Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 62 of 182
Found at i:19046514 original size:30 final size:30
Alignment explanation
Indices: 19046450--19046514 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
19046440 TAAGGGAAAT
* * *
19046450 ATATATGTATGTATATACATAAAATTATGA
1 ATATATGAATATATATACATAAAATTATAA
*
19046480 ATATATGAATATATATATAT-AAATTATAA
1 ATATATGAATATATATACATAAAATTATAA
19046509 GATATA
1 -ATATA
19046515 AAATATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (30 bp):
ATATATGAATATATATACATAAAATTATAA
Found at i:19046918 original size:13 final size:13
Alignment explanation
Indices: 19046900--19046924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19046890 ATTATAAAAA
19046900 ATAAAAAAATAAG
1 ATAAAAAAATAAG
19046913 ATAAAAAAATAA
1 ATAAAAAAATAA
19046925 AAAAATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
ATAAAAAAATAAG
Found at i:19047062 original size:29 final size:27
Alignment explanation
Indices: 19047020--19047086 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
19047010 AAAAAAGAAA
*
19047020 AAAAAATATATATATATAGATATGTATAT
1 AAAAAATATATATATA-AG-TATATATAT
* * *
19047049 AAAAAGTATGTATATAAGTGTATATAT
1 AAAAAATATATATATAAGTATATATAT
19047076 -AAAAATATATA
1 AAAAAATATATA
19047087 AAAAACATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 9 0.28
27 7 0.22
28 2 0.06
29 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (27 bp):
AAAAAATATATATATAAGTATATATAT
Found at i:19047123 original size:3 final size:3
Alignment explanation
Indices: 19047115--19047173 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
19047105 ATATAAAAGA
19047115 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
19047163 AAC AAT AAT AA
1 AAT AAT AAT AA
19047174 AATGAAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19048296 original size:20 final size:21
Alignment explanation
Indices: 19048273--19048343 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
19048263 AATTTGGGCC
19048273 TTGGGT-TTGGGTTAGGCTAG
1 TTGGGTATTGGGTTAGGCTAG
** *
19048293 TTGGGTTATTGTTTTGGGCT-G
1 TTGGG-TATTGGGTTAGGCTAG
*
19048314 -AGGGT-TTGGGTTAGGCTAG
1 TTGGGTATTGGGTTAGGCTAG
19048333 TTGGGTATTGG
1 TTGGGTATTGG
19048344 AGATTTGGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
18 9 0.24
19 2 0.05
20 12 0.32
21 6 0.16
22 9 0.24
ACGTcount: A:0.10, C:0.04, G:0.44, T:0.42
Consensus pattern (21 bp):
TTGGGTATTGGGTTAGGCTAG
Found at i:19048391 original size:20 final size:20
Alignment explanation
Indices: 19048368--19048417 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
19048358 GTTTTTGTAC
19048368 TTGGGCCCTAGGTAAAAAAA
1 TTGGGCCCTAGGTAAAAAAA
19048388 TTGGGCCCTAGGTAAAAAAA
1 TTGGGCCCTAGGTAAAAAAA
19048408 TTGGGCCCTA
1 TTGGGCCCTA
19048418 CAGCTGCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (20 bp):
TTGGGCCCTAGGTAAAAAAA
Found at i:19049007 original size:44 final size:44
Alignment explanation
Indices: 19048959--19049096 Score: 154
Period size: 44 Copynumber: 3.1 Consensus size: 44
19048949 CAATGCAGGA
19048959 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCAAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCAAGAG
* * * * * * * * *
19049003 AGGCAAGGTTTG-TGTCTTCAATCTGCTTCGCTGTCAAGACAGGA-
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACT-ACAA-CCAAGAG
*
19049047 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCAAGAG
19049091 AGGCAA
1 AGGCAA
19049097 AGTTTGTGTC
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
43 19 0.27
44 32 0.45
45 20 0.28
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (44 bp):
AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCAAGAG
Found at i:19049021 original size:43 final size:43
Alignment explanation
Indices: 19048972--19049109 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
19048962 CAAGATCTGT
19048972 TGTCTTCAACCAGCTCCACTACAACCAAGAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCCACTACAACCAAGAGAGGCAAGGTTTG
* * * * * * * * *
19049015 TGTCTTCAATCTGCTTCGCTGTCAAGACAGGA-AGGCAAGATCTG
1 TGTCTTCAACCAGCTCCACT-ACAA-CCAAGAGAGGCAAGGTTTG
* *
19049059 TTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAAGTTTG
1 -TGTCTTCAACCAGCTCCACTACAACCAAGAGAGGCAAGGTTTG
19049103 TGTCTTC
1 TGTCTTC
19049110 GACCTGCTTC
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 26 0.37
44 25 0.35
45 20 0.28
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCACTACAACCAAGAGAGGCAAGGTTTG
Found at i:19049031 original size:88 final size:88
Alignment explanation
Indices: 19048915--19049146 Score: 358
Period size: 88 Copynumber: 2.6 Consensus size: 88
19048905 CAGTACAGGA
** * *
19048915 AGGCAAGACTTGTGTTTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
19048980 ACCAGCTCCACTACAACCAAGAG
66 ACCAGCTCCACTACAACCAAGAG
*
19049003 AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAA-GACAGGAAGGCAAGATCTGTTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATG-CAGGAAGGCAAGATCTGTTGTCTTC
*
19049067 AACCAGCTCCACTACAACCGAGAG
65 AACCAGCTCCACTACAACCAAGAG
* * * *
19049091 AGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
19049147 CTATATTCAC
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 130 0.99
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (88 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
ACCAGCTCCACTACAACCAAGAG
Found at i:19050147 original size:42 final size:42
Alignment explanation
Indices: 19050076--19050191 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
19050066 GGTATAGCAA
* * *
19050076 GATCACCACATGCCCCAATTTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATACCCCAATTTGATCAAAATTTAAGCTGCTCT
* * *
19050118 GATTACCTCATACCCCAATCTGATCAAAATTTAAGCTGTTCT
1 GATCACCTCATACCCCAATTTGATCAAAATTTAAGCTGCTCT
* *
19050160 GATCGCCTCATGCCCCAATTTGATCCAAAATT
1 GATCACCTCATACCCCAATTTGAT-CAAAATT
19050192 GGAGTCGCCC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 56 0.89
43 7 0.11
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (42 bp):
GATCACCTCATACCCCAATTTGATCAAAATTTAAGCTGCTCT
Found at i:19050285 original size:6 final size:6
Alignment explanation
Indices: 19050274--19050322 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
19050264 GCCTCTCCTT
*
19050274 TTTTTC TTTTTC TTTTTTC TTCTTC TTTTTCC TTCTTT- TTTTTC TTTTT
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTT-C TT-TTTC TTTTTC TTTTT
19050323 TCAATCTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 3 0.08
6 22 0.59
7 9 0.24
8 3 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:19050291 original size:13 final size:13
Alignment explanation
Indices: 19050273--19050319 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
19050263 GGCCTCTCCT
*
19050273 TTTTTTCTTTTTC
1 TTTTTTCTTCTTC
19050286 TTTTTTCTTCTTC
1 TTTTTTCTTCTTC
*
19050299 TTTTTCCTTCTT-
1 TTTTTTCTTCTTC
19050311 TTTTTTCTT
1 TTTTTTCTT
19050320 TTTTCAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 8 0.26
13 23 0.74
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:19050301 original size:19 final size:19
Alignment explanation
Indices: 19050272--19050322 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
19050262 TGGCCTCTCC
19050272 TTTTTTTCTTTTT-CTT-T
1 TTTTTTTCTTTTTCCTTCT
19050289 TTTCTTCTTCTTTTTCCTTCT
1 TTT-TT-TTCTTTTTCCTTCT
19050310 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
19050323 TCAATCTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.10
18 2 0.07
19 16 0.53
20 5 0.17
21 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTCTTTTTCCTTCT
Found at i:19053849 original size:20 final size:20
Alignment explanation
Indices: 19053812--19053850 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19053802 CCTAATTACA
*
19053812 CCTAGCCCAACTAGCCTAAG
1 CCTAGCCCAACTACCCTAAG
19053832 CCTAGCCCAA-TAACCCTAA
1 CCTAGCCCAACT-ACCCTAA
19053851 ATCATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.41, G:0.10, T:0.15
Consensus pattern (20 bp):
CCTAGCCCAACTACCCTAAG
Found at i:19055054 original size:24 final size:24
Alignment explanation
Indices: 19054994--19055071 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
19054984 ATGTACATTC
*
19054994 TTTTAAATCTGTTATGTA-TGATTG
1 TTTTAAATCTATTATGTATTG-TTG
* *
19055018 TTTTAATTTTATTATGTATTGTTG
1 TTTTAAATCTATTATGTATTGTTG
* * * *
19055042 TTTTAAAGCTATTAGGTATTATTA
1 TTTTAAATCTATTATGTATTGTTG
19055066 TTTTAA
1 TTTTAA
19055072 GTTATCTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.58
Consensus pattern (24 bp):
TTTTAAATCTATTATGTATTGTTG
Found at i:19056705 original size:20 final size:21
Alignment explanation
Indices: 19056682--19056752 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
19056672 AATTTGGGCC
19056682 TTGGGT-TTGGGTTAGGCTAG
1 TTGGGTATTGGGTTAGGCTAG
** *
19056702 TTGGGTTATTGTTTTGGGCT-G
1 TTGGG-TATTGGGTTAGGCTAG
*
19056723 -AGGGT-TTGGGTTAGGCTAG
1 TTGGGTATTGGGTTAGGCTAG
19056742 TTGGGTATTGG
1 TTGGGTATTGG
19056753 AGATTTGGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
18 9 0.24
19 2 0.05
20 12 0.32
21 6 0.16
22 9 0.24
ACGTcount: A:0.10, C:0.04, G:0.44, T:0.42
Consensus pattern (21 bp):
TTGGGTATTGGGTTAGGCTAG
Found at i:19057738 original size:306 final size:306
Alignment explanation
Indices: 19057185--19057800 Score: 1232
Period size: 306 Copynumber: 2.0 Consensus size: 306
19057175 TTTCTTTTAC
19057185 AAAAGATTACAAAATAACAAAACAAAAGAGCTACTTCTTGTCCTACTCGAATGCTGGTCTGTTAT
1 AAAAGATTACAAAATAACAAAACAAAAGAGCTACTTCTTGTCCTACTCGAATGCTGGTCTGTTAT
19057250 GTTGGTCAGCATCACGGTTGACTGTTGCATTGCAGTCCATGCTCAACACTCCTCCTTGGACTGTA
66 GTTGGTCAGCATCACGGTTGACTGTTGCATTGCAGTCCATGCTCAACACTCCTCCTTGGACTGTA
19057315 GGCAACAAACACCCATCGAATCTCTAAGAAATTCAAACCTCATAGTACCAAGAGGCTTTGTCAAA
131 GGCAACAAACACCCATCGAATCTCTAAGAAATTCAAACCTCATAGTACCAAGAGGCTTTGTCAAA
19057380 ATGTCAGCCAATTGGTCTTGTGAGCTACAATGTGCAAGACTTACATCCTTTGATTGCACTGCCTC
196 ATGTCAGCCAATTGGTCTTGTGAGCTACAATGTGCAAGACTTACATCCTTTGATTGCACTGCCTC
19057445 TCGAACAAAATAGAATTTAAGTTTAAAATGTTTTGTTTTGCCATGA
261 TCGAACAAAATAGAATTTAAGTTTAAAATGTTTTGTTTTGCCATGA
19057491 AAAAGATTACAAAATAACAAAACAAAAGAGCTACTTCTTGTCCTACTCGAATGCTGGTCTGTTAT
1 AAAAGATTACAAAATAACAAAACAAAAGAGCTACTTCTTGTCCTACTCGAATGCTGGTCTGTTAT
19057556 GTTGGTCAGCATCACGGTTGACTGTTGCATTGCAGTCCATGCTCAACACTCCTCCTTGGACTGTA
66 GTTGGTCAGCATCACGGTTGACTGTTGCATTGCAGTCCATGCTCAACACTCCTCCTTGGACTGTA
19057621 GGCAACAAACACCCATCGAATCTCTAAGAAATTCAAACCTCATAGTACCAAGAGGCTTTGTCAAA
131 GGCAACAAACACCCATCGAATCTCTAAGAAATTCAAACCTCATAGTACCAAGAGGCTTTGTCAAA
19057686 ATGTCAGCCAATTGGTCTTGTGAGCTACAATGTGCAAGACTTACATCCTTTGATTGCACTGCCTC
196 ATGTCAGCCAATTGGTCTTGTGAGCTACAATGTGCAAGACTTACATCCTTTGATTGCACTGCCTC
19057751 TCGAACAAAATAGAATTTAAGTTTAAAATGTTTTGTTTTGCCATGA
261 TCGAACAAAATAGAATTTAAGTTTAAAATGTTTTGTTTTGCCATGA
19057797 AAAA
1 AAAA
19057801 TAGCATTTTT
Statistics
Matches: 310, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
306 310 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (306 bp):
AAAAGATTACAAAATAACAAAACAAAAGAGCTACTTCTTGTCCTACTCGAATGCTGGTCTGTTAT
GTTGGTCAGCATCACGGTTGACTGTTGCATTGCAGTCCATGCTCAACACTCCTCCTTGGACTGTA
GGCAACAAACACCCATCGAATCTCTAAGAAATTCAAACCTCATAGTACCAAGAGGCTTTGTCAAA
ATGTCAGCCAATTGGTCTTGTGAGCTACAATGTGCAAGACTTACATCCTTTGATTGCACTGCCTC
TCGAACAAAATAGAATTTAAGTTTAAAATGTTTTGTTTTGCCATGA
Found at i:19062780 original size:9 final size:9
Alignment explanation
Indices: 19062762--19062818 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
19062752 TTTGTTAAAT
19062762 ATTAACCGA
1 ATTAACCGA
*
19062771 ATTAATCGA
1 ATTAACCGA
*
19062780 ATTACCCGA
1 ATTAACCGA
19062789 ATT-ACCTGA
1 ATTAACC-GA
* *
19062798 ATTACCCAA
1 ATTAACCGA
*
19062807 ATTAATCGA
1 ATTAACCGA
19062816 ATT
1 ATT
19062819 GAATCACTAC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
8 2 0.05
9 33 0.89
10 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (9 bp):
ATTAACCGA
Found at i:19062788 original size:18 final size:18
Alignment explanation
Indices: 19062762--19062818 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
19062752 TTTGTTAAAT
*
19062762 ATTAACCGAATTAATCGA
1 ATTACCCGAATTAATCGA
*
19062780 ATTACCCGAATT-ACCTGA
1 ATTACCCGAATTAATC-GA
*
19062798 ATTACCCAAATTAATCGA
1 ATTACCCGAATTAATCGA
19062816 ATT
1 ATT
19062819 GAATCACTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (18 bp):
ATTACCCGAATTAATCGA
Found at i:19066668 original size:18 final size:18
Alignment explanation
Indices: 19066645--19066716 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
19066635 GACCGTTTAT
19066645 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
19066663 GGTACTATTCACGTATAT
1 GGTACTATTCACGTATAC
*
19066681 GGCACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
19066699 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
19066717 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:19066689 original size:36 final size:36
Alignment explanation
Indices: 19066642--19066715 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
19066632 TACGACCGTT
*
19066642 TATGGTACTATTCACGTATACGGTACTATTCACGTA
1 TATGGCACTATTCACGTATACGGTACTATTCACGTA
*
19066678 TATGGCACTATTCACGTATACGGTACTGTTCACGTA
1 TATGGCACTATTCACGTATACGGTACTATTCACGTA
19066714 TA
1 TA
19066716 CAGTAGTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (36 bp):
TATGGCACTATTCACGTATACGGTACTATTCACGTA
Found at i:19071796 original size:26 final size:27
Alignment explanation
Indices: 19071767--19071818 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
19071757 CAATCATCAA
* *
19071767 AAATATAAAATCTATTTTT-TAAAATT
1 AAATAAAAAATATATTTTTATAAAATT
*
19071793 AAATAAAAAATATTTTTTTATAAAAT
1 AAATAAAAAATATATTTTTATAAAAT
19071819 GCAACTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATAAAAAATATATTTTTATAAAATT
Found at i:19073860 original size:15 final size:18
Alignment explanation
Indices: 19073840--19073878 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
19073830 TTACAAAAAT
19073840 AATACAAAAA-AGT-T-A
1 AATACAAAAATAGTATGA
19073855 AATACAAAAATAGTATGA
1 AATACAAAAATAGTATGA
19073873 AATACA
1 AATACA
19073879 TTTTAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 3 0.14
17 1 0.05
18 7 0.33
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (18 bp):
AATACAAAAATAGTATGA
Found at i:19074858 original size:24 final size:24
Alignment explanation
Indices: 19074831--19074882 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19074821 TTAGTAAGTC
*
19074831 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19074855 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19074879 AAAT
1 AAAT
19074883 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19076829 original size:24 final size:24
Alignment explanation
Indices: 19076802--19076853 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19076792 TTAGTAAGTC
*
19076802 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19076826 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19076850 AAAT
1 AAAT
19076854 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19078328 original size:21 final size:21
Alignment explanation
Indices: 19078274--19078332 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
19078264 TTAATAATAC
*
19078274 TATATGATAATAATGATAATAA
1 TATATGATAATAAT-ATAAAAA
**
19078296 T-GGTGA-AATAATATAAAAA
1 TATATGATAATAATATAAAAA
19078315 TATATGATAATAATATAA
1 TATATGATAATAATATAA
19078333 TCACATAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.23
20 9 0.30
21 13 0.43
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
TATATGATAATAATATAAAAA
Found at i:19080144 original size:4 final size:5
Alignment explanation
Indices: 19080117--19080145 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
19080107 GTGAAACAAT
19080117 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
19080146 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:19080155 original size:47 final size:46
Alignment explanation
Indices: 19080073--19080164 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 46
19080063 CATAACAACT
* *
19080073 AAATAAAATAAATAAAAAAACAAATCAATAATATGTGAAACAATATA
1 AAATAAAATAAATAAAAAAACAAAGCAAT-ATATGTAAAACAATATA
* * *
19080120 AAATAAAATAAAATAAAATAAATAAAGCACT-TATGTAAAATAATA
1 AAATAAAAT-AAATAAAA-AAACAAAGCAATATATGTAAAACAATA
19080165 AAGAGCATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 21 0.55
48 8 0.21
49 9 0.24
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.23
Consensus pattern (46 bp):
AAATAAAATAAATAAAAAAACAAAGCAATATATGTAAAACAATATA
Found at i:19081760 original size:46 final size:46
Alignment explanation
Indices: 19081693--19081827 Score: 245
Period size: 46 Copynumber: 3.0 Consensus size: 46
19081683 TTAGGGGTTA
19081693 GGTCTGTTTT-GGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
19081738 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
* *
19081784 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAAATTGGGCTT
1 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTT
19081828 GTACAGCTGC
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 10 0.11
46 77 0.89
ACGTcount: A:0.06, C:0.11, G:0.39, T:0.44
Consensus pattern (46 bp):
GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
Found at i:19082410 original size:44 final size:43
Alignment explanation
Indices: 19082361--19082883 Score: 182
Period size: 44 Copynumber: 12.2 Consensus size: 43
19082351 ATCTACTCTG
* * *
19082361 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* * ** * * *
19082405 CTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* ***
19082448 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTTTTCAATCTGCTCCA
* ** **
19082492 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTT-GGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGATCC----TTTTTTCAATCTGCTCCA
* ** * * * *
19082538 CTGTAATCTCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
19082579 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * * * * *
19082618 TTGTAATCTCAAGGAGATAGGATTACTATCTTT-GACCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* ** *
19082662 CTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTT-GGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TT-TTTCAATCTGCTCCA
* ** * * * *
19082708 CTGTAATCTCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
19082749 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * ** * *
19082788 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* * * *
19082832 CTGTAATCTCAGGGAGATAAGATCTGCTTCTTT-AACCAGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC--CTTTTTTCAATCTGCTCCA
19082876 CTGTAACC
1 CTGTAACC
19082884 AATGAAGGCA
Statistics
Matches: 357, Mismatches: 98, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
39 50 0.14
40 4 0.01
41 57 0.16
42 6 0.02
43 34 0.10
44 135 0.38
45 6 0.02
46 62 0.17
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
Found at i:19082465 original size:87 final size:87
Alignment explanation
Indices: 19082349--19082510 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
19082339 AGACTTGATG
* * * * *
19082349 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
19082413 TCAGGGAGATAGGATAGTGTTTT
65 TCAGGGAGATAGGATAGTGTTTT
* * * * *
19082436 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
19082501 CAGGGAGATA
66 CAGGGAGATA
19082511 AGATCCGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTTTT
Found at i:19082582 original size:87 final size:87
Alignment explanation
Indices: 19082448--19082773 Score: 296
Period size: 87 Copynumber: 3.8 Consensus size: 87
19082438 ATCTGCTCCG
* * *
19082448 CTGTAATCTCAGGGAGATAAGATCTCTGGCT-TCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATC-CT-GATGT-GATCTGCTCCACTGTAACCTCAGAGAGATAA
19082512 GATCCGAAATTCTTTGGTCTATTCCA
63 GATCCGAAATTCTTTGGTCT-TTCCA
* * *
19082538 CTGTAATCTCAGGGAGATAAGA-CCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CTGTAATCTCAGGGAGATAAGATCCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGAT
** *
19082602 CCTTTAA-TC---CG-C--TCCA
66 CC-GAAATTCTTTGGTCTTTCCA
* * * * * * * * *
19082618 TTGTAATCTCAAGGAGATAGGATTACT-ATCTTTGACCTGCTCCGCTGTAATCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGA-TCCTGA--TGTGATCTGCTCCACTGTAACCTCAGAGAGATAA
*
19082682 GATCTGAAATTCTTTGGTCTGTTCCA
63 GATCCGAAATTCTTTGGTCT-TTCCA
* * *
19082708 CTGTAATCTCAGGGAGATAAGA-CCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CTGTAATCTCAGGGAGATAAGATCCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGAT
19082772 CC
66 CC
19082774 TTTAATCCGC
Statistics
Matches: 183, Mismatches: 38, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
80 23 0.13
81 1 0.01
82 4 0.02
83 33 0.18
84 1 0.01
86 1 0.01
87 66 0.36
88 7 0.04
89 2 0.01
90 45 0.25
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (87 bp):
CTGTAATCTCAGGGAGATAAGATCCTGATGTGATCTGCTCCACTGTAACCTCAGAGAGATAAGAT
CCGAAATTCTTTGGTCTTTCCA
Found at i:19082685 original size:83 final size:83
Alignment explanation
Indices: 19082579--19082855 Score: 278
Period size: 83 Copynumber: 3.3 Consensus size: 83
19082569 ATCTTCTCTA
19082579 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
19082644 TATCTTTGACCTGCTCCG
66 TATCTTTGATCTGCTCCG
* ** * * * *
19082662 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGAT
1 CTGTAACT-TCAGAGAGATAAGATC-------CTTTAATCCGCTCCATTGTAATCTCAAGGAGAT
* * * * **
19082726 AAGA--CCTGA--TGTGATCTTCTCTA
58 AGGATTACT-ATCTTTGATCTGCTCCG
19082749 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
19082814 TATCCTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
*
19082832 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
19082856 TGCTTCTTTA
Statistics
Matches: 150, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
80 30 0.20
81 1 0.01
82 4 0.03
83 51 0.34
87 30 0.20
88 3 0.02
89 1 0.01
90 30 0.20
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (83 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
TATCTTTGATCTGCTCCG
Found at i:19082856 original size:170 final size:170
Alignment explanation
Indices: 19082482--19082857 Score: 698
Period size: 170 Copynumber: 2.2 Consensus size: 170
19082472 TCTGGCTTCA
* * *
19082482 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
19082547 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
*
19082612 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
* *
19082652 ACCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
19082717 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
19082782 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
19082822 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
19082858 CTTCTTTAAC
Statistics
Matches: 199, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 199 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (170 bp):
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTGTAATCT
CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
Found at i:19084026 original size:21 final size:21
Alignment explanation
Indices: 19084000--19084046 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19083990 GGTATAGCAG
*
19084000 GATCACCACATGCCCCAATCT
1 GATCACCACATACCCCAATCT
** *
19084021 GATCACTTCATACCCCATTCT
1 GATCACCACATACCCCAATCT
19084042 GATCA
1 GATCA
19084047 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.26
Consensus pattern (21 bp):
GATCACCACATACCCCAATCT
Found at i:19085065 original size:7 final size:8
Alignment explanation
Indices: 19085040--19085069 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
19085030 CTATTTTGAC
19085040 TTTGATTTT
1 TTTGA-TTT
19085049 TTTGATTT
1 TTTGATTT
19085057 TTTGATTT
1 TTTGATTT
19085065 TTTGA
1 TTTGA
19085070 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:19087718 original size:19 final size:20
Alignment explanation
Indices: 19087689--19087737 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
19087679 CACTTCGTGA
* *
19087689 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
19087708 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
19087728 AAATG-AATGC
1 AAATGTAATGC
19087738 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:19089617 original size:4 final size:5
Alignment explanation
Indices: 19089590--19089618 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
19089580 GTGAAACAAT
19089590 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
19089619 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:19089628 original size:47 final size:46
Alignment explanation
Indices: 19089546--19089637 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 46
19089536 CATAACAACT
* *
19089546 AAATAAAATAAATAAAAAAACAAATCAATAATATGTGAAACAATATA
1 AAATAAAATAAATAAAAAAACAAAGCAAT-ATATGTAAAACAATATA
* * *
19089593 AAATAAAATAAAATAAAATAAATAAAGCACT-TATGTAAAATAATA
1 AAATAAAAT-AAATAAAA-AAACAAAGCAATATATGTAAAACAATA
19089638 AAGAGCATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 21 0.55
48 8 0.21
49 9 0.24
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.23
Consensus pattern (46 bp):
AAATAAAATAAATAAAAAAACAAAGCAATATATGTAAAACAATATA
Found at i:19095648 original size:56 final size:56
Alignment explanation
Indices: 19095539--19095651 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
19095529 TAACACTTTT
*
19095539 ATTTCATTCCTACAGAATAAATTCCACAACAGCTCTATTTTATTCAAGTGAACCAA
1 ATTTCATTCCTACAGAATAAATTCCACAACAGCTCTATTTTATTCAAGCGAACCAA
* *
19095595 ATTTCATTCCTACAGAATAAATTCCACTATAGCTCTATTTTATTCCAA-CGAACCAA
1 ATTTCATTCCTACAGAATAAATTCCACAACAGCTCTATTTTATT-CAAGCGAACCAA
19095651 A
1 A
19095652 CATATCATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
56 50 0.94
57 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (56 bp):
ATTTCATTCCTACAGAATAAATTCCACAACAGCTCTATTTTATTCAAGCGAACCAA
Found at i:19096833 original size:18 final size:16
Alignment explanation
Indices: 19096798--19096839 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
19096788 TTTTTTTAAA
*
19096798 AATTAATTAATAATGT
1 AATTATTTAATAATGT
19096814 AATTATTTATATATATGT
1 AATTATTTA-ATA-ATGT
19096832 AATTATTT
1 AATTATTT
19096840 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 3 0.13
18 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTATTTAATAATGT
Found at i:19097148 original size:16 final size:16
Alignment explanation
Indices: 19097129--19097167 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19097119 CTTTATATTC
*
19097129 TTTATTTTTTACTTTT-
1 TTTATTTTATA-TTTTG
19097145 TTTATTTTATATTTTG
1 TTTATTTTATATTTTG
19097161 TTTATTT
1 TTTATTT
19097168 CTTTCACTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTTATATTTTG
Found at i:19109978 original size:17 final size:17
Alignment explanation
Indices: 19109927--19109986 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
19109917 GTGTTGTTGT
*
19109927 TATTAGTTTTAAACTATA
1 TATTATTTTTAAA-TATA
* *
19109945 TATT-TTTATTTATTATA
1 TATTATTT-TTAAATATA
19109962 TATTATTTTTAAATATA
1 TATTATTTTTAAATATA
19109979 TAATTATT
1 T-ATTATT
19109987 AAATTTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTTTTAAATATA
Found at i:19112270 original size:19 final size:18
Alignment explanation
Indices: 19112246--19112283 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19112236 AAGTATATGA
19112246 AATAATAAATAAATAAAAT
1 AATAATAAA-AAATAAAAT
*
19112265 AATAATAAAAACTAAAAT
1 AATAATAAAAAATAAAAT
19112283 A
1 A
19112284 TTTCCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AATAATAAAAAATAAAAT
Found at i:19112806 original size:16 final size:16
Alignment explanation
Indices: 19112782--19112821 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
19112772 AAAATTAAAA
* *
19112782 ATATGTAAGTGTGTAT
1 ATATATAAGTATGTAT
19112798 ATATATAAGTATGTAT
1 ATATATAAGTATGTAT
19112814 ATATATAA
1 ATATATAA
19112822 CAAAATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
ATATATAAGTATGTAT
Found at i:19112854 original size:19 final size:20
Alignment explanation
Indices: 19112814--19112854 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
19112804 AAGTATGTAT
19112814 ATATATAACAAAATCTAGAAA
1 ATATATAACAAAATCTA-AAA
19112835 ATATATAACAAAATCTAAAA
1 ATATATAACAAAATCTAAAA
19112855 CGGTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (20 bp):
ATATATAACAAAATCTAAAA
Found at i:19112878 original size:3 final size:3
Alignment explanation
Indices: 19112870--19112935 Score: 87
Period size: 3 Copynumber: 21.0 Consensus size: 3
19112860 TAAATGGGTA
* *
19112870 AAT AAT AAT TAT AAT AAT AAAT GCAAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT AAT AAT AAT AAT
19112918 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
19112936 CTGATTAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
3 50 0.89
4 3 0.05
5 3 0.05
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19113673 original size:4 final size:4
Alignment explanation
Indices: 19113656--19113698 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
19113646 AAAATAATAA
* * **
19113656 AAAT AAAT AGAT AAAT AAAT AAAC AAAT AAAT ATTT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
19113699 AAAAGCAAGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:19116271 original size:21 final size:20
Alignment explanation
Indices: 19116243--19116282 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
19116233 CATCAACAAA
19116243 TAATTTAAAAAT-TATAAAAT
1 TAATTT-AAAATGTATAAAAT
19116263 TAATATTAAAATGTATAAAA
1 TAAT-TTAAAATGTATAAAA
19116283 GTTCCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TAATTTAAAATGTATAAAAT
Found at i:19128519 original size:36 final size:36
Alignment explanation
Indices: 19128468--19128558 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
19128458 AGTACATCGA
* * *
19128468 TAATCCAACCAAAACACACAAGATGCTCGTAAGAGC
1 TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
* * *
19128504 TAATCCATCCGAAACAAACTAGATGTTCATAAGAGC
1 TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
* **
19128540 TAATACATTTGAAACACAC
1 TAATCCATCCGAAACACAC
19128559 TAATGGCTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (36 bp):
TAATCCATCCGAAACACACAAGATGCTCATAAGAGC
Found at i:19131618 original size:34 final size:34
Alignment explanation
Indices: 19131575--19131642 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
19131565 GGACTAAAAT
19131575 GAAAATATTTCAAATATTACATGAGATTTCTGTA
1 GAAAATATTTCAAATATTACATGAGATTTCTGTA
19131609 GAAAATATTTCAAATATTACATGAGATTTCTGTA
1 GAAAATATTTCAAATATTACATGAGATTTCTGTA
19131643 AATATTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (34 bp):
GAAAATATTTCAAATATTACATGAGATTTCTGTA
Found at i:19137428 original size:18 final size:17
Alignment explanation
Indices: 19137368--19137434 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
19137358 TAGCTCACAC
* *
19137368 TTGATGTGCTCACAACT
1 TTGATGAGCTCGCAACT
* *
19137385 TAGGTCGAGCTCGCAACT
1 TTGAT-GAGCTCGCAACT
**
19137403 TTGATGAGCTCGCGTCT
1 TTGATGAGCTCGCAACT
19137420 TTGGATGAGCTCGCA
1 TT-GATGAGCTCGCA
19137435 GCTTCAGGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 15 0.38
18 24 0.62
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (17 bp):
TTGATGAGCTCGCAACT
Found at i:19143626 original size:18 final size:18
Alignment explanation
Indices: 19143600--19143646 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
19143590 TTTATAATTT
19143600 TTATCTATTTTCTTTA-TTG
1 TTAT-TATTTT-TTTACTTG
*
19143619 TTATTATTGTTTTACTTG
1 TTATTATTTTTTTACTTG
19143637 TTATTTATTT
1 TTA-TTATTT
19143647 ATATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (18 bp):
TTATTATTTTTTTACTTG
Found at i:19144021 original size:109 final size:108
Alignment explanation
Indices: 19143825--19144115 Score: 415
Period size: 109 Copynumber: 2.7 Consensus size: 108
19143815 AAGGAAAATT
* * * *
19143825 TTTCTAAATAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
19143890 CGACTTTTCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
19143934 TTTCAAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
19143999 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * ** * *
19144042 TTTCAAAGTAAGGCAATGTCTTGCGTTT-AGAAATTCGAGAAGGTCGTACCCTAACT-TACTGGG
1 TTTCAAAATAAGGCAATATTTTGCGTTTGA-AAATTCGAGAA-AACGTGCCCTAA-TGTGCTGGG
19144105 TTTCGATTTTT
63 TTTCGATTTTT
19144116 ACGATGAATC
Statistics
Matches: 166, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
107 1 0.01
108 40 0.24
109 124 0.75
110 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (108 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:19148825 original size:3 final size:3
Alignment explanation
Indices: 19148817--19148861 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
19148807 CATGACTTAC
19148817 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19148862 CAATTGGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19150285 original size:45 final size:45
Alignment explanation
Indices: 19150168--19150299 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
19150158 CTATACGCTT
* ****
19150168 AAAATGAGTAAGACCATACCTGAAAGGCACTATGACATCATGATA
1 AAAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATGATA
* *
19150213 AAAACT-AGTAAGACAATAACTAAAAGATGTTATGACATCATGATA
1 AAAA-TGAGTAAGACCATAACTGAAAGATGTTATGACATCATGATA
* * *
19150258 GAAATGAGTAAGACCATAGCTGAAAGATGTTAGGACATCATG
1 AAAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATG
19150300 TGAAAACTTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 71 0.97
46 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAACTGAAAGATGTTATGACATCATGATA
Found at i:19151144 original size:12 final size:12
Alignment explanation
Indices: 19151127--19151151 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19151117 AAAGAGAGGA
19151127 TCTCTCTCTCTT
1 TCTCTCTCTCTT
19151139 TCTCTCTCTCTT
1 TCTCTCTCTCTT
19151151 T
1 T
19151152 TTCAGCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:19151558 original size:3 final size:3
Alignment explanation
Indices: 19151550--19151620 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
19151540 TTTAGTAATT
* *
19151550 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
19151598 TTA GTA TTA ATA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
19151621 TCCCTTATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19151859 original size:24 final size:24
Alignment explanation
Indices: 19151832--19151882 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
19151822 TATTCGTATA
19151832 TATATATTTATATATTAAAATATG
1 TATATATTTATATATTAAAATATG
* *
19151856 TATATTTTTATATATTAAAGTATG
1 TATATATTTATATATTAAAATATG
19151880 TAT
1 TAT
19151883 GTACGTACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (24 bp):
TATATATTTATATATTAAAATATG
Found at i:19153067 original size:67 final size:67
Alignment explanation
Indices: 19152953--19153170 Score: 303
Period size: 67 Copynumber: 3.2 Consensus size: 67
19152943 GATTATGGGG
* * * *
19152953 GTAAGACCATAGTTAGACTATGTCAACTAATGGAATCCACCAGGACATTAAACATGGAACCTAAT
1 GTAAGACCATAGTTAGACTATGGCAACCAATGGAGTCCGCCAGGACATTAAACATGGAACCTAAT
19153018 GA
66 GA
* * *
19153020 GTAAGACCATAGTTTGACTATGGCAACCAATGGAGTTCGCCAAGACATTAAACATGGAACCTGAA
1 GTAAGACCATAGTTAGACTATGGCAACCAATGGAGTCCGCCAGGACATTAAACATGGAACCT-AA
19153085 TG-
65 TGA
* * * * *
19153087 GTAAGACCATAGTTCGACTGTGGTAACCAATGGAGTCCGTCAGGACATTAAACATGGAACCTAAC
1 GTAAGACCATAGTTAGACTATGGCAACCAATGGAGTCCGCCAGGACATTAAACATGGAACCTAAT
19153152 GA
66 GA
19153154 GTAAGACCATAGGTTAG
1 GTAAGACCATA-GTTAG
19153171 CTGTGGAAGT
Statistics
Matches: 133, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
66 3 0.02
67 122 0.92
68 8 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (67 bp):
GTAAGACCATAGTTAGACTATGGCAACCAATGGAGTCCGCCAGGACATTAAACATGGAACCTAAT
GA
Found at i:19155410 original size:20 final size:22
Alignment explanation
Indices: 19155376--19155431 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
19155366 TTGTCTCAAT
* *
19155376 ACATA-GTCTTAAGACAATG-A
1 ACATATGTCTTGAGACAAAGCA
19155396 AC-TATGTCTTGAGACAAAGCA
1 ACATATGTCTTGAGACAAAGCA
*
19155417 ACATATGTCTCGAGA
1 ACATATGTCTTGAGA
19155432 TAAAACTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 3 0.10
22 11 0.37
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (22 bp):
ACATATGTCTTGAGACAAAGCA
Found at i:19169523 original size:31 final size:30
Alignment explanation
Indices: 19169481--19169540 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
19169471 TTTATCCTAG
*
19169481 ATTATAAATAAAATT-TAAAAAAATTATATTT
1 ATTAAAAAT-AAATTATAAAAAAATT-TATTT
*
19169512 ATTAAAAATAAATTATAAAAATATTTATT
1 ATTAAAAATAAATTATAAAAAAATTTATT
19169541 ATATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTAAAAATAAATTATAAAAAAATTTATTT
Found at i:19173202 original size:46 final size:46
Alignment explanation
Indices: 19173131--19173223 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
19173121 ACAAAGGAAG
* *
19173131 TGAGATTAAACCTTAAAAGGGTGGAATCAGAGAGTGAGTTTTCACT
1 TGAGATTAAACCTTAAAAGGGTGGAAACAGAGAATGAGTTTTCACT
*
19173177 TGAGATTAAACCTTAAAAGGTTGGAAACAGAGAATGAGTTTTCACT
1 TGAGATTAAACCTTAAAAGGGTGGAAACAGAGAATGAGTTTTCACT
19173223 T
1 T
19173224 CGTTAATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (46 bp):
TGAGATTAAACCTTAAAAGGGTGGAAACAGAGAATGAGTTTTCACT
Found at i:19180975 original size:42 final size:42
Alignment explanation
Indices: 19180928--19181009 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
19180918 ATTTTTATTT
* *
19180928 AGATGCAATTGGTTTAATTAACAACTATCAAATAAGAAATTC
1 AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAATTC
*
19180970 AGATGCAATTGGATTAATTAACAATTATAAAATAAGAAAT
1 AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAAT
19181010 AGCACCTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (42 bp):
AGATGCAATTGGATTAATTAACAACTATAAAATAAGAAATTC
Found at i:19188098 original size:21 final size:20
Alignment explanation
Indices: 19188070--19188109 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
19188060 CATCAACAAA
19188070 TAATTCAAAA-ATTATAAAAT
1 TAATTCAAAATA-TATAAAAT
19188090 TAATATCAAAATATATAAAA
1 TAAT-TCAAAATATATAAAA
19188110 GTTCCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTCAAAATATATAAAAT
Found at i:19197127 original size:29 final size:30
Alignment explanation
Indices: 19197070--19197131 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
19197060 ATAACAGCAA
*
19197070 CATGCAAGAAACCATGGAACACATCTGAAG
1 CATGCAAGAAACCATGGAACACAGCTGAAG
*
19197100 CATGCAAGTAACCA-GGAACACAGCTGAAG
1 CATGCAAGAAACCATGGAACACAGCTGAAG
19197129 CAT
1 CAT
19197132 ACTAATGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (30 bp):
CATGCAAGAAACCATGGAACACAGCTGAAG
Found at i:19198310 original size:36 final size:36
Alignment explanation
Indices: 19198270--19198342 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
19198260 AATCAAAAGA
19198270 AAATGATTTTAATGTTTTGACAAAACCAAAATATAT
1 AAATGATTTTAATGTTTTGACAAAACCAAAATATAT
*
19198306 AAATGATTTTAATGTTTTGACGAAACCAAAATATAT
1 AAATGATTTTAATGTTTTGACAAAACCAAAATATAT
19198342 A
1 A
19198343 TTTTCTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (36 bp):
AAATGATTTTAATGTTTTGACAAAACCAAAATATAT
Found at i:19199373 original size:19 final size:20
Alignment explanation
Indices: 19199349--19199387 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19199339 GATTTAAAAT
19199349 AAAATA-AA-AAAATATAGAA
1 AAAATAGAAGAAAATA-AGAA
19199368 AAAATAGAAGAAAATAAGAA
1 AAAATAGAAGAAAATAAGAA
19199388 CCTTCTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (20 bp):
AAAATAGAAGAAAATAAGAA
Found at i:19200240 original size:44 final size:44
Alignment explanation
Indices: 19200185--19200549 Score: 250
Period size: 44 Copynumber: 8.4 Consensus size: 44
19200175 GATGCGATCT
*
19200185 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * * ***
19200229 ACTCCACTGCAACTTCA-AGAAGATAGGAT-TG-GATGCGATAT--
1 GCTCCACTGCAACTTCAGAG-AGATAAGATCTGTGGTTTTA-ATCC
* * *
19200270 GCTCTACTGTAACTTTAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * * **
19200314 GCTCCACTGCAACCTCAGGGAGATAGGA--T-TGGTTTCTTCTCTC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTT-TAATC-C
* *** *
19200357 TGCTCCACTGCAACTTCAGAGAGATAAGA-C--TGGATGCGATCT
1 -GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
** * *
19200399 GCTCTGCTGCAACTTCAAAGAGATAATATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
** * * * ** * **
19200443 GCTCCACTATAACTTCAAAGAGATAGGAT-TAATTTTTTTCTATTT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTT-AATCC
* * *
19200488 GCTCTACTGCAACTTCAGGGAGATAAGACCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
19200532 GCTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAG
19200550 GAAGATAGGA
Statistics
Matches: 236, Mismatches: 68, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
41 51 0.22
42 14 0.06
43 13 0.06
44 128 0.54
45 29 0.12
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
Found at i:19200284 original size:85 final size:85
Alignment explanation
Indices: 19200175--19200345 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
19200165 AGATAAGTCT
*
19200175 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
1 GATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
*
19200240 ACTTCAAGAAGATAGGATTG
66 ACCTCAAGAAGATAGGATTG
* * *
19200260 GATGCGATATGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCA
1 GATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
* *
19200325 ACCTCAGGGAGATAGGATTG
66 ACCTCAAGAAGATAGGATTG
19200345 G
1 G
19200346 TTTCTTCTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (85 bp):
GATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
ACCTCAAGAAGATAGGATTG
Found at i:19200363 original size:129 final size:131
Alignment explanation
Indices: 19200230--19200516 Score: 366
Period size: 129 Copynumber: 2.2 Consensus size: 131
19200220 TTTTAATCCA
* * * * *
19200230 CTCCACTGCAACTTCAAGA-AGATAGGATTGGATGCGATATGCTCTACTGTAACTTTAGAGAGAT
1 CTCCACTGCAACTTCAAGAGAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAAAGAGAT
* ** * *
19200294 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATT-GGTTTCTTCTCTCT
66 AAGATCTGTGGTTTTAATCCGCTCCACTACAACCTCAAAGAGATAGGATTAAGTTTCTTCTATCT
19200358 G
131 G
* *
19200359 CTCCACTGCAACTTC-AGAGAGATAAGACTGGATGCGATCTGCTCTGCTGCAACTTCAAAGAGAT
1 CTCCACTGCAACTTCAAGAGAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAAAGAGAT
* * * * * *
19200423 AATATCTGTGGTTTTAATCCGCTCCACTATAACTTCAAAGAGATAGGATTAATTTTTTTCTATTT
66 AAGATCTGTGGTTTTAATCCGCTCCACTACAACCTCAAAGAGATAGGATTAAGTTTCTTCTATCT
19200488 G
131 G
* *
19200489 CTCTACTGCAACTTC-AGGGAGATAAGAC
1 CTCCACTGCAACTTCAAGAGAGATAAGAC
19200517 CTGTGGTTTT
Statistics
Matches: 136, Mismatches: 20, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
128 3 0.02
129 97 0.71
130 36 0.26
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (131 bp):
CTCCACTGCAACTTCAAGAGAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAAAGAGAT
AAGATCTGTGGTTTTAATCCGCTCCACTACAACCTCAAAGAGATAGGATTAAGTTTCTTCTATCT
G
Found at i:19200511 original size:89 final size:89
Alignment explanation
Indices: 19200398--19200562 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 89
19200388 GGATGCGATC
* * * *
19200398 TGCTCTGCTGCAACTTCAAAGAGATAATATCTGTGGTTTTAATCCGCTCCACTATAACTTCAA-A
1 TGCTCTACTGCAACTTCAAAGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGA
19200462 GAGATAGGATTAATTTTTTTCTATT
66 -AGATAGGATTAATTTTTTTCTATT
** * *
19200487 TGCTCTACTGCAACTTCAGGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGA
1 TGCTCTACTGCAACTTCAAAGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGA
19200552 AGATAGGATTA
66 AGATAGGATTA
19200563 TTGGCCTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 66 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (89 bp):
TGCTCTACTGCAACTTCAAAGAGATAAGACCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGA
AGATAGGATTAATTTTTTTCTATT
Found at i:19200975 original size:45 final size:45
Alignment explanation
Indices: 19200924--19201067 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 45
19200914 GACTGGTGTC
* *
19200924 TTCAATCTACTTCTCTGCCAGTACAGGAAGGCAAGATCTGTCAT-T
1 TTCAATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGT-ATCT
* * *
19200969 TTCAATCTACTCCACTG-CTGCT-CAAGG-AGACAAG-GCTGGTATCT
1 TTCAATCTACTTCACTGCCAG-TAC-AGGAAGACAAGATCT-GTATCT
*
19201013 TT-AATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCT
1 TTCAATCTACTTCACTGCCAGTACAGGAAGACAAGATCTG-TATCT
*
19201058 TT-AACCTACT
1 TTCAATCTACT
19201068 CTACTGCTGC
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
43 20 0.25
44 25 0.31
45 35 0.44
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (45 bp):
TTCAATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGTATCT
Found at i:19201019 original size:88 final size:88
Alignment explanation
Indices: 19200902--19201086 Score: 248
Period size: 88 Copynumber: 2.1 Consensus size: 88
19200892 CATTGCAACG
* * * * *
19200902 TCAAGGCGATAAGACTGGTGTCTTCAATCTACTTCTCTGCCAGTACAGGAAGGCAAGATCTG-TC
1 TCAAGGAGACAAGACTGGTATCTTCAATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT-
*
19200966 AT-TTTCAATCTACTCCACTGCTGC
65 ATCTTT-AACCTACTCCACTGCTGC
* *
19200990 TCAAGGAGACAAGGCTGGTATCTTTAATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCAAGGAGACAAGACTGGTATCTTCAATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
*
19201055 TCTTTAACCTACTCTACTGCTGC
66 TCTTTAACCTACTCCACTGCTGC
*
19201078 TCAGGGAGA
1 TCAAGGAGA
19201087 TAAAGCTGAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 81 0.95
89 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (88 bp):
TCAAGGAGACAAGACTGGTATCTTCAATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
TCTTTAACCTACTCCACTGCTGC
Found at i:19201243 original size:22 final size:22
Alignment explanation
Indices: 19201213--19201272 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
19201203 TAACTAGACG
19201213 TGTATGAATGACATTTGAATGAA
1 TGTA-GAATGACATTTGAATGAA
* * *
19201236 TGTAGAATAATATTTTAATGAA
1 TGTAGAATGACATTTGAATGAA
* *
19201258 TGCAGAATGTCATTT
1 TGTAGAATGACATTT
19201273 TTTCGAGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (22 bp):
TGTAGAATGACATTTGAATGAA
Found at i:19203238 original size:18 final size:18
Alignment explanation
Indices: 19203212--19203249 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19203202 GGCAAAAAAA
19203212 AATCCTAAAGAATGAAAG
1 AATCCTAAAGAATGAAAG
*
19203230 AATCTTAAAGAATGAAAG
1 AATCCTAAAGAATGAAAG
19203248 AA
1 AA
19203250 CATTTGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (18 bp):
AATCCTAAAGAATGAAAG
Found at i:19205147 original size:19 final size:20
Alignment explanation
Indices: 19205123--19205169 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
19205113 TTAATAATTT
* *
19205123 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
19205142 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
19205162 -AATGCAAA
1 TAATGCAAA
19205170 AATAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:19205635 original size:16 final size:16
Alignment explanation
Indices: 19205611--19205644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19205601 TTCTATAATG
*
19205611 AAATACCATGTAGTCA
1 AAATACCATGCAGTCA
*
19205627 AAATGCCATGCAGTCA
1 AAATACCATGCAGTCA
19205643 AA
1 AA
19205645 GTGAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATACCATGCAGTCA
Found at i:19208748 original size:9 final size:9
Alignment explanation
Indices: 19208734--19208758 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19208724 AAAATATATC
19208734 AAAAAAACA
1 AAAAAAACA
19208743 AAAAAAACA
1 AAAAAAACA
19208752 AAAAAAA
1 AAAAAAA
19208759 TACCTGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:19208916 original size:36 final size:36
Alignment explanation
Indices: 19208854--19208997 Score: 166
Period size: 36 Copynumber: 3.9 Consensus size: 36
19208844 GTGGTGGGGG
* *
19208854 GAAAAGGAGAGG-GAA-AGAAAGAAAAAGAAGGAAA
1 GAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGGAAA
* *
19208888 GAAAAGGAAATGAGAAGAGAAAAAAAAAGAAGAAGAA
1 GAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGGA-AA
* *
19208925 GAAGAGGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAA
1 GAAAAGGAAAGGAGAAG-----AGAAAAAAAAAGAAGGAAA
19208966 GAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAG
1 GAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAG
19208998 AAGAGGGAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
34 10 0.11
35 3 0.03
36 29 0.32
37 17 0.18
41 18 0.20
42 15 0.16
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (36 bp):
GAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGGAAA
Found at i:19208918 original size:42 final size:42
Alignment explanation
Indices: 19208871--19209012 Score: 188
Period size: 42 Copynumber: 3.5 Consensus size: 42
19208861 AGAGGGAAAG
*
19208871 AAAGAAAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAA
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
* *
19208913 AAAG---AAGAA-G-AAGAAGAGGAAAGGAGAAGA-AAAAAG
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
19208949 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
* * *
19208991 AAAGAAGAAGAGGGAAGGAAAA
1 AAAGAAAAAGAAGGAAAGAAAA
19209013 AAAAGAAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.10
37 18 0.21
38 1 0.01
39 10 0.12
40 1 0.01
41 19 0.22
42 28 0.33
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (42 bp):
AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
Found at i:19208983 original size:24 final size:24
Alignment explanation
Indices: 19208913--19209019 Score: 69
Period size: 23 Copynumber: 4.5 Consensus size: 24
19208903 AGAGAAAAAA
*
19208913 AAAGAAGAAGAAGAAGAGGAA-AGG
1 AAAGAA-AAGAAGAAGAAGAAGAGG
*
19208937 AGAAGAAAA-AAGAAAGAAAAAGAAGG
1 A-AAGAAAAGAAG-AAGAAGAAG-AGG
* * *
19208963 AAAGAAAAGGA-AAGGAGAAGAGA
1 AAAGAAAAGAAGAAGAAGAAGAGG
* * *
19208986 AAAAAAAAGAAGAAGAGGGA-AGG
1 AAAGAAAAGAAGAAGAAGAAGAGG
*
19209009 AAAAAAAAGAA
1 AAAGAAAAGAA
19209020 AAAAAAGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
23 27 0.42
24 21 0.32
25 12 0.18
26 5 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGAAGAAGAAGAAGAGG
Found at i:19209009 original size:31 final size:31
Alignment explanation
Indices: 19208947--19209026 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
19208937 AGAAGAAAAA
* *
19208947 AGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAAGAAAAAAAAAGAAAGAAAAGGAAAGG
* *
19208978 AGAAGAGAAAAAAAAAG-AAGAAGAGGGAAGG
1 AGAA-AGAAAAAAAAAGAAAGAAAAGGAAAGG
19209009 A-AAA-AAAAGAAAAA-AAAG
1 AGAAAGAAAA-AAAAAGAAAG
19209027 GTAATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 4 0.10
29 9 0.21
30 2 0.05
31 17 0.40
32 10 0.24
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (31 bp):
AGAAAGAAAAAAAAAGAAAGAAAAGGAAAGG
Found at i:19209017 original size:46 final size:41
Alignment explanation
Indices: 19208871--19209017 Score: 151
Period size: 41 Copynumber: 3.6 Consensus size: 41
19208861 AGAGGGAAAG
* *
19208871 AAAGAAAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAA
1 AAAGAAAAAGAAGGAAAAAAAAGGAAAGGAGAAGA-AAAAAA
* * *
19208913 AAAG---AAGAA-G-AAGAAGAGGAAAGGAGAAGAAAAAAG
1 AAAGAAAAAGAAGGAAAAAAAAGGAAAGGAGAAGAAAAAAA
*
19208949 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAAAGAAGGAAAAAAAAGGAAAGGAGAAGA-AAAAAA
19208991 AAAGAAGAAGAGGGAAGGAAAAAAAAG
1 AAAGAA-AA-A--GAAGGAAAAAAAAG
19209018 AAAAAAAAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 16
0.80 0.05 0.14
Matches are distributed among these distances:
36 9 0.10
37 18 0.20
38 1 0.01
39 10 0.11
40 1 0.01
41 19 0.21
42 15 0.17
43 2 0.02
44 1 0.01
46 13 0.15
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (41 bp):
AAAGAAAAAGAAGGAAAAAAAAGGAAAGGAGAAGAAAAAAA
Found at i:19209024 original size:78 final size:78
Alignment explanation
Indices: 19208867--19209026 Score: 243
Period size: 78 Copynumber: 2.1 Consensus size: 78
19208857 AAGGAGAGGG
* *
19208867 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAAAAGAAGAAGAAGAAGAGG
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAAGAGA
**
19208932 AAAGGAGAAGAAA
66 AAAAAAGAAGAAA
*
19208945 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAG-G
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGA-AGAAGAG
19209009 AAAAAAAAGAA-AAA
65 -AAAAAAAGAAGAAA
19209023 AAAG
1 AAAG
19209027 GTAATTTTTA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
78 64 0.85
79 11 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (78 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAAGAGA
AAAAAAGAAGAAA
Found at i:19209579 original size:16 final size:15
Alignment explanation
Indices: 19209553--19209582 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19209543 GTACTGAAAT
19209553 AATATAAAATAATAA
1 AATATAAAATAATAA
19209568 AATATGAAAATAATA
1 AATAT-AAAATAATA
19209583 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:19210073 original size:162 final size:157
Alignment explanation
Indices: 19209905--19210446 Score: 449
Period size: 162 Copynumber: 3.4 Consensus size: 157
19209895 AACATTATGC
* * * *
19209905 ACTGAAATAATGTAAAATTATAAAAGACTA-AGTTTATGATATTTTTTAAAATAATAAAATGCGG
1 ACTGAAATAATATAAAATAATAAAA-ACTAGAATTTAT-ATATTTTTTAAAGTAATAAAATGCGG
*
19209969 AGAAAAAAATACGAACAAATGGCGGAAGTAAGAATGTATTACTAACTTTTTTGTAACAATATAGA
64 AGAAAAAAATACGAACAAATGGCGGAAGTAAGAGTGTATTACTAAC-TTTTT-TAA-AATATA-A
19210034 AATAATTAATACAAAATATTTCAAAGAAAATAT
125 AATAATTAATACAAAATATTTCAAAGAAAATAT
* * *
19210067 ACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAAT-C
1 ACTGAAATAATATAAAATAATAAAA-ACTAGAAT-TTATATATTT-TTTAAAGTAAT-AAAATGC
* * * * * * ****
19210131 -GAGAAAATAATACGAGCAAAGGGCAGG-GGTAAGGGT-TATTTTCTTACACCAAATTAATTTAA
62 GGAGAAAAAAATACGAACAAATGGC-GGAAGTAAGAGTGTA-TTAC-TA-ACTTTTTTAA---AA
* * * * * ** **
19210193 -ATAACATACTAAATTA-ATAA-ATTTCAAACATTATGC
120 TATAAAATAATTAA-TACAAAATATTTCAAAGAAAATAT
* * * * * * *
19210229 ACTGGAATAATGTAAAATTAT-AAAATTAGAAATTATAATATTTTTCAAAGGAATAAAATGCGGA
1 ACTGAAATAATATAAAATAATAAAAACTAGAATTTAT-ATATTTTTTAAAGTAATAAAATGCGGA
19210293 G-AAAAAATACGAACAAATGGCGGAAGTAAGAGTGTATTACTAACTTTTTTAAAAT-TCAAAAAT
65 GAAAAAAATACGAACAAATGGCGGAAGTAAGAGTGTATTACTAACTTTTTTAAAATAT--AAAAT
*
19210356 AATTAATACAAAATATTTCAAAGAAAATTT
128 AATTAATACAAAATATTTCAAAGAAAATAT
* * *
19210386 ACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAA
1 ACTGAAATAATATAAAATAATAAAA-ACTAGAAT-TTATA-TATTTTTTAAAGTAATAAAA
19210447 ATCAAGAAAA
Statistics
Matches: 287, Mismatches: 68, Indels: 52
0.71 0.17 0.13
Matches are distributed among these distances:
154 3 0.01
155 2 0.01
156 11 0.04
157 35 0.12
158 12 0.04
159 46 0.16
160 35 0.12
161 3 0.01
162 57 0.20
163 50 0.17
164 24 0.08
165 9 0.03
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (157 bp):
ACTGAAATAATATAAAATAATAAAAACTAGAATTTATATATTTTTTAAAGTAATAAAATGCGGAG
AAAAAAATACGAACAAATGGCGGAAGTAAGAGTGTATTACTAACTTTTTTAAAATATAAAATAAT
TAATACAAAATATTTCAAAGAAAATAT
Found at i:19210460 original size:319 final size:324
Alignment explanation
Indices: 19209871--19210542 Score: 1124
Period size: 319 Copynumber: 2.1 Consensus size: 324
19209861 ATTCTCCTTC
*
19209871 AACACACTAAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAA
1 AACATACTAAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAA
** * * *
19209936 GTTTATGATATTTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCGGAAGTAAG
66 AATTATAATATTTTTCAAAAGAATAAAATGCGGAGAAAAAAATACGAACAAATGGCGGAAGTAAG
*
19210001 AATGTATTACTAACTTTTTTGTAACAATATAGAAATAATTAATACAAAATATTTCAAAGAAAATA
131 AATGTATTACTAACTTTTTTGTAACAATATAAAAATAATTAATACAAAATATTTCAAAGAAAATA
*
19210066 TACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATC
196 TACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAATC
* *
19210131 GAGAAAATAATACGAGCAAAGGGCAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAAT
261 AAGAAAATAATACGAGCAAAGGGAAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAAT
* *
19210195 AACATACTAAATTAATAAATTTCAAACATTATGCACTGGAATAATGTAAAATTAT-AAA-ATTAG
1 AACATACTAAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTA-
*
19210258 AAATTATAATATTTTTCAAAGGAATAAAATGCGGAG-AAAAAATACGAACAAATGGCGGAAGTAA
65 AAATTATAATATTTTTCAAAAGAATAAAATGCGGAGAAAAAAATACGAACAAATGGCGGAAGTAA
*
19210322 GAGTGTATTACTAAC-TTTTT-TAA-AAT-TCAAAAATAATTAATACAAAATATTTCAAAGAAAA
130 GAATGTATTACTAACTTTTTTGTAACAATAT-AAAAATAATTAATACAAAATATTTCAAAGAAAA
*
19210383 TTTACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAA
194 TATACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAA
19210448 TCAAGAAAATAATACGAGCAAAGGGAAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAA
259 TCAAGAAAATAATACGAGCAAAGGGAAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAA
19210513 T
324 T
* *
19210514 AACATTCTAAATTAATAAATTTCTAACAT
1 AACATACTAAATTAATAAATTTCAAACAT
19210543 ACTAAATTAA
Statistics
Matches: 329, Mismatches: 17, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
318 1 0.00
319 189 0.57
320 3 0.01
321 5 0.02
322 45 0.14
323 33 0.10
324 53 0.16
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (324 bp):
AACATACTAAATTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAA
AATTATAATATTTTTCAAAAGAATAAAATGCGGAGAAAAAAATACGAACAAATGGCGGAAGTAAG
AATGTATTACTAACTTTTTTGTAACAATATAAAAATAATTAATACAAAATATTTCAAAGAAAATA
TACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAATC
AAGAAAATAATACGAGCAAAGGGAAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAAT
Found at i:19210547 original size:24 final size:24
Alignment explanation
Indices: 19210513--19210566 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19210503 TTAATTTAAA
*
19210513 TAACATTCTAAATTAATAAATTTC
1 TAACATACTAAATTAATAAATTTC
19210537 TAACATACTAAATTAATAAATTTC
1 TAACATACTAAATTAATAAATTTC
*
19210561 AAACAT
1 TAACAT
19210567 TATGCACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (24 bp):
TAACATACTAAATTAATAAATTTC
Found at i:19210554 original size:157 final size:156
Alignment explanation
Indices: 19210065--19210554 Score: 452
Period size: 160 Copynumber: 3.1 Consensus size: 156
19210055 CAAAGAAAAT
*
19210065 ATACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAAT
1 ATACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAAT
19210130 CGAGAAAATAATACGAGCAAAGGGCAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAAT
66 CGAGAAAATAATACGAGCAAAGGG-AGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAAT
*
19210195 AACATACTAAATTAATAAATTTCAAAC
130 AACATTCTAAATTAATAAATTTCAAAC
* * * * *
19210222 ATTATGCACTGGAATAATGTAAAATTATAAAATTA-GA-AAT--TATAATATT-TTTCAAAGGAA
1 ---AT--ACTGAAATAATATAAAATAATAAAA-TACGAGAATAATATATTATTATTT-AAAGTAA
* * * * * * ****
19210282 T-AAAATGCGGAGAAAA-AATACGAACAAATGGCGGAAGTAAGAGTGTA-TTAC-TA-ACTTTTT
59 TAAAAAT-C-GAGAAAATAATACGAGCAAAGGGAGG-GGTAAGGGT-TATTTTCTTACACCAAAT
* * * * *
19210342 TAAAATTCAAA-AATAAT-T-AA-TACAAAATATTTCAAAGAAA
120 T--AATTTAAATAACATTCTAAATTA-ATAA-ATTTC--A-AAC
19210382 ATTTACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAA
1 A--TACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAA
*
19210447 ATCAAGAAAATAATACGAGCAAAGGGAAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAA
64 ATCGAGAAAATAATACGAGCAAAGGG-AGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAA
*
19210512 ATAACATTCTAAATTAATAAATTTCTAAC
128 ATAACATTCTAAATTAATAAATTTCAAAC
19210541 ATACT-AAATTAATA
1 ATACTGAAA-TAATA
19210555 AATTTCAAAC
Statistics
Matches: 253, Mismatches: 44, Indels: 69
0.69 0.12 0.19
Matches are distributed among these distances:
155 2 0.01
156 10 0.04
157 44 0.17
158 18 0.07
159 58 0.23
160 59 0.23
161 19 0.08
162 34 0.13
163 7 0.03
164 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (156 bp):
ATACTGAAATAATATAAAATAATAAAATACGAGAATAATATATTATTATTTAAAGTAATAAAAAT
CGAGAAAATAATACGAGCAAAGGGAGGGGTAAGGGTTATTTTCTTACACCAAATTAATTTAAATA
ACATTCTAAATTAATAAATTTCAAAC
Found at i:19214794 original size:37 final size:37
Alignment explanation
Indices: 19214737--19214888 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
19214727 TATGATCACT
*
19214737 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
19214772 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
19214809 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
19214854 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
19214889 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:19214872 original size:46 final size:46
Alignment explanation
Indices: 19214805--19215073 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
19214795 TAAGTGTAGC
* **
19214805 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
19214851 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
19214897 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
19214949 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
19214995 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
19215047 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
19215074 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:19214924 original size:52 final size:52
Alignment explanation
Indices: 19214848--19215067 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
19214838 TAGCTAAAGC
* *
19214848 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
19214901 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
19214953 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
19214999 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
19215051 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
19215068 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:19214970 original size:98 final size:98
Alignment explanation
Indices: 19214805--19215073 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
19214795 TAAGTGTAGC
* * *
19214805 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
19214870 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
19214904 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
19214969 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
19215002 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
19215067 GATCAGA
66 GATCAGA
19215074 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:19218123 original size:18 final size:18
Alignment explanation
Indices: 19218100--19218144 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
19218090 ATCCCAATGA
*
19218100 TCGCCACCACCTTCTTCT
1 TCGCCACCACATTCTTCT
*
19218118 TCGCCAGCACATTCTTCT
1 TCGCCACCACATTCTTCT
*
19218136 TCACCACCA
1 TCGCCACCA
19218145 ACCATATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.47, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACATTCTTCT
Found at i:19218900 original size:26 final size:26
Alignment explanation
Indices: 19218871--19218923 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
19218861 CTAGTTTTTT
19218871 ACTAACTAGTTTATATTGGTAAATAA
1 ACTAACTAGTTTATATTGGTAAATAA
*
19218897 ACTAACTAGTTTATTTTGGTAAATAA
1 ACTAACTAGTTTATATTGGTAAATAA
19218923 A
1 A
19218924 AATAATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (26 bp):
ACTAACTAGTTTATATTGGTAAATAA
Found at i:19219063 original size:3 final size:3
Alignment explanation
Indices: 19219055--19219083 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19219045 TCTTAATACT
19219055 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
19219084 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19219360 original size:27 final size:27
Alignment explanation
Indices: 19219314--19219387 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
19219304 AAGACGAGTA
19219314 GTGCCGCCAAT--CTGTATGGCACCATTG
1 GTGCCGCCAATGGCT-T-TGGCACCATTG
*
19219341 GTGCCGCCAATGGCTTTGGCACCTTTG
1 GTGCCGCCAATGGCTTTGGCACCATTG
*
19219368 GTGCCGCCAATGGCATTGGC
1 GTGCCGCCAATGGCTTTGGC
19219388 CTGACCAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 40 0.93
28 1 0.02
29 2 0.05
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATGGCTTTGGCACCATTG
Found at i:19219505 original size:27 final size:25
Alignment explanation
Indices: 19219447--19219509 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
19219437 TTGTTTTGTT
* *
19219447 TTATATATTTTAGTAAATAAAAATA
1 TTATATATTTTGGTAAATAAAAAAA
19219472 -TATATATTTTGGTAAATAAAAAAAA
1 TTATATATTTTGGTAAAT-AAAAAAA
19219497 TTATAATATTTTG
1 TTAT-ATATTTTG
19219510 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 16 0.48
25 6 0.18
26 3 0.09
27 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
TTATATATTTTGGTAAATAAAAAAA
Found at i:19227117 original size:23 final size:23
Alignment explanation
Indices: 19227084--19227131 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19227074 CCATTTTTAA
*
19227084 ATATATATTTT-TATACAAAATTT
1 ATATATATTTTAAATA-AAAATTT
*
19227107 ATATATTTTTTAAATAAAAATTT
1 ATATATATTTTAAATAAAAATTT
19227130 AT
1 AT
19227132 TACTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATATATTTTAAATAAAAATTT
Found at i:19233175 original size:130 final size:130
Alignment explanation
Indices: 19232942--19233202 Score: 450
Period size: 130 Copynumber: 2.0 Consensus size: 130
19232932 GCAACAGGGG
* *
19232942 CAAACGTCTCTTGATAGTCTACTCCATAAGTTTGAGTGAAGCCTTTAGTAACCAATCTGGCTTTG
1 CAAACGTCTCTTGATAGTCTACTCCATAAGTTTGAGTGAAGCCTTTAGCAACCAATCTGACTTTG
*
19233007 TACCTTTCAATCGAACCATCAGACTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACCAAATT
66 TACCTTTCAATAGAACCATCAGACTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACCAAATT
* * *
19233072 CAAACGTTTTTTGATAGTCTACTCGATAAGTTTGAGTGAAGCCTTTAGCAACCAATCTGACTTTG
1 CAAACGTCTCTTGATAGTCTACTCCATAAGTTTGAGTGAAGCCTTTAGCAACCAATCTGACTTTG
* *
19233137 TACCTTTCAATAGAACCATCAGATTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACTAAATT
66 TACCTTTCAATAGAACCATCAGACTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACCAAATT
19233202 C
1 C
19233203 TTGTCTGCTA
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (130 bp):
CAAACGTCTCTTGATAGTCTACTCCATAAGTTTGAGTGAAGCCTTTAGCAACCAATCTGACTTTG
TACCTTTCAATAGAACCATCAGACTTGTGTTTCACAGTAAACACCCGTTTGCATCCTACCAAATT
Found at i:19233498 original size:27 final size:27
Alignment explanation
Indices: 19233460--19233513 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19233450 AATCATTAGA
19233460 GGGTAACTCACCAGAAGAAGAAGATTC
1 GGGTAACTCACCAGAAGAAGAAGATTC
*
19233487 GGGTAACTCACCAGAAGAGGAAGATTC
1 GGGTAACTCACCAGAAGAAGAAGATTC
19233514 TTGGCACGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.15
Consensus pattern (27 bp):
GGGTAACTCACCAGAAGAAGAAGATTC
Found at i:19249570 original size:11 final size:11
Alignment explanation
Indices: 19249550--19249588 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19249540 GCCCCTGCCC
19249550 ATATTAAATAT
1 ATATTAAATAT
*
19249561 ATATTTAATAT
1 ATATTAAATAT
*
19249572 ATATAAAAATAT
1 ATAT-TAAATAT
19249584 ATATT
1 ATATT
19249589 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:19249605 original size:25 final size:23
Alignment explanation
Indices: 19249555--19249618 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 23
19249545 TGCCCATATT
* *
19249555 AAATATATATTTAATATATATAA
1 AAATATATATTTAATAAAAATAA
*
19249578 AAATATATATTTGATTAAAAATAGA
1 AAATATATATTT-AATAAAAATA-A
19249603 AAATATATATTTAATA
1 AAATATATATTTAATA
19249619 TATAATTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.34
24 10 0.29
25 13 0.37
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
AAATATATATTTAATAAAAATAA
Found at i:19252807 original size:14 final size:14
Alignment explanation
Indices: 19252769--19252811 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
19252759 CAAAATGTAC
19252769 AATATAATTAAA-T
1 AATATAATTAAATT
19252782 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
19252797 AA-ATAATTTAATT
1 AATATAATTAAATT
19252810 AA
1 AA
19252812 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:19260084 original size:18 final size:18
Alignment explanation
Indices: 19260042--19260085 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
19260032 TAAAAATTAT
*
19260042 ATAAAAGGATATAAATAA
1 ATAAAATGATATAAATAA
19260060 ATAAAATGATAT-AATAAA
1 ATAAAATGATATAAAT-AA
19260078 ATAAAATG
1 ATAAAATG
19260086 TATTTAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (18 bp):
ATAAAATGATATAAATAA
Found at i:19261802 original size:23 final size:23
Alignment explanation
Indices: 19261759--19261802 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
19261749 ATTCCAACAG
*
19261759 TTACAAACTATTATTTCCAGTAA
1 TTACAAACTATTATTTACAGTAA
*
19261782 TTACAAA-TCATTTTTTACAGT
1 TTACAAACT-ATTATTTACAGT
19261803 TGGGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (23 bp):
TTACAAACTATTATTTACAGTAA
Found at i:19262940 original size:69 final size:69
Alignment explanation
Indices: 19262860--19263116 Score: 275
Period size: 69 Copynumber: 3.8 Consensus size: 69
19262850 ATATAAAAAG
* * * * * **
19262860 TGTGCCCAACACTGGTCAAATAAACTAACAGAAGTTGTGCCCAACGCTAGTCGGATAATTGACGA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTATGCCCAACGCTAGTCAGATAACCGACGA
19262925 TGGT
66 TGGT
* * ** ** * *
19262929 TGTGCCCAACACTAGTCAGATAGACTGATAGAAGTTAACCCCAGTGCTACTCAGATAACCGACAA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTATGCCCAACGCTAGTCAGATAACCGACGA
19262994 TGGT
66 TGGT
* * * ** * *
19262998 TGTG-CCTA-GCTAGTCAGATAAATTGACAGAAGTTACACCCAACACTAGTCAGATAACCAACGA
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTATGCCCAACGCTAGTCAGATAACCGACGA
19263061 TGGT
66 TGGT
* * *
19263065 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTC
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTATGCCCAACGCTAGTC
19263117 CATAAAATCG
Statistics
Matches: 149, Mismatches: 37, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
67 51 0.34
68 5 0.03
69 93 0.62
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (69 bp):
TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTATGCCCAACGCTAGTCAGATAACCGACGA
TGGT
Found at i:19263115 original size:35 final size:35
Alignment explanation
Indices: 19262860--19263116 Score: 161
Period size: 35 Copynumber: 7.5 Consensus size: 35
19262850 ATATAAAAAG
* * *
19262860 TGTGCCCAACACTGGTCAAATAAACTAACAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
* * * *
19262895 TGTGCCCAACGCTAGTCGGAT-AATTGAC-GATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
* *
19262929 TGTGCCCAACACTAGTCAGATAGACTGATAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
*** *** * * *
19262964 TAACCCCAGTGCTACTCAGAT-AACCGACA-ATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
* * *
19262998 TGTG-CCTA-GCTAGTCAGATAAATTGACAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
*** ** *
19263031 TACACCCAACACTAGTCAGAT-AACCAAC-GATGGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGA-AGT
*
19263065 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGT
1 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
* *
19263100 TGTGCCTAACGCTAGTC
1 TGTGCCCAACACTAGTC
19263117 CATAAAATCG
Statistics
Matches: 159, Mismatches: 52, Indels: 22
0.68 0.22 0.09
Matches are distributed among these distances:
32 10 0.06
33 16 0.10
34 61 0.38
35 68 0.43
36 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (35 bp):
TGTGCCCAACACTAGTCAGATAAACTGACAGAAGT
Found at i:19263152 original size:20 final size:20
Alignment explanation
Indices: 19263127--19263170 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19263117 CATAAAATCG
19263127 CATTTCATAACCCAATATCA
1 CATTTCATAACCCAATATCA
**
19263147 CATTTCATAACTTAATATCA
1 CATTTCATAACCCAATATCA
19263167 CATT
1 CATT
19263171 CATTTCAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (20 bp):
CATTTCATAACCCAATATCA
Found at i:19263918 original size:138 final size:138
Alignment explanation
Indices: 19263678--19263933 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 138
19263668 AAGATAATCG
** * * * ** *
19263678 ACGATGGTTGTGCTTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCTAGTGGTAGTGAGATA
1 ACGATGGTTGTGCCCAGCACTAGTCAGATAAACTAACAGAAGTTGCACCCAATACTAGTCAGATA
** * *
19263743 ACTGACAATGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGTGCCCAGTGCTACTCG
66 ACCAACAATGGTTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGTGCCCAGTGCTACTCG
19263808 GATAACCA
131 GATAACCA
* * *
19263816 ACGATTGTTGTGCCCAGCACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATA
1 ACGATGGTTGTGCCCAGCACTAGTCAGATAAACTAACAGAAGTTGCACCCAATACTAGTCAGATA
* *
19263881 ACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCC
66 ACCAACAATGGTTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGTGCC
19263934 TAACGCTAGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 101 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (138 bp):
ACGATGGTTGTGCCCAGCACTAGTCAGATAAACTAACAGAAGTTGCACCCAATACTAGTCAGATA
ACCAACAATGGTTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGTGCCCAGTGCTACTCG
GATAACCA
Found at i:19263943 original size:69 final size:69
Alignment explanation
Indices: 19263669--19263944 Score: 318
Period size: 69 Copynumber: 4.0 Consensus size: 69
19263659 ATTTAGTTCA
* * ** * * * *
19263669 AGATAATCGACGATGGTTGTGCTTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCTAGTGGT
1 AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAATGCT
*
19263734 AGTG
66 AGTC
** * * * * * *
19263738 AGATAACTGACAATGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGTGCCCAGTGCT
1 AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAATGCT
*
19263803 ACTC
66 AGTC
* * * * *
19263807 GGATAACCAACGATTGTTGTGCCCAGCACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACT
1 AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAATGCT
19263872 AGTC
66 AGTC
* * *
19263876 AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCT
1 AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAATGCT
19263941 AGTC
66 AGTC
19263945 CATAAAATCG
Statistics
Matches: 173, Mismatches: 34, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 173 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (69 bp):
AGATAACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAATGCT
AGTC
Found at i:19263944 original size:35 final size:35
Alignment explanation
Indices: 19263684--19263933 Score: 179
Period size: 35 Copynumber: 7.2 Consensus size: 35
19263674 ATCGACGATG
** *
19263684 GTTGTGCTTAGCACTAGTCAGATAAACTAACAGAA
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
* * *** * *
19263719 GTTGCGCCTAGTGGTAGTGAGAT-AACTGACA-ATG
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGA-A
* * *
19263753 GTTGTGCCTAACACTAGTCAGATAAACTGATAGAA
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
** * * ** *
19263788 GTTGTGCCCAGTGCTACTCGGAT-AACCAAC-GATT
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGA-A
*
19263822 GTTGTGCCCAGCACTAGTCAGATAAATTGACAGAA
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
** ** ** *
19263857 GTTGCACCCAATACTAGTCAGAT-AACCAAC-GATG
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGA-A
19263891 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
1 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
19263926 GTTGTGCC
1 GTTGTGCC
19263934 TAACGCTAGT
Statistics
Matches: 157, Mismatches: 49, Indels: 18
0.70 0.22 0.08
Matches are distributed among these distances:
33 5 0.03
34 70 0.45
35 77 0.49
36 5 0.03
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (35 bp):
GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
Found at i:19263980 original size:20 final size:20
Alignment explanation
Indices: 19263955--19263998 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
19263945 CATAAAATCG
19263955 CATTTCATAACCCAATATCA
1 CATTTCATAACCCAATATCA
*
19263975 CATTTCATAACTCAATATCA
1 CATTTCATAACCCAATATCA
19263995 CATT
1 CATT
19263999 CATTTCAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (20 bp):
CATTTCATAACCCAATATCA
Found at i:19264566 original size:35 final size:35
Alignment explanation
Indices: 19264512--19264772 Score: 192
Period size: 35 Copynumber: 7.5 Consensus size: 35
19264502 ATTGACGATG
* *
19264512 GTTGTGCCTAGCACTAGTCAGATAAACTGACAGAA
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGAA
* * *
19264547 GTTGCGCCCAGCGGTAGTCAGAT-AACTGAC-GATG
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGA-A
* * * *
19264581 GTTGTGCCTAACACTAGTCAGATAAACTGATAGAA
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGAA
* * * * * *
19264616 GTTGCGCCCAGTGCTACTCGGAT-AACCGAC-GATG
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGA-A
** *
19264650 GTTGTGCCCAGTACTAGTCAGATAAATTGACAGAA
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGAA
** ** * * ** *
19264685 GTTGCACCCAATGCTAGTCAAAT-AGCCAAC-GATG
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGA-A
*
19264719 GTTGTGCCCAGCACTAGTCAGATAAACTGACAGAA
1 GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGAA
*
19264754 GTTGTGCCCAACGCTAGTC
1 GTTGTGCCCAGCGCTAGTC
19264773 CATAAAATCA
Statistics
Matches: 166, Mismatches: 51, Indels: 18
0.71 0.22 0.08
Matches are distributed among these distances:
33 6 0.04
34 69 0.42
35 85 0.51
36 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (35 bp):
GTTGTGCCCAGCGCTAGTCAGATAAACTGACAGAA
Found at i:19264603 original size:828 final size:827
Alignment explanation
Indices: 19262860--19265346 Score: 4163
Period size: 828 Copynumber: 3.0 Consensus size: 827
19262850 ATATAAAAAG
* * * * * * * * *
19262860 TGTGCCCAACACTGGTCAAATAAACTAACAGAAGTTGTGCCCAACGCTAGTCGGATAATTGACGA
1 TGTGCCTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCGGTAGTCAGATAACTGACGA
* * * * *
19262925 TGGTTGTGCCCAACACTAGTCAGATAGACTGATAGAAGTTAACCCCAGTGCTACTCAGATAACCG
66 TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGAGCCCAGTGCTACTCGGATAACCG
* * * *
19262990 ACAATGGTTGTGCCTAG-CTAGTCAGATAAATTGACAGAAGTTACACCCAACACTAGTCAGATAA
131 ACGATGGTTGTGCCCAGACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATAA
19263054 CCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTCCA
196 CCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTCCA
*
19263119 TAAAATCGCATTTCATAACCCAATATCACATTTCATAACTTAATATCACATTCATTTCAGTTATC
261 TAAAATCGCATTTCATAACCCAATATCACATTTCATAACTCAATATCACATTCATTTCAGTTATC
19263184 TATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCTATATATGATTTTATCAATATC
326 TATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCTATATATGATTTTATCAATATC
19263249 CGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAATAATAATTAACAATTAACTAA
391 CGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAATAATAATTAACAATTAACTAA
19263314 TTAAGTTAAGTAAATAACGTTCGAGTTCCAAGACTATGAACTTACCTAGTATGTAAACACAAGAT
456 TTAAGTTAAGTAAATAACGTTCGAGTTCCAAGACTATGAACTTACCTAGTATGTAAACACAAGAT
19263379 TTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTCATCAGTTCGGCAATACATCTCC
521 TTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTCATCAGTTCGGCAATACATCTCC
19263444 ATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCATTTATTCATTTTATCAACCATT
586 ATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCATTTATTCATTTTATCAACCATT
19263509 CATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAATAAATGTATACAAGTATCATAT
651 CATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAATAAATGTATACAAGTATCATAT
*
19263574 ATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAAGCTAAAGAATTACGAACTTACT
716 ATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAAGTTAAAGAATTACGAACTTACT
19263639 TAGCATTAAAGAAAATATTTATTTAGTTCAAGATAATCGACGATGGT
781 TAGCATTAAAGAAAATATTTATTTAGTTCAAGATAATCGACGATGGT
* * * * *
19263686 TGTGCTTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCTAGTGGTAGTGAGATAACTGACAA
1 TGTGCCTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCGGTAGTCAGATAACTGACGA
* *
19263751 TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGTGCCCAGTGCTACTCGGATAACCA
66 TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGAGCCCAGTGCTACTCGGATAACCG
*
19263816 ACGATTGTTGTGCCCAGCACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATA
131 ACGATGGTTGTGCCCAG-ACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATA
19263881 ACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTCC
195 ACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTCC
19263946 ATAAAATCGCATTTCATAACCCAATATCACATTTCATAACTCAATATCACATTCATTTCAGTTAT
260 ATAAAATCGCATTTCATAACCCAATATCACATTTCATAACTCAATATCACATTCATTTCAGTTAT
19264011 CTATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCTATATATGATTTTATCAATAT
325 CTATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCTATATATGATTTTATCAATAT
19264076 CCGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAATAATAATTAACAATTAACTA
390 CCGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAATAATAATTAACAATTAACTA
*
19264141 ATTAAGTTAAGTAAATAACGTACGAGTTCCAAGACTATGAACTTACCTAGTATGTAAACACAAGA
455 ATTAAGTTAAGTAAATAACGTTCGAGTTCCAAGACTATGAACTTACCTAGTATGTAAACACAAGA
19264206 TTTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTCATCAGTTCGGCAATACATCTC
520 TTTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTCATCAGTTCGGCAATACATCTC
19264271 CATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCATTTATTCATTTTATCAACCAT
585 CATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCATTTATTCATTTTATCAACCAT
19264336 TCATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAATAAATGTATACAAGTATCATA
650 TCATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAATAAATGTATACAAGTATCATA
19264401 TATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAAGTTAAAGAATTACGAACTTAC
715 TATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAAGTTAAAGAATTACGAACTTAC
*
19264466 TTAGCATTAAAGAAAATATTTATTTAGTTCAAGATAATTGACGATGGT
780 TTAGCATTAAAGAAAATATTTATTTAGTTCAAGATAATCGACGATGGT
*
19264514 TGTGCCTAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGGTAGTCAGATAACTGACGA
1 TGTGCCTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCGGTAGTCAGATAACTGACGA
*
19264579 TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGCGCCCAGTGCTACTCGGATAACCG
66 TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGAGCCCAGTGCTACTCGGATAACCG
* *
19264644 ACGATGGTTGTGCCCAGTACTAGTCAGATAAATTGACAGAAGTTGCACCCAATGCTAGTCAAATA
131 ACGATGGTTGTGCCCAG-ACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATA
* *
19264709 GCCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCCAACGCTAGTCC
195 ACCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAG---
*
19264774 ATAAAATCACATTTCATAAACCAATATCACATTTCATAACCCAATATCACATTTCATAACTCAAT
257 ------T--C----CAT--A--AA-ATCGCATTTCATAACCCAATATCACATTTCATAACTCAAT
* *
19264839 ATCACATTCATTTCAATTATCTATTAATCATCCATTAATTTATTCCATAAAGCCACGTTTTATCT
305 ATCACATTCATTTCAGTTATCTATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCT
* * * *
19264904 ATTTATGATTTTATCAATATCCGTTCAATAGAGCTTAACCAAACCCAAATAAAAATATAGTTAAA
370 ATATATGATTTTATCAATATCCGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAA
* *
19264969 TAATAATTAACAATTATCTAATTAAGTTAAGTAAATAACGTTCTAGTTCCAAGACTACT-AACTT
435 TAATAATTAACAATTAACTAATTAAGTTAAGTAAATAACGTTCGAGTTCCAAGACTA-TGAACTT
** * * * *
19265033 ACCTAGTATGTGGACAGAAAACTTTATTTAACTCCATACATTAACCATTATTCAACTTCAATCTC
499 ACCTAGTATGTAAACACAAGATTTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTC
* * * * *
19265098 ATCAGTTCGGTAATACATCTCCATATATAACATTTCCATACTATTAGTTTAAGGCTAATTATTCG
564 ATCAGTTCGGCAATACATCTCCATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCA
*
19265163 TTTATTCATTTTATCAACCATTCATTGGATTAAATATACATTTTATCATGTCTCCAAATAGCTAA
629 TTTATTCATTTTATCAACCATTCATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAA
*
19265228 TAAATGTATACAAGTATC--ATATATATATATCGAAATTCACAAGTAAATATTTAAATAGTTCAA
694 TAAATGTATACAAGTATCATATATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAA
* *
19265291 GTTAAAGAATTACAAACTTACTTAATTAGCATTAAAGAAAATATTTATTTACTTCA
759 GTTAAAGAATTACGAACTTAC----TTAGCATTAAAGAAAATATTTATTTAGTTCA
19265347 CATGGATGTT
Statistics
Matches: 1565, Mismatches: 69, Indels: 30
0.94 0.04 0.02
Matches are distributed among these distances:
826 123 0.08
828 916 0.59
837 1 0.00
839 1 0.00
843 3 0.00
845 1 0.00
846 64 0.04
847 2 0.00
848 423 0.27
849 1 0.00
850 30 0.02
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (827 bp):
TGTGCCTAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCGGTAGTCAGATAACTGACGA
TGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGAGCCCAGTGCTACTCGGATAACCG
ACGATGGTTGTGCCCAGACTAGTCAGATAAATTGACAGAAGTTGCACCCAATACTAGTCAGATAA
CCAACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCTAACGCTAGTCCA
TAAAATCGCATTTCATAACCCAATATCACATTTCATAACTCAATATCACATTCATTTCAGTTATC
TATTAATCATCCATTAATTTATTCCATAATGCCACGTTTTATCTATATATGATTTTATCAATATC
CGTTCAATAGAGCTTAATCAAACCCAATTAAAAACATAGTTAAATAATAATTAACAATTAACTAA
TTAAGTTAAGTAAATAACGTTCGAGTTCCAAGACTATGAACTTACCTAGTATGTAAACACAAGAT
TTTATTTAACTGCATACATTAACCATTATTCAACTTCAATCTCATCAGTTCGGCAATACATCTCC
ATATATAAAATTTCTATACTATTAGTTTAAGGCTAATTGTTCATTTATTCATTTTATCAACCATT
CATTGGATTAAATATACATTTTATCATATCTCCAAATAGCTAATAAATGTATACAAGTATCATAT
ATATATATATCAAAATTCACAAGTAAATATTTAAATAGTTCAAGTTAAAGAATTACGAACTTACT
TAGCATTAAAGAAAATATTTATTTAGTTCAAGATAATCGACGATGGT
Found at i:19264608 original size:69 final size:69
Alignment explanation
Indices: 19264505--19264772 Score: 365
Period size: 69 Copynumber: 3.9 Consensus size: 69
19264495 CAAGATAATT
* * *
19264505 GACGATGGTTGTGCCTAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGGTAGTCAGAT
1 GACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACGCTAGTCAGAT
*
19264570 AACT
66 AACC
* * * ** * *
19264574 GACGATGGTTGTGCCTAACACTAGTCAGATAAACTGATAGAAGTTGCGCCCAGTGCTACTCGGAT
1 GACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACGCTAGTCAGAT
19264639 AACC
66 AACC
* * * * *
19264643 GACGATGGTTGTGCCCAGTACTAGTCAGATAAATTGACAGAAGTTGCACCCAATGCTAGTCAAAT
1 GACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACGCTAGTCAGAT
*
19264708 AGCC
66 AACC
* *
19264712 AACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGTGCCCAACGCTAGTC
1 GACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACGCTAGTC
19264773 CATAAAATCA
Statistics
Matches: 175, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 175 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (69 bp):
GACGATGGTTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACGCTAGTCAGAT
AACC
Found at i:19264804 original size:20 final size:20
Alignment explanation
Indices: 19264779--19264846 Score: 111
Period size: 20 Copynumber: 3.4 Consensus size: 20
19264769 AGTCCATAAA
19264779 ATCACATTTCATAAACCAAT
1 ATCACATTTCATAAACCAAT
*
19264799 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAAACCAAT
19264819 ATCACATTTCAT-AACTCAAT
1 ATCACATTTCATAAAC-CAAT
19264839 ATCACATT
1 ATCACATT
19264847 CATTTCAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 2 0.04
20 43 0.96
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (20 bp):
ATCACATTTCATAAACCAAT
Found at i:19266370 original size:85 final size:85
Alignment explanation
Indices: 19266238--19266643 Score: 329
Period size: 85 Copynumber: 4.7 Consensus size: 85
19266228 GATCTGCTCT
* *
19266238 ACTTCAG-GAAGATAGGACTAGTAACTTCAATCTACTCCACAGCAACTTCAGGGAGATAAGATTG
1 ACTTCAGAG-AGATAAGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTG
* * *
19266302 GATGCGATCTGCTCTACTGCA
65 GATGCAATCTACTCCACTGCA
*** * * * * * *
19266323 ACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGACTA
1 ACTTCAGAGAGATAAGA-CTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT
* * **
19266387 GTAACTTCAATCTACTCCACTAAA
64 G-GA-TGCAATCTACTCCACTGCA
* * * * *** * *
19266411 AATTCAGGGAGATAAGA-TTG-GA-TGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
1 ACTTCAGAGAGATAAGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA--T-
* ** *
19266473 TGGTTTTAATCCACTCCACTGCA
63 TGGATGCAATCTACTCCACTGCA
* *
19266496 ACTTCAG-GAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGGTAAGATTG
1 ACTTCAGAG-AGATAAGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTG
* ** *
19266560 GATGCGATCTGTTCTACTGCA
65 GATGCAATCTACTCCACTGCA
* * *
19266581 ACTTCAGAGAGATAGGACTAGTAACTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
1 ACTTCAGAGAGATAAGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
19266644 TGTTGGCTTT
Statistics
Matches: 250, Mismatches: 58, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
84 1 0.00
85 174 0.70
86 13 0.05
87 4 0.02
88 58 0.23
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (85 bp):
ACTTCAGAGAGATAAGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
ATGCAATCTACTCCACTGCA
Found at i:19266623 original size:44 final size:44
Alignment explanation
Indices: 19266238--19266686 Score: 308
Period size: 44 Copynumber: 10.4 Consensus size: 44
19266228 GATCTGCTCT
* * * *
19266238 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACAGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* * * * *
19266282 ACTTCAGGGAGATAAGA-TTG-GA-TGCGATCTGCTCTACTGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* ** * * *
19266323 ACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTGTA
1 ACTTCAGGGAGATAAGA-CTAGTGACTTCAATCTACTCCACTGCA
* * * **
19266367 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* * *** *
19266411 AATTCAGGGAGATAAGA-TTG-GA-TGGGATCTACTCTACTGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* ** * *
19266452 ACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTGCA
1 ACTTCAGGGAGATAAGA-CTAGTGACTTCAATCTACTCCACTGCA
* * *
19266496 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* * * * ** *
19266540 ACTTCAGGGAGGTAAGA-TTG-GA-TGCGATCTGTTCTACTGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* * * * *
19266581 ACTTCAGAGAGATAGGACTAGTAACTTCAATCTGCTCTACTGCA
1 ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
* * * * * * * *
19266625 ACTTCAGGGAGATAAGATTTGTTGGCTTTAATCTTCTCTACAGTA
1 ACTTCAGGGAGATAAGACTAG-TGACTTCAATCTACTCCACTGCA
19266670 ACTTCAGGGAGATAAGA
1 ACTTCAGGGAGATAAGA
19266687 TTTGTCATCC
Statistics
Matches: 308, Mismatches: 83, Indels: 27
0.74 0.20 0.06
Matches are distributed among these distances:
41 86 0.28
42 7 0.02
43 15 0.05
44 166 0.54
45 34 0.11
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGACTAGTGACTTCAATCTACTCCACTGCA
Done.