Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 67 of 207
Found at i:19391795 original size:16 final size:16
Alignment explanation
Indices: 19391764--19391797 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19391754 AAATTAAAGC
*
19391764 TAATTGTTATTAAAAT
1 TAATTGTTAGTAAAAT
19391780 TAATTGTTAGTAAAAT
1 TAATTGTTAGTAAAAT
19391796 TA
1 TA
19391798 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TAATTGTTAGTAAAAT
Found at i:19391867 original size:66 final size:59
Alignment explanation
Indices: 19391800--19391919 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
19391790 TAAAATTATC
* * *
19391800 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAAAATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAAAATTTGATTAGTA
* *
19391858 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAAAATTTGATTAGTA
19391917 AAA
1 AAA
19391920 CAAACTTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 6 0.11
59 49 0.89
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAAAATTTGATTAGTA
Found at i:19392025 original size:22 final size:24
Alignment explanation
Indices: 19391985--19392028 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19391975 AAATAAACTT
19391985 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
19392009 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
19392029 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:19397030 original size:13 final size:13
Alignment explanation
Indices: 19397012--19397039 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19397002 GGTGATCACG
19397012 TTGATTCATTAAC
1 TTGATTCATTAAC
19397025 TTGATTCATTAAC
1 TTGATTCATTAAC
19397038 TT
1 TT
19397040 AATTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTGATTCATTAAC
Found at i:19397036 original size:67 final size:68
Alignment explanation
Indices: 19396902--19397036 Score: 148
Period size: 67 Copynumber: 2.0 Consensus size: 68
19396892 TTATTTTTAT
* * *
19396902 AAGTTTAACATGGTTGATTGGATTTTGACATAAAGTCATCATGTCGATTTCTTAAATTAATTTAT
1 AAGTTGAACATGGTTGATTGGATTTTGACATAAAGTCATCACGTCGATTTCTTAAATTAATTCAT
19396967 TAA
66 TAA
* * ** * * * *
19396970 AAGTTGAATATGG-TGATTGGATTTTGGCATAGGGTGATCACGTTGA-TTCATTAACTTGATTCA
1 AAGTTGAACATGGTTGATTGGATTTTGACATAAAGTCATCACGTCGATTTC-TTAAATTAATTCA
19397033 TTAA
65 TTAA
19397037 CTTAATTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
66 3 0.05
67 41 0.75
68 11 0.20
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (68 bp):
AAGTTGAACATGGTTGATTGGATTTTGACATAAAGTCATCACGTCGATTTCTTAAATTAATTCAT
TAA
Found at i:19397048 original size:13 final size:13
Alignment explanation
Indices: 19397015--19397048 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19397005 GATCACGTTG
*
19397015 ATTCATTAACTTG
1 ATTCATTAACTTA
19397028 ATTCATTAACTTA
1 ATTCATTAACTTA
*
19397041 ATTTATTA
1 ATTCATTA
19397049 TATAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTCATTAACTTA
Found at i:19405133 original size:31 final size:31
Alignment explanation
Indices: 19405096--19405154 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
19405086 AATAACTCAA
19405096 TGACTTAAATAAAAACTATT-GAATAGTTTTG
1 TGACTTAAATAAAAA-TATTCGAATAGTTTTG
*
19405127 TGACTTAAATAAAAATTTTCGAATAGTT
1 TGACTTAAATAAAAATATTCGAATAGTT
19405155 CAGTGACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAATATTCGAATAGTTTTG
Found at i:19405161 original size:31 final size:31
Alignment explanation
Indices: 19405096--19405162 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
19405086 AATAACTCAA
**
19405096 TGACTTAAATAAAAACTATTGAATAGTTTTG
1 TGACTTAAATAAAAACTATTGAATAGTTCAG
*
19405127 TGACTTAAATAAAAA-TTTTCGAATAGTTCAG
1 TGACTTAAATAAAAACTATT-GAATAGTTCAG
19405158 TGACT
1 TGACT
19405163 AACTTGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTATTGAATAGTTCAG
Found at i:19406602 original size:99 final size:100
Alignment explanation
Indices: 19406489--19406683 Score: 340
Period size: 99 Copynumber: 2.0 Consensus size: 100
19406479 TTAAAAAATA
19406489 TTTAAAATTTATATTTCATATATTAAAATATTAAAAACAAATCATAATAAATTATTTTTT-TATT
1 TTTAAAATTTATATTTCATATATTAAAATATTAAAAACAAATCATAATAAATTATTTTTTATATT
19406553 ATTACTAACG-TATCATAATATTAACTAATTTATTT
66 ATTACTAA-GATATCATAATATTAACTAATTTATTT
* *
19406588 TTTAAAATTTATATTTCATATATTAAAATATTAACAACAAATTATAATAAATTATTTTTTATATT
1 TTTAAAATTTATATTTCATATATTAAAATATTAAAAACAAATCATAATAAATTATTTTTTATATT
*
19406653 CTTACTAAGATATCATAATATTAACTAATTT
66 ATTACTAAGATATCATAATATTAACTAATTT
19406684 GAACATTATT
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
99 59 0.65
100 32 0.35
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (100 bp):
TTTAAAATTTATATTTCATATATTAAAATATTAAAAACAAATCATAATAAATTATTTTTTATATT
ATTACTAAGATATCATAATATTAACTAATTTATTT
Found at i:19408352 original size:35 final size:35
Alignment explanation
Indices: 19408313--19408384 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
19408303 ACCATATTAG
* *
19408313 TAATTAATTAATTTTTATAA-ATTTT-ATACTTTTAA
1 TAATTAA-TAATTTATAAAATATTTTAATA-TTTTAA
*
19408348 TAATTTATAATTTATAAAATATTTTAATATTTTAA
1 TAATTAATAATTTATAAAATATTTTAATATTTTAA
19408383 TA
1 TA
19408385 TTTTTTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 10 0.31
35 19 0.59
36 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TAATTAATAATTTATAAAATATTTTAATATTTTAA
Found at i:19408399 original size:27 final size:28
Alignment explanation
Indices: 19408342--19408421 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 28
19408332 AATTTTATAC
* * *
19408342 TTTTAATAATTT-ATAATTTATAAAATA
1 TTTTAATATTTTAATATTTTTTAAAATA
*
19408369 TTTTAATATTTTAATATTTTTTAGAAT-
1 TTTTAATATTTTAATATTTTTTAAAATA
*
19408396 TTTTAA-ATTTTTAA-ATTTTTAAAAAT
1 TTTTAATA-TTTTAATATTTTTTAAAAT
19408422 TAATGTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 11 0.24
27 23 0.51
28 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTAATATTTTAATATTTTTTAAAATA
Found at i:19408404 original size:8 final size:8
Alignment explanation
Indices: 19408364--19408418 Score: 58
Period size: 8 Copynumber: 6.4 Consensus size: 8
19408354 ATAATTTATA
19408364 AAATATTTT
1 AAAT-TTTT
19408373 -AATATTTT
1 AAAT-TTTT
19408381 AATATTTTTT
1 AA-A-TTTTT
19408391 AGAATTTTT
1 A-AATTTTT
19408400 AAATTTTT
1 AAATTTTT
19408408 AAATTTTT
1 AAATTTTT
19408416 AAA
1 AAA
19408419 AATTAATGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 26 0.62
9 7 0.17
10 7 0.17
11 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
AAATTTTT
Found at i:19408421 original size:18 final size:18
Alignment explanation
Indices: 19408322--19408422 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 18
19408312 GTAATTAATT
*
19408322 AATTTTTATAAA-TTTTA
1 AATTTTTAAAAATTTTTA
* * * *
19408339 TACTTTTAATAATTTAT-
1 AATTTTTAAAAATTTTTA
*
19408356 AATTTAT-AAAATATTTT-
1 AATTTTTAAAAAT-TTTTA
* *
19408373 AATATTTTAATATTTTTTA
1 AAT-TTTTAAAAATTTTTA
19408392 GAATTTTT--AAATTTTTA
1 -AATTTTTAAAAATTTTTA
19408409 AATTTTTAAAAATT
1 AATTTTTAAAAATT
19408423 AATGTGATTC
Statistics
Matches: 61, Mismatches: 15, Indels: 15
0.67 0.16 0.16
Matches are distributed among these distances:
16 11 0.18
17 25 0.41
18 15 0.25
19 7 0.11
20 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
AATTTTTAAAAATTTTTA
Found at i:19425672 original size:29 final size:28
Alignment explanation
Indices: 19425610--19425674 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
19425600 ACAAGTAAAA
*
19425610 TAAAAAAATTTCACTAACCCTATTTCAT
1 TAAAAAAATTTCACGAACCCTATTTCAT
* * *
19425638 TCAAAAAATTTGAGGAACCCTATTTCAT
1 TAAAAAAATTTCACGAACCCTATTTCAT
19425666 TGAAAAAAA
1 T-AAAAAAA
19425675 AATTTAGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (28 bp):
TAAAAAAATTTCACGAACCCTATTTCAT
Found at i:19426063 original size:14 final size:13
Alignment explanation
Indices: 19426024--19426065 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
19426014 AGCTAACGCT
19426024 ATTTTT-TAATT-
1 ATTTTTATAATTA
*
19426035 GTTTTTATAATTA
1 ATTTTTATAATTA
19426048 ATTTTTATAATCTA
1 ATTTTTATAAT-TA
19426062 ATTT
1 ATTT
19426066 ATGTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 10 0.38
14 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
ATTTTTATAATTA
Found at i:19426564 original size:33 final size:33
Alignment explanation
Indices: 19426501--19426564 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
19426491 AGGGGTTCAA
* * *
19426501 TTGAACTTGAGTTAAATGGTGAGGGTGTTAGGC
1 TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
*
19426534 TTGAACCTGAGTTAGAGGGAGAGAGG-GTTAG
1 TTGAACCTGAGTTAAAGGGAGAG-GGTGTTAG
19426565 TGGTCCTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.28
Consensus pattern (33 bp):
TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
Found at i:19426740 original size:3 final size:3
Alignment explanation
Indices: 19426732--19426759 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19426722 TGGGTTAGTA
19426732 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
19426760 GATAGTGAAT
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:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:19433014 original size:21 final size:21
Alignment explanation
Indices: 19432975--19433016 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19432965 AGGGGAACTC
19432975 AATATTTCAATAATTTTAAGTA
1 AATATTTCAAT-ATTTTAAGTA
19432997 AATATTTTCAAT-TTTTAAGT
1 AATA-TTTCAATATTTTAAGT
19433017 GAACACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
AATATTTCAATATTTTAAGTA
Found at i:19434678 original size:27 final size:27
Alignment explanation
Indices: 19434648--19434754 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
19434638 TTTCTATTTT
*
19434648 TTAGATCGCAACAAAGGCTTTCATCTC
1 TTAGATCGCCACAAAGGCTTTCATCTC
* ** *
19434675 TTAGATCACCAGTAAGGCTTTCATTTC
1 TTAGATCGCCACAAAGGCTTTCATCTC
* *
19434702 TTAGATCGTCACAAAGTCTTTCATCTC
1 TTAGATCGCCACAAAGGCTTTCATCTC
* * *
19434729 TTAGGTCGCCACAAAGACTTTTATCT
1 TTAGATCGCCACAAAGGCTTTCATCT
19434755 TTCTGGTATG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (27 bp):
TTAGATCGCCACAAAGGCTTTCATCTC
Found at i:19435969 original size:43 final size:43
Alignment explanation
Indices: 19435915--19436034 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 43
19435905 ATAATAAGAG
*
19435915 GAACATATAATAAATCAATACATATATAGAAT-ATAAT-TA-TGAT
1 GAACATGTAATAAATCAATA-ATATAT--AATCATAATATATTGAT
*
19435958 GAACATGTAATAAATCAAT-ATATATAATCATTATATATTGAT
1 GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
19436000 GAACATGTAATAAATCAAT-ATATATAATCATAATA
1 GAACATGTAATAAATCAATAATATATAATCATAATA
19436035 AGGGGGAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 8 0.11
42 38 0.54
43 18 0.25
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (43 bp):
GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
Found at i:19445428 original size:20 final size:24
Alignment explanation
Indices: 19445383--19445433 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 24
19445373 TTTATTACGT
19445383 ATATATATATTGTAGAATATATAA
1 ATATATATATTGTAGAATATATAA
19445407 ATATATATA-TG-A-AATATA-AA
1 ATATATATATTGTAGAATATATAA
19445427 ATATATA
1 ATATATA
19445434 CAGAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 1 0.04
23 2 0.07
24 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
ATATATATATTGTAGAATATATAA
Found at i:19445442 original size:22 final size:22
Alignment explanation
Indices: 19445417--19445468 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
19445407 ATATATATAT
*
19445417 GAAATATAAAATATATACAGAA
1 GAAAAATAAAATATATACAGAA
19445439 GAAAAATAAAATATATACAGAA
1 GAAAAATAAAATATATACAGAA
19445461 GAAAAATA
1 GAAAAATA
19445469 TGGATTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.67, C:0.04, G:0.10, T:0.19
Consensus pattern (22 bp):
GAAAAATAAAATATATACAGAA
Found at i:19445568 original size:22 final size:22
Alignment explanation
Indices: 19445534--19445585 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19445524 AATATGTGTA
* *
19445534 TATATGTACATAAATTA-AAATG
1 TATATATATATAAATTATAAA-G
*
19445556 TGTATATATATAAATTATAAAG
1 TATATATATATAAATTATAAAG
19445578 TATATATA
1 TATATATA
19445586 AAAAAAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (22 bp):
TATATATATATAAATTATAAAG
Found at i:19447899 original size:131 final size:131
Alignment explanation
Indices: 19447750--19448192 Score: 600
Period size: 131 Copynumber: 3.4 Consensus size: 131
19447740 GGAAGACAAT
* * * * *
19447750 ATCTACAATCTTCGACCTACTTCACTACTGCTCAGGGAGATAAGG-CTAGTGGCTCAAATCTACT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCT
* * * * * *
19447814 TCTTACTATATTGGGAAGATAAGATTCACAATCTTCGATCTGCTCCACTACTGTTTCGGGATATA
65 TCCTACTATCTCGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTAGGGAGATA
19447879 AG
130 AG
* * * *
19447881 ATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATTTGTTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
* * * *
19447946 CCTACTATCTCGGGAAGATAAGATTCGTAGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAA
66 CCTACTATCTCGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
19448011 G
131 G
19448012 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
** * * * * * *
19448077 CCTACTATCTCGGGATTATAAGATTCGCCATGTTCGATCTGCTTCACTACTGTTTAGAGAGACAG
66 CCTACTATCTCGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
19448142 G
131 G
* * *
19448143 ATCTATAATCTCCAACCTACTCCACTACTGCTCAAGGAGATAGGACTGGT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGT
19448193 TTCACCAATC
Statistics
Matches: 273, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
130 3 0.01
131 270 0.99
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (131 bp):
ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
CCTACTATCTCGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
G
Found at i:19448487 original size:24 final size:24
Alignment explanation
Indices: 19448455--19448512 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
19448445 CGGATTGCCC
19448455 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
19448479 CCACTGTAATCTTTAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
19448503 CCACTGTAAT
1 CCACTGTAAT
19448513 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:19449386 original size:43 final size:42
Alignment explanation
Indices: 19449320--19449418 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
19449310 CCCTAATCTA
** *
19449320 ATCAAAATTTGAGTTGCTCTGATCACCTCATGCCCCATTTTG
1 ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCCATTTTG
* * *
19449362 ATCCAAAATTTGAGCCGCTTTGATCACCTCATATCCTATTTTG
1 AT-CAAAATTTGAGCCGCTCTGATCACCTCATACCCCATTTTG
*
19449405 GTCAAAATTTGAGC
1 ATCAAAATTTGAGC
19449419 TGCCCTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 14 0.29
43 35 0.71
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (42 bp):
ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCCATTTTG
Found at i:19449504 original size:6 final size:6
Alignment explanation
Indices: 19449495--19449555 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
19449485 TGGCTTCTGC
* * *
19449495 TTTTCT TTTTC- TTTTC- TTTTCT TCTTCT TTCT-T TTTTAT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
19449540 TTTTTT TTTTGT TTTT
1 TTTTCT TTTTCT TTTT
19449556 TTAAACAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
5 14 0.30
6 32 0.70
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:19449510 original size:11 final size:11
Alignment explanation
Indices: 19449494--19449547 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
19449484 TTGGCTTCTG
19449494 CTTTTCTTTTT
1 CTTTTCTTTTT
19449505 CTTTTC-TTTT
1 CTTTTCTTTTT
19449515 CTTCTTCTTTCTT
1 CTT-TTCTTT-TT
*
19449528 -TTTTATTTTT
1 CTTTTCTTTTT
19449538 CTTTT-TTTTT
1 CTTTTCTTTTT
19449548 TTGTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 14 0.37
11 18 0.47
12 4 0.11
13 2 0.05
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:19449547 original size:16 final size:16
Alignment explanation
Indices: 19449495--19449547 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
19449485 TGGCTTCTGC
*
19449495 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTT
*
19449511 TTTTCTTCTTCTTTCTT
1 TTTTCTTTTTCTTT-TT
*
19449528 TTTTATTTTTCTTTTT
1 TTTTCTTTTTCTTTTT
19449544 TTTT
1 TTTT
19449548 TTGTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 19 0.59
17 13 0.41
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTT
Found at i:19449548 original size:11 final size:11
Alignment explanation
Indices: 19449495--19449554 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
19449485 TGGCTTCTGC
*
19449495 TTTTCTTTTTC
1 TTTTCTTTTTT
*
19449506 TTTTCTTTTCT
1 TTTTCTTTTTT
* *
19449517 TCTTCTTTCTT
1 TTTTCTTTTTT
*
19449528 TTTTATTTTTCT
1 TTTTCTTTTT-T
19449540 TTTT-TTTTTT
1 TTTTCTTTTTT
19449550 GTTTT
1 -TTTT
19449555 TTTAAACAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 1 0.03
11 33 0.85
12 5 0.13
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:19454280 original size:20 final size:23
Alignment explanation
Indices: 19454237--19454291 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 23
19454227 ATTTATTATG
19454237 TATAT-ATATATATATTGTAGAA
1 TATATAATATATATATTGTAGAA
19454259 TATATAATATATATA-TG-A-AA
1 TATATAATATATATATTGTAGAA
*
19454279 TATAAAATATATA
1 TATATAATATATA
19454292 CATAAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.45
21 1 0.03
22 7 0.23
23 9 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
TATATAATATATATATTGTAGAA
Found at i:19455273 original size:5 final size:5
Alignment explanation
Indices: 19455263--19455300 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
19455253 AAAAAAATCG
* *
19455263 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAC AAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
19455301 AACGGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:19455280 original size:14 final size:14
Alignment explanation
Indices: 19455263--19455289 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19455253 AAAAAAATCG
19455263 AAAATAAAATAAAT
1 AAAATAAAATAAAT
19455277 AAAATAAAATAAA
1 AAAATAAAATAAA
19455290 ACAAGATAAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:19455990 original size:16 final size:16
Alignment explanation
Indices: 19455969--19456000 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19455959 TTACTTCGCA
19455969 ATAAAATAATAACGTG
1 ATAAAATAATAACGTG
19455985 ATAAAATAATAACGTG
1 ATAAAATAATAACGTG
19456001 GAACACACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
ATAAAATAATAACGTG
Found at i:19457583 original size:25 final size:25
Alignment explanation
Indices: 19457547--19457594 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19457537 TAAATGCGAA
19457547 AGGCAAAATGTGTTCAACTGGTTGT
1 AGGCAAAATGTGTTCAACTGGTTGT
* * *
19457572 AGGCAAAGTGTGTTTAATTGGTT
1 AGGCAAAATGTGTTCAACTGGTT
19457595 ATAGCCACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (25 bp):
AGGCAAAATGTGTTCAACTGGTTGT
Found at i:19457670 original size:13 final size:13
Alignment explanation
Indices: 19457652--19457696 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
19457642 TAGATTTTTT
19457652 TTAAATATTATCA
1 TTAAATATTATCA
*
19457665 TTAAATAAT-TCA
1 TTAAATATTATCA
19457677 --AAATATTATCA
1 TTAAATATTATCA
19457688 TTAAATATT
1 TTAAATATT
19457697 TCAAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATATTATCA
Found at i:19457684 original size:23 final size:23
Alignment explanation
Indices: 19457654--19457703 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
19457644 GATTTTTTTT
19457654 AAATATTATCATTAAATAATTCA
1 AAATATTATCATTAAATAATTCA
*
19457677 AAATATTATCATTAAATATTTCA
1 AAATATTATCATTAAATAATTCA
19457700 AAAT
1 AAAT
19457704 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCATTAAATAATTCA
Found at i:19469963 original size:21 final size:21
Alignment explanation
Indices: 19469939--19469978 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19469929 TCCTAAGATG
*
19469939 TGAATTGGATTAAATTGAGTA
1 TGAATTAGATTAAATTGAGTA
*
19469960 TGAATTATATTAAATTGAG
1 TGAATTAGATTAAATTGAG
19469979 CTAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
TGAATTAGATTAAATTGAGTA
Found at i:19470569 original size:74 final size:75
Alignment explanation
Indices: 19470438--19470611 Score: 171
Period size: 74 Copynumber: 2.4 Consensus size: 75
19470428 AGTGTCCGTC
* * * * * * *
19470438 ATATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCCTGATATGGCTTGCTTGA
1 ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
19470503 ACTTCCCAAT
66 ACTTCCCAAT
* *
19470513 ATATGGCTATTCG-GAGTTTCCCGATTAATA-GCTCTTCG-GAGCTACCCGTTATTGGCTCGCAT
1 ATATGGCTATTCGTGAGCTTCCCGATTAA-AGGCTCTTCGTGAGCTACCCGATA-TGGCTCGCAT
* *
19470575 GAGCTTCCTAAT
64 GAACTTCCCAAT
* *
19470587 -TATGGCTCTT-ATGAGCTTCCC-ATTA
1 ATATGGCTATTCGTGAGCTTCCCGATTA
19470612 TACAGCCCCG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
72 4 0.05
73 27 0.33
74 39 0.48
75 12 0.15
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (75 bp):
ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
ACTTCCCAAT
Found at i:19475462 original size:3 final size:3
Alignment explanation
Indices: 19475454--19475500 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19475444 ATAACGAACA
19475454 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
19475501 ACGTGTAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19477670 original size:23 final size:22
Alignment explanation
Indices: 19477639--19477697 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
19477629 TATCCAAACA
19477639 ATAACAACAAAATAGTAAGCAAC
1 ATAACAACAAAATAGT-AGCAAC
* * *
19477662 ATAATAACAAAATGGTAGCAAA
1 ATAACAACAAAATAGTAGCAAC
* *
19477684 ACAACAGCAAAATA
1 ATAACAACAAAATA
19477698 ACTAATTCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:19485434 original size:20 final size:19
Alignment explanation
Indices: 19485397--19485442 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
19485387 AAATGTACTA
*
19485397 ATTAA-TTTTTTGGGCCAC
1 ATTAATTTTTTTGGACCAC
19485415 ATTAATTTTCTTTGGACCAC
1 ATTAATTTT-TTTGGACCAC
19485435 ATTAATTT
1 ATTAATTT
19485443 AAGATCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTAATTTTTTTGGACCAC
Found at i:19486294 original size:24 final size:26
Alignment explanation
Indices: 19486246--19486295 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19486236 ACATTATTTT
19486246 AATGTAATAGAATAATAATGTATAAAA
1 AATGTAATAGAATAAT-ATGTATAAAA
*
19486273 AATGTGATAGAATAAT-TG-ATAAA
1 AATGTAATAGAATAATATGTATAAA
19486296 TTTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (26 bp):
AATGTAATAGAATAATATGTATAAAA
Found at i:19488826 original size:31 final size:31
Alignment explanation
Indices: 19488733--19488828 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
19488723 GGCAAATTAC
* *
19488733 AAGAGTAAGTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
19488764 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
19488796 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
19488827 AA
1 AA
19488829 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:19494394 original size:42 final size:42
Alignment explanation
Indices: 19494335--19494444 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 42
19494325 TGAAGGTAGG
19494335 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTT-GATTTTTCT
1 CAACTTTTTTTTTGCGCT-TTTGCTTTTTTTTTAGATTTTTCT
19494377 CAACTTTTTTTTTGCGCTTTT--TTTTTTTTTAGATTTTTCT
1 CAACTTTTTTTTTGCGCTTTTGCTTTTTTTTTAGATTTTTCT
19494417 CAA---TTTTTTTGCGCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCGC-TTTTGCTTTTTTT
19494445 ATTAACTAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
37 11 0.17
38 4 0.06
39 9 0.14
40 19 0.30
41 3 0.05
42 18 0.28
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.68
Consensus pattern (42 bp):
CAACTTTTTTTTTGCGCTTTTGCTTTTTTTTTAGATTTTTCT
Found at i:19494403 original size:40 final size:40
Alignment explanation
Indices: 19494335--19494444 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 40
19494325 TGAAGGTAGG
*
19494335 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTTGATTTTTCT
1 CAACTTTTTTTTTGCGCT-TTT-TTTTTTTTTTGATTTTTCT
*
19494377 CAACTTTTTTTTTGCGCTTTTTTTTTTTTTAGATTTTTCT
1 CAACTTTTTTTTTGCGCTTTTTTTTTTTTTTGATTTTTCT
**
19494417 CAA---TTTTTTTGCGCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCGCTTTTTTTTTTTTTT
19494445 ATTAACTAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
37 22 0.35
40 20 0.32
41 3 0.05
42 18 0.29
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.68
Consensus pattern (40 bp):
CAACTTTTTTTTTGCGCTTTTTTTTTTTTTTGATTTTTCT
Found at i:19495052 original size:31 final size:31
Alignment explanation
Indices: 19494959--19495054 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19494949 GGCAAATTAC
*
19494959 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
19494990 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
19495022 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
19495053 AA
1 AA
19495055 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:19501064 original size:16 final size:17
Alignment explanation
Indices: 19501043--19501083 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
19501033 TCCAAAGTAC
*
19501043 AATTTTATCA-TTAATT
1 AATTTTATAATTTAATT
19501059 AATTTT-TAATTTAATT
1 AATTTTATAATTTAATT
19501075 -ATTTTATAA
1 AATTTTATAA
19501084 AGACTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTATAATTTAATT
Found at i:19503433 original size:15 final size:16
Alignment explanation
Indices: 19503396--19503433 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
19503386 TGGATACCTA
*
19503396 AAAAAAATATAAATTT
1 AAAAAAATATAAACTT
*
19503412 TAAAAAAT-TAAACTT
1 AAAAAAATATAAACTT
19503427 AAAAAAA
1 AAAAAAA
19503434 CCCAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATATAAACTT
Found at i:19509015 original size:56 final size:56
Alignment explanation
Indices: 19508929--19509050 Score: 192
Period size: 56 Copynumber: 2.2 Consensus size: 56
19508919 TAAAAACTAT
* * *
19508929 GTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAATTAA
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGA-TTATCAAATTAA
*
19508985 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAG
1 GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
19509041 GTAAAATTAT
1 GTAAAATTAT
19509051 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (56 bp):
GTAAAATTATTAAGCCCAAAAAATTGTGTTAATGGTTAGTAAGATTATCAAATTAA
Found at i:19509070 original size:23 final size:23
Alignment explanation
Indices: 19509044--19509128 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
19509034 AAATTAGGTA
* *
19509044 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
19509067 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
19509090 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
19509113 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
19509129 AGGGTTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:19509130 original size:29 final size:29
Alignment explanation
Indices: 19509096--19509403 Score: 528
Period size: 29 Copynumber: 10.6 Consensus size: 29
19509086 AAATAAATTA
19509096 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
19509125 GGTTAGGGTTTTTAATTAAATTAGGATAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
19509154 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
19509183 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
19509212 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
19509241 GGTTAAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
19509270 GGTTAGGGTTTTTAATTAAATTATGG-TAG
1 GGTTAGGGTTTTTAATTAAATTA-GGTTAG
*
19509299 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
19509328 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
19509357 TGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
19509386 GGTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
19509404 CGATTTTTAT
Statistics
Matches: 266, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
28 2 0.01
29 262 0.98
30 2 0.01
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:19511781 original size:28 final size:29
Alignment explanation
Indices: 19511725--19511780 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
19511715 TGAAAATATA
19511725 AAAAAAATTTAAAATTATTTTAAAAAAAT
1 AAAAAAATTTAAAATTATTTTAAAAAAAT
*
19511754 AAAAAAATTTGAAATTATTTTAAAAAA
1 AAAAAAATTTAAAATTATTTTAAAAAA
19511781 TGAAATTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAAAATTTAAAATTATTTTAAAAAAAT
Found at i:19511840 original size:22 final size:22
Alignment explanation
Indices: 19511815--19511864 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
19511805 TAATATAGAT
* *
19511815 TTGA-AAGATTTTTGGAATGAAA
1 TTGAGAAGA-TTTTGAAAGGAAA
*
19511837 TTGAGAGGATTTTGAAAGGAAA
1 TTGAGAAGATTTTGAAAGGAAA
19511859 TTGAGA
1 TTGAGA
19511865 GTTTAAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTGAGAAGATTTTGAAAGGAAA
Found at i:19511865 original size:22 final size:22
Alignment explanation
Indices: 19511824--19511865 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19511814 TTTGAAAGAT
* *
19511824 TTTTGGAATGAAATTGAGAGGA
1 TTTTGAAAGGAAATTGAGAGGA
19511846 TTTTGAAAGGAAATTGAGAG
1 TTTTGAAAGGAAATTGAGAG
19511866 TTTAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (22 bp):
TTTTGAAAGGAAATTGAGAGGA
Found at i:19511895 original size:22 final size:22
Alignment explanation
Indices: 19511870--19511914 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
19511860 TGAGAGTTTA
19511870 AGAGAAATTTGGAAGGAAATTG
1 AGAGAAATTTGGAAGGAAATTG
* *
19511892 AGAGGATTTTGGAAGGAAATTG
1 AGAGAAATTTGGAAGGAAATTG
19511914 A
1 A
19511915 TATAGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.24
Consensus pattern (22 bp):
AGAGAAATTTGGAAGGAAATTG
Found at i:19517640 original size:25 final size:25
Alignment explanation
Indices: 19517604--19517672 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
19517594 GGTCACCGAT
19517604 TTCAGCTCGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
19517629 TTCAGCTTGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
19517654 TTCAGCTCGTATGAGCTTC
1 TTCAGCTCGCATGAGCTTC
19517673 TTGCTATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGCATGAGCTTCCCATTA
Found at i:19525497 original size:35 final size:34
Alignment explanation
Indices: 19525397--19525500 Score: 154
Period size: 35 Copynumber: 3.0 Consensus size: 34
19525387 TCTCTATTTG
* *
19525397 GCGTGTTTCGATTGGACTAGCTCTTATAAGCACT
1 GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
19525431 GACGTGTTTCGATTGGACTAGCTCTTATGAGCATT
1 G-CGTGTTTCGATTGGACTAGCTCTTATGAGCATT
* *
19525466 AGCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATT
1 -GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
19525501 TGATGTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 62 0.97
36 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (34 bp):
GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
Found at i:19527911 original size:75 final size:75
Alignment explanation
Indices: 19527826--19527979 Score: 236
Period size: 75 Copynumber: 2.1 Consensus size: 75
19527816 GCGGTTGTCC
* * * * * *
19527826 TATAATTTTTTGATGTCATGGGACATAGGTTGACAACATGTTTGCAACATGTTGACTGCTTCTAT
1 TATAATTTTTTGATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
19527891 TAGGATTTTG
66 TAGGATTTTG
* *
19527901 TATAATTTTTTGATGTCACGTGAAACAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTAT
1 TATAATTTTTTGATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
19527966 TAGGATTTTG
66 TAGGATTTTG
19527976 TATA
1 TATA
19527980 TAAATTACGA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (75 bp):
TATAATTTTTTGATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
TAGGATTTTG
Found at i:19528402 original size:73 final size:73
Alignment explanation
Indices: 19528171--19528688 Score: 384
Period size: 73 Copynumber: 7.2 Consensus size: 73
19528161 TGAGACAAAA
* * * * ** *
19528171 TCTATCCCAACCTTTTTTAGTTTACCTTAGACGGGTTTA-CCCTAACC-TTTTT-AAGATTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCC-AACCTTTTTTAAAGGTTGCCT
*
19528233 TAGAC-GGG
65 TAGACAAGG
* * * * * * * *
19528241 TTTATCCCAACTTTTTTTAA-GTTGCATTGGAAAAGGTCTATCCCAA-CTTTTTT-ACGGTTGCT
1 TCTATCCCAAC-CTTTTTAAGGTTGCCTTAG-ACAGGTCAATCCCAACCTTTTTTAAAGGTTGCC
19528303 TTA-A-ATAGG
64 TTAGACA-AGG
* * * * * *
19528312 TCTATCCCAACATTTTTAAGGTTGTCTTAAACGGGTCAATCCCAACCCTTTTTAAAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
19528377 AGACAGGG
66 AGACAAGG
* * * * * * *
19528385 TCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAAGTCTATCCCAACCTTTTTTGAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
19528450 AGACAAGG
66 AGACAAGG
* * * * *
19528458 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG-CATCTCCCAACTTTTTTTAAAGGTTGC
1 TCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAGGTCA-ATCCCAACCTTTTTTAAAGGTTGC
19528522 CTTAGACAAGG
63 CTTAGACAAGG
* * * * *
19528533 TTTATCCCAACCTTTTTAAGGTTGCCTTAGA-A-G--AATCTCAATCTTTTTTAAATGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
19528594 AGATAAGG
66 AGACAAGG
** ** *
19528602 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAA-CTTTTTTAAAAGGTTA
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGAC-AGGTCAATCCCAACCTTTTTT-AAAGGTTG
* *
19528666 TCTTAGAC-TGG
62 CCTTAGACAAGG
*
19528677 TCTATCCTAACC
1 TCTATCCCAACC
19528689 ACTTTCAAAG
Statistics
Matches: 351, Mismatches: 75, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
69 37 0.11
70 43 0.12
71 67 0.19
72 12 0.03
73 90 0.26
74 3 0.01
75 80 0.23
76 19 0.05
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
AGACAAGG
Found at i:19528683 original size:37 final size:36
Alignment explanation
Indices: 19528171--19528683 Score: 379
Period size: 38 Copynumber: 14.2 Consensus size: 36
19528161 TGAGACAAAA
* * *
19528171 TCTATCCCAACCTTTTTT--AGTTTACCTTAGACGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
19528206 TTTA-CCCTAACCTTTTT-AAGATTGCCTTAGACGGG
1 TCTATCCC-AACTTTTTTAAAGGTTGCCTTAGACAGG
* * * * *
19528241 TTTATCCCAACTTTTTTTAA-GTTGCATTGGAAAAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAG-ACAGG
* * * *
19528277 TCTATCCCAACTTTTTT-ACGGTTGCTTTAAATAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
19528312 TCTATCCCAACATTTTT-AAGGTTGTCTTAAACGGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * *
19528347 TCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACA-GG
* ** * * *
19528385 TCTATCCTAACCCTTTT-AAGGTTGCTTTAGGCAAG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
*
19528420 TCTATCCCAACCTTTTTTGAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* *
19528458 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
*
19528495 -CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TC-TATCCCAAC-TTTTTTAAAGGTTGCCTTAGAC-AGG
* *
19528533 TTTATCCCAACCTTTTT-AAGGTTGCCTTAGA-A-G
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * * *
19528566 --AATCTCAATCTTTTTTAAATGTTACCTTAGATAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGA-CAGG
*
19528602 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* ** *
19528640 TTTATCCCAACTTTTTTAAAAGGTTATCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
19528677 TCTATCC
1 TCTATCC
19528684 TAACCACTTT
Statistics
Matches: 385, Mismatches: 67, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
31 6 0.02
32 6 0.02
33 13 0.03
34 10 0.03
35 93 0.24
36 70 0.18
37 83 0.22
38 104 0.27
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
Found at i:19530367 original size:12 final size:12
Alignment explanation
Indices: 19530346--19530384 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19530336 CTCTTCTAGT
19530346 TCATCATCATCC
1 TCATCATCATCC
* *
19530358 TCATCCTCATCG
1 TCATCATCATCC
*
19530370 TCATCATCAACC
1 TCATCATCATCC
19530382 TCA
1 TCA
19530385 CGACCAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.41, G:0.03, T:0.31
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:19538600 original size:16 final size:17
Alignment explanation
Indices: 19538579--19538620 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
19538569 GAAATAAACT
*
19538579 ATAATTTGAA-TTAAAA
1 ATAATTTAAACTTAAAA
19538595 ATAATTTAAACTT-AAA
1 ATAATTTAAACTTAAAA
*
19538611 ATAACTTAAA
1 ATAATTTAAA
19538621 AACCCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATTTAAACTTAAAA
Found at i:19539872 original size:16 final size:16
Alignment explanation
Indices: 19539839--19539872 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19539829 ATGTATTGTT
* *
19539839 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
19539855 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
19539871 AA
1 AA
19539873 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:19542692 original size:21 final size:21
Alignment explanation
Indices: 19542666--19542706 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19542656 AGACGAGCAA
* *
19542666 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
19542687 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
19542707 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:19544645 original size:16 final size:16
Alignment explanation
Indices: 19544612--19544645 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19544602 GGAGATTGTT
* *
19544612 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
19544628 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
19544644 AA
1 AA
19544646 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:19547150 original size:2 final size:2
Alignment explanation
Indices: 19547143--19547173 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19547133 GGGAATCCAT
19547143 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
19547174 TGTGTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19549201 original size:20 final size:20
Alignment explanation
Indices: 19549176--19549215 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19549166 ATTTATTATT
19549176 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
19549196 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
19549216 TTCTAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTTCAATTTATATTTGAAG
Found at i:19553382 original size:21 final size:21
Alignment explanation
Indices: 19553356--19553399 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19553346 TTTATAATGT
19553356 ATGTATAT-TATTATAAAAATA
1 ATGTATATGTA-TATAAAAATA
*
19553377 ATGTATATGTATATAATAATA
1 ATGTATATGTATATAAAAATA
19553398 AT
1 AT
19553400 AATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
ATGTATATGTATATAAAAATA
Found at i:19553397 original size:3 final size:3
Alignment explanation
Indices: 19553389--19553452 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
19553379 GTATATGTAT
*
19553389 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19553437 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
19553453 CAAGTAGGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19555002 original size:6 final size:6
Alignment explanation
Indices: 19554987--19555046 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
19554977 GGTTTTCTCC
* * * * * *
19554987 AAATGA AAATTG AAATGA AAATGG AAATGG AAATGT AAATGT AAATGA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
19555035 AAATGAG AAATG
1 AAATG-G AAATG
19555047 ATTCATTTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 40 0.89
7 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (6 bp):
AAATGG
Found at i:19555004 original size:12 final size:12
Alignment explanation
Indices: 19554987--19555046 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
19554977 GGTTTTCTCC
*
19554987 AAATGAAAATTG
1 AAATGAAAATGG
19554999 AAATGAAAATGG
1 AAATGAAAATGG
* *
19555011 AAATGGAAATGT
1 AAATGAAAATGG
* *
19555023 AAATGTAAATGA
1 AAATGAAAATGG
19555035 AAATGAGAAATG
1 AAATGA-AAATG
19555047 ATTCATTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
12 36 0.88
13 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:19558444 original size:27 final size:27
Alignment explanation
Indices: 19558403--19558458 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
19558393 TTAATAACTG
* * *
19558403 TTATAGTATTGTTTTGGATATAGATCA
1 TTATAGCATTATTTTGGATATACATCA
19558430 TTATAGCATTATTTTGGATATACATCA
1 TTATAGCATTATTTTGGATATACATCA
19558457 TT
1 TT
19558459 TATTTGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (27 bp):
TTATAGCATTATTTTGGATATACATCA
Found at i:19559223 original size:27 final size:26
Alignment explanation
Indices: 19559177--19559227 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
19559167 AGATGATACA
*
19559177 TATTTTCTTTACTTTAATTTTAAGTT
1 TATTTTCTTTAATTTAATTTTAAGTT
19559203 TATTTT-TTTAATTTACTATTTTAAG
1 TATTTTCTTTAATTTA--ATTTTAAG
19559228 CTTAGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 6 0.27
27 8 0.36
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTTTCTTTAATTTAATTTTAAGTT
Found at i:19568475 original size:42 final size:42
Alignment explanation
Indices: 19568337--19568554 Score: 230
Period size: 42 Copynumber: 5.2 Consensus size: 42
19568327 TTTAAACAGA
* * * *
19568337 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * *
19568378 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATATTGT
* *
19568419 TTCACCGGCATTAAGCCTCCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
* * * * *
19568461 TTCACCAGTATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
19568503 TTCACCGGCATTAAGCCTGCTAGACATAAAGTTTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
19568545 TTCACTGGCA
1 TTCACCGGCA
19568555 ATAAACTTGA
Statistics
Matches: 149, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
40 3 0.02
41 60 0.40
42 86 0.58
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:19568526 original size:84 final size:83
Alignment explanation
Indices: 19568391--19568549 Score: 255
Period size: 84 Copynumber: 1.9 Consensus size: 83
19568381 ACCGGCACTT
* * *
19568391 AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTCCTAGACGTAAAGTCTGAT
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTCCTAGACATAAAGTCTGAT
19568456 ATTGTTTCACCAGTATTA
66 ATTGTTTCACCAGTATTA
* * *
19568474 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACATAAAGTTTGA
1 AGCCTGCTAGACATAAAGTCTGAAA-TATTTCACCGGCATTAAGCCTCCTAGACATAAAGTCTGA
19568539 TATTGTTTCAC
65 TATTGTTTCAC
19568550 TGGCAATAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 23 0.33
84 46 0.67
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (83 bp):
AGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTCCTAGACATAAAGTCTGAT
ATTGTTTCACCAGTATTA
Found at i:19585568 original size:21 final size:21
Alignment explanation
Indices: 19585544--19585583 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19585534 TTTCAGTCAG
19585544 AGTCACTAAACCATTTTTAAA
1 AGTCACTAAACCATTTTTAAA
19585565 AGTCACTAAACCATTTTTA
1 AGTCACTAAACCATTTTTA
19585584 TCTGGAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
AGTCACTAAACCATTTTTAAA
Found at i:19586456 original size:51 final size:50
Alignment explanation
Indices: 19586394--19586582 Score: 238
Period size: 51 Copynumber: 3.7 Consensus size: 50
19586384 ATACCCGGTT
* *
19586394 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATA
* * ** *
19586445 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-CGCTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATA
* * *
19586496 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATA
19586546 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
19586583 TAGCAACTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 43 0.36
51 72 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATA
Found at i:19586579 original size:101 final size:101
Alignment explanation
Indices: 19586396--19586580 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
19586386 ACCCGGTTCA
* *
19586396 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGATACACATAGTAGCCTGCA
19586461 CATAGTACTACACACGTGATCGACGCTATTCGATACG
65 CATAGTACTACACACGTGATCGACGCTATTCGATACG
*
19586498 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGATACACATAGTAGCCTGCA
19586562 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
19586581 CCTAGCAACT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 35 0.44
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGACGCTATTCGATACG
Found at i:19591722 original size:18 final size:19
Alignment explanation
Indices: 19591687--19591736 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
19591677 AGTAAAGTTT
* * *
19591687 ATATTAAAATCCTTGAAGG
1 ATATTAAAATTCTAGAAGC
19591706 AT-TTAAAATTCTAGAAGC
1 ATATTAAAATTCTAGAAGC
*
19591724 ATATTAGAATTCT
1 ATATTAAAATTCT
19591737 CGGGAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (19 bp):
ATATTAAAATTCTAGAAGC
Found at i:19592562 original size:8 final size:8
Alignment explanation
Indices: 19592549--19592573 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19592539 TTCAAAAATC
19592549 AATTTTAA
1 AATTTTAA
19592557 AATTTTAA
1 AATTTTAA
19592565 AATTTTAA
1 AATTTTAA
19592573 A
1 A
19592574 CGAAGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:19594525 original size:21 final size:19
Alignment explanation
Indices: 19594501--19594549 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
19594491 TGTATAACTA
19594501 AATTGTGTAATTATATGCTTG
1 AATTGTGTAATTATATG--TG
** *
19594522 AATTGAATAATTGTATGTG
1 AATTGTGTAATTATATGTG
19594541 AATTGTGTA
1 AATTGTGTA
19594550 TTGGCCATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (19 bp):
AATTGTGTAATTATATGTG
Found at i:19594777 original size:24 final size:24
Alignment explanation
Indices: 19594728--19594784 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
19594718 AGCCCTATCA
* * *
19594728 AGCTTCCCGTTAAATGGTTCTTGG
1 AGCTTCCTGTTAAATAGCTCTTGG
19594752 AGCTTCCTGTT-AATAGCTCTTCGG
1 AGCTTCCTGTTAAATAGCTCTT-GG
*
19594776 AGCATCCTG
1 AGCTTCCTG
19594785 ATCGGTCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
AGCTTCCTGTTAAATAGCTCTTGG
Found at i:19594858 original size:25 final size:26
Alignment explanation
Indices: 19594830--19594885 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19594820 GCAGATCTTA
19594830 TGAGCGTCTCGTA-TAT-GGCTCTTTG
1 TGAGCGTC-CGTATTATAGGCTCTTTG
* *
19594855 TGAGCTTCCTTATTATAGGCTCTTTG
1 TGAGCGTCCGTATTATAGGCTCTTTG
19594881 TGAGC
1 TGAGC
19594886 TTCCTGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 10 0.37
26 14 0.52
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (26 bp):
TGAGCGTCCGTATTATAGGCTCTTTG
Found at i:19594972 original size:24 final size:24
Alignment explanation
Indices: 19594940--19594990 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
19594930 TGCTTCCTGA
*
19594940 TTAAGTGCTTTTC-GAAGCTACCCG
1 TTAAGTGCTCTTCAG-AGCTACCCG
19594964 TTAAGTGCTCTTCAGAGCTACCCG
1 TTAAGTGCTCTTCAGAGCTACCCG
19594988 TTA
1 TTA
19594991 TATGCTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (24 bp):
TTAAGTGCTCTTCAGAGCTACCCG
Found at i:19604858 original size:26 final size:26
Alignment explanation
Indices: 19604800--19604870 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
19604790 CTTTCACATT
* * *
19604800 ATGCCACACAGGCATTTCCTTCATGTT
1 ATGCCACAAAGGC-TTTCCTTCATATC
* *
19604827 ACGCCACAAAGGCTTTCCTTTATATC
1 ATGCCACAAAGGCTTTCCTTCATATC
19604853 ATGCCACAAAGGCTTTCC
1 ATGCCACAAAGGCTTTCC
19604871 ACTTGAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 27 0.71
27 11 0.29
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (26 bp):
ATGCCACAAAGGCTTTCCTTCATATC
Found at i:19609290 original size:48 final size:47
Alignment explanation
Indices: 19609232--19609346 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 47
19609222 TATCTGCAAT
*
19609232 TATGTAGTGGTGTATCCACGATGTGCTATGTGACCGTTCATCGATATC
1 TATGTGGTGGT-TATCCACGATGTGCTATGTGACCGTTCATCGATATC
* * *
19609280 TATGTGGTGGTTTATCCTCGATGTGCTATGTGACTGTTCATCGGTATC
1 TATGTGGTGG-TTATCCACGATGTGCTATGTGACCGTTCATCGATATC
*
19609328 TTTGTGGTGGCTTATCCAC
1 TATGTGGTGG-TTATCCAC
19609347 AAACTGGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 58 0.98
49 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (47 bp):
TATGTGGTGGTTATCCACGATGTGCTATGTGACCGTTCATCGATATC
Found at i:19609859 original size:37 final size:38
Alignment explanation
Indices: 19609807--19609879 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
19609797 GACACTATTT
*
19609807 TGATTTAATAGGGTATTATGTATGAATTGT-TTTAATG
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
19609844 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
19609880 ATGGTTCAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (38 bp):
TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
Found at i:19613909 original size:27 final size:27
Alignment explanation
Indices: 19613765--19613907 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
19613755 TATAATAGTC
* *
19613765 ATTTTACTCC-TCGGGGGTATTTCGGTA
1 ATTTTAC-CCTTCGAGGGTATTTCGATA
* *
19613792 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
19613819 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
19613846 ATTTTATCCTTCGAGGCTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
19613873 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
19613900 A-TTTACCC
1 ATTTTACCC
19613908 CTCAAGTCGC
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.09
27 96 0.91
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:19614863 original size:17 final size:19
Alignment explanation
Indices: 19614827--19614866 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19614817 AACCAACAAC
*
19614827 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
19614846 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
19614863 AAGA
1 AAGA
19614867 TGACGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:19616618 original size:21 final size:21
Alignment explanation
Indices: 19616572--19616612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19616562 GTATGTGTAT
19616572 ATATATATAAATTATAAAAAA
1 ATATATATAAATTATAAAAAA
* *
19616593 ATATATGTATATTATAAAAA
1 ATATATATAAATTATAAAAA
19616613 CGTATACAGG
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:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATATAAATTATAAAAAA
Found at i:19619034 original size:17 final size:19
Alignment explanation
Indices: 19618998--19619037 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19618988 AATCGGCAAC
*
19618998 AAGAGAAGAAGAAATTGAA
1 AAGAGAAGAAGAAATAGAA
19619017 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAATAGAA
19619034 AAGA
1 AAGA
19619038 TGAGGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (19 bp):
AAGAGAAGAAGAAATAGAA
Found at i:19623018 original size:25 final size:25
Alignment explanation
Indices: 19622967--19623034 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
19622957 CTGTACATGT
*
19622967 ATGCTCGCACAAGCTGT-AATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
*
19622991 ATGCTCACACGAGCTGTGAATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
19623016 ATGCTCACACAAGCTGTGA
1 ATGCTCACACAAGCTGTGA
19623035 GAATGGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 15 0.38
25 25 0.62
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTGAATCAGA
Found at i:19627965 original size:15 final size:16
Alignment explanation
Indices: 19627936--19627965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19627926 CAAACATGCT
19627936 TTAACACATTATCAAA
1 TTAACACATTATCAAA
19627952 TTAACACA-TATCAA
1 TTAACACATTATCAA
19627966 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:19635069 original size:35 final size:35
Alignment explanation
Indices: 19635018--19635090 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
19635008 TTTTGTTTTG
* * *
19635018 ATTTACGAACAGTTCAAAAGTGTAGTATACCAATT
1 ATTTACGAACAATTCAAAAGTGTAATATACAAATT
* *
19635053 ATTTATGAACAATTCAAGAGTGTAATATACAAATT
1 ATTTACGAACAATTCAAAAGTGTAATATACAAATT
19635088 ATT
1 ATT
19635091 CAATATGGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (35 bp):
ATTTACGAACAATTCAAAAGTGTAATATACAAATT
Found at i:19639335 original size:5 final size:5
Alignment explanation
Indices: 19639325--19639356 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
19639315 TAGGGAATCG
19639325 AAATA AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
19639357 GGCAGAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:19641232 original size:31 final size:31
Alignment explanation
Indices: 19641189--19641255 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
19641179 TTTTAAAAAC
* * * *
19641189 AAATAAATATAATAATAGATAATATTTAAAT
1 AAATTAATATAATAATACATAAAATATAAAT
*
19641220 AAATTAATATAATGATACATAAAATATAAAT
1 AAATTAATATAATAATACATAAAATATAAAT
*
19641251 TAATT
1 AAATT
19641256 TAAATTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (31 bp):
AAATTAATATAATAATACATAAAATATAAAT
Found at i:19646025 original size:51 final size:50
Alignment explanation
Indices: 19645961--19646080 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 50
19645951 TTCAGGTCAT
* * * *
19645961 TTTCATTT-T-CATTTTTACTTTGGAGAAAACCACATTTATTTCCAAATAA
1 TTTCATTTCTCCATTTTCACTTTGAAG-AAACCACAATCATTTCCAAATAA
* * **
19646010 TTTCATTTCTCCATTTTCATTTTGAAGAAACCATAATCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
19646060 TTCTCATTTCTCCATTTTCAC
1 TT-TCATTTCTCCATTTTCAC
19646081 AATTTCTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 8 0.14
50 21 0.36
51 30 0.51
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (50 bp):
TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
Found at i:19647565 original size:23 final size:22
Alignment explanation
Indices: 19647546--19647614 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
19647536 ATGCCACACG
19647546 GGGCAAACAAAATACACCACATA
1 GGGCAAACAAAATACACCACA-A
* *
19647569 -GGCTAAACATAATACGCCACATA
1 GGGC-AAACAAAATACACCACA-A
* *
19647592 GGCCAAACAAAATACTCCA-AA
1 GGGCAAACAAAATACACCACAA
19647613 GG
1 GG
19647615 CAATACCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.08
22 4 0.10
23 30 0.77
24 2 0.05
ACGTcount: A:0.48, C:0.26, G:0.14, T:0.12
Consensus pattern (22 bp):
GGGCAAACAAAATACACCACAA
Found at i:19653337 original size:31 final size:32
Alignment explanation
Indices: 19653278--19653342 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19653268 GGCAAATTAC
19653278 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19653310 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19653341 AA
1 AA
19653343 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:19654391 original size:19 final size:20
Alignment explanation
Indices: 19654354--19654409 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
19654344 TATTAAATTA
19654354 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
19654374 AATTTAATA-TAAGTTAAT-
1 AATTTAATATTAAGATAATC
** *
19654392 AAAATACTATTAAGATAA
1 AATTTAATATTAAGATAA
19654410 GTATAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:19655337 original size:31 final size:32
Alignment explanation
Indices: 19655278--19655342 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19655268 GGCAAATTAC
19655278 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19655310 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19655341 AA
1 AA
19655343 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:19658500 original size:10 final size:10
Alignment explanation
Indices: 19658487--19658571 Score: 59
Period size: 9 Copynumber: 8.1 Consensus size: 10
19658477 TTTTTTGCGC
19658487 TTTTTGCTTT
1 TTTTTGCTTT
*
19658497 TTTTTTC-TT
1 TTTTTGCTTT
19658506 TTTTT-CTTT
1 TTTTTGCTTT
19658515 TGCGCTTTTTGCTTT
1 T----T-TTTGCTTT
*
19658530 TTTTTGC-TG
1 TTTTTGCTTT
19658539 TTTTTGCTATT
1 TTTTTGCT-TT
*
19658550 TTTTTTCTTTT
1 TTTTTGC-TTT
19658561 TTTTTGCTTT
1 TTTTTGCTTT
19658571 T
1 T
19658572 ATTTAAAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
8 1 0.02
9 18 0.30
10 15 0.25
11 16 0.27
12 1 0.02
13 1 0.02
14 3 0.05
15 5 0.08
ACGTcount: A:0.01, C:0.12, G:0.09, T:0.78
Consensus pattern (10 bp):
TTTTTGCTTT
Found at i:19658519 original size:33 final size:32
Alignment explanation
Indices: 19658474--19658543 Score: 113
Period size: 33 Copynumber: 2.2 Consensus size: 32
19658464 GGTAGGCAAC
* *
19658474 TTTTTTTTTGCGCTTTTTGCTTTTTTTTTCTT
1 TTTTTTTTTGCGCTTTTTGCTTTTTTTTGCTG
19658506 TTTTTCTTTTGCGCTTTTTGCTTTTTTTTGCTG
1 TTTTT-TTTTGCGCTTTTTGCTTTTTTTTGCTG
19658539 TTTTT
1 TTTTT
19658544 GCTATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 5 0.14
33 30 0.86
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (32 bp):
TTTTTTTTTGCGCTTTTTGCTTTTTTTTGCTG
Found at i:19658562 original size:19 final size:19
Alignment explanation
Indices: 19658475--19658554 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
19658465 GTAGGCAACT
19658475 TTTTTTTTGC-GCTTTTTGC
1 TTTTTTTTGCTG-TTTTTGC
*
19658494 TTTTTTTT--T-CTTTT--
1 TTTTTTTTGCTGTTTTTGC
*
19658508 TTTCTTTTGC-GCTTTTTGC
1 TTTTTTTTGCTG-TTTTTGC
19658527 TTTTTTTTGCTGTTTTTGC
1 TTTTTTTTGCTGTTTTTGC
19658546 TATTTTTTT
1 T-TTTTTTT
19658555 TCTTTTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
14 7 0.15
16 4 0.08
17 4 0.08
19 25 0.52
20 8 0.17
ACGTcount: A:0.01, C:0.12, G:0.11, T:0.75
Consensus pattern (19 bp):
TTTTTTTTGCTGTTTTTGC
Found at i:19658797 original size:4 final size:4
Alignment explanation
Indices: 19658783--19658813 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19658773 TAAAATTAGT
19658783 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
19658814 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:19659174 original size:31 final size:32
Alignment explanation
Indices: 19659115--19659179 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19659105 GGCAAATTAC
19659115 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19659147 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19659178 AA
1 AA
19659180 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:19662339 original size:18 final size:18
Alignment explanation
Indices: 19662316--19662390 Score: 79
Period size: 18 Copynumber: 4.4 Consensus size: 18
19662306 TAGGCAACTT
19662316 TTTTTTTGCGCTTTTTGC
1 TTTTTTTGCGCTTTTTGC
**
19662334 TTTTTTT-TTC-TTTT--
1 TTTTTTTGCGCTTTTTGC
*
19662348 TTCTTTTGCGCTTTTTGC
1 TTTTTTTGCGCTTTTTGC
19662366 TTTTTTTGCTG-TTTTTGC
1 TTTTTTTGC-GCTTTTTGC
19662384 TTTTTTT
1 TTTTTTT
19662391 TTTTTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 6 0.13
15 1 0.02
16 8 0.17
17 1 0.02
18 29 0.63
19 1 0.02
ACGTcount: A:0.00, C:0.13, G:0.12, T:0.75
Consensus pattern (18 bp):
TTTTTTTGCGCTTTTTGC
Found at i:19662381 original size:32 final size:32
Alignment explanation
Indices: 19662314--19662387 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
19662304 GGTAGGCAAC
*
19662314 TTTTT-TTTTGCGCTTTTTGCTTTTTTTTTCT
1 TTTTTCTTTTGCGCTTTTTGCTTTTTTTTGCT
19662345 TTTTTCTTTTGCGCTTTTTGC-TTTTTTTGCT
1 TTTTTCTTTTGCGCTTTTTGCTTTTTTTTGCT
19662376 GTTTTTGCTTTT
1 -TTTTT-CTTTT
19662388 TTTTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 14 0.36
32 20 0.51
33 5 0.13
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.74
Consensus pattern (32 bp):
TTTTTCTTTTGCGCTTTTTGCTTTTTTTTGCT
Found at i:19662407 original size:9 final size:9
Alignment explanation
Indices: 19662316--19662390 Score: 59
Period size: 9 Copynumber: 8.8 Consensus size: 9
19662306 TAGGCAACTT
19662316 TTTTTTTGC
1 TTTTTTTGC
**
19662325 GCTTTTTGC
1 TTTTTTTGC
19662334 TTTTTTT--
1 TTTTTTTGC
*
19662341 TTCTTTT--
1 TTTTTTTGC
*
19662348 TTCTTTTGC
1 TTTTTTTGC
**
19662357 GCTTTTTGC
1 TTTTTTTGC
19662366 TTTTTTTGC
1 TTTTTTTGC
*
19662375 TGTTTTTGC
1 TTTTTTTGC
19662384 TTTTTTT
1 TTTTTTT
19662391 TTTTTTTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
7 13 0.25
9 39 0.75
ACGTcount: A:0.00, C:0.13, G:0.12, T:0.75
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:19662636 original size:4 final size:4
Alignment explanation
Indices: 19662622--19662652 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19662612 TAAAATTAGT
19662622 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
19662653 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:19663012 original size:31 final size:32
Alignment explanation
Indices: 19662953--19663017 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19662943 GGCAAATTAC
19662953 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19662985 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
19663016 AA
1 AA
19663018 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:19664068 original size:19 final size:20
Alignment explanation
Indices: 19664031--19664086 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
19664021 TATTAAATTA
19664031 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
19664051 AATTTAATA-TAAGTTAAT-
1 AATTTAATATTAAGATAATC
** *
19664069 AAAATACTATTAAGATAA
1 AATTTAATATTAAGATAA
19664087 GTATAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:19669782 original size:23 final size:22
Alignment explanation
Indices: 19669739--19669782 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19669729 TTCTAAGTTG
19669739 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19669762 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19669783 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19669984 original size:51 final size:49
Alignment explanation
Indices: 19669926--19670112 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 49
19669916 TCGGTTCACA
** * *
19669926 TAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTG-TACACG
* * * * * *
19669977 TAGTAGCCTGCACATAGTATTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCT-GTACACG
* * *
19670028 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTGCTGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-T-CTGTACACG
*
19670078 TAGTAGCCTGCACATAGTATTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
19670113 CACTTTCACT
Statistics
Matches: 109, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 37 0.34
51 67 0.61
52 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGTACACG
Found at i:19670103 original size:101 final size:101
Alignment explanation
Indices: 19669924--19670108 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
19669914 ATTCGGTTCA
* * *
19669924 CATAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
19669989 CATAGTATTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTATTACACACGTGATCGAAACTATCTGGTACG
* *
19670026 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTGCTG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-T-CCGATACACGTAGTAGCCTGC
19670089 ACATAGTATTACACACGTGA
64 ACATAGTATTACACACGTGA
19670109 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 35 0.46
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTATTACACACGTGATCGAAACTATCTGGTACG
Found at i:19673044 original size:28 final size:28
Alignment explanation
Indices: 19672973--19673071 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
19672963 ATAATAAGCC
*
19672973 CGCACACTTAGTGCT-TAATAGTCGAA-CT
1 CGCACACTTAGTGCTAT-ATAATC-AACCT
*
19673001 CACACACTTAGTGCTATATAATCAACCT
1 CGCACACTTAGTGCTATATAATCAACCT
* *
19673029 CGCACACTTAGTGCTATACAATTTGAACC-
1 CGCACACTTAGTGCTATATAA--TCAACCT
19673058 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19673072 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.65
29 15 0.24
30 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAACCT
Found at i:19681849 original size:33 final size:33
Alignment explanation
Indices: 19681812--19682020 Score: 154
Period size: 33 Copynumber: 6.3 Consensus size: 33
19681802 GGGTTGTTGT
*
19681812 GTGCTGATTCCCCTATTC-ATTGGTGGTTGCTAA
1 GTGCTGATTCCCCTA-CCGATTGGTGGTTGCTAA
19681845 GTGCTGATT-CCC--CCGA--GG-GGTTGCTAA
1 GTGCTGATTCCCCTACCGATTGGTGGTTGCTAA
*
19681872 GTGCTGATTCCCCTACCTATTGGTGGTTGCTAA
1 GTGCTGATTCCCCTACCGATTGGTGGTTGCTAA
*** *
19681905 GTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAA
1 GTGCTGATTCC-CC-TA---CCGAT-T----GGTGGTTGCTAA
19681948 GTGCTGATTCCCC--CCGA--GG-GGTTGCTAA
1 GTGCTGATTCCCCTACCGATTGGTGGTTGCTAA
* *
19681976 GTGCTGATTCCCCGACCCATTGGGTGGTTGCTAA
1 GTGCTGATTCCCCTACCGATT-GGTGGTTGCTAA
19682010 GTGCTGATTCC
1 GTGCTGATTCC
19682021 ACCGCATCTG
Statistics
Matches: 143, Mismatches: 10, Indels: 45
0.72 0.05 0.23
Matches are distributed among these distances:
27 18 0.13
28 27 0.19
29 3 0.02
30 7 0.05
32 5 0.03
33 31 0.22
34 22 0.15
35 2 0.01
36 1 0.01
38 2 0.01
39 1 0.01
42 2 0.01
43 22 0.15
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (33 bp):
GTGCTGATTCCCCTACCGATTGGTGGTTGCTAA
Found at i:19681976 original size:28 final size:30
Alignment explanation
Indices: 19681937--19682020 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 30
19681927 AATGTGAAAG
*
19681937 GGGGTTGCTAAGTGCTGATTCCCC-CCGA-
1 GGGGTTGCTAAGTGCTGATTCCCCACCCAT
19681965 GGGGTTGCTAAGTGCTGATTCCCCGACCCATT
1 GGGGTTGCTAAGTGCTGATTCCCC-ACCCA-T
19681997 GGGTGGTTGCTAAGTGCTGATTCC
1 -GG-GGTTGCTAAGTGCTGATTCC
19682021 ACCGCATCTG
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
28 24 0.49
30 3 0.06
33 2 0.04
34 20 0.41
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (30 bp):
GGGGTTGCTAAGTGCTGATTCCCCACCCAT
Found at i:19682042 original size:104 final size:103
Alignment explanation
Indices: 19681836--19682124 Score: 438
Period size: 104 Copynumber: 2.8 Consensus size: 103
19681826 ATTCATTGGT
* *
19681836 GGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTACCTATTGGTGGTTG
1 GGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
* * *
19681901 CTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGG
66 CTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
19681939 GGTTGCTAAGTGCTGATTCCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGGTGGT
1 GGTTGCTAAGTGCTGATT-CCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCCATT-GGTGGT
19682004 TGCTAAGTGCTGATTCCACCGCATCTGAAATGTG-AAGGG
64 TGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
* ** **
19682043 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TG
1 GGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
* *
19682107 CTAAGTGCGGAATCCACC
66 CTAAGTGCTGATTCCACC
19682125 AACAACGGTT
Statistics
Matches: 172, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
101 18 0.10
102 5 0.03
103 52 0.30
104 60 0.35
105 37 0.22
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (103 bp):
GGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
CTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
Done.