Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 75 of 770
Found at i:22010933 original size:79 final size:82
Alignment explanation
Indices: 22010793--22010977 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
22010783 TCGAATGATG
* * *
22010793 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
22010857 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
22010873 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
22010935 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
22010953 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22010978 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:22010985 original size:40 final size:40
Alignment explanation
Indices: 22010794--22010985 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
22010784 CGAATGATGT
* * * * *
22010794 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
22010834 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
22010874 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
22010913 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
22010953 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
22010986 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:22011008 original size:79 final size:79
Alignment explanation
Indices: 22010793--22011010 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
22010783 TCGAATGATG
* * * * ** *
22010793 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
22010856 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
22010873 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
22010938 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
22010953 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
22011011 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:22013858 original size:41 final size:41
Alignment explanation
Indices: 22013759--22013851 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
22013749 TGCGGTTACT
* *
22013759 TGACAGCTTGTGTGAGCAGCACCATAGAGCTATGTTTGGAC
1 TGACAGCTTGTGTGAGCACCACCATAGAGCTATGTCTGGAC
* *
22013800 TGACAGCTTGTGTGAGCACCACCGTATAGCTATGTCTGGAC
1 TGACAGCTTGTGTGAGCACCACCATAGAGCTATGTCTGGAC
22013841 TGACAGCTTGT
1 TGACAGCTTGT
22013852 ACGAGCAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCACCACCATAGAGCTATGTCTGGAC
Found at i:22027880 original size:93 final size:93
Alignment explanation
Indices: 22027772--22027943 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22027762 CGCCCATAAG
22027772 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22027837 ACGAGTTCGGATGCCTAGTTACATATCA
66 ACGAGTTCGGATGCCTAGTTACATATCA
* * * *
22027865 CGAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
22027930 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
22027944 TCAAATATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATATCA
Found at i:22027939 original size:46 final size:46
Alignment explanation
Indices: 22027765--22027936 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
22027755 TGTAACCCGC
* * *
22027765 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
22027811 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* *
22027861 --ATCA-CGAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
22027904 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
22027937 TGGATGCTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 58 0.55
47 27 0.25
48 4 0.04
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:22033578 original size:44 final size:43
Alignment explanation
Indices: 22033528--22033681 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
22033518 TGTGTTATCG
*
22033528 TGTAAGACCATGTTTGGGACATTGGCATCGATTTGTGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATTT-TGATTTACA
** **
22033572 TGTAAGACCATGTCTGGGACATTGGCATCG-TAAATGATTT-TG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTTGATTTACA
* ** *
22033614 TGTAAGACCCTACCTGGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTTGATTTACA
* *
22033657 TGTAAGACCACGTTTGGGACATTGG
1 TGTAAGACCATGTCTGGGACATTGG
22033682 TATTGTACAA
Statistics
Matches: 88, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 28 0.32
43 31 0.35
44 29 0.33
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTTGATTTACA
Found at i:22036345 original size:34 final size:34
Alignment explanation
Indices: 22036262--22036353 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
22036252 GCATATTGTA
* *
22036262 CTGATTCTGTAATGGGCTTAGGCCCCACTGATAT
1 CTGATTCTGAAATGGGCTAAGGCCCCACTGATAT
* * *
22036296 -TG-TTATTGAAATGGGCTCAGGCCCACACT-ATTT
1 CTGATT-CTGAAATGGGCTAAGGCCC-CACTGATAT
22036329 CTGATTCTGAAATGGGCTAAGGCCC
1 CTGATTCTGAAATGGGCTAAGGCCC
22036354 TAACTGAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 2 0.04
33 21 0.44
34 23 0.48
35 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (34 bp):
CTGATTCTGAAATGGGCTAAGGCCCCACTGATAT
Found at i:22043649 original size:31 final size:31
Alignment explanation
Indices: 22043608--22043671 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22043598 CCTTTTCATA
*
22043608 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
22043639 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
22043670 TT
1 TT
22043672 ACGGTAAACG
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:22043917 original size:24 final size:24
Alignment explanation
Indices: 22043865--22044054 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
22043855 GCTTTATCAT
*
22043865 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
22043890 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
22043914 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
22043937 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22043961 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22043985 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
22044009 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
22044032 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22044055 TCACTTCCTC
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22043941 original size:47 final size:48
Alignment explanation
Indices: 22043864--22044055 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
22043854 TGCTTTATCA
* *
22043864 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
22043913 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
22043960 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
22044008 GATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
22044055 T
1 T
22044056 CACTTCCTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 69 0.52
48 50 0.38
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:22043965 original size:71 final size:72
Alignment explanation
Indices: 22043865--22044055 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
22043855 GCTTTATCAT
* *
22043865 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
22043929 GCCC-TTTA
64 GCCCTTTTA
* * *
22043937 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
22044002 CCTTTTG
66 CCTTTTA
*
22044009 ATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
22044056 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:22044126 original size:9 final size:9
Alignment explanation
Indices: 22044112--22044188 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
22044102 ATCTCGTGTG
22044112 CATATCATA
1 CATATCATA
*
22044121 CATATCATGTG
1 CATATCA--TA
22044132 CATATCATA
1 CATATCATA
* *
22044141 CATGTCATGTG
1 CATATCA--TA
22044152 CATATCATA
1 CATATCATA
*
22044161 CATATCATGTG
1 CATATCA--TA
22044172 CATATCATA
1 CATATCATA
22044181 CATATCAT
1 CATATCAT
22044189 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22044131 original size:20 final size:20
Alignment explanation
Indices: 22044108--22044190 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
22044098 GAACATCTCG
22044108 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
22044128 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
22044148 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22044168 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22044188 TGT
1 TGT
22044191 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:22044137 original size:11 final size:11
Alignment explanation
Indices: 22044108--22044179 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
22044098 GAACATCTCG
22044108 TGTGCATATCA
1 TGTGCATATCA
*
22044119 --TACATATCA
1 TGTGCATATCA
22044128 TGTGCATATCA
1 TGTGCATATCA
* *
22044139 --TACATGTCA
1 TGTGCATATCA
22044148 TGTGCATATCA
1 TGTGCATATCA
*
22044159 --TACATATCA
1 TGTGCATATCA
22044168 TGTGCATATCA
1 TGTGCATATCA
22044179 T
1 T
22044180 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:22045535 original size:27 final size:27
Alignment explanation
Indices: 22045514--22045936 Score: 469
Period size: 27 Copynumber: 15.7 Consensus size: 27
22045504 AAGGGTATTT
*
22045514 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045541 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045568 TAGTAATTCTATAAATCGAGCGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
22045595 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045622 TGGTAATTCTGTAAATCGAGGATAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
22045649 T-GATAATTATGTAAATTGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
** * *
22045676 CGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
** *
22045703 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045730 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045757 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
22045784 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
22045811 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
22045838 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * ** *
22045865 CAGTAATTTTACAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
22045892 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
22045919 TGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
22045937 GGAGTACTTT
Statistics
Matches: 343, Mismatches: 43, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 334 0.97
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:22045615 original size:81 final size:81
Alignment explanation
Indices: 22045516--22045936 Score: 519
Period size: 81 Copynumber: 5.2 Consensus size: 81
22045506 GGGTATTTTA
* * * *
22045516 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
* *
22045581 AATCGAGCGTAAAATG
66 AATCGAGGGTAAAACG
* * *
22045597 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAT-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTGT
* *
22045661 AAATTGGGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * *
22045678 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
* *
22045742 AAATCAAGGGTAAAACA
65 AAATCGAGGGTAAAACG
* *
22045759 ATAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
22045823 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * ** * * *
22045840 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
*
22045905 AA-CTGAGGGTAAAATG
66 AATC-GAGGGTAAAACG
22045921 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
22045937 GGAGTACTTT
Statistics
Matches: 293, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.01
81 287 0.98
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:22047451 original size:15 final size:16
Alignment explanation
Indices: 22047433--22047462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22047423 ATGGAAACTA
22047433 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
22047448 TGATATAATGAAATA
1 TGATATAATGAAATA
22047463 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:22057107 original size:7 final size:7
Alignment explanation
Indices: 22057095--22057121 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22057085 TCAAGTAATT
22057095 CATTTAA
1 CATTTAA
22057102 CATTTAA
1 CATTTAA
22057109 CATTTAA
1 CATTTAA
22057116 CATTTA
1 CATTTA
22057122 CTAATGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
CATTTAA
Found at i:22057293 original size:20 final size:20
Alignment explanation
Indices: 22057270--22057327 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
22057260 AGGAGCAGTG
*
22057270 ATGTGCAGACAGGGGCACAA
1 ATGTGCAAACAGGGGCACAA
* *
22057290 ATGTGCAAAAAGGGACACCAA
1 ATGTGCAAACAGGGGCA-CAA
* *
22057311 A-GTGTATACAGGGGCAC
1 ATGTGCAAACAGGGGCAC
22057328 TGAGGTGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.12
Consensus pattern (20 bp):
ATGTGCAAACAGGGGCACAA
Found at i:22058830 original size:29 final size:29
Alignment explanation
Indices: 22058790--22058845 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
22058780 CTATCGAAAT
22058790 ATGAAAAGGGATGATGACGACCATCAATA
1 ATGAAAAGGGATGATGACGACCATCAATA
*
22058819 ATGAAAAGGGATGGTGACGACCATCAA
1 ATGAAAAGGGATGATGACGACCATCAA
22058846 ATTATGATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (29 bp):
ATGAAAAGGGATGATGACGACCATCAATA
Found at i:22058934 original size:30 final size:30
Alignment explanation
Indices: 22058853--22058936 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
22058843 CAAATTATGA
* ** *
22058853 TCGGCTATCGAACTATGAAAAATGATGGCT
1 TCGGCTATCGAATTATGAAAAGGGATAGCT
* *
22058883 TCGGTTATCAAATTATGAAAAGGGATAGCT
1 TCGGCTATCGAATTATGAAAAGGGATAGCT
*
22058913 TCGGCTATTGAATTATGAAAAGGG
1 TCGGCTATCGAATTATGAAAAGGG
22058937 TGGTGACGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (30 bp):
TCGGCTATCGAATTATGAAAAGGGATAGCT
Found at i:22058980 original size:29 final size:28
Alignment explanation
Indices: 22058926--22058980 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
22058916 GCTATTGAAT
22058926 TATGAAAAGGGTGGTGACGACCATCAAC
1 TATGAAAAGGGTGGTGACGACCATCAAC
*
22058954 TATGAAAAGGGATGGTGACGACTATCA
1 TATGAAAAGGG-TGGTGACGACCATCA
22058981 TGATACCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGTGGTGACGACCATCAAC
Found at i:22063139 original size:45 final size:45
Alignment explanation
Indices: 22063088--22063215 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 45
22063078 CTTTACGCCT
* *
22063088 AAATGAGTAAGACCATAGCTAAAAGATGCTATGGTATCATGATGG
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGTATCATGATGA
* * *
22063133 AAATGAGCAAGACCAT-GACTGAAAGACGCTATGGCATCATGATGA
1 AAATGAGTAAGACCATAG-CTGAAAGATGCTATGGTATCATGATGA
* * * * *
22063178 AAAGGATTAAAACAATAGTTGAAAGATGCTATGGTATC
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGTATC
22063216 CTTCGAAAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.97
46 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGATGCTATGGTATCATGATGA
Found at i:22064238 original size:53 final size:54
Alignment explanation
Indices: 22064175--22064285 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 54
22064165 AGCATGGCTG
* *
22064175 CCAGAACAGATA-ATGTGACAGAGTCACAAGATACAGATAATCGTGGCAGAGCC-
1 CCAGAACAGATATATGTGACAGAGCCACAAGAT-CAAATAATCGTGGCAGAGCCA
* * * *
22064228 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACAAGATCAAATAATCGTGGCAGAGCCA
22064282 CCAG
1 CCAG
22064286 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 29 0.58
54 21 0.42
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACAAGATCAAATAATCGTGGCAGAGCCA
Found at i:22064246 original size:26 final size:26
Alignment explanation
Indices: 22064175--22064285 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
22064165 AGCATGGCTG
* *
22064175 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
22064201 CAAGATACAGATAATCGTGGCAGAGCC-
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
22064228 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
22064255 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22064282 CCAG
1 CCAG
22064286 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 23 0.32
27 41 0.56
28 9 0.12
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22070157 original size:28 final size:29
Alignment explanation
Indices: 22070090--22070190 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
22070080 ATAGTGAATC
*
22070090 CGCACACTTAGTGCTATATATATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
22070119 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
22070147 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
22070177 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22070191 CACTCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:22074070 original size:16 final size:16
Alignment explanation
Indices: 22074045--22074098 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
22074035 CAATCTTTAT
*
22074045 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
22074061 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
* *
22074077 TAAATCTTTATTTTTG
1 AAAATCTTTGTTTTTG
*
22074093 TAAATC
1 AAAATC
22074099 CATTTGACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:22075096 original size:27 final size:25
Alignment explanation
Indices: 22075061--22075172 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 25
22075051 AGCATGGCTG
*
22075061 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
*
22075087 CCAGATACAGATAATCGTGGCAGAGCTG
1 CCAGA-ACAGATAAT-GTGGCAGAGC-A
22075115 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAG-CA
* *
22075142 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAG-CA
22075169 CCAG
1 CCAG
22075173 GATGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:22075121 original size:54 final size:54
Alignment explanation
Indices: 22075057--22075162 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
22075047 ATGTAGCATG
*
22075057 GCTGCCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGA
1 GCTGCCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGA
* *
22075111 GCTGCCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCA
1 GCTGCCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCA
22075163 TAGCCACCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (54 bp):
GCTGCCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGA
Found at i:22075313 original size:26 final size:27
Alignment explanation
Indices: 22075277--22075340 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
22075267 AAAAGTAACC
** *
22075277 CTAGGGGTATAATGGTAATTTTGCAT-
1 CTAGGGGTATAACAGTAATTTTCCATA
22075303 CTAGGGGTATAACAGTAATTTTCCATA
1 CTAGGGGTATAACAGTAATTTTCCATA
22075330 CATAGGGGTAT
1 C-TAGGGGTAT
22075341 TCAAGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 1 0.03
28 9 0.27
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
CTAGGGGTATAACAGTAATTTTCCATA
Found at i:22089301 original size:39 final size:39
Alignment explanation
Indices: 22089201--22089311 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
22089191 TCGAATGATG
* *
22089201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTGACCAAA
* * **
22089241 TCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTGACCAAA
*
22089281 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG
22089312 CTATTATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 19 0.32
40 33 0.55
41 8 0.13
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:22097304 original size:40 final size:40
Alignment explanation
Indices: 22097221--22097373 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
22097211 TCGAATGATG
* *
22097221 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
22097261 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
22097301 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
22097342 T-CGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22097374 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 80 0.85
41 12 0.13
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:22099312 original size:19 final size:18
Alignment explanation
Indices: 22099290--22099330 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
22099280 TGTTTTAAAC
22099290 TTTAAAAT-TTGTTTATTAT
1 TTTAAAATATT-TTTATT-T
22099309 TTTAAAATATTTTTATTT
1 TTTAAAATATTTTTATTT
22099327 TTTA
1 TTTA
22099331 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTAAAATATTTTTATTT
Found at i:22101477 original size:72 final size:72
Alignment explanation
Indices: 22101371--22101510 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
22101361 ATTTACCCAG
* ** * * *
22101371 TTTTTTGGTAAAAGGGGTCAAATACATTCTAACCCCTAATACAATGGTCTTCATGGTACTTTTAC
1 TTTTTTAGTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTAC
22101436 CTAACTT
66 CTAACTT
* * *
22101443 TTTTTTAGTAAAAGAAGCCAAATATATTCCAACCCCTCATACAATTGCCTTCATGGTACTTTTAC
1 TTTTTTAGTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTAC
22101508 CTA
66 CTA
22101511 GCCAATATGT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (72 bp):
TTTTTTAGTAAAAGAAGCCAAATACATTCCAACCCCTAATACAATGGCCTTCATGGTACTTTTAC
CTAACTT
Found at i:22108282 original size:30 final size:29
Alignment explanation
Indices: 22108207--22108326 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
22108197 CACATACCTG
* * * *
22108207 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
22108235 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
22108264 TATATGGCCCCTTTAGGCCCAAATCACATT
1 TATATGG-CCCATTAGGCCCAAATCACATT
*
22108294 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
22108322 TATAT
1 TATAT
22108327 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 20 0.26
29 31 0.40
30 27 0.35
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:22117992 original size:51 final size:53
Alignment explanation
Indices: 22117906--22118084 Score: 144
Period size: 52 Copynumber: 3.5 Consensus size: 53
22117896 CGGATACTCG
* *
22117906 GTGGCCTGCACATAGTACCAC-CCTTGTAGTCAAAGCT-ACCATATTCACAAA
1 GTGGCCTTCACATAGTACCACACCTTGTACTCAAAGCTGACCATATTCACAAA
* * ** *
22117957 GTGGCCTTCGCATAGTACCACACC-TGTAACT-AAAGCTGTCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACCTTGT-ACTCAAAGCTGACCATATTCACAAA
* * * * *
22118009 GTGGCCTTCACATAGTACTACA-CTTGTGAC-CAAA-CT-ATC-TCTCCTCAAA
1 GTGGCCTTCACATAGTACCACACCTTGT-ACTCAAAGCTGACCATATTCACAAA
* *
22118058 GTGGTCTTCACATGGTACCACA-CTTGT
1 GTGGCCTTCACATAGTACCACACCTTGT
22118085 GTCCAAGCTA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 32 0.30
51 31 0.30
52 42 0.40
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (53 bp):
GTGGCCTTCACATAGTACCACACCTTGTACTCAAAGCTGACCATATTCACAAA
Found at i:22118163 original size:28 final size:28
Alignment explanation
Indices: 22118128--22118225 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
22118118 GAAATTTCTA
*
22118128 ACTTAGCACAATGCCATTGACTTATTTC
1 ACTTAGCACAATGCCATGGACTTATTTC
* * *
22118156 ACTTAGCACATTGCCGTGGACTCATTTC
1 ACTTAGCACAATGCCATGGACTTATTTC
22118184 ACTTAG----ATGCCATGGTA-TTATTTC
1 ACTTAGCACAATGCCATGG-ACTTATTTC
*
22118208 ACTTAGCACAATGTCATG
1 ACTTAGCACAATGCCATG
22118226 TCCTAGATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 19 0.33
25 1 0.02
28 37 0.65
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (28 bp):
ACTTAGCACAATGCCATGGACTTATTTC
Found at i:22120735 original size:42 final size:41
Alignment explanation
Indices: 22120625--22120789 Score: 150
Period size: 43 Copynumber: 3.9 Consensus size: 41
22120615 TTTCGTTATG
* * *
22120625 TGATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGACTTC
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC-A-TTT
* * *
22120668 TGTTTTATGTGTAACACCATGTCTGGGACATTGGCATCATATT
1 TGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCAT-TT
* * *
22120711 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTGATGTT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCA-TCAT-TT
* * * * *
22120754 TGATTACATGTAAGACCACGCCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
22120790 TGTATATGTT
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
42 27 0.27
43 45 0.45
44 27 0.27
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATTT
Found at i:22123870 original size:45 final size:45
Alignment explanation
Indices: 22123818--22123930 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
22123808 CTGATATTTT
22123818 AGCTCGTATGAGCTTACTGTTCAGCTTGATAGAGCTTACCGTTTC
1 AGCTCGTATGAGCTTACTGTTCAGCTTGATAGAGCTTACCGTTTC
*
22123863 AGCTCGTATGAGCTTACCGTTCAGCTTGATAGAGCTTACCGTTTC
1 AGCTCGTATGAGCTTACTGTTCAGCTTGATAGAGCTTACCGTTTC
* *
22123908 AACTCAT-TAGAGCTTACTGTTCA
1 AGCTCGTAT-GAGCTTACTGTTCA
22123931 TCAGCTCAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 62 0.98
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (45 bp):
AGCTCGTATGAGCTTACTGTTCAGCTTGATAGAGCTTACCGTTTC
Found at i:22123875 original size:23 final size:22
Alignment explanation
Indices: 22123818--22123930 Score: 115
Period size: 22 Copynumber: 5.0 Consensus size: 22
22123808 CTGATATTTT
*
22123818 AGCTCG-TATGAGCTTACTGTTC
1 AGCTCGATA-GAGCTTACCGTTC
*
22123840 AGCTTGATAGAGCTTACCGTTTC
1 AGCTCGATAGAGCTTACCG-TTC
22123863 AGCTCG-TATGAGCTTACCGTTC
1 AGCTCGATA-GAGCTTACCGTTC
*
22123885 AGCTTGATAGAGCTTACCGTTTC
1 AGCTCGATAGAGCTTACCG-TTC
* *
22123908 AACTC-ATTAGAGCTTACTGTTC
1 AGCTCGA-TAGAGCTTACCGTTC
22123930 A
1 A
22123931 TCAGCTCAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
22 39 0.50
23 39 0.50
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (22 bp):
AGCTCGATAGAGCTTACCGTTC
Found at i:22128304 original size:47 final size:47
Alignment explanation
Indices: 22128250--22128396 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
22128240 TTAGGATTTT
** * *
22128250 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
22128297 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
22128344 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
22128391 ATGTGA
1 ATGTGA
22128397 AATATGTATG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:22128352 original size:25 final size:25
Alignment explanation
Indices: 22128279--22128352 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
22128269 GTATATATGA
*
22128279 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
22128304 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
22128326 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
22128351 GA
1 GA
22128353 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:22128434 original size:48 final size:48
Alignment explanation
Indices: 22128366--22128698 Score: 515
Period size: 48 Copynumber: 6.8 Consensus size: 48
22128356 TGAACATGCA
22128366 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
22128414 TATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
22128462 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
22128510 TATATGTGGTAAAGCCAAATGGCTAACGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATG
*
22128562 TGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
22128610 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
22128660 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
22128699 GGCAATGTGT
Statistics
Matches: 260, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
47 1 0.00
48 168 0.65
49 5 0.02
50 43 0.17
51 2 0.01
52 41 0.16
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:22128586 original size:148 final size:150
Alignment explanation
Indices: 22128366--22128695 Score: 521
Period size: 148 Copynumber: 2.2 Consensus size: 150
22128356 TGAACATGCA
*
22128366 TATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATGTGGTAAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
* *
22128427 GCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGT
66 GCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGT
* *
22128491 G-AA-ATATGTATGAGATATT
130 GAAATATATATATGAGATATG
* * *
22128510 TATATGTGGTAAAGCCAAATGGCTAACGTGAAATATATATATATGAGATATGTGTATGTGGTAAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
22128575 GCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG
66 GCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG
22128640 AAATATATATATGAGATATG
131 AAATATATATATGAGATATG
*
22128660 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
22128696 GTAGGCAATG
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
144 28 0.17
146 1 0.01
147 1 0.01
148 88 0.52
149 3 0.02
150 47 0.28
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (150 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG
AAATATATATATGAGATATG
Found at i:22128604 original size:100 final size:98
Alignment explanation
Indices: 22128366--22128698 Score: 546
Period size: 100 Copynumber: 3.4 Consensus size: 98
22128356 TGAACATGCA
*
22128366 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
22128431 AATGGCTAATGTG-AA-ATATGTATGAGATATG
66 AATGGCTAATGTGAAATATATATATGAGATATG
* *
22128462 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATTTATATGTGGTAAAGCCA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
22128527 AATGGCTAACGTGAAATATATATATATGAGATATG
66 AATGGCTAATGTG-AA-ATATATATATGAGATATG
* *
22128562 TGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
22128627 AATGG-TCAATGTGAAATATATATATGAGATATG
66 AATGGCT-AATGTGAAATATATATATGAGATATG
*
22128660 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
22128699 GGCAATGTGT
Statistics
Matches: 220, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
96 74 0.34
98 56 0.25
99 4 0.02
100 86 0.39
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (98 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATATATATGAGATATG
Found at i:22128990 original size:37 final size:37
Alignment explanation
Indices: 22128845--22128989 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
22128835 GGAAATATAT
22128845 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
22128882 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
22128919 TCTGGGTATGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * **
22128956 TCCGGGTAAGATCCGATAACTTTGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
22128990 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:22130588 original size:93 final size:93
Alignment explanation
Indices: 22130476--22130647 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
22130466 CGCCCATAAG
* *
22130476 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22130541 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
22130569 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22130634 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
22130648 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:22130644 original size:46 final size:46
Alignment explanation
Indices: 22130469--22130644 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22130459 TGTCACCCGC
* * *
22130469 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
22130515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
22130565 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
22130608 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
22130645 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:22137047 original size:39 final size:39
Alignment explanation
Indices: 22136991--22137153 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
22136981 TGAGTATGAA
22136991 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
22137030 TGTGCGAATTGTAATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
22137069 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
22137108 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
22137148 TGTGCG
1 TGTGCG
22137154 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:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:22137169 original size:40 final size:39
Alignment explanation
Indices: 22136991--22137183 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
22136981 TGAGTATGAA
* *
22136991 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
22137030 TGTGCGAATTGTAATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
22137069 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
22137108 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
22137148 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
22137184 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:22139312 original size:47 final size:47
Alignment explanation
Indices: 22139239--22139461 Score: 213
Period size: 47 Copynumber: 4.7 Consensus size: 47
22139229 TAAGGTGCGA
* *
22139239 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCATATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCG
* *
22139286 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-AGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACATCTCAAGT-C-G
* * * * *
22139336 ATGCCATGTGCCAGACATGGTCTTCCACT-G-ACACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCG
* * ***
22139382 ATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTTGTCTCAACGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GTCG
* *
22139428 ATGCCATGTCCCAAATATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
22139462 TCATAATGTG
Statistics
Matches: 142, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
44 8 0.06
45 15 0.11
46 22 0.15
47 41 0.29
48 19 0.13
49 9 0.06
50 28 0.20
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCG
Found at i:22139512 original size:142 final size:141
Alignment explanation
Indices: 22139243--22139498 Score: 353
Period size: 142 Copynumber: 1.8 Consensus size: 141
22139233 GTGCGAATGC
* *
22139243 CATGTCCCAGACATGGTTTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTTTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTC
* *
22139308 TTACACTAGCTCTCACATATCAGTGCTGATGCCATGTGCCAGACATGGTCTTCCACTGACACATC
66 TTACACTAGCTCTCACATAT-AGTGCCGATGCCATGTGCCAGACATGGTCTTCCACTCACACATC
22139373 TCGTAGCCGATG
130 TCGTAGCCGATG
* * *
22139385 CATGTCCCAGACAT-GTTTTACACTAGCTCTTGTCTCAACGTCGATGCCATGTCCCAAATATGGT
1 CATGTCCCAGACATGGTTTTACACTAGCTCATATCTCAA-GTCGATGCCATGTCCCAAACATGGT
* *
22139449 CTTACACTGGCTCTCATA-AT-GTGCCCGATG-CATGT-CCTAGACAT-GTCTTC
65 CTTACACTAGCTCTCACATATAGTG-CCGATGCCATGTGCC-AGACATGGTCTTC
22139499 AACTAGCTCA
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
138 8 0.08
139 14 0.14
140 5 0.05
141 23 0.22
142 53 0.51
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACATGGTTTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTC
TTACACTAGCTCTCACATATAGTGCCGATGCCATGTGCCAGACATGGTCTTCCACTCACACATCT
CGTAGCCGATG
Found at i:22144430 original size:27 final size:28
Alignment explanation
Indices: 22144400--22144469 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22144390 ATAATAAGTC
*
22144400 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
22144427 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
22144455 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22144470 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22152509 original size:27 final size:28
Alignment explanation
Indices: 22152479--22152548 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22152469 ATAATAAGTC
*
22152479 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
22152506 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
22152534 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22152549 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22158295 original size:49 final size:49
Alignment explanation
Indices: 22158179--22158492 Score: 227
Period size: 46 Copynumber: 6.6 Consensus size: 49
22158169 GTAAGGGCCA
* * *
22158179 ATGCCATGTCCCAGACATGGTCTCACACTGGCTCAT-ATC-TC-AAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCATCGAAGCTG
* *
22158226 ATGACATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAAGCTG
* *
22158275 ACGCCATGTCCCAGACATGGTCTTACACT-AGCTATCA-CATATCCG-TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATC--AT-CGAAGCTG
* * **
22158325 ATGCCATGTCCCAGACATGGTCTTACACTGA-T-GCATC-TCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAAGCTG
* * * *
22158371 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-TCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CATCATCGAAGCTG
* * *
22158417 AT-ACATGTCCCAAACAT-GTCTTACACT-AGC-A-C-TCATCTGAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATCATC-GAA-GCTG
*
22158463 ATGCTATGTCCC-GAACATGGTCTTACACTG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTG
22158493 GCTCTCATAA
Statistics
Matches: 220, Mismatches: 25, Indels: 42
0.77 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 19 0.09
46 49 0.22
47 44 0.20
48 16 0.07
49 39 0.18
50 34 0.15
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAAGCTG
Found at i:22158346 original size:50 final size:47
Alignment explanation
Indices: 22158179--22158398 Score: 213
Period size: 49 Copynumber: 4.6 Consensus size: 47
22158169 GTAAGGGCCA
* * *
22158179 ATGCCATGTCCCAGACATGGTCTCACACTGGC--TCATATCTCAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTATCATATC-CGAGCTG
*
22158226 ATGACATGTCCCAGACATGGTCTTACACTGACTATCATCAT-CGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-CTATCAT-ATCCGA-GCTG
* *
22158275 ACGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTAT--CATATCCGAGCTG
* **
22158325 ATGCCATGTCCCAGACATGGTCTTACACTG--ATGCATCT-CGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGCTAT-CATATCCG-AGCTG
22158371 ATG-CATGTCCCAGACAT-GTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
22158399 GCTTACGTCT
Statistics
Matches: 150, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 10 0.07
47 30 0.20
48 2 0.01
49 39 0.26
50 37 0.25
51 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGCTATCATATCCGAGCTG
Found at i:22158518 original size:94 final size:92
Alignment explanation
Indices: 22158175--22158518 Score: 260
Period size: 94 Copynumber: 3.6 Consensus size: 92
22158165 ATGGGTAAGG
* * *
22158175 GCCAATGCCATGTCCCAGACATGGTCTCACACTGGC-TCAT-ATC-TCAAGTTGATGACATGTCC
1 GCCAATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATAATCGT--GGCTGATG-CATGTCC
* * *
22158237 CAGACATGGTCTTACACTGACTATCATCATCGAG
62 CAAACATGGTCTTACACTGA-T-GCATC-TCGAA
** * * *
22158271 GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGT-GCTGATGCCATGTC
1 GCCAATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCATA-AT-CGTGGCTGATG-CATGTC
* *
22158335 CCAGACATGGTCTTACACTGATGCATCTCGTA
61 CCAAACATGGTCTTACACTGATGCATCTCGAA
* * * * *
22158367 GCCAATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGT-CTCGAGGCCGATACATGTCCCAA
1 GCCAATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATAATCGTGGCTGATGCATGTCCCAA
22158430 ACAT-GTCTTACACT-A-GCACTCATCTGAA
65 ACATGGTCTTACACTGATGCA-TC-TC-GAA
*
22158458 CGCCGATGCTATGTCCC-GAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGT
1 -GCCAATGC-ATGTCCCAG-ACATGGTCTTACACTGGCT-TCATAATCGTGGCTGATGCATGT
22158519 TGAGACATGT
Statistics
Matches: 202, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
88 3 0.01
89 3 0.01
90 12 0.06
91 17 0.08
92 14 0.07
93 12 0.06
94 42 0.21
95 16 0.08
96 38 0.19
97 4 0.02
98 4 0.02
99 33 0.16
100 2 0.01
101 1 0.00
102 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGGTCTTACACTGGCTTCATAATCGTGGCTGATGCATGTCCCAAA
CATGGTCTTACACTGATGCATCTCGAA
Found at i:22167455 original size:64 final size:64
Alignment explanation
Indices: 22167378--22167569 Score: 141
Period size: 64 Copynumber: 3.1 Consensus size: 64
22167368 TAATGATTAT
22167378 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * ** * *** * *** * * *
22167442 TGATATGTTTGTGT-TCAG-CCTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
22167498 AT
63 AG
22167500 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
22167564 TGATAT
1 TGATAT
22167570 GTTTGTGTTC
Statistics
Matches: 82, Mismatches: 34, Indels: 24
0.59 0.24 0.17
Matches are distributed among these distances:
57 2 0.02
58 18 0.22
59 9 0.11
60 9 0.11
62 9 0.11
63 9 0.11
64 24 0.29
65 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (64 bp):
TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
Found at i:22167553 original size:122 final size:122
Alignment explanation
Indices: 22167227--22167687 Score: 832
Period size: 123 Copynumber: 3.8 Consensus size: 122
22167217 GAATTATGTG
22167227 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
22167292 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTG-TTCAGCCTTAGTAACGA
22167350 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
22167415 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
22167472 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
22167537 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTC-AGCCTTAGTAACGA
* * * * *
22167595 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
22167660 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
22167688 AATTATATCT
Statistics
Matches: 329, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
122 124 0.38
123 205 0.62
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (122 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
Found at i:22167659 original size:245 final size:245
Alignment explanation
Indices: 22167227--22167687 Score: 841
Period size: 245 Copynumber: 1.9 Consensus size: 245
22167217 GAATTATGTG
22167227 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
**
22167292 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAAGCCTTAGTAACGAAAATGAA
* * * *
22167357 ATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGT
131 ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
*
22167422 CCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
196 CCCGAAGACAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
22167472 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
22167537 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAAGCCTTAGTAACGAAAATGAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAAGCCTTAGTAACGAAAATGAA
*
22167602 ATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
131 ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
*
22167667 CCCGAAGACATTTATGCTAGT
196 CCCGAAGACAATTATGCTAGT
22167688 AATTATATCT
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (245 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCAAGCCTTAGTAACGAAAATGAA
ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
CCCGAAGACAATTATGCTAGTGATATGTTTGTGTTCAGCCTTAGTAACGA
Found at i:22167725 original size:40 final size:40
Alignment explanation
Indices: 22167656--22167878 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 40
22167646 TGAATGATAC
* * * * **
22167656 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
22167696 CTGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
* * *
22167736 CCAGGCTAATACCCGAAGGTATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
22167776 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
22167816 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
22167856 CCGGGCTAAGACCCGAGGGCATT
1 CCGGGCTAAGACCCGAAGGCATT
22167879 CATGCGTGTG
Statistics
Matches: 159, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 157 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:22169792 original size:40 final size:40
Alignment explanation
Indices: 22169727--22170010 Score: 365
Period size: 40 Copynumber: 7.1 Consensus size: 40
22169717 CGGAATACAA
* ** * * *
22169727 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
22169767 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
22169807 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
22169847 CTGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
22169887 CCAGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
22169927 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
22169967 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
22170007 CCGG
1 CCGG
22170011 GTATCATTCA
Statistics
Matches: 218, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
40 217 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:22170202 original size:123 final size:123
Alignment explanation
Indices: 22169979--22170440 Score: 825
Period size: 123 Copynumber: 3.8 Consensus size: 123
22169969 GGATATAATT
* * * * * * *
22169979 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
22170044 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
22170102 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
22170167 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
22170225 ACTAGCATAATTGCCTTCGAGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
22170290 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
22170348 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCT
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
22170413 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
22170441 CACATAATTC
Statistics
Matches: 326, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 326 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:22170224 original size:59 final size:59
Alignment explanation
Indices: 22170161--22170348 Score: 137
Period size: 59 Copynumber: 3.1 Consensus size: 59
22170151 ATACACACAT
22170161 ATATCAATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAAC
1 ATATCAATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAAC
* * * * * * * ** ** * ** * *
22170220 ATATCACTAGCATAATTGC-CTTCGAGACTTAGCCCGGGTACCATT-CAAATACTCATACACACA
1 ATATCAATA--ATCATTACACATCCATA-TT---TC-ATTTTCATTACTAAGGCTCAAACACAAA
*
22170283 T
59 C
*
22170284 ATATCAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAAC
1 ATATCAATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAAC
22170343 ATATCA
1 ATATCA
22170349 CTAGCATAAT
Statistics
Matches: 85, Mismatches: 35, Indels: 18
0.62 0.25 0.13
Matches are distributed among these distances:
58 4 0.05
59 28 0.33
60 5 0.06
61 8 0.09
62 8 0.09
63 5 0.06
64 22 0.26
65 5 0.06
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (59 bp):
ATATCAATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAAC
Found at i:22178659 original size:51 final size:51
Alignment explanation
Indices: 22178554--22178666 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
22178544 CTACCTTGTA
* * ** *
22178554 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAAATGCT
* *
22178605 ACATGTATCGCATCCATTATGAACTCGGACCACTCAACGAGCTCAAATGCT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAAATGCT
*
22178656 ACATATATCAC
1 ACATGTATCAC
22178667 GACCTCGGAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (51 bp):
ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCAAATGCT
Found at i:22182657 original size:40 final size:40
Alignment explanation
Indices: 22182549--22182658 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
22182539 ATTGAATGAT
* * * * *
22182549 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
22182589 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
22182629 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
22182659 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:22182673 original size:40 final size:39
Alignment explanation
Indices: 22182549--22182698 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
22182539 ATTGAATGAT
* * * * * * *
22182549 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
22182589 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
22182629 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
22182669 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
22182699 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:22190708 original size:40 final size:40
Alignment explanation
Indices: 22190600--22190709 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
22190590 ATTGAATGAT
* * * * *
22190600 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
22190640 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
22190680 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
22190710 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:22190724 original size:40 final size:39
Alignment explanation
Indices: 22190600--22190749 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
22190590 ATTGAATGAT
* * * * * * *
22190600 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
22190640 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
22190680 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
22190720 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
22190750 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:22193020 original size:15 final size:15
Alignment explanation
Indices: 22192991--22193043 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
22192981 GACAATAAGA
*
22192991 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
* *
22193006 CCATGATAAAAAAAT
1 CCAAGATAAAGAAAT
*
22193021 CCAAGATGAAGAAAT
1 CCAAGATAAAGAAAT
22193036 CCAAGATA
1 CCAAGATA
22193044 CGATACCGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.11, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:22196873 original size:76 final size:76
Alignment explanation
Indices: 22196747--22196888 Score: 194
Period size: 76 Copynumber: 1.9 Consensus size: 76
22196737 TGCATCCATT
* * * *
22196747 ATGAACTCAGACCACTCAACGAGCTCGGATTCTTACATCCATAATGAACTCGGACCACTCAACGA
1 ATGAACTCAGACCACTCAACGAGCTCGGATTCTCACATACATAACGAACTCAGACCACTCAACGA
22196812 GCTCATATATC
66 GCTCATATATC
** * * * *
22196823 ATGAACTTGGACCACTCAACGAGTTCGGATTCTCATATATATCACGAACTCAGACCACTCAACGA
1 ATGAACTCAGACCACTCAACGAGCTCGGATTCTCACATACATAACGAACTCAGACCACTCAACGA
22196888 G
66 G
22196889 ATCGAATTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 56 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (76 bp):
ATGAACTCAGACCACTCAACGAGCTCGGATTCTCACATACATAACGAACTCAGACCACTCAACGA
GCTCATATATC
Found at i:22198801 original size:29 final size:29
Alignment explanation
Indices: 22198771--22198894 Score: 160
Period size: 29 Copynumber: 4.3 Consensus size: 29
22198761 AAAGCATGTG
*
22198771 TATGAATGTGATTTGGGCCTAATGGGCTG
1 TATGAATGTGATTTGGGCCTAATGGGCTA
* *
22198800 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
* * *
22198829 TACGAATATGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
* *
22198858 TATGAATGAGA-TTGGGCCTAGTGGGCTA
1 TATGAATGTGATTTGGGCCTAATGGGCTA
*
22198886 TATGCATGT
1 TATGAATGT
22198895 ATGTAGACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 22 0.27
29 60 0.73
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCTA
Found at i:22203281 original size:45 final size:44
Alignment explanation
Indices: 22203201--22203292 Score: 175
Period size: 45 Copynumber: 2.1 Consensus size: 44
22203191 AAAAGATGTT
22203201 CATCACACATCAAACTTTATAATCTACCATGAAACATCAAAATA
1 CATCACACATCAAACTTTATAATCTACCATGAAACATCAAAATA
22203245 CATCACACATCAAACTTTCATAATCTACCATGAAACATCAAAATA
1 CATCACACATCAAACTTT-ATAATCTACCATGAAACATCAAAATA
22203290 CAT
1 CAT
22203293 GCACGTCACA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 18 0.38
45 29 0.62
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (44 bp):
CATCACACATCAAACTTTATAATCTACCATGAAACATCAAAATA
Found at i:22206569 original size:58 final size:58
Alignment explanation
Indices: 22206506--22206634 Score: 165
Period size: 56 Copynumber: 2.3 Consensus size: 58
22206496 TCCCAGACAG
* * *
22206506 GGTCTTACTCGCACACACATATAAT-TAAGTGACATATCAATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACACATAT-ATCGAACTCACATATCAATGCCAACATATTAAACGT
* * **
22206564 GGTCTTACTCG--CACACATATATCGGACTCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATATCGAACTCACATATCAATGCCAACATATTAAACGT
22206620 GGTCTTACTCGCACA
1 GGTCTTACTCGCACA
22206635 TTACATATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
55 2 0.03
56 46 0.75
58 13 0.21
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (58 bp):
GGTCTTACTCGCACACACATATATCGAACTCACATATCAATGCCAACATATTAAACGT
Found at i:22212378 original size:40 final size:40
Alignment explanation
Indices: 22212286--22212464 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
22212276 CGAATGGTAT
* * **
22212286 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGGGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
22212327 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
22212367 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
22212407 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
22212447 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
22212465 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 91 0.76
41 26 0.22
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:22212489 original size:80 final size:80
Alignment explanation
Indices: 22212320--22212490 Score: 182
Period size: 80 Copynumber: 2.1 Consensus size: 80
22212310 GTGCTAAGGG
* * * * * *
22212320 ACTAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
* * * *
22212385 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
22212400 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAA
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAA
*
22212464 GACAATCGAGCTAGTC
65 GACAATCGAGCGAGTC
* *
22212480 GCTATATCCGG
1 ACTAAATCCGG
22212491 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
79 2 0.03
80 72 0.97
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (80 bp):
ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:22219006 original size:27 final size:26
Alignment explanation
Indices: 22218971--22219082 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
22218961 AGCATGGCTG
* *
22218971 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22218997 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
22219025 CCATAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
22219052 CCAGATCAGAAAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22219079 CCAG
1 CCAG
22219083 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22219078 original size:54 final size:54
Alignment explanation
Indices: 22218975--22219081 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
22218965 TGGCTGCCAG
* * *
22218975 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAT
1 AACAGAAAATGTGACAGAGCCACCAGATACAGAAAATCGTGGCAGAGCCACCAT
* * *
22219029 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGAAAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGAAAATCGTGGCAGAGCCACCA
22219082 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGAAAATCGTGGCAGAGCCACCAT
Found at i:22220511 original size:24 final size:24
Alignment explanation
Indices: 22220484--22220554 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
22220474 CTATATTTCC
**
22220484 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
22220508 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
22220532 TCCCTTATCAACTCTTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
22220555 CTCCTGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:22220921 original size:18 final size:18
Alignment explanation
Indices: 22220887--22220921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22220877 AGGACATAGA
* *
22220887 ATTTTTAAATTTTCCAAC
1 ATTTTTAAAATTCCCAAC
22220905 ATTTTTAAAATTCCCAA
1 ATTTTTAAAATTCCCAA
22220922 AAATTGGGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTTAAAATTCCCAAC
Found at i:22223760 original size:20 final size:20
Alignment explanation
Indices: 22223735--22223801 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
22223725 ATTCTGATAT
*
22223735 ACATGATATGTATGATATGG
1 ACATGATATGTATGATATGC
22223755 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22223775 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22223795 ACATGAT
1 ACATGAT
22223802 GTATTCATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22223789 original size:9 final size:9
Alignment explanation
Indices: 22223737--22223793 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
22223727 TCTGATATAC
22223737 ATGATATGT
1 ATGATATGT
*
22223746 ATGATATGGAC
1 ATGATAT-G-T
22223757 ATGATATGT
1 ATGATATGT
*
22223766 ATGATATGCAC
1 ATGATATG--T
22223777 ATGATATGT
1 ATGATATGT
22223786 ATGATATG
1 ATGATATG
22223794 CACATGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 23 0.57
10 2 0.05
11 15 0.38
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:22223815 original size:40 final size:39
Alignment explanation
Indices: 22223735--22223815 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
22223725 ATTCTGATAT
* *
22223735 ACATGATATGTATGATATGGACATGATATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTATCATATGC
22223775 ACATGATATGTATGATATGCACATG-ATGTATTCATAATGC
1 ACATGATATGTATGATATGCACATGAATGTA-TCAT-ATGC
22223815 A
1 A
22223816 TTGGGATGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 29 0.78
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTATCATATGC
Found at i:22223909 original size:25 final size:25
Alignment explanation
Indices: 22223849--22223932 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
22223839 AGGAAGTACA
* *
22223849 AAAAGGGCTTTTGCCCTAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
*
22223874 GAAAAGGGCTTTTTCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
22223900 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
22223923 AAAAGAGGCT
1 AAAAG-GGCT
22223933 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.18
24 12 0.24
25 8 0.16
26 22 0.43
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:22223932 original size:24 final size:23
Alignment explanation
Indices: 22223849--22223946 Score: 79
Period size: 26 Copynumber: 4.0 Consensus size: 23
22223839 AGGAAGTACA
* *
22223849 AAAAGGGCTTTTGCCCTAGTTTACC
1 AAAAGGGC-TTTGCCCCAG-TTATC
*
22223874 GAAAAGGGCTTTTTCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAG-TTATC
*
22223900 AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTTGCCCCAGTTATC
**
22223923 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
22223947 ATGAGAAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
23 9 0.14
24 16 0.25
25 16 0.25
26 22 0.35
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:22224176 original size:31 final size:31
Alignment explanation
Indices: 22224141--22224203 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
22224131 GTTTACAGTG
22224141 AAGGCTTCGGCCCAGTA-ATATGAAATATGAA
1 AAGGCTTCGGCCCAG-AGATATGAAATATGAA
* *
22224172 AAGGCTTCGGCCTAGAGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGAGATATGAAATATGAA
22224203 A
1 A
22224204 TATGAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGAGATATGAAATATGAA
Found at i:22231839 original size:20 final size:20
Alignment explanation
Indices: 22231814--22231880 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
22231804 ATTCTGATAT
22231814 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22231834 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
22231854 ACAAGATATGTAAGATATGC
1 ACATGATATGTATGATATGC
22231874 ACATGAT
1 ACATGAT
22231881 GTATTAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22231841 original size:11 final size:11
Alignment explanation
Indices: 22231825--22231880 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
22231815 CATGATATGT
22231825 ATGATATGCAC
1 ATGATATGCAC
*
22231836 ATGATATG--T
1 ATGATATGCAC
22231845 ATGATATGCAC
1 ATGATATGCAC
* *
22231856 AAGATATGTA-
1 ATGATATGCAC
22231866 A-GATATGCAC
1 ATGATATGCAC
22231876 ATGAT
1 ATGAT
22231881 GTATTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
10 2 0.06
11 19 0.53
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22231894 original size:40 final size:39
Alignment explanation
Indices: 22231818--22231894 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
22231808 TGATATACAT
* *
22231818 GATATGTATGATATGCACATGATATGTATGATATGCACAA
1 GATATGTAAGATATGCACATGA-ATGTATAATATGCACAA
22231858 GATATGTAAGATATGCACATG-ATGTATTAATAATGCA
1 GATATGTAAGATATGCACATGAATGTA-TAAT-ATGCA
22231895 TTGGGATGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 5 0.15
39 3 0.09
40 25 0.76
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (39 bp):
GATATGTAAGATATGCACATGAATGTATAATATGCACAA
Found at i:22231964 original size:26 final size:25
Alignment explanation
Indices: 22231928--22231998 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
22231918 AGTAAGTGCA
22231928 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTACC
* *
22231953 GAAAAGGGCTTTTACCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTACC
*
22231979 AAAAGGGC-TTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCCAGTT
22231999 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.24
25 8 0.20
26 23 0.56
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTACC
Found at i:22251004 original size:51 final size:49
Alignment explanation
Indices: 22250949--22251082 Score: 144
Period size: 51 Copynumber: 2.7 Consensus size: 49
22250939 CTATCTGATA
**
22250949 GCATAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTCATTGAGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAAGT-A-TG-GTAC
* * * *
22251000 GCATAATGGCCTGCACTTAGTACTACACATGCGACTTAAAAGTATGGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGAC-TAAAAGTATGGTAC
* * *
22251050 ACGTAGTAGCATGCACTTAGTACTACACACGTG
1 GCATAGTAGCCTGCACTTAGTACTACACACGTG
22251083 TATTCACAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 30 0.44
51 32 0.47
52 1 0.01
53 5 0.07
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (49 bp):
GCATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAAGTATGGTAC
Found at i:22258253 original size:50 final size:49
Alignment explanation
Indices: 22258199--22258387 Score: 166
Period size: 50 Copynumber: 3.8 Consensus size: 49
22258189 AGCCGAAGCT
* * *
22258199 ATCTGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAAC
* * * * * * *
22258249 ATCTGATACACGTAGTAG-CTACACTTAATACTACACATGTGGTCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGT-GACTAA-AC
* * * *
22258299 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAC
* * *
22258348 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACAC
22258388 ATGTATTCAC
Statistics
Matches: 111, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 26 0.23
50 64 0.58
51 21 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAC
Found at i:22272837 original size:37 final size:37
Alignment explanation
Indices: 22272787--22272877 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
22272777 TTATTACGAA
22272787 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
22272824 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
22272861 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
22272878 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:22272972 original size:48 final size:48
Alignment explanation
Indices: 22272917--22273116 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
22272907 TGTTACAACA
*
22272917 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
22272965 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
22273013 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
22273061 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
22273109 TTCACATT
1 TTCACATT
22273117 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:22273131 original size:57 final size:49
Alignment explanation
Indices: 22273109--22273437 Score: 451
Period size: 47 Copynumber: 6.8 Consensus size: 49
22273099 ACACATATGT
*
22273109 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATATACC
*
22273158 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATACT-CT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA-TACC
* * * *
22273205 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATATACC
* * *
22273254 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATATACC
*
22273303 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATACT-CT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA-TACC
* *
22273350 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATAT--ATACT-CT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA-TACC
*
22273397 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
22273438 TACATCTCCT
Statistics
Matches: 266, Mismatches: 8, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
47 133 0.50
48 1 0.00
49 132 0.50
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATATACC
Found at i:22273155 original size:96 final size:98
Alignment explanation
Indices: 22273108--22273439 Score: 502
Period size: 96 Copynumber: 3.4 Consensus size: 98
22273098 CACACATATG
*
22273108 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATA-TTTCACATTCATCACA
22273173 -TCGGCCATTAGGCCTTATCACATATATAC--TC
65 TTCGGCCATTAGGCCTTATCACATATATACAATC
* *
22273204 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATA-TTTCACATTCATCACA
*
22273269 TT-GGCCATTAGGCCTTATCACATATATATACA-C
65 TTCGGCCATTAGGCCTTATCACATATATACA-ATC
* * *
22273302 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-CTCTTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATATTTCACATTCATCACAT
22273366 T-GGCCATTAGGCCTTATCACATATATAC--TC
66 TCGGCCATTAGGCCTTATCACATATATACAATC
*
22273396 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
22273440 CATCTCCTAC
Statistics
Matches: 219, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
94 43 0.20
96 132 0.60
97 1 0.00
98 43 0.20
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (98 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATATTTCACATTCATCACAT
TCGGCCATTAGGCCTTATCACATATATACAATC
Found at i:22273216 original size:47 final size:47
Alignment explanation
Indices: 22273108--22273440 Score: 540
Period size: 49 Copynumber: 7.0 Consensus size: 47
22273098 CACACATATG
* *
22273108 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA-CT-C
* *
22273157 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
*
22273204 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
*
22273253 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
* *
22273302 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
22273349 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
22273396 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
22273441 ATCTCCTACA
Statistics
Matches: 272, Mismatches: 10, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 135 0.50
48 1 0.00
49 136 0.50
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
Found at i:22273280 original size:145 final size:143
Alignment explanation
Indices: 22273108--22273439 Score: 619
Period size: 145 Copynumber: 2.3 Consensus size: 143
22273098 CACACATATG
* *
22273108 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
22273173 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
22273238 CACATATATATACAC
131 CAC--ATATATACAC
22273253 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
22273318 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
*
22273383 CACATATATACTC
131 CACATATATACAC
22273396 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
22273440 CATCTCCTAC
Statistics
Matches: 184, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 53 0.29
145 131 0.71
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATATATACAC
Found at i:22277121 original size:40 final size:40
Alignment explanation
Indices: 22277072--22277490 Score: 521
Period size: 40 Copynumber: 10.6 Consensus size: 40
22277062 CCAGCATGAT
* *
22277072 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277112 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277152 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACG-A
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277191 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277231 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277271 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
22277311 TGCTCTTCGGAATTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
22277350 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
** * * * * *
22277389 TTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
22277430 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
22277470 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
22277491 GTATCATTCA
Statistics
Matches: 342, Mismatches: 28, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
39 97 0.28
40 241 0.70
41 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:22277386 original size:79 final size:80
Alignment explanation
Indices: 22277072--22277373 Score: 556
Period size: 79 Copynumber: 3.8 Consensus size: 80
22277062 CCAGCATGAT
* **
22277072 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
22277137 CATCACTAGCACGAA
66 CATCACTAGCACGAA
22277152 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACG-ATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
22277216 CATCACTAGCACGAA
66 CATCACTAGCACGAA
22277231 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
22277296 CATCACTAGCACGAA
66 CATCACTAGCACGAA
22277311 TGCTCTTCGGAATTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
22277374 TAACCACAAG
Statistics
Matches: 218, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
78 7 0.03
79 118 0.54
80 93 0.43
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:22277386 original size:119 final size:119
Alignment explanation
Indices: 22277072--22277490 Score: 510
Period size: 119 Copynumber: 3.5 Consensus size: 119
22277062 CCAGCATGAT
* * *
22277072 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
*
22277137 CATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
* *
22277191 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
*
22277256 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG-A
*
22277311 TGCTCTTCGGAATTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * * ** * * * * *
22277374 TAACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
66 -CATCACTAGCACGAA-TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCAC-GA
** * ** *
22277430 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGG
22277491 GTATCATTCA
Statistics
Matches: 264, Mismatches: 27, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
118 37 0.14
119 191 0.72
120 36 0.14
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
Found at i:22279445 original size:37 final size:37
Alignment explanation
Indices: 22279395--22279485 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
22279385 TTATTACGAA
22279395 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
22279432 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
22279469 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
22279486 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:22279580 original size:48 final size:48
Alignment explanation
Indices: 22279525--22279724 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
22279515 TGTTACAACA
*
22279525 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
22279573 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
22279621 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* * *
22279669 TTCACATTAGCCATTCGGCTTTACCACATATGCATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
22279717 TTCACATT
1 TTCACATT
22279725 CATCACATCG
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:22279771 original size:47 final size:47
Alignment explanation
Indices: 22279716--22279998 Score: 478
Period size: 47 Copynumber: 6.0 Consensus size: 47
22279706 CACACATATG
*
22279716 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
22279763 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA-TAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACT-C
* *
22279810 ACTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 -TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
* *
22279860 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
22279907 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
22279954 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
22279999 ATCTCCTACA
Statistics
Matches: 224, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 143 0.64
48 36 0.16
49 36 0.16
50 8 0.04
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
Found at i:22279801 original size:144 final size:139
Alignment explanation
Indices: 22279717--22279997 Score: 400
Period size: 144 Copynumber: 2.0 Consensus size: 139
22279707 ACACATATGT
22279717 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
* * * *
22279782 GCCATTAGGCCTTATCACATATATATACACTTCACATTCATCACATTGGCCATTAGGCCTTATCA
66 GCCATTAGGCCTTATCAC----ATACACACATCACATT-ATCACATTAGCCATTAGGCCTTACCA
22279847 CATATATATACACC
126 CATATATATACACC
22279861 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
* * * * *
22279926 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
66 GCCATTAGGCCTTATCAC--ATACACAC-ATCACATT-ATCACATTAGCCATTAGGCCTTACCAC
22279991 ATATATA
127 ATATATA
22279998 CATCTCCTAC
Statistics
Matches: 135, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
142 9 0.07
143 43 0.32
144 83 0.61
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (139 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
GCCATTAGGCCTTATCACATACACACATCACATTATCACATTAGCCATTAGGCCTTACCACATAT
ATATACACC
Found at i:22284731 original size:31 final size:31
Alignment explanation
Indices: 22284696--22284757 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
22284686 GACACAGGGA
*
22284696 GTAGGAAGTAAGGAATTACTCAAGAGAAGCC
1 GTAGGAAGCAAGGAATTACTCAAGAGAAGCC
*
22284727 GTAGGAAGCAAGGAATTACTCAAGGGAAGCC
1 GTAGGAAGCAAGGAATTACTCAAGAGAAGCC
22284758 AATTGGTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.31, T:0.15
Consensus pattern (31 bp):
GTAGGAAGCAAGGAATTACTCAAGAGAAGCC
Found at i:22288791 original size:27 final size:29
Alignment explanation
Indices: 22288761--22288875 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
22288751 ACGCAAGAGC
*
22288761 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
22288788 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
22288817 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** *
22288847 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
22288876 GTACAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 43 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:22288828 original size:30 final size:29
Alignment explanation
Indices: 22288773--22288875 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
22288763 ATAGTGAATC
22288773 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
22288802 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
22288832 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
22288861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22288876 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:22288865 original size:59 final size:60
Alignment explanation
Indices: 22288772--22288905 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
22288762 TATAGTGAAT
* * *
22288772 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
22288831 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
22288891 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
22288906 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:22308209 original size:14 final size:14
Alignment explanation
Indices: 22308190--22308228 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
22308180 AAGCATGAAA
22308190 TCACTAAAATTAAT
1 TCACTAAAATTAAT
22308204 TCACTAAAATTAAT
1 TCACTAAAATTAAT
22308218 TCACTAAAATT
1 TCACTAAAATT
22308229 TTCATACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (14 bp):
TCACTAAAATTAAT
Found at i:22310636 original size:35 final size:35
Alignment explanation
Indices: 22310597--22310665 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
22310587 TAATAGTGAG
22310597 CTTTGGAGCTCTTTATAACTACGATAAAATTACTT
1 CTTTGGAGCTCTTTATAACTACGATAAAATTACTT
22310632 CTTTGGAGCTCTTTATAACTACGATAAAATTACT
1 CTTTGGAGCTCTTTATAACTACGATAAAATTACT
22310666 AACTTTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (35 bp):
CTTTGGAGCTCTTTATAACTACGATAAAATTACTT
Found at i:22310822 original size:6 final size:6
Alignment explanation
Indices: 22310802--22310841 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
22310792 TTAAGAAGAT
* *
22310802 AAATAA AGATAA AAATGA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
22310842 GTCTTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:22317567 original size:48 final size:48
Alignment explanation
Indices: 22317481--22317576 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
22317471 TATATATGTG
* *
22317481 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATT
1 TGGTAAAGCCGAATGGCTAATATGAGACACGTAGGAGATATGTATATT
* * *
22317529 TGGTAAAGCCGAATGGCTAATGTGCA-ATACGTAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AGACACGTAGGAGATATGTATATT
22317577 GTGGCCGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATATGAGACACGTAGGAGATATGTATATT
Found at i:22317756 original size:37 final size:37
Alignment explanation
Indices: 22317706--22317786 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
22317696 GGAAATATAT
* *
22317706 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
*
22317743 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
22317780 TCCGGGT
1 TCCGGGT
22317787 TAAAACCCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:22322946 original size:45 final size:45
Alignment explanation
Indices: 22322897--22323142 Score: 179
Period size: 45 Copynumber: 5.6 Consensus size: 45
22322887 GTGTTTCCGA
* *
22322897 GTAAGACCACGTCTGGGACGTTGGCATCGATATAAT-T-GTTTTCTT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATAT-ATGTGGTTAT-AT
* * * *
22322942 GTAAGACCACGTCTGGGATGTAGACATCGATCTATGTGGTTATAT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTATAT
* * **
22322987 GTAAGACCACATCTGGGACGTTGGCATCGATCTATGTGGTTACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTATAT
* * * * * **
22323032 GTAAGACCATGTCTGGAACATCGGCATCG-TAT-T-TGATTCGA-
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTATAT
* * * * *
22323073 GTAAGACC-CTATCTGGGACAG-TGGCATCG--ATATGAGATAACAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATATGTGGTTATAT
*
22323116 GTAAGACCACGTCTGGGATGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
22323143 TGTATGATAT
Statistics
Matches: 159, Mismatches: 33, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 23 0.14
42 9 0.06
43 22 0.14
44 5 0.03
45 94 0.59
46 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (45 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTATAT
Found at i:22327549 original size:47 final size:47
Alignment explanation
Indices: 22327480--22327819 Score: 572
Period size: 47 Copynumber: 7.1 Consensus size: 47
22327470 TATTAAAATT
*
22327480 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22327527 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
22327574 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22327621 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
22327668 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22327717 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
22327764 TATGAAGGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAG-A-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
22327813 TGTGAAA
1 TGTGAAA
22327820 CATATGTGTG
Statistics
Matches: 275, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 188 0.68
48 1 0.00
49 86 0.31
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:22327711 original size:96 final size:96
Alignment explanation
Indices: 22327490--22327819 Score: 601
Period size: 96 Copynumber: 3.5 Consensus size: 96
22327480 TGTGAAAGAG
22327490 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
* *
22327555 TAATGGCCGATGTGATGAATGTGAAAGAG--
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
22327584 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
22327649 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
22327680 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
* *
22327745 TAATGGCCGATGTGATGAATATGAAGGTATA
66 TAATGGCCGATGTGATGAATGTGAAGGTGTA
*
22327776 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
22327820 CATATGTGTG
Statistics
Matches: 229, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
94 92 0.40
96 137 0.60
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTGTA
Found at i:22327865 original size:48 final size:48
Alignment explanation
Indices: 22327811--22327914 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
22327801 CGATGTGATG
22327811 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
22327859 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
22327907 AATGTGAA
1 AATGTGAA
22327915 TGTTGTAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:22328007 original size:36 final size:36
Alignment explanation
Indices: 22327954--22328043 Score: 153
Period size: 37 Copynumber: 2.4 Consensus size: 36
22327944 AACTTGGAAA
*
22327954 TATGTTCCGGGTGAGACCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCGATGACTACGTGTGGAGAT
22327991 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGA-CCGATGACTACGTGTGGAGAT
22328028 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
22328044 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
36 11 0.22
37 40 0.78
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAAGACCGATGACTACGTGTGGAGAT
Done.