTCTTGTACCAG
1 A-TTTAAAAAAAAATTGGGTGCT-GGAACACTGATGACCGACAC-CCTGTACCAG
** * * *
36844815 A-TTAAAAAAAAATTTGGGTGCT-GAGACACTGATGGTCGGCACCCCAGTACCAA
1 ATTTAAAAAAAAA-TTGGGTGCTGGA-ACACTGATGACCGACA-CCCTGTACCAG
* * * * * *
36844868 ATTTGAAAAAAAATTGGGTGTTGGGACACTGATTGTCAG-CACCCTTGTACCAA
1 ATTTAAAAAAAAATTGGGTGCTGGAACACTGA-TGACCGACACCC-TGTACCAG
*
36844921 ATTTTAAAAAA
1 ATTTAAAAAAA
36844932 TAATAAAATT
Statistics
Matches: 211, Mismatches: 47, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
51 1 0.00
52 54 0.26
53 100 0.47
54 52 0.25
55 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (52 bp):
ATTTAAAAAAAAATTGGGTGCTGGAACACTGATGACCGACACCCTGTACCAG
Found at i:36844836 original size:107 final size:105
Alignment explanation
Indices: 36844601--36844848 Score: 261
Period size: 107 Copynumber: 2.3 Consensus size: 105
36844591 CCACTTTAAA
* *
36844601 ATTTATAATAAAAAATTGGATGCTGTAACACTGATGACCGACACCCTTGTACCAGATTAAAAAAA
1 ATTTA-AA-AAAAAATTGGGTGCTGGAACACTGATGACCGACACCCTTGTACCAGATTAAAAAAA
* * * **
36844666 ATTTGGGTGTTAGGACACTGATGACCGGCACTCCAGTACCAG
64 ATTTAGGTGTTAGGACAATAATGACCAACACTCCAGTACCAG
* * *
36844708 ATTTAAAAAAAAATTGAGTGCTGGAACACTGAT-AGCTGACACCCTTGTACTAGATTTTTAAAAA
1 ATTTAAAAAAAAATTGGGTGCTGGAACACTGATGA-CCGACACCCTTGTACCAGA---TTAAAAA
* * * **
36844772 AAA-TTAGTTGTTAGGGCAATAATGGCCAACACTCTTGTACCAG
62 AAATTTAGGTGTTAGGACAATAATGACCAACACTCCAGTACCAG
36844815 A-TTAAAAAAAAATTTGGGTGCT-GAGACACTGATG
1 ATTTAAAAAAAAA-TTGGGTGCTGGA-ACACTGATG
36844849 GTCGGCACCC
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
104 1 0.01
105 40 0.34
106 15 0.13
107 52 0.44
108 10 0.08
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (105 bp):
ATTTAAAAAAAAATTGGGTGCTGGAACACTGATGACCGACACCCTTGTACCAGATTAAAAAAAAT
TTAGGTGTTAGGACAATAATGACCAACACTCCAGTACCAG
Found at i:36844864 original size:160 final size:158
Alignment explanation
Indices: 36844641--36844931 Score: 406
Period size: 160 Copynumber: 1.8 Consensus size: 158
36844631 CTGATGACCG
* *
36844641 ACACCCTTGTACCAGATTAAAAAAAATTTGGGTGTTAGGACACTGATGACCGGCACTCCAGTACC
1 ACACCCTTGTACCAGATTAAAAAAAATTTGGGTGTGAGGACACTGATGACCGGCACCCCAGTACC
* * * *
36844706 AGATTTAAAAAAAAATTGAGTGCTGGAACACTGATAG-CTGACACCCTTGTACTAGATTTTTAAA
66 AAATTTAAAAAAAAATTGAGTGCTGGAACACTGATAGTCAG-CACCCTTGTACCA-AATTTTAAA
36844770 AAAAATTAGTTGTTAGGGCAATAATGGCCA
129 AAAAATTAGTTGTTAGGGCAATAATGGCCA
* **
36844800 ACACTCTTGTACCAGATTAAAAAAAAATTTGGGTGCTGA-GACACTGATGGTCGGCACCCCAGTA
1 ACACCCTTGTACCAGATT-AAAAAAAATTTGGGTG-TGAGGACACTGATGACCGGCACCCCAGTA
* * * * *
36844864 CCAAATTTGAAAAAAAATTGGGTGTTGGGACACTGATTGTCAGCACCCTTGTACCAAATTTTAAA
64 CCAAATTTAAAAAAAAATTGAGTGCTGGAACACTGATAGTCAGCACCCTTGTACCAAATTTTAAA
36844929 AAA
129 AAA
36844932 TAATAAAATT
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
159 28 0.24
160 83 0.72
161 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (158 bp):
ACACCCTTGTACCAGATTAAAAAAAATTTGGGTGTGAGGACACTGATGACCGGCACCCCAGTACC
AAATTTAAAAAAAAATTGAGTGCTGGAACACTGATAGTCAGCACCCTTGTACCAAATTTTAAAAA
AAATTAGTTGTTAGGGCAATAATGGCCA
Found at i:36846668 original size:15 final size:15
Alignment explanation
Indices: 36846645--36846675 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36846635 GATTATAAAA
*
36846645 ATATGTATATTATAT
1 ATATATATATTATAT
36846660 ATATATATATTATAT
1 ATATATATATTATAT
36846675 A
1 A
36846676 AAAACACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATATATATATTATAT
Found at i:36846760 original size:16 final size:15
Alignment explanation
Indices: 36846733--36846770 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
36846723 TAAATGAGCA
*
36846733 AATAACAATAACAAT
1 AATAATAATAACAAT
36846748 AATTAATAATAACAAT
1 AA-TAATAATAACAAT
36846764 AATAATA
1 AATAATA
36846771 TGAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:36848127 original size:55 final size:56
Alignment explanation
Indices: 36848037--36848184 Score: 149
Period size: 55 Copynumber: 2.7 Consensus size: 56
36848027 TAGACTAAGG
* * * **
36848037 GGGTGCCGGCCATCAGTGTCCTAGCA-CCTTTTTTTTTAAAAAAAAAT-TGGTACAA
1 GGGTGCCGGCCATCAGTGGCCCAACACCCTAATTTTTT-AAAAAAAATCTGGTACAA
** * ** * *
36848092 GGGTGTTGGTCATCAGTGGCTTAACACCC-AATTTTTTTAAAAAAATCTGGTACTA
1 GGGTGCCGGCCATCAGTGGCCCAACACCCTAATTTTTTAAAAAAAATCTGGTACAA
*
36848147 GGGTGCCGGCCATCAGTGTCCCAACACCCTAATTTTTT
1 GGGTGCCGGCCATCAGTGGCCCAACACCCTAATTTTTT
36848185 TTTTAAATTT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 8 0.11
55 56 0.76
56 10 0.14
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (56 bp):
GGGTGCCGGCCATCAGTGGCCCAACACCCTAATTTTTTAAAAAAAATCTGGTACAA
Found at i:36848261 original size:55 final size:55
Alignment explanation
Indices: 36848134--36848261 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
36848124 TTTTTTAAAA
* ** * *
36848134 AAATCTGGTACTAGGGTGCCGGCCATCAGTGTCCCAACACCCTAATTTTTTTTTT
1 AAATCTGGTACAAGGGTGAAGGCCATCAGTGTCCCAACACCCAAATGTTTTTTTT
* * * *
36848189 AAATTTGATA-AATGGGTGAAGGCCATTAGTGTCCCAGCACCCAAAATGTTTTTTTT
1 AAATCTGGTACAA-GGGTGAAGGCCATCAGTGTCCCAACACCC-AAATGTTTTTTTT
36848245 -AATCTGGTACAAGGGTG
1 AAATCTGGTACAAGGGTG
36848262 TCAGCCATCA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 1 0.02
55 45 0.76
56 13 0.22
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (55 bp):
AAATCTGGTACAAGGGTGAAGGCCATCAGTGTCCCAACACCCAAATGTTTTTTTT
Found at i:36859779 original size:27 final size:27
Alignment explanation
Indices: 36859749--36859814 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
36859739 ACGCCAATGG
36859749 CATTGGCGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
* * **
36859776 CATTGGCGGCAGCAATGGTGCCAATGC
1 CATTGGCGGCACCAAAGGTGCCAAAAC
36859803 CATTGGCGGCAC
1 CATTGGCGGCAC
36859815 TATTCGTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.15
Consensus pattern (27 bp):
CATTGGCGGCACCAAAGGTGCCAAAAC
Found at i:36860051 original size:3 final size:3
Alignment explanation
Indices: 36860043--36860088 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
36860033 TATTAGTTTG
36860043 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
36860089 GTTGTTGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:36860093 original size:3 final size:3
Alignment explanation
Indices: 36860087--36860124 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
36860077 ATTATTATTA
36860087 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
36860125 AGTANNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:36863759 original size:4 final size:4
Alignment explanation
Indices: 36863738--36863872 Score: 95
Period size: 4 Copynumber: 33.0 Consensus size: 4
36863728 CTCTTCTTCT
*
36863738 TTTC TTTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTCC TTT-
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C TTTC
*
36863784 TCTTC -TTC -TTC TTTC TTTC TTT- TTT- TTTC TCTTC -TCC TTTCC TTTTC
1 T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC
* *
36863831 TTTC CTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
36863873 CCTCTCCTTC
Statistics
Matches: 108, Mismatches: 8, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
3 18 0.17
4 64 0.59
5 19 0.18
6 7 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:36863763 original size:26 final size:26
Alignment explanation
Indices: 36863734--36863872 Score: 90
Period size: 26 Copynumber: 5.1 Consensus size: 26
36863724 TTCCCTCTTC
36863734 TTCTTTTCTTTTCTTTCCTTCTTTCT
1 TTCTTTTCTTTTCTTTCCTTCTTTCT
*
36863760 TTCTTTTTTCTTCTCTTTTCC-T-TTTC-
1 TTC--TTTTCTTTTC-TTTCCTTCTTTCT
* *
36863786 TTCTTCTTC-TTTCTTTCTTTTTTTTTCT
1 TTCTT-TTCTTTTCTTTC--CTTCTTTCT
36863814 CTTCTCCTTTCCTTTTCTTTCCTTCTTTCCT
1 -TTCT--TTT-CTTTTCTTTCCTTCTTT-CT
* * *
36863845 CTCCTTTC-TTTCTTTCTTTCTTTCT
1 TTCTTTTCTTTTCTTTCCTTCTTTCT
36863870 TTC
1 TTC
36863873 CCTCTCCTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.04
24 5 0.06
25 7 0.08
26 21 0.24
27 9 0.10
28 13 0.15
29 9 0.10
30 9 0.10
31 4 0.04
32 8 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTCTTTTCTTTTCTTTCCTTCTTTCT
Found at i:36863806 original size:40 final size:39
Alignment explanation
Indices: 36863729--36863842 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
36863719 ATTCCTTCCC
*
36863729 TCTTCTTCTTTT-CTTTTCTTTCCTTCTTTCTTTCTTTTT
1 TCTTC-TCTTTTCCTTTTCTTTTCTTCTTTCTTTCTTTTT
36863768 TCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTTTCTTTTT
1 TCTTCTCTTTTCCTTTTCTT-TTCTTCTTTCTTTCTTTTT
* * * *
36863808 TTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTC
1 TCTTCTCTTTTCCTTTTCTTTTC-TTCTTTCTTTC
36863843 CTCTCCTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
38 6 0.09
39 16 0.24
40 45 0.67
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (39 bp):
TCTTCTCTTTTCCTTTTCTTTTCTTCTTTCTTTCTTTTT
Found at i:36863858 original size:54 final size:55
Alignment explanation
Indices: 36863738--36863881 Score: 141
Period size: 54 Copynumber: 2.6 Consensus size: 55
36863728 CTCTTCTTCT
* ** * * * * * *
36863738 TTTCTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTTTCTTCTTCTTC
1 TTTC-TTTCTTTCTTTCTTTCTTTCCCTCTCCTTTTC-TTTCCTTCTCTTCCTCTCC
*
36863795 TTTCTTTCTTT-TTT-TTTCTCTTCTCCTTTCCTTTTCTTTCCTTCT-TTCCTCTCC
1 TTTCTTTCTTTCTTTCTTTCT-TTC-CCTCTCCTTTTCTTTCCTTCTCTTCCTCTCC
36863849 TTTCTTTCTTTCTTTCTTTCTTTCCCTCTCCTT
1 TTTCTTTCTTTCTTTCTTTCTTTCCCTCTCCTT
36863882 CTGCCCCCCA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
54 31 0.42
55 19 0.26
56 20 0.27
57 4 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (55 bp):
TTTCTTTCTTTCTTTCTTTCTTTCCCTCTCCTTTTCTTTCCTTCTCTTCCTCTCC
Found at i:36863883 original size:26 final size:26
Alignment explanation
Indices: 36863828--36863883 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
36863818 TCCTTTCCTT
* *
36863828 TTCTTTCCTTCTTTCCTCTCCTTTCT
1 TTCTTTCCTTCTTTCCTCTCCTCTCC
* *
36863854 TTCTTTCTTTCTTT-CTTTCCCTCTCC
1 TTCTTTCCTTCTTTCCTCT-CCTCTCC
36863880 TTCT
1 TTCT
36863884 GCCCCCCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (26 bp):
TTCTTTCCTTCTTTCCTCTCCTCTCC
Found at i:36863992 original size:27 final size:27
Alignment explanation
Indices: 36863919--36863993 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
36863909 TATTAACTGC
36863919 TGCCGCCAATACCGTATTGGCACCATTGG
1 TGCCGCCAAT-CC-TATTGGCACCATTGG
** * *
36863948 TGCCGCCAATGGTTTTGGCACCTTTGG
1 TGCCGCCAATCCTATTGGCACCATTGG
*
36863975 TGCCGCCAATCCCATTGGC
1 TGCCGCCAATCCTATTGGC
36863994 GTGACCAGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 28 0.74
29 10 0.26
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.27
Consensus pattern (27 bp):
TGCCGCCAATCCTATTGGCACCATTGG
Found at i:36865432 original size:21 final size:22
Alignment explanation
Indices: 36865390--36865432 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36865380 TTAAAATGAT
* *
36865390 AAAATTATAATTTTATTATTGA
1 AAAAATATAATTTAATTATTGA
36865412 AAAAATATAATTTAATT-TTGA
1 AAAAATATAATTTAATTATTGA
36865433 TCTCCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
AAAAATATAATTTAATTATTGA
Found at i:36869444 original size:22 final size:22
Alignment explanation
Indices: 36869401--36869465 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
36869391 TGCCAGTAGT
* *
36869401 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
36869423 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
36869445 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
36869466 GTACAGTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:36869542 original size:32 final size:32
Alignment explanation
Indices: 36869457--36869659 Score: 214
Period size: 32 Copynumber: 6.4 Consensus size: 32
36869447 GAATGGCTAC
* * *
36869457 AAGCCATAAGT-ACAGTAGTATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * **
36869488 AAGCCATCAGTAGCAATGATATGGCCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
36869520 CAA-CCATCAGTAACAGTAATATGATCGGTACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
*
36869552 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * ** *
36869584 AAGCTATAAGTAACGGTAATATGATTAGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
36869616 AAGCCATCAGTAA-TGATAATATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
36869648 AAGCCATCAGTA
1 AAGCCATCAGTA
36869660 GCATCCCAGC
Statistics
Matches: 141, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
31 13 0.09
32 126 0.89
33 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:36869714 original size:26 final size:26
Alignment explanation
Indices: 36869666--36869715 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36869656 AGTAGCATCC
**
36869666 CAGCAAAGCTGCCAGCGGCAGTATTG
1 CAGCAAAGCTGCCAGCAACAGTATTG
* *
36869692 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGCAACAGTAT
36869716 ATGTGGTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAACAGTATTG
Found at i:36869733 original size:27 final size:27
Alignment explanation
Indices: 36869703--36869759 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
36869693 AGCAAAGCTG
*
36869703 CCAGTAATAGT-ATATGTGGTCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
36869730 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
36869757 CCA
1 CCA
36869760 ATATAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:36869858 original size:24 final size:23
Alignment explanation
Indices: 36869831--36869912 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
36869821 CCAAGCTCAG
*
36869831 AATCAGTCATTCAAATCACAGACA
1 AATCAATCATTCAAA-CACAGACA
* *
36869855 AATCAATCATACCAAACACAGACG
1 AATCAATCAT-TCAAACACAGACA
* * *
36869879 AATCAATCATTTAACCACAGGCA
1 AATCAATCATTCAAACACAGACA
36869902 AATCAATCATT
1 AATCAATCATT
36869913 TGACCTCGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 19 0.39
24 26 0.53
25 4 0.08
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:36869989 original size:27 final size:27
Alignment explanation
Indices: 36869952--36870129 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
36869942 TCACTACGGC
* * *
36869952 ATTACGATCATTTTACCTTACATGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
36869979 ATTACAGTCATTCTACCCTACAATGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
36870006 ATTACGGTTATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
* * *
36870033 ATTATGGTTATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAAGGGT
* **
36870060 AATACGGTCATTTTACCCTACAAGGAC
1 ATTACGGTCATTTTACCCTACAAGGGT
36870087 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAAGGGT
*
36870114 ATTACAGTCATTTTAC
1 ATTACGGTCATTTTAC
36870130 AACCTTTTCG
Statistics
Matches: 127, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAAGGGT
Found at i:36872490 original size:25 final size:25
Alignment explanation
Indices: 36872461--36872508 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
36872451 GGACACACTA
36872461 CAGCTCGT-ATGAGCTTACCGATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTG
36872486 CAGCTCGTGAGAGCTTACCGATT
1 CAGCTCGTGAGAGCTTACCGATT
36872509 ATGAGCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCGATTTG
Found at i:36876626 original size:101 final size:101
Alignment explanation
Indices: 36876451--36876656 Score: 403
Period size: 101 Copynumber: 2.0 Consensus size: 101
36876441 TAGTCCCAAT
36876451 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
1 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
36876516 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
66 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
*
36876552 ATTTTTGAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
1 ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
36876617 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
66 TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
36876653 ATTT
1 ATTT
36876657 AGTTCATATT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (101 bp):
ATTTTTAAAATTTTAAATTTTTAGTCTTGATCCAAGCAGTATCAGTTAAATCCATCTGATTAAAT
TCAATTGCTAGTCCTATACTATGCTTACAATTGGAC
Found at i:36877073 original size:34 final size:34
Alignment explanation
Indices: 36877013--36877077 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
36877003 TTGCTCGAAC
* *
36877013 TTTTCATATCTTTGATTCAAGGTTTGATTGTAAG
1 TTTTCATATATTCGATTCAAGGTTTGATTGTAAG
*
36877047 TTTTCATATATTCGTTTC-AGGATTTGATTGT
1 TTTTCATATATTCGATTCAAGG-TTTGATTGT
36877078 CACTCAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (34 bp):
TTTTCATATATTCGATTCAAGGTTTGATTGTAAG
Found at i:36884701 original size:20 final size:21
Alignment explanation
Indices: 36884654--36884701 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
36884644 TCATGTTAGC
36884654 AATTAATTA-AATTTTAAATA
1 AATTAATTATAATTTTAAATA
36884674 AATT--TTATAACTTTT-AA-A
1 AATTAATTATAA-TTTTAAATA
36884692 AATTAATTAT
1 AATTAATTAT
36884702 TATCATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTAATTATAATTTTAAATA
Found at i:36888010 original size:16 final size:15
Alignment explanation
Indices: 36887989--36888027 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
36887979 CAACTAGCCA
*
36887989 AACCCAAGGCCCAAC
1 AACCCAAAGCCCAAC
36888004 TAACCCACAAGCCCAAC
1 -AACCCA-AAGCCCAAC
36888021 AACCCAA
1 AACCCAA
36888028 TAGACCTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.44, C:0.46, G:0.08, T:0.03
Consensus pattern (15 bp):
AACCCAAAGCCCAAC
Found at i:36888098 original size:13 final size:13
Alignment explanation
Indices: 36888080--36888115 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
36888070 AAACCCTAAC
*
36888080 GCCGCATCTAGGA
1 GCCGCACCTAGGA
36888093 GCCGCACCTAGGA
1 GCCGCACCTAGGA
36888106 GCCGCACCTA
1 GCCGCACCTA
36888116 TTGACCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.39, G:0.28, T:0.11
Consensus pattern (13 bp):
GCCGCACCTAGGA
Found at i:36888189 original size:20 final size:20
Alignment explanation
Indices: 36888151--36888189 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36888141 CGCCGGACAT
*
36888151 CCCATCCACGTCCATCGCCG
1 CCCATCCACGTCCACCGCCG
* *
36888171 CCCATCCACTTGCACCGCC
1 CCCATCCACGTCCACCGCC
36888190 ACCTGCAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.56, G:0.13, T:0.15
Consensus pattern (20 bp):
CCCATCCACGTCCACCGCCG
Found at i:36889952 original size:109 final size:109
Alignment explanation
Indices: 36889761--36890159 Score: 660
Period size: 109 Copynumber: 3.7 Consensus size: 109
36889751 NNNNNNNNNN
* ** * *
36889761 TTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTTGATTTTTCTCGTTCAACCAAATAGC
1 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
* * *
36889826 TAAGTATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGT
66 CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
36889870 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
1 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
36889935 CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
66 CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
36889979 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
1 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
36890044 CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
66 CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
* * * * *
36890088 TTAGAAATTCGAG-GAACGTGCCCTAATATGCTGGGTTTCGA--TTTCTCGTTTAACCAAATAGC
1 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
36890150 CAAATATCCT
66 CAAATATCCT
36890160 CTTAAATTTT
Statistics
Matches: 277, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
106 30 0.11
108 25 0.09
109 222 0.80
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (109 bp):
TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTCATTTAACCAAATAGC
CAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGT
Found at i:36898043 original size:54 final size:54
Alignment explanation
Indices: 36897975--36898085 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
36897965 ACAGAAGGAG
*
36897975 AACATGTGCGAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
1 AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
* * *
36898029 AACATGTGCAAGTCTTAAGAAAGTTGTTCTTAAGATTAAGAAAGTTTCAACTCA
1 AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
36898083 AAC
1 AAC
36898086 TTAATCCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (54 bp):
AACATGTGCAAGTCTTAAAAAAGTTGTTCTTAAAATTAAGAAAGTTCCAACTCA
Found at i:36901860 original size:46 final size:46
Alignment explanation
Indices: 36901793--36902186 Score: 590
Period size: 46 Copynumber: 8.6 Consensus size: 46
36901783 AGAACAGATT
* * * *
36901793 ATCGAATATAGCAGGTCTTGTCTCCCTGTATTTGGCAGCAGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
36901839 ATCGAAGATAGCAGATCTTGTCTCCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* * * *
36901885 ATTGAAGATAACAGATCTTGTCTCCCTGTATTTGGTAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
36901931 ATCAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
36901977 ATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGAAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
36902023 ATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
*
36902069 ATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* * * * *
36902115 ATAGAAGATAGTAGATCATGTCTTCCTGTATTTGGCAGTGAAGTAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
* *
36902161 ATCAAAGATAGCAGATCTTGTTTTCC
1 ATCGAAGATAGCAGATCTTGTCTTCC
36902187 AGTGAAGCAG
Statistics
Matches: 320, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 320 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
Found at i:36902322 original size:44 final size:44
Alignment explanation
Indices: 36902266--36902367 Score: 195
Period size: 44 Copynumber: 2.3 Consensus size: 44
36902256 AATCCTATCT
36902266 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
1 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
*
36902310 CCCTGAAGTTGCAGTGGAGTGCATTAAAATGATGAATCTCGTCC
1 CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
36902354 CCCTGAAGTTGCAG
1 CCCTGAAGTTGCAG
36902368 CAGAGTGGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGAAGTGCATTAAAATGATGAATCTCGTCC
Found at i:36902851 original size:20 final size:20
Alignment explanation
Indices: 36902813--36902851 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36902803 CGCCGGACGT
*
36902813 CCCATCCACATCCATCGCCG
1 CCCATCCACATCCACCGCCG
* *
36902833 CCCATCCACTTGCACCGCC
1 CCCATCCACATCCACCGCC
36902852 ACCTGCAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.56, G:0.10, T:0.15
Consensus pattern (20 bp):
CCCATCCACATCCACCGCCG
Found at i:36903841 original size:12 final size:12
Alignment explanation
Indices: 36903824--36903848 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36903814 AAATTTGATG
36903824 TTGTTATTATTA
1 TTGTTATTATTA
36903836 TTGTTATTATTA
1 TTGTTATTATTA
36903848 T
1 T
36903849 AATTGCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:36908351 original size:2 final size:2
Alignment explanation
Indices: 36908346--36908371 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36908336 TGTGTGTTTG
36908346 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
36908372 GTTTTGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36908644 original size:177 final size:178
Alignment explanation
Indices: 36908336--36908691 Score: 696
Period size: 177 Copynumber: 2.0 Consensus size: 178
36908326 TCTTTTTTTG
*
36908336 TGTGTGTTTGTATATATATATATATATATATATATAGTTTTGATTCTTTGATTTGCATAATCTCA
1 TGTGTGTGTGTATATATATATATATATATATATATAGTTTTGATTCTTTGATTTGCATAATCTCA
36908401 AATTGAACATTTGATCTTTCTGGTTTTTTTATCTTTTCCCCGTCTCATGAAATCTTTCAAATATT
66 AATTGAACATTTGATCTTTCTGGTTTTTTTATCTTTTCCCCGTCTCATGAAATCTTTCAAATATT
36908466 TTTACACGATTTTTTTGACATCAATTTTCCCCTGTTTCCTTTTAGTCC
131 TTTACACGATTTTTTTGACATCAATTTTCCCCTGTTTCCTTTTAGTCC
36908514 TGTGTGTGTGT-TATATATATATATATATATATATAGTTTTGATTCTTTGATTTGCATAATCTCA
1 TGTGTGTGTGTATATATATATATATATATATATATAGTTTTGATTCTTTGATTTGCATAATCTCA
36908578 AATTGAACATTTGATCTTTCTGGTTTTTTTATCTTTTCCCCGTCTCATGAAATCTTTCAAATATT
66 AATTGAACATTTGATCTTTCTGGTTTTTTTATCTTTTCCCCGTCTCATGAAATCTTTCAAATATT
36908643 TTTACACGATTTTTTTGACATCAATTTTCCCCTGTTTCCTTTTAGTCC
131 TTTACACGATTTTTTTGACATCAATTTTCCCCTGTTTCCTTTTAGTCC
36908691 T
1 T
36908692 TAGAAAATAA
Statistics
Matches: 177, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
177 167 0.94
178 10 0.06
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.51
Consensus pattern (178 bp):
TGTGTGTGTGTATATATATATATATATATATATATAGTTTTGATTCTTTGATTTGCATAATCTCA
AATTGAACATTTGATCTTTCTGGTTTTTTTATCTTTTCCCCGTCTCATGAAATCTTTCAAATATT
TTTACACGATTTTTTTGACATCAATTTTCCCCTGTTTCCTTTTAGTCC
Found at i:36908953 original size:3 final size:3
Alignment explanation
Indices: 36908945--36908976 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
36908935 TTCAGAAGCT
*
36908945 TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
36908977 TTTGTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:36924718 original size:13 final size:13
Alignment explanation
Indices: 36924682--36924721 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
36924672 GATTTTTATT
36924682 TGTTTTAATTTTA
1 TGTTTTAATTTTA
**
36924695 TAATTTAATTTTA
1 TGTTTTAATTTTA
*
36924708 TGTTTTTATTTTA
1 TGTTTTAATTTTA
36924721 T
1 T
36924722 TGTATCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TGTTTTAATTTTA
Found at i:36932056 original size:43 final size:43
Alignment explanation
Indices: 36931924--36932056 Score: 162
Period size: 43 Copynumber: 3.1 Consensus size: 43
36931914 AACATATACT
36931924 GAAGGAAAT-ATATTGGCACACATAGTGCATCATC-GAATAAACC
1 GAAGG-AATCATATTGGCACACATAGTGCATCATCAG-ATAAACC
** * * *
36931967 GAAACAATCATACTAGCACACATAGTGCATCTTCAGATAAACC
1 GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
* * *
36932010 GAAGGAATCATATTGGCACAAATAGTGTATCATCAGATAAATC
1 GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
36932053 GAAG
1 GAAG
36932057 CAAATAAATT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.04
43 71 0.95
44 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (43 bp):
GAAGGAATCATATTGGCACACATAGTGCATCATCAGATAAACC
Found at i:36933124 original size:11 final size:12
Alignment explanation
Indices: 36933085--36933173 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 12
36933075 TTCCCACTTC
*
36933085 ATTTGTTAATT-
1 ATTTATTAATTA
*
36933096 ATTTATTACTTA
1 ATTTATTAATTA
*
36933108 ACTT-TTAATTA
1 ATTTATTAATTA
36933119 ATTT-TTAATTA
1 ATTTATTAATTA
**
36933130 ATAAATTTAATTA
1 ATTTA-TTAATTA
36933143 AGGTTTATTTAATTA
1 A--TTTA-TTAATTA
* *
36933158 AATTATT-TTTA
1 ATTTATTAATTA
36933169 ATTTA
1 ATTTA
36933174 ACTAATACTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
11 34 0.56
12 5 0.08
13 11 0.18
15 11 0.18
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTTATTAATTA
Found at i:36933143 original size:24 final size:25
Alignment explanation
Indices: 36933111--36933161 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
36933101 TTACTTAACT
**
36933111 TTTAATTAATTTTTAATTAA-TAAA
1 TTTAATTAAGGTTTAATTAATTAAA
*
36933135 TTTAATTAAGGTTTATTTAATTAAA
1 TTTAATTAAGGTTTAATTAATTAAA
36933160 TT
1 TT
36933162 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTAATTAAGGTTTAATTAATTAAA
Found at i:36933546 original size:18 final size:18
Alignment explanation
Indices: 36933523--36933559 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36933513 TATGTCAAAT
36933523 TAAAATATAATAATTAAA
1 TAAAATATAATAATTAAA
36933541 TAAAATATAATAATTAAA
1 TAAAATATAATAATTAAA
36933559 T
1 T
36933560 CTTAAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATATAATAATTAAA
Found at i:36947742 original size:6 final size:6
Alignment explanation
Indices: 36947731--36947755 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36947721 AATAGGGATT
36947731 GGAAAG GGAAAG GGAAAG GGAAAG G
1 GGAAAG GGAAAG GGAAAG GGAAAG G
36947756 AGAATCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:36948837 original size:2 final size:2
Alignment explanation
Indices: 36948830--36948855 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36948820 GTGAATTGGT
36948830 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
36948856 AGATTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36951827 original size:22 final size:22
Alignment explanation
Indices: 36951793--36951834 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36951783 CTTCGTTGCT
*
36951793 TCTAGTATCGACATTCTCTGTC
1 TCTAGCATCGACATTCTCTGTC
*
36951815 TCTAGCATTGACATTCTCTG
1 TCTAGCATCGACATTCTCTG
36951835 CGAATTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (22 bp):
TCTAGCATCGACATTCTCTGTC
Found at i:36957485 original size:60 final size:60
Alignment explanation
Indices: 36957359--36957474 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
36957349 ATTTTTTTGA
** * ** * * *
36957359 AATTTTTAGAATTAGAGTTAAATTGACAAATTTTGTAAATGTTGAGGGTTAATTTTATTG
1 AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTATTG
* *
36957419 ATTTTTTAGAATTTGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTT
1 AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTT
36957475 GTTACATTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (60 bp):
AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAAGGGCTAAATTTATTG
Found at i:36962416 original size:82 final size:82
Alignment explanation
Indices: 36962325--36962490 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 82
36962315 CATTTGTTTC
* * *
36962325 GAAATTTAGATGTTTTTCATGGTATGAAGTTTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
*
36962390 TGAGTCCTTTCTTAAAA
66 CGAGTCCTTTCTTAAAA
36962407 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
*
36962472 CGAGTCCTTTGTTAAAA
66 CGAGTCCTTTCTTAAAA
36962489 GA
1 GA
36962491 TATGAGACTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (82 bp):
GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
CGAGTCCTTTCTTAAAA
Found at i:36964410 original size:28 final size:28
Alignment explanation
Indices: 36964365--36964439 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
36964355 TTTATATCAG
* *
36964365 ATTTATATTAAATGATAATGCAAAAT-T
1 ATTTATATTAAATAATAATGAAAAATAT
*
36964392 ATGTTATATTAAATAATAATTAAAAATAT
1 AT-TTATATTAAATAATAATGAAAAATAT
36964421 ATTTA-ATCTAAATAATAAT
1 ATTTATAT-TAAATAATAAT
36964440 AATAACAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.10
28 35 0.83
29 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTATATTAAATAATAATGAAAAATAT
Found at i:36970932 original size:53 final size:54
Alignment explanation
Indices: 36970822--36971263 Score: 437
Period size: 54 Copynumber: 8.2 Consensus size: 54
36970812 TTTTAACCAC
* * * *
36970822 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCGCCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * *
36970876 TTTAAGATCGCAGCCTTATACTTGA-AA-ATTTTTCGAATCTTGCGGTTTGTCGA
1 TTTAAGATCGCAACCTTATACTT-ACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * *
36970929 TTTAAGATTGCAATCTTATAATTTA-AAGATATTTC-AATCTTGGGGCTTGCCTA
1 TTTAAGATCGCAACCTTAT-ACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * **
36970982 TTTAAGATTGCAACATTATACTTACAGGATTTTTCGAATCTCGCGGTTTGTGGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * ** * **
36971036 TTTAAGATCACAACCTTATACTTACATGATTTTT-GAAATCTTATGGTTTTTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCG-AATCTTGCGGCTTGCCGA
* *
36971090 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATTTTGCGGCTTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * * ***
36971144 TTTAAGATCGTAACCTTATACTTTCGAGATTTTTTGAATCATGCGGCTTGTTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
* * * * *
36971198 TTTAAGATCCCAACCATATACTTACAAGATTTCTAGAATCTTGCAG-TTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
36971251 TTTAAGATCGCAA
1 TTTAAGATCGCAA
36971264 ATTTCTCATG
Statistics
Matches: 313, Mismatches: 68, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
52 4 0.01
53 95 0.30
54 213 0.68
55 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGCCGA
Found at i:36971585 original size:17 final size:17
Alignment explanation
Indices: 36971551--36971583 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36971541 TGAGTTCTAG
*
36971551 TAGCTATAGGTATCAAA
1 TAGCTATAGATATCAAA
36971568 TAGCTATAGAT-TCAAA
1 TAGCTATAGATATCAAA
36971584 ATTAGAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAGATATCAAA
Found at i:36972240 original size:5 final size:5
Alignment explanation
Indices: 36972230--36972263 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
36972220 GCCAAAGATG
*
36972230 TGAAT TGAAT TGAAT TGCAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
36972264 TTTTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:36979527 original size:25 final size:25
Alignment explanation
Indices: 36979498--36979561 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
36979488 ATTGACTCTT
*
36979498 ATGAGCTTCCCGTTATATAGCTCAA
1 ATGAGCTTCCCGTTACATAGCTCAA
* *
36979523 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATAGCTCAA
36979548 ATGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
36979562 TATGAACTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATAGCTCAA
Found at i:36979576 original size:25 final size:26
Alignment explanation
Indices: 36979492--36979593 Score: 95
Period size: 25 Copynumber: 4.0 Consensus size: 26
36979482 CCTGATATTG
*
36979492 ACTCTTATGAGCTTCCCGTTATAT-A
1 ACTCATATGAGCTTCCCGTTATATGA
* * *
36979517 GCTCAAATGAGCTTCCCGTTACATG-
1 ACTCATATGAGCTTCCCGTTATATGA
* *
36979542 GCTCACATGAGCTTCCCGTT-TATGA
1 ACTCATATGAGCTTCCCGTTATATGA
* *
36979567 ACTCGTATGAGCATTCCCG-GATATGA
1 ACTCATATGAGC-TTCCCGTTATATGA
36979593 A
1 A
36979594 TTGACAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.05
25 48 0.76
26 12 0.19
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (26 bp):
ACTCATATGAGCTTCCCGTTATATGA
Found at i:36988243 original size:43 final size:44
Alignment explanation
Indices: 36988093--36988275 Score: 225
Period size: 43 Copynumber: 4.2 Consensus size: 44
36988083 CTAACTTTTT
36988093 GCGGCGCTTATAGAAAA-AAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTA-AGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
* *
36988137 GCGGCGC-TAAGAAAATAAATGCGGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
*
36988180 GCGGCGC-TAAGATAATAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
** * * *
36988223 GCGGCGCTTTGGAAGA-AAACGCCGCGAATAG-T-AGTGTTATTTA
1 GCGGCGCTTAAGAAAATAAACGCCGCTAA-AGATCA-TGTTCTTTA
36988266 GCGGCGCTTA
1 GCGGCGCTTA
36988276 TTTCACAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
42 7 0.06
43 103 0.84
44 13 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
GCGGCGCTTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:36988742 original size:21 final size:21
Alignment explanation
Indices: 36988718--36988765 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
36988708 GCTTCTATCG
* *
36988718 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCCCTCGCTGCAGCAT
*
36988739 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCCCTCGCTGCAGCAT
36988760 CTGCTT
1 CTGCTT
36988766 TAAGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.40, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCAT
Found at i:37007994 original size:42 final size:42
Alignment explanation
Indices: 37007935--37008078 Score: 216
Period size: 42 Copynumber: 3.4 Consensus size: 42
37007925 NNNNNNNNNC
37007935 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA
* *
37007977 TAAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTA
* *
37008020 TAAGCGCTGCTAAAGAACATGATCTTTAGCGGCCTTTTTTTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA
*
37008062 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
37008079 TTAGCGACGT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 40 0.44
43 38 0.42
44 13 0.14
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA
Found at i:37008037 original size:43 final size:43
Alignment explanation
Indices: 37007934--37008078 Score: 220
Period size: 43 Copynumber: 3.4 Consensus size: 43
37007924 NNNNNNNNNN
37007934 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
* *
37007976 ATAAGCGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTTTT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
* *
37008019 CTAAGCGCTGCTAAAGAACATGATCTTTAGCGGCCTTTTTTTAT
1 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-T
* *
37008063 GTAAGCGCCGCAAAAG
1 CTAAGCGCCGCTAAAG
37008079 TTAGCGACGT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 33 0.36
43 45 0.49
44 14 0.15
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (43 bp):
CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
Found at i:37035182 original size:3 final size:3
Alignment explanation
Indices: 37035174--37035228 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
37035164 GAAGATGGCA
37035174 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
37035222 AAG AAG A
1 AAG AAG A
37035229 GGGTGAAGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37041200 original size:19 final size:19
Alignment explanation
Indices: 37041158--37041194 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37041148 ATATGTAAAT
37041158 TTTTTATTTTTTATTATAC
1 TTTTTATTTTTTATTATAC
37041177 TTTTTAGTTTTTT-TTATA
1 TTTTTA-TTTTTTATTATA
37041195 TATTTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTATTTTTTATTATAC
Found at i:37041477 original size:24 final size:23
Alignment explanation
Indices: 37041450--37041494 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
37041440 ATATTGTTCG
37041450 TGAACATGTTCAATTATATGTTTA
1 TGAACATGTTCAATTA-ATGTTTA
*
37041474 TGAACATGTTCATTTAATGTT
1 TGAACATGTTCAATTAATGTT
37041495 CGTAAACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
TGAACATGTTCAATTAATGTTTA
Found at i:37042084 original size:18 final size:17
Alignment explanation
Indices: 37042046--37042096 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
37042036 TATGAAACAT
* *
37042046 TTAAAAAATTAAAAATT
1 TTAAAAATTTAAAAATA
37042063 TTAAAAATTTAAAAATCA
1 TTAAAAATTTAAAAAT-A
*
37042081 TTAAAAATTTAGAAAT
1 TTAAAAATTTAAAAAT
37042097 TTTTTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATTTAAAAATA
Found at i:37042096 original size:8 final size:8
Alignment explanation
Indices: 37042044--37042098 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
37042034 ATTATGAAAC
37042044 ATTTAAAA
1 ATTTAAAA
*
37042052 AATTAAAA
1 ATTTAAAA
37042060 ATTTTAAAA
1 A-TTTAAAA
37042069 ATTTAAAA
1 ATTTAAAA
37042077 ATCATTAAAA
1 AT--TTAAAA
*
37042087 ATTTAGAA
1 ATTTAAAA
37042095 ATTT
1 ATTT
37042099 TTTGAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 26 0.63
9 7 0.17
10 8 0.20
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (8 bp):
ATTTAAAA
Found at i:37043733 original size:21 final size:21
Alignment explanation
Indices: 37043687--37043736 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37043677 TTGTGTTTAC
* *
37043687 TTTCTGTTTAGCTCTCACGAG
1 TTTCTGTTTAACTCACACGAG
*
37043708 CTTCTGTTTAACTCACATC-AG
1 TTTCTGTTTAACTCACA-CGAG
37043729 TTTCTGTT
1 TTTCTGTT
37043737 CAACCCTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCACACGAG
Found at i:37043802 original size:42 final size:42
Alignment explanation
Indices: 37043730--37043862 Score: 158
Period size: 42 Copynumber: 3.2 Consensus size: 42
37043720 TCACATCAGT
* ** *
37043730 TTCTGTTCAACCCTAATGGGTTTCCCTTCAGCTCTTTTGAGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* *
37043772 TTATGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * * * * *
37043814 TTCCGTTCAACCCTTACGAGTTTCTGTTTAGCACTTATGTGC
1 TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
37043856 TTCTGTT
1 TTCTGTT
37043863 TAGCCTTCAG
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
Found at i:37043808 original size:21 final size:21
Alignment explanation
Indices: 37043727--37043841 Score: 86
Period size: 21 Copynumber: 5.5 Consensus size: 21
37043717 AACTCACATC
*
37043727 AGTTTCTGTTCAACCCTAATG
1 AGTTTCTGTTCAACCCTTATG
* ** * * *
37043748 GGTTTCCCTTCAGCTCTTTTG
1 AGTTTCTGTTCAACCCTTATG
* * *
37043769 AGCTTATGTTTAACCCTTATG
1 AGTTTCTGTTCAACCCTTATG
* * *
37043790 GGTTTCTGTTCAGCTCTTATG
1 AGTTTCTGTTCAACCCTTATG
* * *
37043811 AGCTTCCGTTCAACCCTTACG
1 AGTTTCTGTTCAACCCTTATG
37043832 AGTTTCTGTT
1 AGTTTCTGTT
37043842 TAGCACTTAT
Statistics
Matches: 64, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (21 bp):
AGTTTCTGTTCAACCCTTATG
Found at i:37047635 original size:20 final size:20
Alignment explanation
Indices: 37047589--37047635 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
37047579 TAGGGACTAA
*
37047589 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAAATTTAAAATTT
*
37047609 ATGGAAAAAATTCT-AAATTT
1 ATTGAAAAAATT-TAAAATTT
*
37047629 TTTGAAA
1 ATTGAAA
37047636 TACATGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTGAAAAAATTTAAAATTT
Found at i:37048262 original size:74 final size:74
Alignment explanation
Indices: 37048163--37048304 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
37048153 ATCATGAGCA
* * * * * * *
37048163 TCTCGATATTTGGCTCTTATGAGCTTCCTGTTATATGATTTTTACGAGCTTCCCGTTTACGGCTC
1 TCTCGATAATTGACTCTTATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
37048228 TTCAGAGTT
66 TTCAGAGTT
* * *
37048237 TCTCGATAATTGACTCTTCA-GAGCTTCCTGATAAATGGCTCTTATGAGCTTCCCGTTAATGGCT
1 TCTCGATAATTGACTCTT-ATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCT
37048301 CTTC
65 CTTC
37048305 GGAGCTTCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 56 0.98
75 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (74 bp):
TCTCGATAATTGACTCTTATGAGCTTCCTGATAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
TTCAGAGTT
Found at i:37048269 original size:25 final size:24
Alignment explanation
Indices: 37048223--37048340 Score: 98
Period size: 25 Copynumber: 4.8 Consensus size: 24
37048213 TCCCGTTTAC
*
37048223 GGCTCTTCAGAG-TTTCTCGATAATT
1 GGCTCTTCAGAGCTTCCT-GATAA-T
*
37048248 GACTCTTCAGAGCTTCCTGATAAAT
1 GGCTCTTCAGAGCTTCCTGAT-AAT
* *
37048273 GGCTCTT-ATGAGCTTCCCGTTAAT
1 GGCTCTTCA-GAGCTTCCTGATAAT
* *
37048297 GGCTCTTCGGAGCTTCCTGTTACAT
1 GGCTCTTCAGAGCTTCCTGATA-AT
*
37048322 GGCTC-ACATGAGCTTCCTG
1 GGCTCTTCA-GAGCTTCCTG
37048341 GTATATGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
24 24 0.31
25 48 0.62
26 6 0.08
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
GGCTCTTCAGAGCTTCCTGATAAT
Found at i:37051852 original size:62 final size:63
Alignment explanation
Indices: 37051724--37051854 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 63
37051714 GTACACGCCT
* * * * * * *
37051724 GTGTCCCTGAACGTGTGGCTTTTATACCACAAACAATGAGTTACACGGCCTCGGCACTCGCTC
1 GTGTCCCTGAACGTGTGGCTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
** *
37051787 GTGTCCCTGGCCGTGTGGTCTTGT-T-CCACAAACAGTGAGTTACACGACCTAGACACACACCC
1 GTGTCCCTGAACGTGTGG-CTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
37051849 GTGTCC
1 GTGTCC
37051855 GTTGCCTGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
62 36 0.63
63 17 0.30
64 4 0.07
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (63 bp):
GTGTCCCTGAACGTGTGGCTTGTATACCACAAACAATGAGTTACACGACCTAGACACACACCC
Found at i:37057147 original size:30 final size:30
Alignment explanation
Indices: 37057080--37057345 Score: 284
Period size: 30 Copynumber: 8.7 Consensus size: 30
37057070 GTATATGTTT
*
37057080 TATATATTGTCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* *
37057110 TAAATATATTGCCGAATTAATTTATATAT--A
1 T--ATATATTGCCGAATTGATTTGTATATGGA
* *
37057140 TATATATAGCCGAATTGATTTGTATGTGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * **
37057170 TATACACTGTTGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
37057200 TATAAATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
37057230 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
37057260 TATACATTACCGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * * * **
37057290 TATATATTTCTGAAATGAATTGTATACGTATACA
1 TATATATTGCCGAATTG-ATT-TGTA--TATGGA
37057324 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
37057346 AGCATTGGAT
Statistics
Matches: 197, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 22 0.11
30 124 0.63
31 3 0.02
32 27 0.14
33 3 0.02
34 18 0.09
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:37064281 original size:30 final size:30
Alignment explanation
Indices: 37064241--37064508 Score: 290
Period size: 30 Copynumber: 8.9 Consensus size: 30
37064231 ATGTATTTCT
*
37064241 GAATTGATTTGTATATGGATATATATTGTCC
1 GAATTGATTTGTATATGGATATACATTG-CC
* ** *
37064272 -AATTAATTTGTATATATATATATATATATAGCC
1 GAATTGATTTG--TATATGGATATACAT-T-GCC
* ***
37064305 GAATTGATTTGTATATGAATATACATTATT
1 GAATTGATTTGTATATGGATATACATTGCC
*
37064335 GAATTGATTTGTTTATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
37064365 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
37064395 AAATTGATTTGTATATGGATATACATTACT
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
37064425 GAATTGATTTGTATATAGATATACATTACT
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
37064455 GAATTTATTTGTATATGTATATATATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
*
37064485 GAAATGATTTGTATAT-G-TATACAT
1 GAATTGATTTGTATATGGATATACAT
37064509 ATATATTGTC
Statistics
Matches: 201, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
28 6 0.03
30 156 0.78
31 1 0.00
32 25 0.12
33 3 0.01
34 10 0.05
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (30 bp):
GAATTGATTTGTATATGGATATACATTGCC
Found at i:37064428 original size:90 final size:90
Alignment explanation
Indices: 37064239--37064508 Score: 341
Period size: 90 Copynumber: 3.0 Consensus size: 90
37064229 TTATGTATTT
* *
37064239 CTGAATTGATTTGTATATGGATATATATTGTCC-AATTAATTTGTATATATATATATATATATAG
1 CTGAATTGATTTGTATATGGATATACATTG-CCGAATTAATTTG--TATATGTATATATAT-T-G
* *
37064303 CCGAATTGATTTGTATATGAATATACATTA
61 CCAAATTGATTTGTATATGGATATACATTA
* * * * *
37064333 TTGAATTGATTTGTTTATGGATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCAAA
1 CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCCAAA
37064398 TTGATTTGTATATGGATATACATTA
66 TTGATTTGTATATGGATATACATTA
* * * *
37064423 CTGAATTGATTTGTATATAGATATACATTACTGAATTTATTTGTATATGTATATATATTGCCGAA
1 CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCC-AA
37064488 A-TGATTTGTATAT-G-TATACAT
65 ATTGATTTGTATATGGATATACAT
37064509 ATATATTGTC
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
88 7 0.04
89 1 0.01
90 95 0.61
91 4 0.03
92 12 0.08
93 2 0.01
94 36 0.23
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (90 bp):
CTGAATTGATTTGTATATGGATATACATTGCCGAATTAATTTGTATATGTATATATATTGCCAAA
TTGATTTGTATATGGATATACATTA
Found at i:37064701 original size:43 final size:41
Alignment explanation
Indices: 37064654--37064768 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 41
37064644 AGTGATTTCA
37064654 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAA-T-AGAAAACG
* * **
37064697 TGTAAGACCATGTCTGGGACATTGGCATCGTATATAATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAATAGAAAACG
* *
37064738 TATAAGA-CATTGTCTGGGACAGTGGCATCGA
1 TGTAAGACCA-TGTCTGGGACATTGGCATCGA
37064769 TATGCGTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
40 2 0.03
41 30 0.47
42 1 0.02
43 31 0.48
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAATAGAAAACG
Found at i:37066354 original size:84 final size:85
Alignment explanation
Indices: 37066256--37066434 Score: 344
Period size: 84 Copynumber: 2.1 Consensus size: 85
37066246 TCTATATTCT
37066256 ATGTATAATATATATAAACATGAGTTTAGAATTAAAAAAATACTTTTTATTTTTCAGCATATTAC
1 ATGTATAATATATATAAACATGAGTTTAGAATTAAAAAAATACTTTTTATTTTTCAGCATATTAC
37066321 TAAATTCAT-TTTTAAAATA
66 TAAATTCATATTTTAAAATA
37066340 ATGTATAATATATATAAACATGAGTTTAGAATTAAAAAAATACTTTTTATTTTTCAGCATATTAC
1 ATGTATAATATATATAAACATGAGTTTAGAATTAAAAAAATACTTTTTATTTTTCAGCATATTAC
37066405 TAAATTCATATTTTAAAATA
66 TAAATTCATATTTTAAAATA
37066425 AT-TATAATAT
1 ATGTATAATAT
37066435 TTAATTTAGA
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 82 0.87
85 12 0.13
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.43
Consensus pattern (85 bp):
ATGTATAATATATATAAACATGAGTTTAGAATTAAAAAAATACTTTTTATTTTTCAGCATATTAC
TAAATTCATATTTTAAAATA
Found at i:37067907 original size:10 final size:10
Alignment explanation
Indices: 37067858--37067905 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
37067848 TAAATTCCCA
37067858 AAAGATAAAT
1 AAAGATAAAT
* ** *
37067868 ACATTTAATT
1 AAAGATAAAT
37067878 AAAGATAAAT
1 AAAGATAAAT
37067888 AAAGATAAAT
1 AAAGATAAAT
37067898 AAA-ATAAA
1 AAAGATAAA
37067906 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:37070537 original size:24 final size:23
Alignment explanation
Indices: 37070474--37070555 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
37070464 CTATATAATA
*
37070474 GGAAGCTCAGAAGAGCCATAATTG
1 GGAAGCTCAG-AGAGCCATAATGG
*
37070498 GGAAGCTCATGCGAGCC-TATATGG
1 GGAAGCTCA-GAGAGCCATA-ATGG
* **
37070522 GGAAGCTCCAGAGAGCAATTAATCA
1 GGAAGCT-CAGAGAGCCA-TAATGG
37070547 GGAAGCTCA
1 GGAAGCTCA
37070556 TAAAAGAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
23 2 0.04
24 31 0.66
25 12 0.26
26 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (23 bp):
GGAAGCTCAGAGAGCCATAATGG
Found at i:37073998 original size:18 final size:17
Alignment explanation
Indices: 37073977--37074019 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
37073967 AAAAAAATGT
37073977 TTTGAAATTGAATAATAA
1 TTTGAAA-TGAATAATAA
*
37073995 TTTGTAAATGAATAATAT
1 TTTG-AAATGAATAATAA
37074013 TTTGAAA
1 TTTGAAA
37074020 ACGAACGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTGAAATGAATAATAA
Found at i:37075351 original size:126 final size:126
Alignment explanation
Indices: 37075126--37075362 Score: 429
Period size: 126 Copynumber: 1.9 Consensus size: 126
37075116 TTCATAATCT
*
37075126 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATTTTAATAA
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
37075191 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
66 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
* * * *
37075252 CAATATAAGATCCATTATAAATATCTTTTAAAACCGATGGATTAACCATTACAAGATATTAATAT
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
37075317 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATT
66 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATT
37075363 AGAATATATT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 106 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (126 bp):
CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCAATACAAGATATTAATAA
ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTGGTATCTTTTAAAAC
Found at i:37079531 original size:15 final size:15
Alignment explanation
Indices: 37079511--37079541 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37079501 TCACTTTTCG
37079511 AGCCAACCTTCGTCT
1 AGCCAACCTTCGTCT
37079526 AGCCAACCTTCGTCT
1 AGCCAACCTTCGTCT
37079541 A
1 A
37079542 ATTATCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (15 bp):
AGCCAACCTTCGTCT
Found at i:37080476 original size:3 final size:3
Alignment explanation
Indices: 37080468--37080510 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
37080458 AGTACAAATG
37080468 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37080511 TATGAGACAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37083281 original size:283 final size:285
Alignment explanation
Indices: 37082773--37083328 Score: 1017
Period size: 283 Copynumber: 2.0 Consensus size: 285
37082763 AAATAATGGT
37082773 AATAATAATAATAAATAAAATCATGATATAGCATAATTTTTTTAAATAAAAAAATACAAATTAAA
1 AATAATAATAATAAATAAAATCATGATATAGCATAATTTTTTTAAATAAAAAAATACAAATTAAA
*
37082838 TCAATAAAGTAGCTAAAAAAACTAAATTGAACTTAAAAAGAAAAAAAAATGGGTAAATTTGAAGC
66 TAAATAAAGTAGCTAAAAAAACTAAATTGAACTTAAAAAGAAAAAAAAATGGGTAAATTTGAAGC
* *
37082903 AAATTAAAAGACAGGACCATGTTGAATGCGCGCACAACAGTGGATGACCAAAAAGGACATTATTC
131 AAATTAAAAGACAGGACCATGTTGAATGCGCGCACAACAATGGAGGACCAAAAAGGACATTATTC
*
37082968 CCACCTTCCAAAACGCTGCGCAGTGGGGGACCAAATTGAAACAAAAATAAAATATGTGGCCCAAA
196 CCACCTTCCAAAACGCTGCGCAGCGGGGGACCAAATTGAAACAAAAATAAAATATGTGGCCCAAA
37083033 -TTTAAAAAAAAATAGGTTTTAATC
261 TTTTAAAAAAAAATAGGTTTTAATC
*
37083057 AATAATAATAATAAATGAAATCATGATATAGCATAATTTTTTTAAATAAAAAAATACAAATTAAA
1 AATAATAATAATAAATAAAATCATGATATAGCATAATTTTTTTAAATAAAAAAATACAAATTAAA
*
37083122 TAAATAAAGTAGCTAAAAAATCTAAATTGAACTTAAAAAG-AAAAAAAATGGGTAAATTTGAAGC
66 TAAATAAAGTAGCTAAAAAAACTAAATTGAACTTAAAAAGAAAAAAAAATGGGTAAATTTGAAGC
*
37083186 AAATTAAAAGACAGGACCATGTTGAATGCGCGCACAACAATGGAGGACCAAAAGGGACATTATTC
131 AAATTAAAAGACAGGACCATGTTGAATGCGCGCACAACAATGGAGGACCAAAAAGGACATTATTC
*
37083251 CCACCTTCCAAAATGCTGCGCAGCGGGGGACCAAATTGAAACAAAAATAAAATATGTGGCCCAAA
196 CCACCTTCCAAAACGCTGCGCAGCGGGGGACCAAATTGAAACAAAAATAAAATATGTGGCCCAAA
*
37083316 TTTTTAAAAAAAA
261 TTTTAAAAAAAAA
37083329 CAAAACAGGT
Statistics
Matches: 262, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
283 149 0.57
284 113 0.43
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (285 bp):
AATAATAATAATAAATAAAATCATGATATAGCATAATTTTTTTAAATAAAAAAATACAAATTAAA
TAAATAAAGTAGCTAAAAAAACTAAATTGAACTTAAAAAGAAAAAAAAATGGGTAAATTTGAAGC
AAATTAAAAGACAGGACCATGTTGAATGCGCGCACAACAATGGAGGACCAAAAAGGACATTATTC
CCACCTTCCAAAACGCTGCGCAGCGGGGGACCAAATTGAAACAAAAATAAAATATGTGGCCCAAA
TTTTAAAAAAAAATAGGTTTTAATC
Found at i:37084726 original size:131 final size:133
Alignment explanation
Indices: 37084574--37084898 Score: 510
Period size: 131 Copynumber: 2.5 Consensus size: 133
37084564 TAGGATTGGT
* * * * *
37084574 GGCTTTAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
1 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTA
* *
37084639 CTGCTTAGGGAGACAAGATCTAAAATC-TTCAATCTATT-CGCTGCTGCCCAGGGAAGTAGAATT
66 CTGCTTAGGGAGACAAGATCTAAAATCTTTCAATCTATTCCACTGCTGACCAGGGAAGTAGAATT
37084702 ACC
131 ACC
* *
37084705 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACTA
1 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTA
* *
37084770 CTGCTTGGGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATT
66 CTGCTTAGGGAGACAAGATCTAAAATCTTTCAATCTATTCCACTGCTGACCAGGGAAGTAGAATT
* *
37084835 TCT
131 ACC
*
37084838 GGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
1 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
37084899 GCTGTTTATG
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 84 0.48
132 10 0.06
133 82 0.47
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (133 bp):
GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTA
CTGCTTAGGGAGACAAGATCTAAAATCTTTCAATCTATTCCACTGCTGACCAGGGAAGTAGAATT
ACC
Found at i:37084935 original size:133 final size:131
Alignment explanation
Indices: 37084573--37084944 Score: 480
Period size: 133 Copynumber: 2.8 Consensus size: 131
37084563 ATAGGATTGG
* * * * *
37084573 TGGCTTTAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * * *
37084638 ACTGCTT-AGGGAGACAAGATCTAAAATCTTCAATCTATT-CGCTGCTGCCCAGGGAAGTAGAAT
66 A-T-TTTGAGGGAGACAAGATCTAAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAAT
37084701 TAC
129 TAC
* * *
37084704 CGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
*
37084769 ACTGCTTG-GGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
66 A-T-TTTGAGGGAGACAAGATCTAAAATC-TTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
*
37084833 TTTC
128 TTAC
* *
37084837 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
* * * *
37084902 GTTTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCA
66 ATTT-TG-AGGGAGACAAGATCTAAAATCTTTAATCTATTCCA
37084945 NNNNNNNNNN
Statistics
Matches: 213, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
131 85 0.40
132 13 0.06
133 98 0.46
134 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
ATTTTGAGGGAGACAAGATCTAAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAATTA
C
Found at i:37096018 original size:66 final size:66
Alignment explanation
Indices: 37095909--37096041 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
37095899 CGATTCGATG
*
37095909 AATCCGGCGACTAGGTAAGTTCCCCTCCCCTTATTTTTATATTTTAAGCGAAAAAATAAATTAAA
1 AATCCAGCGACTAGGTAAGTTCCCCTCCCCTTATTTTTATATTTTAAGCGAAAAAATAAATTAAA
37095974 A
66 A
* *
37095975 AATCCAGCGAGTAGGTAAGTTCCCCTCCCCTTATTTTTTTATTTTAAGCGAAAAAATAAATTAAA
1 AATCCAGCGACTAGGTAAGTTCCCCTCCCCTTATTTTTATATTTTAAGCGAAAAAATAAATTAAA
37096040 A
66 A
37096041 A
1 A
37096042 CAAATAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (66 bp):
AATCCAGCGACTAGGTAAGTTCCCCTCCCCTTATTTTTATATTTTAAGCGAAAAAATAAATTAAA
A
Found at i:37097398 original size:56 final size:55
Alignment explanation
Indices: 37097315--37097421 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
37097305 CATACCTCTA
*
37097315 TAGGAAGTTTAATGTATATACAGTGGAAGAAGAGTAATACAAATTGTTTACAACTC
1 TAGGAAGTTTAATG-ATATACAGTGGAAGAAGAGGAATACAAATTGTTTACAACTC
37097371 TAGGAAGTTTAATG-TATACAGTCTGGAAGAAGAGGAATACAAATTGTTTAC
1 TAGGAAGTTTAATGATATACAG--TGGAAGAAGAGGAATACAAATTGTTTAC
37097422 TTTATTTCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
54 7 0.15
56 41 0.85
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (55 bp):
TAGGAAGTTTAATGATATACAGTGGAAGAAGAGGAATACAAATTGTTTACAACTC
Found at i:37105386 original size:7 final size:7
Alignment explanation
Indices: 37105374--37105398 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37105364 CTTTCATATT
37105374 TTCTTTA
1 TTCTTTA
37105381 TTCTTTA
1 TTCTTTA
37105388 TTCTTTA
1 TTCTTTA
37105395 TTCT
1 TTCT
37105399 CTCCATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:37109547 original size:3 final size:3
Alignment explanation
Indices: 37109539--37109607 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
37109529 GCACATTTTG
* * * * *
37109539 TTA TTA TTA TTC TCA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA
* *
37109586 TTT TTA TT- TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
37109608 TAATTAGTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:37111036 original size:2 final size:2
Alignment explanation
Indices: 37111031--37111056 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37111021 TCATTATTAT
37111031 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
37111057 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:37111061 original size:2 final size:2
Alignment explanation
Indices: 37111056--37111083 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37111046 ACACACACAC
37111056 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
37111084 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37113944 original size:23 final size:22
Alignment explanation
Indices: 37113913--37113961 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
37113903 TCCTTTTTGA
37113913 AAAAAAAAGAGAAATC-AAATAC
1 AAAAAAAAG-GAAATCGAAATAC
* *
37113935 GAAAACAAAGGCAATCGAAATAC
1 -AAAAAAAAGGAAATCGAAATAC
37113958 AAAA
1 AAAA
37113962 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.08
Consensus pattern (22 bp):
AAAAAAAAGGAAATCGAAATAC
Found at i:37131274 original size:534 final size:534
Alignment explanation
Indices: 37130266--37131333 Score: 2136
Period size: 534 Copynumber: 2.0 Consensus size: 534
37130256 CTTTTATAAT
37130266 TTCTTTGTATTAGCTATCATTTAGGTATACATAACACCATAACATGTTCTTAAATAGTCATTTCA
1 TTCTTTGTATTAGCTATCATTTAGGTATACATAACACCATAACATGTTCTTAAATAGTCATTTCA
37130331 ATAGCTAATCATTATTGAGTATTTCCATGCTATTCATTAGTCATACCATAAGAACACACACACTG
66 ATAGCTAATCATTATTGAGTATTTCCATGCTATTCATTAGTCATACCATAAGAACACACACACTG
37130396 TAACAGCCTGATTTTGGGTCTATTCGGAACAATGGTTTTGGGACCACAAATCCGACGAGGAAAAA
131 TAACAGCCTGATTTTGGGTCTATTCGGAACAATGGTTTTGGGACCACAAATCCGACGAGGAAAAA
37130461 TGTAATGGCTTGAATTTTCAGAGGTGTCTGAACGGTGATTCGATATCACTAAATTCGATAAATGG
196 TGTAATGGCTTGAATTTTCAGAGGTGTCTGAACGGTGATTCGATATCACTAAATTCGATAAATGG
37130526 GTAGAAAATATTATTAATTTAGTGAGTATAAGTTAAATGTGAAGTTAGGAAAATTTTTGAAATAG
261 GTAGAAAATATTATTAATTTAGTGAGTATAAGTTAAATGTGAAGTTAGGAAAATTTTTGAAATAG
37130591 TGAATAGTGCATTAGAAATAAATATTAAAATAATTAGAATCGAAAATGAGGTATCGAGACCTCGA
326 TGAATAGTGCATTAGAAATAAATATTAAAATAATTAGAATCGAAAATGAGGTATCGAGACCTCGA
37130656 GGATTTTAAACTTAGCCATAAATATTTTTATAAATATTTATGAAGGGTTAAAAAGTTAGTATTAA
391 GGATTTTAAACTTAGCCATAAATATTTTTATAAATATTTATGAAGGGTTAAAAAGTTAGTATTAA
37130721 AGTTTCGTTAAGAAATTTTAAAGTTCTGATAATTAATTGAACAAAAAGGACTAAATTGTAACAAA
456 AGTTTCGTTAAGAAATTTTAAAGTTCTGATAATTAATTGAACAAAAAGGACTAAATTGTAACAAA
37130786 TGCAAAATTATAGG
521 TGCAAAATTATAGG
37130800 TTCTTTGTATTAGCTATCATTTAGGTATACATAACACCATAACATGTTCTTAAATAGTCATTTCA
1 TTCTTTGTATTAGCTATCATTTAGGTATACATAACACCATAACATGTTCTTAAATAGTCATTTCA
37130865 ATAGCTAATCATTATTGAGTATTTCCATGCTATTCATTAGTCATACCATAAGAACACACACACTG
66 ATAGCTAATCATTATTGAGTATTTCCATGCTATTCATTAGTCATACCATAAGAACACACACACTG
37130930 TAACAGCCTGATTTTGGGTCTATTCGGAACAATGGTTTTGGGACCACAAATCCGACGAGGAAAAA
131 TAACAGCCTGATTTTGGGTCTATTCGGAACAATGGTTTTGGGACCACAAATCCGACGAGGAAAAA
37130995 TGTAATGGCTTGAATTTTCAGAGGTGTCTGAACGGTGATTCGATATCACTAAATTCGATAAATGG
196 TGTAATGGCTTGAATTTTCAGAGGTGTCTGAACGGTGATTCGATATCACTAAATTCGATAAATGG
37131060 GTAGAAAATATTATTAATTTAGTGAGTATAAGTTAAATGTGAAGTTAGGAAAATTTTTGAAATAG
261 GTAGAAAATATTATTAATTTAGTGAGTATAAGTTAAATGTGAAGTTAGGAAAATTTTTGAAATAG
37131125 TGAATAGTGCATTAGAAATAAATATTAAAATAATTAGAATCGAAAATGAGGTATCGAGACCTCGA
326 TGAATAGTGCATTAGAAATAAATATTAAAATAATTAGAATCGAAAATGAGGTATCGAGACCTCGA
37131190 GGATTTTAAACTTAGCCATAAATATTTTTATAAATATTTATGAAGGGTTAAAAAGTTAGTATTAA
391 GGATTTTAAACTTAGCCATAAATATTTTTATAAATATTTATGAAGGGTTAAAAAGTTAGTATTAA
37131255 AGTTTCGTTAAGAAATTTTAAAGTTCTGATAATTAATTGAACAAAAAGGACTAAATTGTAACAAA
456 AGTTTCGTTAAGAAATTTTAAAGTTCTGATAATTAATTGAACAAAAAGGACTAAATTGTAACAAA
37131320 TGCAAAATTATAGG
521 TGCAAAATTATAGG
37131334 AAATGATTAG
Statistics
Matches: 534, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
534 534 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (534 bp):
TTCTTTGTATTAGCTATCATTTAGGTATACATAACACCATAACATGTTCTTAAATAGTCATTTCA
ATAGCTAATCATTATTGAGTATTTCCATGCTATTCATTAGTCATACCATAAGAACACACACACTG
TAACAGCCTGATTTTGGGTCTATTCGGAACAATGGTTTTGGGACCACAAATCCGACGAGGAAAAA
TGTAATGGCTTGAATTTTCAGAGGTGTCTGAACGGTGATTCGATATCACTAAATTCGATAAATGG
GTAGAAAATATTATTAATTTAGTGAGTATAAGTTAAATGTGAAGTTAGGAAAATTTTTGAAATAG
TGAATAGTGCATTAGAAATAAATATTAAAATAATTAGAATCGAAAATGAGGTATCGAGACCTCGA
GGATTTTAAACTTAGCCATAAATATTTTTATAAATATTTATGAAGGGTTAAAAAGTTAGTATTAA
AGTTTCGTTAAGAAATTTTAAAGTTCTGATAATTAATTGAACAAAAAGGACTAAATTGTAACAAA
TGCAAAATTATAGG
Found at i:37133283 original size:58 final size:58
Alignment explanation
Indices: 37133193--37133530 Score: 438
Period size: 58 Copynumber: 6.1 Consensus size: 58
37133183 ACTTCTGATC
*
37133193 AGTGATAAGTTATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* *
37133251 AGTGATAACTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* *
37133309 AGTGATAAGTGATAAGTGGTAGC-TTAGCTACCCTTATCTGATAAGTGACAAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
37133366 AGTGATAAGTGATAAGTGATAGCTTCATCTACACTTATCTAATCA--G-C--G-G-CA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
*
37133417 AGTGATAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAGTGACAA--G-C-
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
37133471 --TG-CAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACAAGAGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
37133525 AGTGAT
1 AGTGAT
37133531 CATACGTAAG
Statistics
Matches: 246, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
50 27 0.11
51 59 0.24
52 4 0.02
53 2 0.01
54 1 0.00
55 3 0.01
56 3 0.01
57 54 0.22
58 93 0.38
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (58 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:37133304 original size:51 final size:50
Alignment explanation
Indices: 37133244--37133530 Score: 315
Period size: 51 Copynumber: 5.4 Consensus size: 50
37133234 ATCAGTGACA
*
37133244 AGTGACAAGTGATAACTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGAC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTG---A-T--C
*
37133301 AAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACCCTTATCTGATAAGTGAC
1 -AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTG---A-T--C
* * *
37133358 AAGTGACAAGTGATAAGTGATAAGTGATAGCTTCATCTACACTTATCTAATC
1 -AGTGACAAGTGATAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATC
* *
37133410 AGCGGCAAGTGATAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
*
37133461 AGTGACAAGCTG-CAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAG-TGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* *
37133511 AGGGACAAGAGATAAGTGAT
1 AGTGACAAGTGATAAGTGAT
37133531 CATACGTAAG
Statistics
Matches: 207, Mismatches: 18, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
49 1 0.00
50 35 0.17
51 67 0.32
52 5 0.02
54 1 0.00
55 1 0.00
57 56 0.27
58 41 0.20
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:37133385 original size:7 final size:7
Alignment explanation
Indices: 37133347--37133386 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
37133337 TACCCTTATC
37133347 TGATAAG
1 TGATAAG
*
37133354 TGACAAG
1 TGATAAG
*
37133361 TGACAAG
1 TGATAAG
37133368 TGATAAG
1 TGATAAG
37133375 TGATAAG
1 TGATAAG
37133382 TGATA
1 TGATA
37133387 GCTTCATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (7 bp):
TGATAAG
Found at i:37134002 original size:23 final size:23
Alignment explanation
Indices: 37133976--37134024 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
37133966 ATATTTTGAG
37133976 GATATATTGTGAAGATTTATAAA
1 GATATATTGTGAAGATTTATAAA
*
37133999 GATATATTGTGAAGATTTATTAA
1 GATATATTGTGAAGATTTATAAA
37134022 GAT
1 GAT
37134025 TATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (23 bp):
GATATATTGTGAAGATTTATAAA
Found at i:37134367 original size:12 final size:12
Alignment explanation
Indices: 37134352--37134390 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
37134342 ACTTTCTTCT
37134352 TTACTTAGTTT-C
1 TTACTT-GTTTAC
37134364 TTACTTGTTTAC
1 TTACTTGTTTAC
*
37134376 TTACTTGCTTAC
1 TTACTTGTTTAC
37134388 TTA
1 TTA
37134391 AATAACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (12 bp):
TTACTTGTTTAC
Found at i:37134376 original size:20 final size:20
Alignment explanation
Indices: 37134351--37134389 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37134341 TACTTTCTTC
* *
37134351 TTTACTTAGTTTCTTACTTG
1 TTTACTTACTTGCTTACTTG
37134371 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
37134390 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:37134760 original size:50 final size:50
Alignment explanation
Indices: 37134581--37134768 Score: 164
Period size: 50 Copynumber: 3.8 Consensus size: 50
37134571 ACATGTCAAA
* ** * * *
37134581 GCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAAT
* * * * * ** *
37134630 GCCATATCCCAAATATGATCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* *** *
37134680 GCCATGTCTCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
**
37134730 TTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
37134769 ACCTCACTTA
Statistics
Matches: 107, Mismatches: 30, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
48 1 0.01
49 31 0.29
50 75 0.70
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
Found at i:37134968 original size:22 final size:21
Alignment explanation
Indices: 37134921--37134964 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37134911 TCTACATTAA
* *
37134921 ATAATTTCATAAAATAAGTAC
1 ATAATTTCAGAAAATAAGCAC
37134942 ATAATTTCTAGAAAATAA-CAC
1 ATAATTTC-AGAAAATAAGCAC
37134963 AT
1 AT
37134965 TAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATTTCAGAAAATAAGCAC
Found at i:37135955 original size:30 final size:30
Alignment explanation
Indices: 37135916--37135982 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
37135906 CACATGCATC
37135916 CAATCAATAGGTAAATCATAAAAATTAATCA
1 CAAT-AATAGGTAAATCATAAAAATTAATCA
37135947 CAATAATAGGTAAATCATAAAAATTAATCA
1 CAATAATAGGTAAATCATAAAAATTAATCA
37135977 CAATAA
1 CAATAA
37135983 ACTTTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (30 bp):
CAATAATAGGTAAATCATAAAAATTAATCA
Found at i:37142313 original size:50 final size:50
Alignment explanation
Indices: 37142192--37142379 Score: 155
Period size: 50 Copynumber: 3.8 Consensus size: 50
37142182 ACATGCGAAA
* ** * * * *
37142192 GCCATGTCCCAGACATGTTCTTAC-GTGGGATGTTTCCTGTAC-TACCAAT
1 GCCATGTCCCAGACATGATCTTACAG-GGGACATCTCATATACGTGCCAAT
* * * * ** * *
37142241 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCAT
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
** * * * *
37142291 GCCATGTCTTAGACATGATCTTACGGGGGACCTCTCATCTCCGTGCCAAT
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
*
37142341 GCCATGTCCCAGACATGGTCTTACAGGGGACATCTCATA
1 GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATA
37142380 ACCTCAATAA
Statistics
Matches: 106, Mismatches: 31, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
49 31 0.29
50 75 0.71
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGATCTTACAGGGGACATCTCATATACGTGCCAAT
Found at i:37149516 original size:24 final size:24
Alignment explanation
Indices: 37149489--37149560 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 24
37149479 GGATTGCTCC
37149489 GAGTCATGTAGAAGCCATCTCGAT
1 GAGTCATGTAGAAGCCATCTCGAT
* * **
37149513 GAGTGA-GT-TAAG-TTTGCTC--T
1 GAGTCATGTAGAAGCCAT-CTCGAT
37149533 GAGTCATGTAGAAGCCATCTCGAT
1 GAGTCATGTAGAAGCCATCTCGAT
37149557 GAGT
1 GAGT
37149561 GAGTTAAGTC
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 12 0.35
23 3 0.09
24 10 0.29
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (24 bp):
GAGTCATGTAGAAGCCATCTCGAT
Found at i:37149545 original size:44 final size:44
Alignment explanation
Indices: 37149482--37149569 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
37149472 GCGTCAGGGA
37149482 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
1 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
*
37149526 TTGCTCTGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
1 TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
37149570 CGTACAAGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (44 bp):
TTGCTCCGAGTCATGTAGAAGCCATCTCGATGAGTGAGTTAAGT
Found at i:37150190 original size:21 final size:20
Alignment explanation
Indices: 37150162--37150229 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
37150152 ACAGCAAAAA
37150162 TTTC-CCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTT-TTGCTGG
* *
37150182 TTTCTCCCTTG-TTTACTGG
1 TTTCTCCCTCGTTTTGCTGG
* *
37150201 TTTGTCCCTCGTTTTTGCTAG
1 TTTCTCCCTCG-TTTTGCTGG
37150222 TTTCTCCC
1 TTTCTCCC
37150230 CTCTTTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.39
20 5 0.13
21 18 0.47
ACGTcount: A:0.03, C:0.31, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTCTCCCTCGTTTTGCTGG
Found at i:37150236 original size:21 final size:21
Alignment explanation
Indices: 37150162--37150241 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 21
37150152 ACAGCAAAAA
*
37150162 TTTC-CCCTCGTTCTTGCTGG
1 TTTCTCCCTCGTTTTTGCTGG
* *
37150182 TTTCTCCCT--TGTTTACTGG
1 TTTCTCCCTCGTTTTTGCTGG
* *
37150201 TTTGTCCCTCGTTTTTGCTAG
1 TTTCTCCCTCGTTTTTGCTGG
*
37150222 TTTCTCCCCTCTTTTTTGCT
1 TTTCT-CCCTCGTTTTTGCT
37150242 TTGTTCTTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 15 0.32
20 4 0.09
21 15 0.32
22 13 0.28
ACGTcount: A:0.03, C:0.30, G:0.15, T:0.53
Consensus pattern (21 bp):
TTTCTCCCTCGTTTTTGCTGG
Found at i:37150245 original size:40 final size:40
Alignment explanation
Indices: 37150166--37150245 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
37150156 CAAAAATTTC
* * * *
37150166 CCCTCGTTCTTGCTGGTTTCTCCCTTGTTTACTGGTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
* **
37150206 CCCTCGTTTTTGCTAGTTTCTCCCCTCTTTTTTGCTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
37150246 TCTTGGTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.16, T:0.53
Consensus pattern (40 bp):
CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
Found at i:37152601 original size:7 final size:6
Alignment explanation
Indices: 37152577--37152682 Score: 126
Period size: 6 Copynumber: 17.2 Consensus size: 6
37152567 TATTGTTGAT
37152577 AATGGG AATGGG AATGGG AAATGGG AAATGGG AATTGGG AAT-GG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG -AATGGG AA-TGGG AATGGG AATGGG
* * *
37152627 AATGGG AAATGGG AATGGG AATGGG AATGGG TAT-TG CATGGG AATGGG
1 AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG AATGGG AATGGG
37152675 AAATGGG A
1 -AATGGG A
37152683 GGAGAGAACG
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
5 8 0.09
6 50 0.56
7 31 0.35
ACGTcount: A:0.35, C:0.01, G:0.45, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:37152601 original size:13 final size:13
Alignment explanation
Indices: 37152577--37152682 Score: 121
Period size: 13 Copynumber: 8.1 Consensus size: 13
37152567 TATTGTTGAT
37152577 AATGGG-AATGGG
1 AATGGGAAATGGG
37152589 AATGGGAAATGGG
1 AATGGGAAATGGG
*
37152602 AAATGGGAATTGGG
1 -AATGGGAAATGGG
37152616 AAT-GG-AATGGG
1 AATGGGAAATGGG
37152627 AATGGGAAATGGG
1 AATGGGAAATGGG
37152640 AATGGG-AATGGG
1 AATGGGAAATGGG
*
37152652 AATGGGTATTGCATGGG
1 AATGGG-A---AATGGG
37152669 AATGGGAAATGGG
1 AATGGGAAATGGG
37152682 A
1 A
37152683 GGAGAGAACG
Statistics
Matches: 81, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
11 8 0.10
12 22 0.27
13 27 0.33
14 12 0.15
16 1 0.01
17 11 0.14
ACGTcount: A:0.35, C:0.01, G:0.45, T:0.19
Consensus pattern (13 bp):
AATGGGAAATGGG
Found at i:37152769 original size:7 final size:7
Alignment explanation
Indices: 37152757--37152787 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
37152747 GGCACGGTGG
37152757 AATGGGA
1 AATGGGA
37152764 AATGGGA
1 AATGGGA
37152771 AATGGG-
1 AATGGGA
37152777 AATGGGA
1 AATGGGA
37152784 AATG
1 AATG
37152788 AGAATGGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.16
Consensus pattern (7 bp):
AATGGGA
Found at i:37152780 original size:6 final size:6
Alignment explanation
Indices: 37152755--37152820 Score: 53
Period size: 7 Copynumber: 10.5 Consensus size: 6
37152745 AGGGCACGGT
* * * *
37152755 GGAATG GGAAATG GGAAATG GGAATG GGAAATG AGAATG GGTAT- TGCATG
1 GGAATG GG-AATG GG-AATG GGAATG GG-AATG GGAATG GGAATG GGAATG
37152805 GGAATG GGAAATG GGA
1 GGAATG GG-AATG GGA
37152821 GAAGGATACN
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 3 0.06
6 22 0.45
7 24 0.49
ACGTcount: A:0.36, C:0.02, G:0.44, T:0.18
Consensus pattern (6 bp):
GGAATG
Done.