Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 62 of 161
Found at i:19572580 original size:16 final size:16
Alignment explanation
Indices: 19572559--19572639 Score: 153
Period size: 16 Copynumber: 5.1 Consensus size: 16
19572549 TTCGCTGTAT
19572559 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
19572575 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
19572591 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
19572607 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
19572623 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
19572639 T
1 T
19572640 AGCAAATCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:19572682 original size:45 final size:44
Alignment explanation
Indices: 19572618--19572708 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
19572608 GGAATAGAGG
19572618 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
19572663 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
19572707 TG
1 TG
19572709 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:19573080 original size:101 final size:93
Alignment explanation
Indices: 19572974--19573256 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
19572964 ACTATAAAAG
* * * *
19572974 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
19573038 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
19573075 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
19573138 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
19573166 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
19573229 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
19573257 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:19573103 original size:26 final size:28
Alignment explanation
Indices: 19573074--19573134 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19573064 TATGAATTTG
*
19573074 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
19573100 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
19573128 TAAAATT
1 TATAATT
19573135 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:19573132 original size:47 final size:46
Alignment explanation
Indices: 19573081--19573224 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
19573071 TTGTATAATT
19573081 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
19573128 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
19573172 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
19573219 TAAAAT
1 TAAAAT
19573225 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:19573144 original size:91 final size:90
Alignment explanation
Indices: 19573049--19573256 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
19573039 TAATTATAAC
* * * *
19573049 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
19573114 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
19573140 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
19573205 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
19573231 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
19573257 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:19573216 original size:44 final size:43
Alignment explanation
Indices: 19573074--19573216 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
19573064 TATGAATTTG
* *
19573074 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
19573118 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
19573165 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
19573209 TATAATTT
1 TATAATTT
19573217 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:19573231 original size:47 final size:47
Alignment explanation
Indices: 19573099--19573237 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
19573089 TTATTATTAC
* *
19573099 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
19573146 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
19573190 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
19573237 A
1 A
19573238 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:19576321 original size:13 final size:13
Alignment explanation
Indices: 19576303--19576328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19576293 TGCTTTTGAG
19576303 TTCAAAAATAATT
1 TTCAAAAATAATT
19576316 TTCAAAAATAATT
1 TTCAAAAATAATT
19576329 CTGATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:19578172 original size:30 final size:30
Alignment explanation
Indices: 19578136--19578202 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
19578126 CGATTAACTC
*
19578136 AAACAAATAATGCAATACAGGCAAGAATCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
19578166 AAACAAATAATGCAATACAGGCAAGAACCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
19578196 AAACAAA
1 AAACAAA
19578203 CTATTTAGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.57, C:0.18, G:0.15, T:0.10
Consensus pattern (30 bp):
AAACAAATAATGCAATACAGGCAAGAACCG
Found at i:19591775 original size:3 final size:3
Alignment explanation
Indices: 19591767--19591794 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19591757 TCCATTTTCC
19591767 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
19591795 TTCAATTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:19594711 original size:10 final size:9
Alignment explanation
Indices: 19594684--19594743 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
19594674 GTCAATCAAT
19594684 AATT-TAAA
1 AATTATAAA
19594692 AATTATAAA
1 AATTATAAA
*
19594701 AATTTTAAA
1 AATTATAAA
*
19594710 AAAT-TAAA
1 AATTATAAA
*
19594718 ATTTA-AAA
1 AATTATAAA
*
19594726 AAATATAAA
1 AATTATAAA
19594735 AATTCATAA
1 AATT-ATAA
19594744 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 16 0.39
9 21 0.51
10 4 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:19594720 original size:16 final size:17
Alignment explanation
Indices: 19594684--19594735 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
19594674 GTCAATCAAT
*
19594684 AATTT-AAAAATTATAAA
1 AATTTAAAAAAATAT-AA
*
19594701 AATTTTAAAAAAT-TAA
1 AATTTAAAAAAATATAA
19594717 AATTTAAAAAAATATAA
1 AATTTAAAAAAATATAA
19594734 AA
1 AA
19594736 ATTCATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.45
17 11 0.35
18 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTAAAAAAATATAA
Found at i:19594736 original size:26 final size:26
Alignment explanation
Indices: 19594687--19594752 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 26
19594677 AATCAATAAT
* * *
19594687 TTAAAAATTATAAAAATTTTAAAAAA
1 TTAAAAATTAAAAAAATATAAAAAAA
*
19594713 TTAAAATTTAAAAAAATAT--AAAAA
1 TTAAAAATTAAAAAAATATAAAAAAA
* *
19594737 TTCATAATTAAAAAAA
1 TTAAAAATTAAAAAAA
19594753 AACATAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 18 0.53
26 16 0.47
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAATTAAAAAAATATAAAAAAA
Found at i:19596431 original size:36 final size:36
Alignment explanation
Indices: 19596404--19596481 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
19596394 TTTGATTATT
*
19596404 AAATTTTGAATTATTTAGTGATAAAATTTAATGATA
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
* * *
19596440 AAATTTAGGATTATTTAGTGATAATATTT-AGGA-A
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
19596474 AAATTTAG
1 AAATTTAG
19596482 CTAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 9 0.24
35 3 0.08
36 26 0.68
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (36 bp):
AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
Found at i:19596461 original size:23 final size:23
Alignment explanation
Indices: 19596429--19596472 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19596419 TAGTGATAAA
19596429 ATTTAATGATAAAATTTAGGATT
1 ATTTAATGATAAAATTTAGGATT
* *
19596452 ATTTAGTGATAATATTTAGGA
1 ATTTAATGATAAAATTTAGGA
19596473 AAAATTTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
ATTTAATGATAAAATTTAGGATT
Found at i:19596469 original size:13 final size:13
Alignment explanation
Indices: 19596415--19596470 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
19596405 AATTTTGAAT
19596415 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
19596428 AATTTAATGATAA
1 TATTTAGTGATAA
*
19596441 AATTTAG-GAT--
1 TATTTAGTGATAA
19596451 TATTTAGTGATAA
1 TATTTAGTGATAA
19596464 TATTTAG
1 TATTTAG
19596471 GAAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 3 0.08
13 24 0.67
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:19599747 original size:27 final size:27
Alignment explanation
Indices: 19599689--19599922 Score: 137
Period size: 27 Copynumber: 8.7 Consensus size: 27
19599679 CATCTTGGCT
* * **
19599689 GACTATCCCGTGTTTACTGTCCCAGCG
1 GACTAACCCGTGTTTACTATCCCAATG
* *
19599716 AACTACCCCGTGTTTACTATCCCAATG
1 GACTAACCCGTGTTTACTATCCCAATG
* * * * *
19599743 GACTAACCTGTGTTTAATGTCCTAATA
1 GACTAACCCGTGTTTACTATCCCAATG
* ** ***
19599770 GTCTAATTCGTGTTTACTATCCCAGCA
1 GACTAACCCGTGTTTACTATCCCAATG
* * * * * *
19599797 GACTAACTCATGTTTAATGTTCCGATG
1 GACTAACCCGTGTTTACTATCCCAATG
* **
19599824 GACTAACCCGTGTTTACTGTCCCGGTG
1 GACTAACCCGTGTTTACTATCCCAATG
* ****
19599851 GACTAACCTGTGTTTACTATCTTGCTG
1 GACTAACCCGTGTTTACTATCCCAATG
* * *
19599878 GACTAACCCGTGTTTAATATCCCGA-C
1 GACTAACCCGTGTTTACTATCCCAATG
*
19599904 AACCTAACCCGTGTTTACT
1 GA-CTAACCCGTGTTTACT
19599923 GTCTCGACAG
Statistics
Matches: 157, Mismatches: 49, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
26 1 0.01
27 156 0.99
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (27 bp):
GACTAACCCGTGTTTACTATCCCAATG
Found at i:19599782 original size:54 final size:54
Alignment explanation
Indices: 19599717--19599900 Score: 160
Period size: 54 Copynumber: 3.4 Consensus size: 54
19599707 GTCCCAGCGA
* *
19599717 ACTACCCCGTGTTTACTATCCCAATGGACTAACCTGTGTTTAATG-TCCTAATAG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTTCC-AATAG
* ** ** * * *
19599771 TCTAATTCGTGTTTACTATCCCAGCAGACTAA-CTCATGTTTAATGTTCCGATGG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCT-GTGTTTAATGTTCCAATAG
* * * * *
19599825 ACTAACCCGTGTTTACTGTCCCGGTGGACTAACCTGTGTTTACTATCTTGC--TGG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTA--ATGTTCCAATAG
*
19599879 ACTAACCCGTGTTTAATATCCC
1 ACTAACCCGTGTTTACTATCCC
19599901 GACAACCTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 91 0.88
55 5 0.05
56 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTTCCAATAG
Found at i:19599811 original size:81 final size:81
Alignment explanation
Indices: 19599697--19599845 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
19599687 CTGACTATCC
* * * * *
19599697 CGTGTTTACTGTCCCAGCGAACTACCCCGTGTTTACTATCCCAATGGACTAACCTGTGTTTAATG
1 CGTGTTTACTATCCCAGCGAACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAATG
19599762 TCCTAATAGTCTAATT
66 TCCTAATAGTCTAATT
* * * * *
19599778 CGTGTTTACTATCCCAGC-AGACTAACTCATGTTTAATGTTCCGATGGACTAACCCGTGTTTACT
1 CGTGTTTACTATCCCAGCGA-ACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAAT
19599842 GTCC
65 GTCC
19599846 CGGTGGACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.02
81 56 0.98
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (81 bp):
CGTGTTTACTATCCCAGCGAACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAATG
TCCTAATAGTCTAATT
Found at i:19610100 original size:13 final size:13
Alignment explanation
Indices: 19610078--19610110 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19610068 AAATTTAATC
*
19610078 ATTAAGAATATAT
1 ATTAATAATATAT
19610091 ATTAATAATATAT
1 ATTAATAATATAT
19610104 A-TAATAA
1 ATTAATAA
19610111 ACTTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTAATAATATAT
Found at i:19612729 original size:3 final size:3
Alignment explanation
Indices: 19612721--19612801 Score: 135
Period size: 3 Copynumber: 26.7 Consensus size: 3
19612711 GTTTTGCTAT
19612721 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
19612769 TTT TTC TTC TTC TTC TTTC TTC TTC CTC TTC TT
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TT
19612802 TTTCACACTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 70 0.96
4 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19626265 original size:15 final size:14
Alignment explanation
Indices: 19626247--19626309 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 14
19626237 CCTTTTTTCT
19626247 TTTCTTTCCTTTTTG
1 TTTCTTT-CTTTTTG
19626262 TTTCTTTC-TTTT-
1 TTTCTTTCTTTTTG
* *
19626274 TTTCATT-TTTTTC
1 TTTCTTTCTTTTTG
*
19626287 TTTCTATTTCTTTTTA
1 TTTC--TTTCTTTTTG
19626303 TTTCTTT
1 TTTCTTT
19626310 ATTTGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 10 0.25
13 8 0.20
14 4 0.10
15 9 0.22
16 9 0.22
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTCTTTCTTTTTG
Found at i:19626268 original size:10 final size:9
Alignment explanation
Indices: 19626239--19626309 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 9
19626229 TTTCATTCCC
19626239 TTTTTTCTT
1 TTTTTTCTT
*
19626248 TTCTTTCCTT
1 TT-TTTTCTT
19626258 TTTGTTTCTTTCT
1 TTT-TTTC--T-T
*
19626271 TTTTTTCAT
1 TTTTTTCTT
19626280 TTTTTTCTT
1 TTTTTTCTT
*
19626289 TCTATTTCTT
1 T-TTTTTCTT
19626299 TTTATTTCTT
1 TTT-TTTCTT
19626309 T
1 T
19626310 ATTTGTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
9 14 0.29
10 26 0.53
12 5 0.10
13 4 0.08
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:19626284 original size:9 final size:8
Alignment explanation
Indices: 19626239--19626301 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
19626229 TTTCATTCCC
19626239 TTTTTTCT
1 TTTTTTCT
19626247 TTTCTTTC-
1 TTT-TTTCT
* *
19626255 CTTTTTGT
1 TTTTTTCT
*
19626263 TTCTTTCT
1 TTTTTTCT
19626271 TTTTTTCAT
1 TTTTTTC-T
19626280 TTTTTTCT
1 TTTTTTCT
19626288 TTCTATTTCT
1 TT-T-TTTCT
19626298 TTTT
1 TTTT
19626302 ATTTCTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 3 0.07
8 20 0.45
9 14 0.32
10 7 0.16
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:19626284 original size:41 final size:42
Alignment explanation
Indices: 19626239--19626318 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
19626229 TTTCATTCCC
* *
19626239 TTTTTTCTTTTCT-TTCCTTTTTGTTTCTTTCTTT-TTTTCAT
1 TTTTTTC-TTTCTATTCCTTTTTATTTCTTTATTTGTTTTCAT
*
19626280 TTTTTTCTTTCTATTTCTTTTTATTTCTTTATTTGTTTT
1 TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTGTTTT
19626319 ATTATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.15
41 25 0.74
42 4 0.12
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.79
Consensus pattern (42 bp):
TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTGTTTTCAT
Found at i:19626297 original size:31 final size:32
Alignment explanation
Indices: 19626239--19626299 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
19626229 TTTCATTCCC
* *
19626239 TTTTTTCTTTTCTTTCCTTTTTGTTTCTTTCT
1 TTTTTTCTTTTCTTTCCTTTCTATTTCTTTCT
19626271 TTTTTTCATTTT-TTT-CTTTCTATTTCTTT
1 TTTTTTC-TTTTCTTTCCTTTCTATTTCTTT
19626300 TTATTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 12 0.46
32 10 0.38
33 4 0.15
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (32 bp):
TTTTTTCTTTTCTTTCCTTTCTATTTCTTTCT
Found at i:19626300 original size:24 final size:24
Alignment explanation
Indices: 19626242--19626305 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
19626232 CATTCCCTTT
* *
19626242 TTTCTTTTCTTTCCTTTTTGTTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
19626266 TTTC-TTT-TTTTCATTTT-TTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
*
19626287 TTTCTATTTCTTTTTATTT
1 TTTCT-TTTCTTTTCATTT
19626306 CTTTATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 6 0.18
24 12 0.35
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTCTTTTCTTTTCATTTTGTTTC
Found at i:19626844 original size:4 final size:4
Alignment explanation
Indices: 19626827--19626863 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
19626817 TCTTTCCATC
* *
19626827 TTCT TTCC TTCT TTCT TTCT TTCT TTCC TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
19626864 GCATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:19626844 original size:12 final size:12
Alignment explanation
Indices: 19626815--19626863 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
19626805 AAACGTGCAT
*
19626815 TTTCTTTCCATC
1 TTTCTTTCCTTC
19626827 -TTCTTTCCTTC
1 TTTCTTTCCTTC
*
19626838 TTTCTTTCTTTC
1 TTTCTTTCCTTC
* *
19626850 TTTCCTTCTTTC
1 TTTCTTTCCTTC
19626862 TT
1 TT
19626864 GCATTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCTTTCCTTC
Found at i:19629819 original size:52 final size:48
Alignment explanation
Indices: 19629800--19630002 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
19629790 TGACAAGTGG
* *
19629800 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19629846 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
19629898 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
19629944 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19629990 AAAGTGATAAGTG
1 AAAGTGATAAGTG
19630003 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:19629854 original size:98 final size:98
Alignment explanation
Indices: 19629734--19630002 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
19629724 TTTGAGTACT
*
19629734 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19629799 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
19629832 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
19629897 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
19629930 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
19629995 GATAAGTG
65 GAAAAGTG
19630003 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:19630010 original size:37 final size:37
Alignment explanation
Indices: 19629966--19630111 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19629956 GATAGCTTTA
*
19629966 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19630003 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
19630040 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
19630077 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19630112 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:19631431 original size:21 final size:21
Alignment explanation
Indices: 19631407--19631447 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19631397 CACAGGTTGA
*
19631407 TGTGCCTTAACATAAGGCTGT
1 TGTGCCTTAACACAAGGCTGT
*
19631428 TGTGGCTTAACACAAGGCTG
1 TGTGCCTTAACACAAGGCTG
19631448 CGTGTTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
TGTGCCTTAACACAAGGCTGT
Found at i:19632894 original size:14 final size:14
Alignment explanation
Indices: 19632875--19632902 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19632865 TAATTTAGTT
19632875 AGTGGATGTGCATG
1 AGTGGATGTGCATG
19632889 AGTGGATGTGCATG
1 AGTGGATGTGCATG
19632903 GCTTGGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (14 bp):
AGTGGATGTGCATG
Found at i:19633355 original size:21 final size:20
Alignment explanation
Indices: 19633314--19633355 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
19633304 TTAAATTGAG
*
19633314 AAATGTGTAAATTCTGTAGT
1 AAATGTGTAAATTCTGAAGT
*
19633334 AAATGTGTGAAATTGTGAAGT
1 AAATGTGT-AAATTCTGAAGT
19633355 A
1 A
19633356 TATGGGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (20 bp):
AAATGTGTAAATTCTGAAGT
Found at i:19633859 original size:25 final size:25
Alignment explanation
Indices: 19633810--19633885 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
19633800 GTCATTAGGG
* * *
19633810 TTATCGATTC-CAACTCTTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
19633834 TTATCGATACTCAGCTCGTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
* * * * *
19633859 TTACCGTTATTCAGCTCGGAGGAGC
1 TTATCGATACTCAGCTCGTATGAGC
19633884 TT
1 TT
19633886 CCCGTTTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 9 0.21
25 34 0.79
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TTATCGATACTCAGCTCGTATGAGC
Found at i:19636128 original size:21 final size:21
Alignment explanation
Indices: 19636103--19636156 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
19636093 GACAATTAAA
*
19636103 GACACACGAGAAGAATTATCC
1 GACACACGACAAGAATTATCC
*
19636124 GACACACGACAAGAATTATCT
1 GACACACGACAAGAATTATCC
*
19636145 GACACAAGACAA
1 GACACACGACAA
19636157 AGTGATAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (21 bp):
GACACACGACAAGAATTATCC
Found at i:19638673 original size:28 final size:28
Alignment explanation
Indices: 19638607--19638675 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
19638597 GTGATTTTTA
*
19638607 ATGAAATTGTCAATTAGGGGTTAAATTG
1 ATGAAATTGTAAATTAGGGGTTAAATTG
*
19638635 AT-AAATGTGTAAATTATGTGG-TAAATGTG
1 ATGAAAT-TGTAAATTA-GGGGTTAAAT-TG
19638664 -TGAAATTGTAAA
1 ATGAAATTGTAAA
19638676 ATATATGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 4 0.11
28 22 0.63
29 9 0.26
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.36
Consensus pattern (28 bp):
ATGAAATTGTAAATTAGGGGTTAAATTG
Found at i:19639201 original size:25 final size:25
Alignment explanation
Indices: 19639154--19639234 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
19639144 TTCTGGCTTT
* *
19639154 TATGAGCTTACAGATACTCAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* *
19639179 TATGAGCTTACCGTTATTTAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* * *
19639204 GAGGAGCTTACCGTTTA-TC-GCTCA
1 TATGAGCTTACCG-TTACTCAGCTCG
19639228 TATGAGC
1 TATGAGC
19639235 ATACATGTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 9 0.20
25 33 0.73
26 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCGTTACTCAGCTCG
Found at i:19641122 original size:3 final size:3
Alignment explanation
Indices: 19641114--19641159 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19641104 ATTTACCCTT
19641114 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19641160 AGAGGCCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19644943 original size:90 final size:90
Alignment explanation
Indices: 19644759--19644961 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 90
19644749 CCCTCAAATT
* * * * *
19644759 TTTTCAAAAAAAGTAATTAAGTTC-TTGCTTTTTTTTTACACTCATTTGAGCACTTAAACTTTCA
1 TTTTCAAAAAAAGCAATTAAG-CCACTACTTTTTTTTTACACTCATTGGAGCACTTAAACTTTCA
* *
19644823 AAATGCATCAAAAAATCCCTTAAACC
65 AAATGCATCAAAAAATCCATCAAACC
* * *
19644849 TTTTCGAAGAAAA-CAATTAAGCCACTACTTTTTTTTTGCACTCAATTGGA-TACTTAAACTTTC
1 TTTTC-AAAAAAAGCAATTAAGCCACTACTTTTTTTTTACACTC-ATTGGAGCACTTAAACTTTC
*
19644912 AAAATGCATCAAAAAGA-CCATCAAACT
64 AAAATGCATCAAAAA-ATCCATCAAACC
19644939 TTTTCAAAAAAAGCAATTAAGCC
1 TTTTCAAAAAAAGCAATTAAGCC
19644962 CCTGCTTAGG
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
89 7 0.07
90 77 0.80
91 12 0.12
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (90 bp):
TTTTCAAAAAAAGCAATTAAGCCACTACTTTTTTTTTACACTCATTGGAGCACTTAAACTTTCAA
AATGCATCAAAAAATCCATCAAACC
Found at i:19645057 original size:29 final size:29
Alignment explanation
Indices: 19644998--19645052 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
19644988 AAATAGAATC
* *
19644998 AATAAAAGATATAAATATTATTAAATTTT
1 AATAAAAAATATAAATATTATAAAATTTT
19645027 AATAAAAAATA-AAATATTA-AAAATTT
1 AATAAAAAATATAAATATTATAAAATTT
19645053 ATTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 8 0.33
29 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAAATATAAATATTATAAAATTTT
Found at i:19645097 original size:19 final size:19
Alignment explanation
Indices: 19645066--19645135 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
19645056 AAAAGTTAGA
*
19645066 AAAAAATAT-AAAAATCGT
1 AAAAAATATAAAAAATTGT
19645084 AAAAAATATAAAAAATTGT
1 AAAAAATATAAAAAATTGT
* *
19645103 -AAAATTTTATAAAAATTGT
1 AAAAAATATA-AAAAATTGT
19645122 AAAAAAATATAAAA
1 -AAAAAATATAAAA
19645136 TATATGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.37
19 17 0.40
20 3 0.07
21 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAAATATAAAAAATTGT
Found at i:19645504 original size:7 final size:7
Alignment explanation
Indices: 19645492--19645516 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19645482 TATTTCTAAA
19645492 ATTTATT
1 ATTTATT
19645499 ATTTATT
1 ATTTATT
19645506 ATTTATT
1 ATTTATT
19645513 ATTT
1 ATTT
19645517 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:19645523 original size:14 final size:15
Alignment explanation
Indices: 19645491--19645523 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19645481 GTATTTCTAA
19645491 AATTTATTATTTATT
1 AATTTATTATTTATT
19645506 -ATTTATTATTT-TT
1 AATTTATTATTTATT
19645519 AATTT
1 AATTT
19645524 TTAATAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
AATTTATTATTTATT
Found at i:19645658 original size:92 final size:90
Alignment explanation
Indices: 19645531--19645711 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 90
19645521 TTTTTAATAA
* * *
19645531 GAGCAGGGGCTTAAATGCTTTTTTGAAAAATTTTGAGAGTATTTTTGATGCATTTTGAAAGTTTA
1 GAGCAGAGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCA
*
19645596 AGTACCCAATTGAGTGA-AAAAAAAG
66 AATACCCAATTGAGT-ATAAAAAAAG
* * * *
19645621 GAGCAGAGGCTTAATTGCTGTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTT
1 GAGCAGAGGCTTAAATGC--TTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTT
**
19645686 CAAATACTTAATTGAGTATAAAAAAA
64 CAAATACCCAATTGAGTATAAAAAAA
19645712 TGAGGAGCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 16 0.21
91 1 0.01
92 61 0.78
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (90 bp):
GAGCAGAGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCA
AATACCCAATTGAGTATAAAAAAAG
Found at i:19645820 original size:13 final size:13
Alignment explanation
Indices: 19645802--19645826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19645792 CTACATAATA
19645802 TATAAAAATATAT
1 TATAAAAATATAT
19645815 TATAAAAATATA
1 TATAAAAATATA
19645827 AAACCGACCA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATAAAAATATAT
Found at i:19647952 original size:9 final size:9
Alignment explanation
Indices: 19647940--19647998 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
19647930 AAAATAAAAA
19647940 AATTCGGGT
1 AATTCGGGT
19647949 AATTCGGGT
1 AATTCGGGT
*
19647958 ATTTTTC-GGT
1 A--ATTCGGGT
*
19647968 AATTCGGTT
1 AATTCGGGT
*
19647977 AATTCGGTT
1 AATTCGGGT
19647986 AATTCGGGT
1 AATTCGGGT
19647995 AATT
1 AATT
19647999 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:19647970 original size:19 final size:19
Alignment explanation
Indices: 19647946--19648001 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
19647936 AAAAAATTCG
19647946 GGTAATTCGGGTATTTTTC
1 GGTAATTCGGGTATTTTTC
**
19647965 GGTAATTC-GGT-TAATTC
1 GGTAATTCGGGTATTTTTC
19647982 GGTTAATTCGGGTAATTTTT
1 GG-TAATTCGGGT-ATTTTT
19648002 AACCAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 6 0.21
18 9 0.31
19 11 0.38
21 3 0.10
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (19 bp):
GGTAATTCGGGTATTTTTC
Found at i:19649095 original size:44 final size:44
Alignment explanation
Indices: 19649025--19649115 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
19649015 ACTTTGTTTC
* * *
19649025 TTAGTTTCCCACTTAAACTCTTATTAGTGTGGGTTATTTTAATA
1 TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
*
19649069 TTAGTTTCACATTTAAACGT-TGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCACACTTAAAC-TCTGATTAGTGTAGGTTATTTTAATA
19649113 TTA
1 TTA
19649116 CTGGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (44 bp):
TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:19651147 original size:94 final size:94
Alignment explanation
Indices: 19650986--19651179 Score: 379
Period size: 94 Copynumber: 2.1 Consensus size: 94
19650976 CTGATTAGTG
19650986 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
19651051 GAAAGATAACTCATTACAAATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
19651080 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
*
19651145 GAAAGATAACTCATTACAGATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
19651174 TAGGTT
1 TAGGTT
19651180 TTGCAAGCTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (94 bp):
TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
GAAAGATAACTCATTACAAATTTAGGTAT
Found at i:19654847 original size:6 final size:6
Alignment explanation
Indices: 19654836--19654864 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19654826 CAAAAGAATT
19654836 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
19654865 CTTACAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:19658780 original size:24 final size:24
Alignment explanation
Indices: 19658753--19658855 Score: 93
Period size: 24 Copynumber: 4.1 Consensus size: 24
19658743 ACAAAGAATG
*
19658753 TATGAACATATATAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
19658777 TATGAAAATATAAAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
19658801 TAT-AAATGTATATAAAATATATAAAAA
1 TATGAAA-ATATAT-AAAT-TAT-AAAA
* *
19658828 CTATGAAAATA-AAATAATAATAAAA
1 -TATGAAAATATATA-AATTATAAAA
19658853 TAT
1 TAT
19658856 ATACATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.05
24 32 0.49
25 8 0.12
26 6 0.09
27 8 0.12
28 5 0.08
29 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TATGAAAATATATAAATTATAAAA
Found at i:19658816 original size:17 final size:17
Alignment explanation
Indices: 19658760--19658856 Score: 80
Period size: 16 Copynumber: 5.8 Consensus size: 17
19658750 ATGTATGAAC
*
19658760 ATATATAAATTAT-AAA
1 ATATATAAAATATAAAA
*
19658776 ATAT-GAAAATATAAAA
1 ATATATAAAATATAAAA
*
19658792 AT-TATAAAATATAAAT
1 ATATATAAAATATAAAA
*
19658808 GTATATAAAATATATAAA
1 ATATATAAAATATA-AAA
19658826 A-ACTATGAAAATA-AAATA
1 ATA-TAT-AAAATATAAA-A
19658844 ATA-ATAAAATATA
1 ATATATAAAATATA
19658857 TACATAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
15 7 0.11
16 26 0.40
17 17 0.26
18 8 0.12
19 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATATAAAATATAAAA
Found at i:19658820 original size:7 final size:7
Alignment explanation
Indices: 19658762--19658821 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
19658752 GTATGAACAT
19658762 ATATAAA
1 ATATAAA
*
19658769 TTATAAA
1 ATATAAA
19658776 ATATGAAA
1 ATAT-AAA
19658784 ATATAAAA
1 ATAT-AAA
19658792 ATTATAAA
1 A-TATAAA
19658800 ATATAAA
1 ATATAAA
19658807 TGTATATAAA
1 ---ATATAAA
19658817 ATATA
1 ATATA
19658822 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 20 0.44
8 15 0.33
9 3 0.07
10 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
ATATAAA
Found at i:19658823 original size:26 final size:26
Alignment explanation
Indices: 19658761--19658857 Score: 66
Period size: 26 Copynumber: 3.8 Consensus size: 26
19658751 TGTATGAACA
19658761 TATATAAAT-TAT-AAA-ATATGAAAA
1 TATA-AAATATATAAAATATATGAAAA
*
19658785 TATAAAA-ATTATAAAATATA--AATGTA
1 TATAAAATA-TATAAAATATATGAA--AA
19658811 TATAAAATATATAAAA-ACTATGAAAA
1 TATAAAATATATAAAATA-TATGAAAA
*
19658837 TAAAATAATA-ATAAAATATAT
1 TATAA-AATATATAAAATATAT
19658858 ACATAATATG
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
23 3 0.05
24 9 0.16
25 4 0.07
26 34 0.59
27 6 0.10
28 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
TATAAAATATATAAAATATATGAAAA
Found at i:19658851 original size:35 final size:35
Alignment explanation
Indices: 19658776--19658858 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
19658766 AAATTATAAA
* * *
19658776 ATATGAAA-ATATAAAAATTATAAAATATAAATGT
1 ATATAAAATATATAAAAACTATAAAATATAAATAT
19658810 ATATAAAATATATAAAAACTATGAAAATA-AAATA-
1 ATATAAAATATATAAAAACTAT-AAAATATAAATAT
19658844 ATAATAAAATATATA
1 AT-ATAAAATATATA
19658859 CATAATATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 9 0.21
35 28 0.65
36 6 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (35 bp):
ATATAAAATATATAAAAACTATAAAATATAAATAT
Found at i:19658940 original size:3 final size:3
Alignment explanation
Indices: 19658932--19658984 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
19658922 GCGTGTAGAT
19658932 ATA ATA ATA ATA ATA TATA AT- ATA ACT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
19658977 ATG ATA AT
1 ATA ATA AT
19658985 GCTATTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 37 0.84
4 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:19659587 original size:17 final size:16
Alignment explanation
Indices: 19659547--19659587 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
19659537 TAAAAACAAG
19659547 AAAGAAAATAAAAAGA
1 AAAGAAAATAAAAAGA
19659563 ACAA-AAAAGTAAAAAGA
1 A-AAGAAAA-TAAAAAGA
19659580 AAAGAAAA
1 AAAGAAAA
19659588 ACGGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAGAAAATAAAAAGA
Found at i:19662734 original size:22 final size:20
Alignment explanation
Indices: 19662686--19662734 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
19662676 TAAAAAATGT
19662686 TGAAATGTTGAAAACCTTGA
1 TGAAATGTTGAAAACCTTGA
* * *
19662706 AGCAATGTTGAAGAAATCTTGA
1 TGAAATGTTG-A-AAACCTTGA
19662728 TGAAATG
1 TGAAATG
19662735 GTGTTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (20 bp):
TGAAATGTTGAAAACCTTGA
Found at i:19662964 original size:20 final size:20
Alignment explanation
Indices: 19662900--19662963 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
19662890 AACCTGACAT
* * *
19662900 GTATCGATATTTTTAAGAGG
1 GTATCGATAATTTTAAAATG
19662920 GTATCGATAATTTTATAAAAT-
1 GTATCGATAA-TTT-TAAAATG
*
19662941 -TATTGATAATTTTAAAATG
1 GTATCGATAATTTTAAAATG
19662960 GTAT
1 GTAT
19662964 TAATACCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.17
19 3 0.08
20 20 0.56
21 3 0.08
22 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATAATTTTAAAATG
Found at i:19664169 original size:13 final size:12
Alignment explanation
Indices: 19664147--19664191 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
19664137 TAACTAATGA
19664147 AAAGAAATAAAT
1 AAAGAAATAAAT
*
19664159 AAAGAAAATAAAC
1 AAAG-AAATAAAT
19664172 AAATGAAATAAAT
1 AAA-GAAATAAAT
*
19664185 CAAGAAA
1 AAAGAAA
19664192 CCAATTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 19 0.68
14 1 0.04
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAGAAATAAAT
Found at i:19664175 original size:17 final size:17
Alignment explanation
Indices: 19664129--19664175 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
19664119 TAGAGAAGTA
* *
19664129 AAAATAAATAACTAATG
1 AAAATAAATAAATAAAG
*
19664146 AAAAGAAATAAATAAAG
1 AAAATAAATAAATAAAG
*
19664163 AAAATAAACAAAT
1 AAAATAAATAAAT
19664176 GAAATAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAATAAAG
Found at i:19670874 original size:18 final size:17
Alignment explanation
Indices: 19670847--19670885 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
19670837 ATTAAAATGT
*
19670847 AAAAATTAAATTAAAAC
1 AAAAATTAAAATAAAAC
*
19670864 AAAAATATAAAATAAAAT
1 AAAAAT-TAAAATAAAAC
19670882 AAAA
1 AAAA
19670886 TAAAAATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATTAAAATAAAAC
Found at i:19670884 original size:23 final size:24
Alignment explanation
Indices: 19670848--19670892 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
19670838 TTAAAATGTA
*
19670848 AAAATTAAATTAAAACAAAAATAT
1 AAAATTAAAATAAAACAAAAATAT
*
19670872 AAAA-TAAAATAAAATAAAAAT
1 AAAATTAAAATAAAACAAAAAT
19670893 GGCTCAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAATTAAAATAAAACAAAAATAT
Found at i:19671152 original size:59 final size:59
Alignment explanation
Indices: 19671085--19671203 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
19671075 CCATTTTCCT
* *
19671085 ATTATTTAGCTGACAAATTGGAGTGATTGTTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
19671144 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
19671203 A
1 A
19671204 CTAAAGAACT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (59 bp):
ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
Found at i:19672156 original size:10 final size:11
Alignment explanation
Indices: 19672135--19672159 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19672125 ATTTGTTCGA
19672135 TTTTCACTTTT
1 TTTTCACTTTT
19672146 TTTTCACTTTT
1 TTTTCACTTTT
19672157 TTT
1 TTT
19672160 GCTCCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCACTTTT
Found at i:19676087 original size:15 final size:16
Alignment explanation
Indices: 19676049--19676092 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
19676039 TATTTAAAAA
19676049 ATAAAAAATATAAATTT
1 ATAAAAAATA-AAATTT
* *
19676066 TTTAAAAATAAAA-TT
1 ATAAAAAATAAAATTT
19676081 ATAAAAAATAAA
1 ATAAAAAATAAA
19676093 CTCTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 3 0.13
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATAAAATTT
Found at i:19676119 original size:32 final size:31
Alignment explanation
Indices: 19676043--19676119 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
19676033 TTTTCATATT
* * *
19676043 TAAAAAATAAAAAATATAAATTTTTTAAAAA
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
* * *
19676074 T-AAAATTATAAAAAATAAACTCTTTAAAAT
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
19676104 TCAAAAAATAAAAAAA
1 T-AAAAAATAAAAAAA
19676120 TATTTAAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 24 0.67
31 1 0.03
32 11 0.31
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (31 bp):
TAAAAAATAAAAAAAATAAACTCTTTAAAAA
Found at i:19686261 original size:7 final size:6
Alignment explanation
Indices: 19686219--19686279 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
19686209 CAAAAACAAC
* * *
19686219 TAAAAA TAAAAA TAAACA TAAACA TAAACA TAAAAA TTAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA TAAAAA
*
19686268 TAAAAC TAAAAA
1 TAAAAA TAAAAA
19686280 AGAAATAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 44 0.88
7 6 0.12
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:19687848 original size:33 final size:32
Alignment explanation
Indices: 19687786--19687848 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
19687776 GGTAGCAAGA
**
19687786 ATAATAAAAATAAAATAATAAAATTACTAAAT
1 ATAATAAAAATAAAATAATAAAAAAACTAAAT
19687818 ATAATAAAAAATAAAATAA-AAATAAAACTAA
1 ATAAT-AAAAATAAAATAATAAA-AAAACTAA
19687849 GCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (32 bp):
ATAATAAAAATAAAATAATAAAAAAACTAAAT
Found at i:19689253 original size:25 final size:25
Alignment explanation
Indices: 19689205--19689253 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19689195 ACTGTTATTT
* * *
19689205 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
19689230 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
19689254 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:19689368 original size:27 final size:27
Alignment explanation
Indices: 19689301--19689368 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
19689291 ATTTTACTAC
19689301 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
19689328 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
19689353 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
19689369 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:19696889 original size:87 final size:87
Alignment explanation
Indices: 19696563--19696879 Score: 508
Period size: 87 Copynumber: 3.6 Consensus size: 87
19696553 AGAACAGATC
*
19696563 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
**
19696628 TGCCTTCCTATATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * *
19696650 AGTAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATGGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19696715 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * * * *
19696737 AGCAGATCGAGAATAAAACCCTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
19696802 TGCCTTCCTGCATTAACAGTGA
66 TGCCTTCCTGCATTGACAGCGA
*
19696824 AGCAGATCGAAAACAAAGCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT
19696880 GACAAATCTT
Statistics
Matches: 210, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 210 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTGACAGCGA
Found at i:19697169 original size:44 final size:42
Alignment explanation
Indices: 19697097--19697394 Score: 158
Period size: 44 Copynumber: 6.9 Consensus size: 42
19697087 ATTGAAGCTG
* * *
19697097 ATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * ** * *
19697140 ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGC
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* * *
19697180 ATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAA-A
1 AT-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGA
* * * ** * *
19697225 ACAAGTCTTATCCCCCTAAAGTCACAGTGGGGCAGACTGAAAAAGA
1 ATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TAAAGA
* *
19697271 A-AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTTG-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AGA
* * * *
19697314 ATAATCCTATCTCCCTCAAGTTGTAGTGGAACAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * * *
19697357 ATCGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
19697395 GCATCAAGTC
Statistics
Matches: 191, Mismatches: 46, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 30 0.16
42 2 0.01
43 10 0.05
44 139 0.73
45 5 0.03
46 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
Found at i:19698094 original size:20 final size:19
Alignment explanation
Indices: 19698060--19698099 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
19698050 AAAAGAATTA
19698060 AAGGAAAAGAAAAAATCAG
1 AAGGAAAAGAAAAAATCAG
19698079 AAGGAAAAGAAAAAAATCAG
1 AAGGAAAAG-AAAAAATCAG
19698099 A
1 A
19698100 CTTTGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (19 bp):
AAGGAAAAGAAAAAATCAG
Found at i:19698863 original size:18 final size:18
Alignment explanation
Indices: 19698811--19698864 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
19698801 TTTTTTTTAC
*
19698811 TATTTTTCGTTATTACTAT
1 TATTTTTAG-TATTACTAT
*
19698830 TATTTTATTATATATTACTAT
1 TA-TTT-TTA-GTATTACTAT
19698851 TATTTTTAGTATTA
1 TATTTTTAGTATTA
19698865 TAGATTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 6 0.21
21 13 0.45
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTTTTAGTATTACTAT
Found at i:19698883 original size:25 final size:25
Alignment explanation
Indices: 19698835--19698883 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19698825 ACTATTATTT
* * *
19698835 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
19698860 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
19698884 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:19698998 original size:27 final size:27
Alignment explanation
Indices: 19698931--19698998 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
19698921 ATTTTACTAC
19698931 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
19698958 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
19698983 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
19698999 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:19701340 original size:87 final size:87
Alignment explanation
Indices: 19701014--19701330 Score: 508
Period size: 87 Copynumber: 3.6 Consensus size: 87
19701004 AGAACAGATC
*
19701014 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
**
19701079 TGCCTTCCTATATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * *
19701101 AGTAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATGGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19701166 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * * * *
19701188 AGCAGATCGAGAATAAAACCCTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
19701253 TGCCTTCCTGCATTAACAGTGA
66 TGCCTTCCTGCATTGACAGCGA
*
19701275 AGCAGATCGAAAACAAAGCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT
19701331 GACAAATCTT
Statistics
Matches: 210, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 210 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTGACAGCGA
Found at i:19701620 original size:44 final size:42
Alignment explanation
Indices: 19701548--19701845 Score: 158
Period size: 44 Copynumber: 6.9 Consensus size: 42
19701538 ATTGAAGCTG
* * *
19701548 ATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * ** * *
19701591 ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGC
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* * *
19701631 ATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAA-A
1 AT-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGA
* * * ** * *
19701676 ACAAGTCTTATCCCCCTAAAGTCACAGTGGGGCAGACTGAAAAAGA
1 ATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TAAAGA
* *
19701722 A-AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTTG-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AGA
* * * *
19701765 ATAATCCTATCTCCCTCAAGTTGTAGTGGAACAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * * *
19701808 ATCGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
19701846 GCATCAAGTC
Statistics
Matches: 191, Mismatches: 46, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 30 0.16
42 2 0.01
43 10 0.05
44 139 0.73
45 5 0.03
46 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
Found at i:19702545 original size:20 final size:19
Alignment explanation
Indices: 19702511--19702550 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
19702501 AAAAGAATTA
19702511 AAGGAAAAGAAAAAATCAG
1 AAGGAAAAGAAAAAATCAG
19702530 AAGGAAAAGAAAAAAATCAG
1 AAGGAAAAG-AAAAAATCAG
19702550 A
1 A
19702551 CTTTGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (19 bp):
AAGGAAAAGAAAAAATCAG
Found at i:19703334 original size:25 final size:25
Alignment explanation
Indices: 19703286--19703334 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19703276 ACTGTTATTT
* * *
19703286 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
19703311 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
19703335 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:19703449 original size:27 final size:27
Alignment explanation
Indices: 19703382--19703449 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
19703372 ATTTTACTAC
19703382 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
19703409 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
19703434 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
19703450 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:19705550 original size:60 final size:60
Alignment explanation
Indices: 19705459--19705576 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
19705449 TCTATGGCCC
* * * * * *
19705459 GTGTAACTCATTGACTTGTAATTAAAGTTCAAAAATTAACTCCAGTATTCACATGGCCGT
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCGT
19705519 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
19705577 ATGTCGCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (60 bp):
GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCGT
Found at i:19708533 original size:19 final size:20
Alignment explanation
Indices: 19708511--19708571 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 20
19708501 AAATTTAAAC
*
19708511 TAAAATGAAAAT-ATAAAAA
1 TAAAATAAAAATAATAAAAA
19708530 TAAAATAAAAATAATAAAAA
1 TAAAATAAAAATAATAAAAA
** *
19708550 T-GGAT-AAATTAATAAAAA
1 TAAAATAAAAATAATAAAAA
19708568 TAAA
1 TAAA
19708572 GTGTTCCTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 13 0.38
19 13 0.38
20 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAATAAAAA
Found at i:19709345 original size:15 final size:17
Alignment explanation
Indices: 19709325--19709371 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
19709315 ACTACAAAAA
19709325 ATTTATTATT-AAT-AT
1 ATTTATTATTCAATAAT
*
19709340 ATTTATAATTGCAATAAAT
1 ATTTATTATT-CAAT-AAT
19709359 ATTTATTATTCAA
1 ATTTATTATTCAA
19709372 ATATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
17 3 0.12
18 3 0.12
19 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTATTATTCAATAAT
Found at i:19709440 original size:16 final size:16
Alignment explanation
Indices: 19709409--19709445 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19709399 ATGTGAATAA
19709409 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19709425 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19709441 TATTA
1 TATTA
19709446 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19709469 original size:18 final size:18
Alignment explanation
Indices: 19709431--19709466 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19709421 TTATTATTTT
*
19709431 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
19709449 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
19709467 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:19709633 original size:15 final size:17
Alignment explanation
Indices: 19709613--19709659 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
19709603 ACTACAAAAA
19709613 ATTTATTATT-AAT-AT
1 ATTTATTATTCAATAAT
*
19709628 ATTTATAATTGCAATAAAT
1 ATTTATTATT-CAAT-AAT
19709647 ATTTATTATTCAA
1 ATTTATTATTCAA
19709660 ATATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
17 3 0.12
18 3 0.12
19 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTATTATTCAATAAT
Found at i:19709719 original size:288 final size:288
Alignment explanation
Indices: 19709203--19709779 Score: 1154
Period size: 288 Copynumber: 2.0 Consensus size: 288
19709193 CAATTGGACT
19709203 TGATTTTCAAATTTAAAAAATTAAGGAACTAACTTCTTGAAAATAAAAGTAAAAAGACTAAAGTG
1 TGATTTTCAAATTTAAAAAATTAAGGAACTAACTTCTTGAAAATAAAAGTAAAAAGACTAAAGTG
19709268 CAAATCTGTGAAGTGAACATAGACTTATGACATATTTTAACCTTTATACTACAAAAAATTTATTA
66 CAAATCTGTGAAGTGAACATAGACTTATGACATATTTTAACCTTTATACTACAAAAAATTTATTA
19709333 TTAATATATTTATAATTGCAATAAATATTTATTATTCAAATATTAATATTGAATATTTTCAATAA
131 TTAATATATTTATAATTGCAATAAATATTTATTATTCAAATATTAATATTGAATATTTTCAATAA
19709398 TATGTGAATAATATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAATTTAAATAT
196 TATGTGAATAATATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAATTTAAATAT
19709463 TAAATAATTTATTAAAATAATAATTAAA
261 TAAATAATTTATTAAAATAATAATTAAA
19709491 TGATTTTCAAATTTAAAAAATTAAGGAACTAACTTCTTGAAAATAAAAGTAAAAAGACTAAAGTG
1 TGATTTTCAAATTTAAAAAATTAAGGAACTAACTTCTTGAAAATAAAAGTAAAAAGACTAAAGTG
19709556 CAAATCTGTGAAGTGAACATAGACTTATGACATATTTTAACCTTTATACTACAAAAAATTTATTA
66 CAAATCTGTGAAGTGAACATAGACTTATGACATATTTTAACCTTTATACTACAAAAAATTTATTA
19709621 TTAATATATTTATAATTGCAATAAATATTTATTATTCAAATATTAATATTGAATATTTTCAATAA
131 TTAATATATTTATAATTGCAATAAATATTTATTATTCAAATATTAATATTGAATATTTTCAATAA
19709686 TATGTGAATAATATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAATTTAAATAT
196 TATGTGAATAATATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAATTTAAATAT
19709751 TAAATAATTTATTAAAATAATAATTAAA
261 TAAATAATTTATTAAAATAATAATTAAA
19709779 T
1 T
19709780 AATTATATTA
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
288 289 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (288 bp):
TGATTTTCAAATTTAAAAAATTAAGGAACTAACTTCTTGAAAATAAAAGTAAAAAGACTAAAGTG
CAAATCTGTGAAGTGAACATAGACTTATGACATATTTTAACCTTTATACTACAAAAAATTTATTA
TTAATATATTTATAATTGCAATAAATATTTATTATTCAAATATTAATATTGAATATTTTCAATAA
TATGTGAATAATATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAATTTAAATAT
TAAATAATTTATTAAAATAATAATTAAA
Found at i:19709728 original size:16 final size:16
Alignment explanation
Indices: 19709697--19709733 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19709687 ATGTGAATAA
19709697 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19709713 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19709729 TATTA
1 TATTA
19709734 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19709757 original size:18 final size:18
Alignment explanation
Indices: 19709719--19709754 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19709709 TTATTATTTT
*
19709719 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
19709737 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
19709755 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:19709763 original size:12 final size:12
Alignment explanation
Indices: 19709748--19709803 Score: 71
Period size: 12 Copynumber: 4.7 Consensus size: 12
19709738 AAAATTTAAA
19709748 TATTAAATAATT
1 TATTAAATAATT
19709760 TATTAAAATAA-T
1 TATT-AAATAATT
*
19709772 AATTAAATAATT
1 TATTAAATAATT
19709784 ATATT-AATAATT
1 -TATTAAATAATT
19709796 TATTAAAT
1 TATTAAAT
19709804 GACTAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 10 0.26
12 19 0.50
13 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTAAATAATT
Found at i:19710489 original size:23 final size:23
Alignment explanation
Indices: 19710463--19710510 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
19710453 TATTTCTAGG
*
19710463 ATTGCATGCAACTCTACTCAATT
1 ATTGCATACAACTCTACTCAATT
*
19710486 ATTGCATACAACTCTACTCAGTT
1 ATTGCATACAACTCTACTCAATT
19710509 AT
1 AT
19710511 GTCTAATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTGCATACAACTCTACTCAATT
Found at i:19713917 original size:42 final size:42
Alignment explanation
Indices: 19713866--19714005 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
19713856 TTTTAGAAAT
*
19713866 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAA
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
* * ** **
19713908 AAACGCCGCTAAAGGTCATGATCTTTAGCGGTACTTCTCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTT-TTACAC
* * * **
19713951 AAACGCCACTATAAAG--ATGGCTTTTAGCGGCGCTTTTTGAC
1 AAACGCCGCTA-AAAGTCATGACCTTTAGCGGCGCTTTTACAC
19713992 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
19714006 ACATGACTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.04
41 13 0.17
42 46 0.59
43 13 0.17
44 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
Found at i:19715079 original size:43 final size:43
Alignment explanation
Indices: 19715025--19715185 Score: 227
Period size: 43 Copynumber: 3.7 Consensus size: 43
19715015 TTTATATAAA
* * * *
19715025 AAACGCCGCTAAAGATCATGACCTTTAACGGCACTTTTATCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
*
19715068 AAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
19715111 AAACGCTGCTAAAGAACATGACCTTTAGCGG-AGCTTTTGTCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCA-CTTTTGTCAC
* *
19715154 TAACG-TCGTTAAAGAACATGACCTTTAGCGGC
1 AAACGCT-GCTAAAGAACATGACCTTTAGCGGC
19715186 GCTTCTCGCA
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 106 0.99
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
Found at i:19715131 original size:86 final size:86
Alignment explanation
Indices: 19715023--19715222 Score: 257
Period size: 86 Copynumber: 2.3 Consensus size: 86
19715013 AATTTATATA
*
19715023 AAAAACGCCGCTAAAGATCATGACCTTTAACGGCA-CTTTTATCACAAACG-CTGCTAAAGAACA
1 AAAAACGCCGCTAAAGAACATGACCTTTAACGG-AGCTTTTATCACAAACGTC-GCTAAAGAACA
*
19715086 TGACCTTTAGCGGCGCTT-TTGTC
64 TGACCTTTAGCGGCGCTTCTCG-C
* * * * * *
19715109 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGAGCTTTTGTCACTAACGTCGTTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAACGGAGCTTTTATCACAAACGTCGCTAAAGAACATG
19715174 ACCTTTAGCGGCGCTTCTCGC
66 ACCTTTAGCGGCGCTTCTCGC
*
19715195 AAAAACGCCGCTAAA-AACAT-AACTTTAA
1 AAAAACGCCGCTAAAGAACATGACCTTTAA
19715223 AAAAATTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
84 6 0.06
85 6 0.06
86 84 0.85
87 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAACGGAGCTTTTATCACAAACGTCGCTAAAGAACATG
ACCTTTAGCGGCGCTTCTCGC
Found at i:19715572 original size:22 final size:22
Alignment explanation
Indices: 19715544--19715588 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19715534 GTAGATATCA
19715544 TAAAAAGAAATCCGCAAATGAT
1 TAAAAAGAAATCCGCAAATGAT
*
19715566 TAAAAAGAAATCCGCAGATGAT
1 TAAAAAGAAATCCGCAAATGAT
19715588 T
1 T
19715589 TTCTAGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (22 bp):
TAAAAAGAAATCCGCAAATGAT
Found at i:19720011 original size:7 final size:7
Alignment explanation
Indices: 19720001--19720052 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
19719991 CACTAACTCT
*
19720001 TAACCTC
1 TAACCCC
19720008 TAACCCC
1 TAACCCC
19720015 TAACCCC
1 TAACCCC
* *
19720022 AAATCCC
1 TAACCCC
19720029 TAACCCC
1 TAACCCC
**
19720036 TAACTAC
1 TAACCCC
19720043 TAACCCC
1 TAACCCC
19720050 TAA
1 TAA
19720053 ACCTTATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:19720050 original size:21 final size:20
Alignment explanation
Indices: 19719993--19720052 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
19719983 CCTTAAATCA
*
19719993 CTAACTCTTAACCTCTAACCC
1 CTAACTC-TAACCCCTAACCC
* * *
19720014 CTAACCCCAAATCCCTAACCC
1 CTAA-CTCTAACCCCTAACCC
19720035 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
19720053 ACCTTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:19720103 original size:7 final size:7
Alignment explanation
Indices: 19720091--19720136 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
19720081 ACTAATTAAT
19720091 CTAAACC
1 CTAAACC
19720098 CTAAACC
1 CTAAACC
19720105 CT-AACC
1 CTAAACC
19720111 C-AAATCC
1 CTAAA-CC
*
19720118 CTAACCC
1 CTAAACC
*
19720125 CTAATCC
1 CTAAACC
19720132 CTAAA
1 CTAAA
19720137 TCTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 7 0.21
7 24 0.73
8 2 0.06
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:19720122 original size:90 final size:82
Alignment explanation
Indices: 19720007--19720183 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 82
19719997 CTCTTAACCT
*
19720007 CTAACCCCTAACCCCAAATCCCTAACCCCTAACTACTAACCCCTAAACCTTATTTAATATATAAA
1 CTAAACCCTAACCCCAAATCCCTAACCCCT-A--A-T---CCCTAAACCTTATTT-A-ATATAAA
19720072 TTTAAAA-ACACTAATTAATCTAAACC
57 -TTAAAACACACTAATTAATCTAAACC
*
19720098 CTAAACCCTAA-CCCAAATCCCTAACCCCTAATCCCTAAATCTTATTTAATATAAATTAAAACAC
1 CTAAACCCTAACCCCAAATCCCTAACCCCTAATCCCTAAACCTTATTTAATATAAATTAAAACAC
*
19720162 TCTAATTAATCTAAACC
66 ACTAATTAATCTAAACC
*
19720179 TTAAA
1 CTAAA
19720184 GCTTGACCTG
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
80 6 0.07
81 29 0.36
82 1 0.01
83 14 0.17
86 1 0.01
87 1 0.01
89 1 0.01
90 18 0.22
91 10 0.12
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (82 bp):
CTAAACCCTAACCCCAAATCCCTAACCCCTAATCCCTAAACCTTATTTAATATAAATTAAAACAC
ACTAATTAATCTAAACC
Found at i:19720132 original size:14 final size:13
Alignment explanation
Indices: 19720094--19720135 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
19720084 AATTAATCTA
*
19720094 AACCCTAAACCCT
1 AACCCTAATCCCT
*
19720107 AACCCAAATCCCT
1 AACCCTAATCCCT
19720120 AACCCCTAATCCCT
1 AA-CCCTAATCCCT
19720134 AA
1 AA
19720136 ATCTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAATCCCT
Found at i:19720290 original size:14 final size:15
Alignment explanation
Indices: 19720271--19720303 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19720261 CTTAAACCAA
19720271 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
19720285 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
19720300 AATC
1 AATC
19720304 TATGAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:19720758 original size:41 final size:41
Alignment explanation
Indices: 19720692--19720832 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
19720682 GCCGCTAATG
*
19720692 CTCAGAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* * *
19720733 CTCAAAAACGCTGCT-AAAGCTCTGAGAATTAGCGGTGCTTT
1 CTCAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGCGCTTT
* ** *
19720774 CCCAAAAACGCCGCTAAAAGCCCAATCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* *
19720815 TTTAAAAACGCCGCTAAA
1 CTCAAAAACGCCGCTAAA
19720833 GCCCCGAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.88
42 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (41 bp):
CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
Found at i:19728251 original size:7 final size:7
Alignment explanation
Indices: 19728241--19728266 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19728231 TACTAACTCT
19728241 TAACCTC
1 TAACCTC
19728248 TAACCTC
1 TAACCTC
19728255 TAACCTC
1 TAACCTC
19728262 TAACC
1 TAACC
19728267 ACAAACCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
TAACCTC
Found at i:19728293 original size:21 final size:22
Alignment explanation
Indices: 19728256--19728307 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
19728246 TCTAACCTCT
*
19728256 AACCTCTAA-CCACAAACCAC-A
1 AACCCCTAACCCACAAACC-CGA
*
19728277 AACCCCTAACCCA-AAACCCGT
1 AACCCCTAACCCACAAACCCGA
19728298 AACCCCTAAC
1 AACCCCTAAC
19728308 TACTAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (22 bp):
AACCCCTAACCCACAAACCCGA
Found at i:19728479 original size:81 final size:80
Alignment explanation
Indices: 19728311--19728483 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 80
19728301 CCCTAACTAC
*
19728311 TAACCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAA
1 TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAA
*
19728376 CCTGAATCCCTAATCCC
66 CCTGAAT--CTAATCCA
* * *
19728393 TAACCCCTAAACCTTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCTTGAACCCTA
1 TAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTA
* *
19728456 ACTTGACAT-TGAATCTA
65 ACCTGA-ATCT-AATCCA
19728473 TAAACCCTAAA
1 T-AACCCTAAA
19728484 TCACAACCCT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
79 1 0.01
80 12 0.15
81 46 0.57
82 6 0.08
83 15 0.19
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (80 bp):
TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAA
CCTGAATCTAATCCA
Found at i:19728521 original size:14 final size:15
Alignment explanation
Indices: 19728502--19728534 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19728492 CTTAAACCAA
19728502 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
19728516 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
19728531 AATC
1 AATC
19728535 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:19728991 original size:41 final size:41
Alignment explanation
Indices: 19728930--19729040 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
19728920 TTTTGTGGAA
* *
19728930 CTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
19728971 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
*
19729012 CTTGTTT-AAAAACGCCACTAAAGCCCCGA
1 CTT-TTTCAAAAACGCCGCTAAAGCCCCGA
19729041 AAGGTCAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 63 0.95
42 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
Found at i:19737570 original size:14 final size:14
Alignment explanation
Indices: 19737551--19737577 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19737541 TTAATTTAAT
19737551 AATATAAATAAAAG
1 AATATAAATAAAAG
19737565 AATATAAATAAAA
1 AATATAAATAAAA
19737578 TTATTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AATATAAATAAAAG
Found at i:19738496 original size:18 final size:19
Alignment explanation
Indices: 19738468--19738537 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
19738458 TCTTTACAAG
19738468 AAAATTCAAAATAATTTAA
1 AAAATTCAAAATAATTTAA
*
19738487 AAAATT-AAAATAAATTT-T
1 AAAATTCAAAAT-AATTTAA
*
19738505 AAAATTCCAAAT-ATTTATA
1 AAAATTCAAAATAATTTA-A
19738524 AAAATTTCAAAATA
1 AAAA-TTCAAAATA
19738538 TATATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.10
18 11 0.27
19 19 0.46
20 7 0.17
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAA
Found at i:19738539 original size:16 final size:18
Alignment explanation
Indices: 19738519--19738563 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
19738509 TTCCAAATAT
19738519 TTATAAAAATTT-CAAAA
1 TTATAAAAATTTACAAAA
* *
19738536 -TATATATATTTACAAAA
1 TTATAAAAATTTACAAAA
19738553 TTATAAAAATT
1 TTATAAAAATT
19738564 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAAAAATTTACAAAA
Found at i:19738541 original size:18 final size:17
Alignment explanation
Indices: 19738505--19738563 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
19738495 AATAAATTTT
*
19738505 AAAATTCCAAATATTTATA
1 AAAATTTCAAA-A-TTATA
19738524 AAAATTTCAAAA-TATA
1 AAAATTTCAAAATTATA
* *
19738540 TATATTTACAAAATTATA
1 AAAATTT-CAAAATTATA
19738558 AAAATT
1 AAAATT
19738564 CTAAAACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.27
17 5 0.15
18 9 0.27
19 10 0.30
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTCAAAATTATA
Found at i:19741384 original size:128 final size:128
Alignment explanation
Indices: 19741212--19741602 Score: 525
Period size: 128 Copynumber: 3.0 Consensus size: 128
19741202 CACTGTTGTC
** *
19741212 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCAAACAAACGCCGTTATAGATCAGGACC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGG-CC
* *
19741277 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
19741340 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATTAGGGCC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA-GGCC
** *
19741405 TTTAGCGGCGCTTTTTTTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
19741469 AACGCCGCTATAGCTCAGGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGGTCAAGGCC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATC-AGGCC
** * ** * * * * *
19741534 TTTAGCGGCGCTTTTTTTACAAACGCTACTATAGACCAA-AGCTTTAGCGACGCTTCTCGCAAA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
19741597 AACGCC
1 AACGCC
19741603 ACTAAAAACA
Statistics
Matches: 236, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
128 132 0.56
129 103 0.44
130 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (128 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGCCT
TTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
Found at i:19741567 original size:43 final size:43
Alignment explanation
Indices: 19741212--19741548 Score: 498
Period size: 43 Copynumber: 7.9 Consensus size: 43
19741202 CACTGTTGTC
**
19741212 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCAAACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
19741255 AACGCCGTTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
19741298 AACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
19741340 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* * * ***
19741383 AACGCCGCTATAAATTAGGGCCTTTAGCGGCGCTTTTTTTACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
19741426 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
19741469 AACGCCGCTATAGCTCAGGACCTTTAGCGGTGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
19741512 AACGCCGCTATAGGTCAAGG-CCTTTAGCGGCGCTTTT
1 AACGCCGCTATAGATC-AGGACCTTTAGCGGCGCTTTT
19741549 TTTACAAACG
Statistics
Matches: 262, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 39 0.15
43 220 0.84
44 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
Found at i:19746232 original size:16 final size:16
Alignment explanation
Indices: 19746204--19746236 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19746194 TCTCTTTTAC
19746204 AATTATATAATAAATT
1 AATTATATAATAAATT
19746220 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
19746236 A
1 A
19746237 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:19746349 original size:7 final size:7
Alignment explanation
Indices: 19746337--19746390 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
19746327 CCCCATCATT
19746337 TAAACCA
1 TAAACCA
*
19746344 TAAACCC
1 TAAACCA
19746351 TAAACCA
1 TAAACCA
* *
19746358 TAATCCC
1 TAAACCA
19746365 TAAACTCA
1 TAAAC-CA
*
19746373 TAATCCA
1 TAAACCA
*
19746380 TAAACCT
1 TAAACCA
19746387 TAAA
1 TAAA
19746391 ATGGTAGCAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Done.