Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 27 of 335
Found at i:9980441 original size:24 final size:24
Alignment explanation
Indices: 9980389--9980445 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
9980379 ACAATGATGT
*
9980389 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
9980413 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
9980437 GAATAATAA
1 GAATAATAA
9980446 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:9980622 original size:25 final size:25
Alignment explanation
Indices: 9980594--9980642 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9980584 CGTGATAATA
**
9980594 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
*
9980619 TTAAAAATACATGCATAATATAGT
1 TTAAAAATACATACATAATATAGT
9980643 TAAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:9980708 original size:27 final size:25
Alignment explanation
Indices: 9980673--9980734 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
9980663 ACATGTAGAA
*
9980673 AAAAAATATATAAATAATATAATAT
1 AAAAGATATATAAATAATATAATAT
* * *
9980698 TAAAGATATATAAATAAAATAGTAT
1 AAAAGATATATAAATAATATAATAT
*
9980723 AAAATATATATA
1 AAAAGATATATA
9980735 TACGTAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
AAAAGATATATAAATAATATAATAT
Found at i:9980715 original size:14 final size:13
Alignment explanation
Indices: 9980675--9980725 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
9980665 ATGTAGAAAA
9980675 AAAATATATAAAT
1 AAAATATATAAAT
* *
9980688 AATATA-AT-ATT
1 AAAATATATAAAT
9980699 AAAGATATATAAAT
1 AAA-ATATATAAAT
9980713 AAAATAGTATAAA
1 AAAATA-TATAAA
9980726 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 10 0.33
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:9980735 original size:27 final size:27
Alignment explanation
Indices: 9980633--9980746 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
9980623 AAATACATGC
* *
9980633 ATAATATAGT-TAAGATATATACATAA
1 ATAATATAGTATAAAATATATATATAA
* * * *
9980659 GATAACAT-GTAGAAAAAAAATATATAA
1 -ATAATATAGTATAAAATATATATATAA
* * *
9980686 ATAATATAATAT-TAA-AGATATATAA
1 ATAATATAGTATAAAATATATATATAA
* *
9980711 ATAAAATAGTATAAAATATATATATAC
1 ATAATATAGTATAAAATATATATATAA
*
9980738 GTAATATAG
1 ATAATATAG
9980747 AATTTAAAAT
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
25 19 0.29
26 12 0.18
27 34 0.52
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (27 bp):
ATAATATAGTATAAAATATATATATAA
Found at i:9981003 original size:20 final size:20
Alignment explanation
Indices: 9980978--9981016 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9980968 TACTTTCGTA
9980978 TAAAA-GAAACAAAATAAGAT
1 TAAAAGGAAA-AAAATAAGAT
9980998 TAAAAGGAAAAAAATAAGA
1 TAAAAGGAAAAAAATAAGA
9981017 AAACAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.13, T:0.13
Consensus pattern (20 bp):
TAAAAGGAAAAAAATAAGAT
Found at i:9981024 original size:21 final size:21
Alignment explanation
Indices: 9980979--9981024 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
9980969 ACTTTCGTAT
**
9980979 AAAA-GAAACAAAATAAGATT
1 AAAAGGAAACAAAATAAGAAA
9980999 AAAAGGAAA-AAAATAAGAAA
1 AAAAGGAAACAAAATAAGAAA
9981019 ACAAAG
1 A-AAAG
9981025 AACTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAAGGAAACAAAATAAGAAA
Found at i:9981335 original size:30 final size:30
Alignment explanation
Indices: 9981296--9981475 Score: 254
Period size: 30 Copynumber: 5.8 Consensus size: 30
9981286 TAGGTACAAG
*
9981296 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
9981326 TGGTTGTGGAAAA-ATAATGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGT-GTGGCTAGTGGAGT
9981356 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
9981386 TGGTGGTGGAAAAAGAGTGGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAG-GT---GTGGCTAGTGGAGT
9981421 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
9981451 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
9981476 TGAGAAAAGT
Statistics
Matches: 135, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
29 1 0.01
30 96 0.71
31 6 0.04
32 2 0.01
33 2 0.01
34 5 0.04
35 23 0.17
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:9981439 original size:65 final size:65
Alignment explanation
Indices: 9981296--9981470 Score: 279
Period size: 65 Copynumber: 2.8 Consensus size: 65
9981286 TAGGTACAAG
* *
9981296 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTTGTGG-AAAA-A-T--AATGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGAATGGCTAGTGGAGT
*
9981356 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGAATGGCTAGTGGAGT
*
9981421 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGG
9981471 CTAGTTGAGA
Statistics
Matches: 106, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
60 37 0.35
61 4 0.04
62 1 0.01
63 1 0.01
65 63 0.59
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.26
Consensus pattern (65 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGAATGGCTAGTGGAGT
Found at i:9984881 original size:253 final size:244
Alignment explanation
Indices: 9984419--9985003 Score: 754
Period size: 253 Copynumber: 2.4 Consensus size: 244
9984409 GAGAAATGCC
* * * * *
9984419 TAAATAAATTAGATTTATGATATAAATGCATAATGGTATTTTAAAGATTATTAAAATCATTATTA
1 TAAATAAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATTA
* ** **
9984484 TTATTTTCGATCACTAAAAATAATATATATTTGGCCACGGTAATTAAAATTATTTACAGCAAAAT
65 TTA---TCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATTTACAAAAAAAT
*
9984549 ATATAAGAATATTTTAGTTCGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACATA
127 ATATAAGAATATTTTAGTTAGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACATA
* *
9984614 TTTTGATCGATAAATTGTTTGAATAAATTCATAATTATATTTTAATTGACCGT
192 TTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
9984667 TAAAATAAATTAGATTTACAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
1 T-AAATAAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
9984732 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTATAACAAAAATA
64 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTAT-T-T-AC-AAAA-A
* * * * *
9984797 TATATATATAAGGATATTTTAGTTAGCCGTTAAAACCGTTATTACTTTCACTCACTAAAATAAAC
124 -A-ATATATAAGAATATTTTAGTTAGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAAC
*
9984862 ACATATTTTGATTGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
187 ACATATTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
* * * * *
9984920 TAAA-ACA--A-A--T-AAGATAAATGTATAATGACATTTTAACAATAATCATTAAAATCATTAT
1 TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAAC---GATCATTAAAATCATTAT
9984978 TATTATCTATCACT-AAAATAATATAT
63 TATTATCTATCACTAAAAATAATATAT
9985004 TTCTACAACA
Statistics
Matches: 301, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
244 24 0.08
246 57 0.19
247 32 0.11
248 3 0.01
249 64 0.21
250 2 0.01
251 3 0.01
252 4 0.01
253 112 0.37
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (244 bp):
TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATTAT
TATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATTTACAAAAAAATATAT
AAGAATATTTTAGTTAGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACATATTTT
GATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
Found at i:9986281 original size:355 final size:356
Alignment explanation
Indices: 9985629--9986341 Score: 1410
Period size: 355 Copynumber: 2.0 Consensus size: 356
9985619 CAATTTATTA
9985629 CATTAAATTAGAAGGGTATTATTTACCTTTTTTAGAGATGTGAATGACTCAACTTCATGAATTGA
1 CATTAAATTAGAAGGGTATTATTTACCTTTTTTAGAGATGTGAATGACTCAACTTCATGAATTGA
9985694 AAGTTTTTAGAATTACCAAGTTATCCAATAGTCGACTGGTTTTATGGGGGTAATTTGGTGTTTTC
66 AAGTTTTTAGAATTACCAAGTTATCCAATAGTCGACTGGTTTTATGGGGGTAATTTGGTGTTTTC
9985759 AGTGGGTTAAGGTTAAGCAAAGGGCATATTAAACTTGAGTTTTGCTTAAAACTACCAAAAAGCCA
131 AGTGGGTTAAGGTTAAGCAAAGGGCATATTAAACTTGAGTTTTGCTTAAAACTACCAAAAAGCCA
9985824 GTAACGGCTGGAACAATGTGAACTCCATATATGGTAATTAATATGGTTTTTCAGTATAAATAGAC
196 GTAACGGCTGGAACAATGTGAACTCCATATATGGTAATTAATATGGTTTTTCAGTATAAATAGAC
9985889 AGCTAAGGAAGCCTCTTAATCACACACAAGTTAAATCATTAAAGGGTTAGTTTGAGTAGGTATTA
261 AGCTAAGGAAGCCTCTTAATCACACACAAGTTAAATCATTAAAGGGTTAGTTTGAGTAGGTATTA
9985954 GTGCAAGTCTTCTTGTAAGGTTTCAGTTCCC
326 GTGCAAGTCTTCTTGTAAGGTTTCAGTTCCC
9985985 CATTAAATTAGAAGGGTATTATTTACCTTTTTTAGAGATGTGAATGACTCAACTTCATGAATTGA
1 CATTAAATTAGAAGGGTATTATTTACCTTTTTTAGAGATGTGAATGACTCAACTTCATGAATTGA
9986050 AAGTTTTTAGAATTACCAAGTTATCCAATAGTCGACTGGTTTTAT-GGGGTAATTTGGTGTTTTC
66 AAGTTTTTAGAATTACCAAGTTATCCAATAGTCGACTGGTTTTATGGGGGTAATTTGGTGTTTTC
9986114 AGTGGGTTAAGGTTAAGCAAAGGGCATATTAAACTTGAGTTTTGCTTAAAACTACCAAAAAGCCA
131 AGTGGGTTAAGGTTAAGCAAAGGGCATATTAAACTTGAGTTTTGCTTAAAACTACCAAAAAGCCA
9986179 GTAACGGCTGGAACAATGTGAACTCCATATATGGTAATTAATATGGTTTTTCAGTATAAATAGAC
196 GTAACGGCTGGAACAATGTGAACTCCATATATGGTAATTAATATGGTTTTTCAGTATAAATAGAC
*
9986244 AGCTAAGGAAGCCTCTTAATCACACACAAGTTAAATCATTACAGGGTTAGTTTGAGTAGGTATTA
261 AGCTAAGGAAGCCTCTTAATCACACACAAGTTAAATCATTAAAGGGTTAGTTTGAGTAGGTATTA
9986309 GTGCAAGTCTTCTTGTAAGGTTTCAGTTCCC
326 GTGCAAGTCTTCTTGTAAGGTTTCAGTTCCC
9986340 CA
1 CA
9986342 CTAATAAACT
Statistics
Matches: 356, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
355 246 0.69
356 110 0.31
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (356 bp):
CATTAAATTAGAAGGGTATTATTTACCTTTTTTAGAGATGTGAATGACTCAACTTCATGAATTGA
AAGTTTTTAGAATTACCAAGTTATCCAATAGTCGACTGGTTTTATGGGGGTAATTTGGTGTTTTC
AGTGGGTTAAGGTTAAGCAAAGGGCATATTAAACTTGAGTTTTGCTTAAAACTACCAAAAAGCCA
GTAACGGCTGGAACAATGTGAACTCCATATATGGTAATTAATATGGTTTTTCAGTATAAATAGAC
AGCTAAGGAAGCCTCTTAATCACACACAAGTTAAATCATTAAAGGGTTAGTTTGAGTAGGTATTA
GTGCAAGTCTTCTTGTAAGGTTTCAGTTCCC
Found at i:10005339 original size:29 final size:27
Alignment explanation
Indices: 10005307--10005371 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
10005297 TTCCACCAAC
*
10005307 AAAATTTGTATTAATTTGGTAATTATTGT
1 AAAATTTGTATTAATTTGATAATT-TT-T
* * *
10005336 AAAATATATATTAGTTTGATAATTTTT
1 AAAATTTGTATTAATTTGATAATTTTT
*
10005363 AAAAATTGT
1 AAAATTTGT
10005372 TGGGATAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 7 0.24
28 2 0.07
29 20 0.69
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
AAAATTTGTATTAATTTGATAATTTTT
Found at i:10013333 original size:107 final size:106
Alignment explanation
Indices: 10013184--10013408 Score: 378
Period size: 107 Copynumber: 2.1 Consensus size: 106
10013174 AATTTTTAAA
*
10013184 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTACCATAAAAAATA
1 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTACCATAAAAAACA
*
10013249 ATAACAATAAAATATTAAATACTATAGTAATATTATAACTT
66 ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
* * *
10013290 TAAATAATAAATTAAAAGTTGAATTTAAATAGATGATATATTTATCTATATTTAGCATAAAAAAC
1 TAAATAATAAATT-AAAGGTGAATTTAAATAGATGATACATTTATCTATATTTACCATAAAAAAC
*
10013355 AATAACAATAAAATATTAAATACTATAGTAATATTATAAGAT
65 AATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
*
10013397 TAAATAAAAAAT
1 TAAATAATAAAT
10013409 AAGATAAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
106 13 0.12
107 98 0.88
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (106 bp):
TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTACCATAAAAAACA
ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
Found at i:10023024 original size:4 final size:4
Alignment explanation
Indices: 10023015--10023044 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
10023005 CTTCGTATTG
10023015 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
10023045 CCGGAGCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:10029981 original size:30 final size:30
Alignment explanation
Indices: 10029947--10030005 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10029937 TATTTCCAAT
*
10029947 TTTTAAAGGATTAAATTA-AGATTTTATCAC
1 TTTTAAAGGATTAAAGTACA-ATTTTATCAC
* *
10029977 TTTTAGAGGGTTAAAGTACAATTTTATCA
1 TTTTAAAGGATTAAAGTACAATTTTATCA
10030006 TTTATTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTTAAAGGATTAAAGTACAATTTTATCAC
Found at i:10035350 original size:41 final size:39
Alignment explanation
Indices: 10035303--10035421 Score: 107
Period size: 41 Copynumber: 3.0 Consensus size: 39
10035293 TTCGACTTCG
*
10035303 AGTCGATGAGACACTGAGTGTCAATTTACTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTA
* ** * * *
10035344 ATTCGATGAGGTATTGGGTGCCAATT-TACTTCGG-TTT
1 AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
* *
10035381 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTA
10035422 TCCGATAAGA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
37 18 0.31
38 12 0.20
40 9 0.15
41 20 0.34
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
Found at i:10035427 original size:40 final size:40
Alignment explanation
Indices: 10035306--10035432 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 40
10035296 GACTTCGAGT
* * * *
10035306 CGATGAGACACTGAGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATC
** * * * *
10035347 CGATGAGGTATTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
*
10035384 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
*
10035424 CGATAAGAC
1 CGATGAGAC
10035433 GTTGGGTGCC
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
37 15 0.23
38 13 0.20
39 2 0.03
40 22 0.34
41 13 0.20
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:10036091 original size:2 final size:2
Alignment explanation
Indices: 10036084--10036108 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10036074 ATTGGTTGGT
10036084 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10036109 GAGTATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10042169 original size:2 final size:2
Alignment explanation
Indices: 10042162--10042198 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10042152 CACATACATG
10042162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10042199 AAACTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10042726 original size:26 final size:26
Alignment explanation
Indices: 10042690--10042799 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10042680 TGATACAAAT
10042690 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
10042716 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10042742 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10042768 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10042794 TGATAA
1 TGATAA
10042800 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10044308 original size:25 final size:26
Alignment explanation
Indices: 10044280--10044331 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
10044270 TTTACAGTTT
10044280 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
10044305 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
10044331 T
1 T
10044332 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:10046024 original size:39 final size:40
Alignment explanation
Indices: 10045940--10046024 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
10045930 AGTTAATTCA
* * *
10045940 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
10045980 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
10046019 TCAGCA
1 CCAGCA
10046025 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:10046193 original size:47 final size:46
Alignment explanation
Indices: 10046094--10046249 Score: 199
Period size: 47 Copynumber: 3.3 Consensus size: 46
10046084 TGCACACTTT
* * *
10046094 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** *
10046140 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
10046187 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
10046234 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
10046250 ATCTTAAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
45 20 0.21
46 5 0.05
47 72 0.74
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:10049036 original size:39 final size:39
Alignment explanation
Indices: 10048982--10049061 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
10048972 TTTTAACATG
10048982 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
1 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
10049021 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
1 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
10049060 TT
1 TT
10049062 TTAGGCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (39 bp):
TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
Found at i:10059253 original size:4 final size:4
Alignment explanation
Indices: 10059244--10059269 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10059234 TGATAACATC
10059244 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
10059270 GACAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:10060898 original size:149 final size:149
Alignment explanation
Indices: 10060635--10061077 Score: 778
Period size: 149 Copynumber: 3.0 Consensus size: 149
10060625 TTTTAGTTCC
10060635 TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
1 TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
10060700 CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
66 CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
*
10060765 GTTGATAAAACATAGTTTT
131 GTTGATAAAACATAGTCTT
* * *
10060784 TCGGAACAATTAGCACCAGTGGTCTAGTGATATAATAGTACCCTGCCACGGTACAGACCCGGGTT
1 TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
10060849 CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
66 CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
10060914 GTTGATAAAACATAGTCTT
131 GTTGATAAAACATAGTCTT
10060933 TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
1 TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
* * * * * *
10060998 CGATTCCCGGCTAGTGCATTTGTTAATTCAGTTTTACGATGTTTTGTCAATGAAGTTGTGCTTTT
66 CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
* *
10061063 GCTGACAAAACATAG
131 GTTGATAAAACATAG
10061078 ACAACTATCA
Statistics
Matches: 279, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 279 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (149 bp):
TCGGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTT
CGATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTT
GTTGATAAAACATAGTCTT
Found at i:10061444 original size:14 final size:15
Alignment explanation
Indices: 10061425--10061453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10061415 CGGCCCACTC
10061425 ATATTA-ATTTTTTT
1 ATATTATATTTTTTT
10061439 ATATTATATTTTTTT
1 ATATTATATTTTTTT
10061454 CATAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATATTATATTTTTTT
Found at i:10062393 original size:2 final size:2
Alignment explanation
Indices: 10062386--10062412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10062376 GGGCATTGCG
10062386 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
10062413 CATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:10081998 original size:12 final size:12
Alignment explanation
Indices: 10081981--10082010 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10081971 TCTACTCATC
10081981 AGTGACTCCCTT
1 AGTGACTCCCTT
10081993 AGTGACTCCCTT
1 AGTGACTCCCTT
*
10082005 TGTGAC
1 AGTGAC
10082011 CATGGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (12 bp):
AGTGACTCCCTT
Found at i:10087244 original size:38 final size:39
Alignment explanation
Indices: 10087191--10087270 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
10087181 GTGAATGATA
10087191 TCAAAAGAAATATTACAATCA-TTGAATAGAAGAATTAAC
1 TCAAAAGAAATATTACAATCACTT-AATAGAAGAATTAAC
* * * *
10087230 TCAAAA-AATTATTACATTCACTTAATTGAATAATTAAC
1 TCAAAAGAAATATTACAATCACTTAATAGAAGAATTAAC
10087268 TCA
1 TCA
10087271 CTCACAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 28 0.78
39 8 0.22
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (39 bp):
TCAAAAGAAATATTACAATCACTTAATAGAAGAATTAAC
Found at i:10088556 original size:19 final size:19
Alignment explanation
Indices: 10088520--10088558 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10088510 TATTATTAAT
**
10088520 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
10088539 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
10088558 A
1 A
10088559 ATTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:10088609 original size:16 final size:16
Alignment explanation
Indices: 10088588--10088620 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10088578 AATAAATTAT
*
10088588 ATTTATTATATTAATA
1 ATTTATTATATGAATA
10088604 ATTTATTATATGAATA
1 ATTTATTATATGAATA
10088620 A
1 A
10088621 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:10089617 original size:32 final size:33
Alignment explanation
Indices: 10089575--10089646 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
10089565 AATGTTCAAA
*
10089575 TGTCATTATTTT-TTAAAAATATAATATATTTT
1 TGTCACTATTTTCTTAAAAATATAATATATTTT
*
10089607 TGTCACTATTTTCTTAAAAATATAATATGTTTT
1 TGTCACTATTTTCTTAAAAATATAATATATTTT
10089640 TGTCACT
1 TGTCACT
10089647 GCACTTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (33 bp):
TGTCACTATTTTCTTAAAAATATAATATATTTT
Found at i:10095398 original size:19 final size:19
Alignment explanation
Indices: 10095354--10095399 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10095344 GCATTACTTT
* *
10095354 TTAAAAA-TATTTTTGGAG
1 TTAAAAAGTATTATTAGAG
10095372 TT-AAAAGTATTATTAGAG
1 TTAAAAAGTATTATTAGAG
10095390 TTAAAAAGTA
1 TTAAAAAGTA
10095400 AAATTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (19 bp):
TTAAAAAGTATTATTAGAG
Found at i:10095437 original size:18 final size:18
Alignment explanation
Indices: 10095414--10095448 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10095404 TAAACAGATA
*
10095414 ACTTTTGAAGTTAAAAGT
1 ACTTTTAAAGTTAAAAGT
*
10095432 ACTTTTAAATTTAAAAG
1 ACTTTTAAAGTTAAAAG
10095449 CAAAAGCAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
ACTTTTAAAGTTAAAAGT
Found at i:10096410 original size:17 final size:19
Alignment explanation
Indices: 10096367--10096410 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
10096357 TTGAAATTCC
10096367 TTAT-TAAAATTTAGAAAA
1 TTATATAAAATTTAGAAAA
*
10096385 TTCTA-AAAA-TTA-AAAA
1 TTATATAAAATTTAGAAAA
10096401 TTATATAAAA
1 TTATATAAAA
10096411 ATAGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATATAAAATTTAGAAAA
Found at i:10099436 original size:23 final size:23
Alignment explanation
Indices: 10099406--10099452 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10099396 TGTCTCAAGG
10099406 TAAGAATAAATATATATAACTTT
1 TAAGAATAAATATATATAACTTT
10099429 TAAGAATAAATATATATAACTTT
1 TAAGAATAAATATATATAACTTT
10099452 T
1 T
10099453 TTTTGGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAGAATAAATATATATAACTTT
Found at i:10102301 original size:17 final size:16
Alignment explanation
Indices: 10102281--10102326 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10102271 TATATACGTA
10102281 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
10102298 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
10102314 CT-ATAAA-ATTAAA
1 -TAATAAATATTAAA
10102327 CTTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:10102313 original size:16 final size:17
Alignment explanation
Indices: 10102281--10102313 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10102271 TATATACGTA
10102281 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
10102298 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
10102314 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:10105494 original size:2 final size:2
Alignment explanation
Indices: 10105487--10105517 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10105477 TTGGTAGTTT
10105487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10105518 CTTTACGTTG
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10107384 original size:8 final size:8
Alignment explanation
Indices: 10107344--10107382 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
10107334 ATGGTGTGAC
10107344 ATTTTAAT
1 ATTTTAAT
10107352 ATTTTAAT
1 ATTTTAAT
*
10107360 ATTTTATT
1 ATTTTAAT
*
10107368 ATTTTAAA
1 ATTTTAAT
10107376 ATTTTAA
1 ATTTTAA
10107383 AAAATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTAAT
Found at i:10107679 original size:13 final size:13
Alignment explanation
Indices: 10107661--10107686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10107651 CCTTCACCTC
10107661 TCACTAGGATCCA
1 TCACTAGGATCCA
10107674 TCACTAGGATCCA
1 TCACTAGGATCCA
10107687 GGAATAATAT
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:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
TCACTAGGATCCA
Found at i:10108592 original size:75 final size:72
Alignment explanation
Indices: 10108469--10108668 Score: 294
Period size: 72 Copynumber: 2.7 Consensus size: 72
10108459 CTAACGCACA
* *
10108469 AGATTATTTTCACTCTTTTATTTAAGTTGTTGCCCACGTACATATACTTTAATTCTTCAAGTTGA
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATAC--T--TTCTTCAAGTTGA
10108534 -TTCTCACACG
62 TTTCTCACACG
** *
10108544 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTGTATATACTTTCTTCAAGTTGATTTT
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGATTTC
10108609 TCACACG
66 TCACACG
* *
10108616 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCTACCTACATATACTTTCTT
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTT
10108669 TCTTTTATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 13 0.11
72 58 0.50
73 1 0.01
75 43 0.37
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (72 bp):
AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGATTTC
TCACACG
Found at i:10108866 original size:21 final size:19
Alignment explanation
Indices: 10108826--10108868 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
10108816 TGTATCAAAG
*
10108826 TTTCATATTGACGTTTAAA
1 TTTCATATTGACGTTGAAA
*
10108845 TTTCATGATTTGATGTTGAAA
1 TTTCAT-A-TTGACGTTGAAA
10108866 TTT
1 TTT
10108869 GATACTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (19 bp):
TTTCATATTGACGTTGAAA
Found at i:10112193 original size:367 final size:367
Alignment explanation
Indices: 10111145--10112220 Score: 1626
Period size: 366 Copynumber: 2.9 Consensus size: 367
10111135 TGATATTCTA
* * *
10111145 TGTATTTATGCAAGTTTCGTTTTGGA-TTTTTATTATCTCTTGTTCGTACAGAATACACAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTACAGAATACACAAATTC
* * *
10111209 CAACTATAACAACCTGCATTATTGCTAGAACT-TAAAAAAGATATACAAATTTTAGGAAGAAAAA
66 CAACTATAACAACCT-CATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * * *
10111273 ATGATTATCGACAAATGGCACCAC-CTCTTACCAAATAGGTTACAATTATGGTGTAAAGCCAACT
130 ATGATTATCGACAAATGGCACCACACT-TTACCAAAGAGGTTACAATAATAGCGTAAAGCCAACT
* *
10111337 AGAACCACGTAAGCTTTTTTTTTCCAACGTAAGTATATCTCACGTGCTTCGTGTGCAGAGACTAT
194 AGAATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
* * * * *
10111402 GAGAATAAATAAAGGACGTCTTACTAGATTCACCAAACTCCATTGGGTGGTGCATCAGTGACTAA
259 GAGAACAAATAAATGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGA
*
10111467 TGACATTTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
324 TGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * * *
10111511 TGTATTTATTCATGTTTTACTTTGGAC-TTTTATTATCTCTTGTTTGTACAGAATATACAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTACAGAATACACAAATTC
*
10111575 CAACTATAACAACCTACATTATTGCTAAAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
66 CAACTATAACAACCT-CATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * *
10111640 ATGATTATCGACAAATGGTACCACATTTTACCAAAGAGGTTTCAATAATAGCGTAAAGCCAACTA
130 ATGATTATCGACAAATGGCACCACACTTTACCAAAGAGGTTACAATAATAGCGTAAAGCCAACTA
* * * *
10111705 GAATCACGTAAGCATTTTTTTT-AAACGTAAAAATATCTCACGTGCTTCGTGTGCAGAGGCTATG
195 GAATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* * * *
10111769 AGAACAAATAAATGACATCTTACTAAATTTACCAAACTCTATTAGGTGTTGCATCAGTGACTGAT
260 AGAACAAATAAATGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
10111834 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
325 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
*
10111877 TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTATAGAATACACAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTACAGAATACACAAATTC
* *
10111942 CAACTGTAACAA-C-CATTGTTGCTAGAACTAAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
66 CAACTATAACAACCTCATTATTGCTAGAACT-AAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * * * * *
10112005 ATGATTATCGATAAATGGCGCCACACTTTCCCAAAGAGGTTCCAATCATAGCGTAATGCCCAACT
130 ATGATTATCGACAAATGGCACCACACTTTACCAAAGAGGTTACAATAATAGCGTAAAG-CCAACT
* *
10112070 AGAATCACATAAGCTTTTTTTTTCCAATGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
194 AGAATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
* *
10112135 GAGAACAAATAAATGATATCTTACTAGATTCACCAATCTCCATTGGGTGTTGCATCAGTGACTGA
259 GAGAACAAATAAATGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGA
*
10112200 TGACATCTACAAAAAGATCGT
324 TGACATCTACAAAAAGTTCGT
10112221 CATTGATAAT
Statistics
Matches: 639, Mismatches: 64, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
364 14 0.02
365 83 0.13
366 275 0.43
367 266 0.42
368 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (367 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTACAGAATACACAAATTC
CAACTATAACAACCTCATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
TGATTATCGACAAATGGCACCACACTTTACCAAAGAGGTTACAATAATAGCGTAAAGCCAACTAG
AATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
GAACAAATAAATGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
Found at i:10112547 original size:27 final size:26
Alignment explanation
Indices: 10112487--10112548 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
10112477 ATAAGACTCC
10112487 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
10112513 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
10112541 ATTTTATT
1 ATTTTATT
10112549 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:10114424 original size:49 final size:49
Alignment explanation
Indices: 10114357--10114505 Score: 271
Period size: 49 Copynumber: 3.0 Consensus size: 49
10114347 ACATATATAG
* * *
10114357 ATATACACTTTCATATTCATCACGTCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
10114406 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
10114455 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
10114504 AT
1 AT
10114506 TATTATGTAC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 97 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:10121236 original size:730 final size:733
Alignment explanation
Indices: 10118755--10122398 Score: 5369
Period size: 730 Copynumber: 5.0 Consensus size: 733
10118745 GATTATTTTA
*** * * * ** * **
10118755 TGTATTTATGCATGTTTCATTTTGGATTTTTACTATCTCTTGATCGTATAGAATACACCAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
* * *
10118820 AACTGTAACAACATGCATTATTGTTGGAACT-AAAAAAAGATATATAAATTTTAGAAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* * * * * * * * * *
10118884 TGATTATCGATAAATGGCACCACCTCTTACTAAAGAGGTTACGAGAATAGCCTAA-AGCCAACTA
131 TGATTATCAACAAATGGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
* * *
10118948 GAATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCATGTGCAAAGATTATG
196 GAATCACGTAAGC-TTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGCAAAGACTATG
* * *
10119013 AGAACAAATAAAAGATATCTTACTAGATTCGCCAAACTCCATTGGGTGGTGCATCAGTGACTGAT
260 AGAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
* *
10119078 GACATTTACAAAAAGTTCGTAATTAATGAAATCCGCAAAATGTTGTATTTATGCATGTTTTGCTT
325 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTT
* * *
10119143 TGGACTTTTATTATCTTTTGTTCATACATAATACAAAAATTCCAACTGCAACAACCTGCATTATT
390 TGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCCAACTGTAACAACCTGCATTATT
* * * * *
10119208 ATTGGAACTAAAAAAAGATATATAAATTTAAGAAAGAAAAAATGATTATCGACATATGGCACCAC
455 GTTGGAACT-AAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCAC
* * *
10119273 CTCTTACCAAAGAGGTTTCAATAATTGCGTAACGCCCAACTAGAATCACGTAAGCTTTTTTTTTT
519 CTCTTACCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGC-TTTTTTTTT
* * * * * * *
10119338 CCAACATAAGAATGTCTCATGTGCTTCGTGTACAGAGACTCTGAGAATAAATAAATGACACCTTA
583 CCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTTA
* * *
10119403 CTAGATTCACCAAAATCCAAT-GAGTGTTGCATCAGTGACTGATGACATCTATAAAAAGTTCGTA
648 CTAGATTCACCAAACTCCATTAG-GTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTA
* *
10119467 ATTAATGAAATTCGTAAAATGT
712 ATTAATGAAATCCGTAAAAGGT
* * * *
10119489 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTGTCTTTTGTTCGTACATAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
* *
10119554 AACTATAACAACCAGCATTATTGTTGGAACTAAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACT-AAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * * * *
10119619 ATGACTATAAAGAAATGACACCA-CTTCTTACCAAAGAGGTTTCAATAATTTCGTAACACCCAAC
130 ATGATTATCAACAAATGGCACCACCTT-TTACCAAAGAGGTTTCAATAATTGCGTAACACCCAAC
*
10119683 TAGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACATACTTCGTGTGCAAAAGACTA
194 TAGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGC-AAAGACTA
* * * * *
10119748 TGAGAATAAATAAAGGACATCTTACTAGATTCGCGAAACTCCATTGGATGTTACATCAGTGATTG
258 TGAGAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTG
* * * * *
10119813 ATGATACCTACAAAAAATTTGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGA
323 ATGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGC
* * * *
10119878 TTTGGACTTTTATTATCTTTTGTTCGTACGGAATATAAAAATTCCTACTGTAACAACCTGCTTTA
388 TTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCCAACTGTAACAACCTGCATTA
10119943 TTGTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCA
453 TTGTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCA
* *
10120008 CCTCTTACCAAAAAGGTTTCAATAATAGCGTAATGCCTAACTAGAATCATGTAAGCTTTTTTTTT
518 CCTCTTACCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGC-TTTTTTTT
* *
10120073 TCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAAAGACTATGAGAACAAATAAAAGACA-TTT
582 TCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTT
* * *
10120137 ACTAGATTCGCCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATTTATAAAAAGTTCGTA
647 ACTAGATTCACCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTA
10120202 ATTAATGAAATCCGTAAAAGGT
712 ATTAATGAAATCCGTAAAAGGT
*
10120224 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTTTTCGTACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
*
10120289 AACTGTAACAACCTGCTTTATTGTTGGAACT--AAAAAA-ATATATAAATTTAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* *
10120351 TGATTATTAACAAATAGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
131 TGATTATCAACAAATGGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
* * *
10120416 GAATCACGTAAGCTTCTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGTATAGACTATGA
196 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGCAAAGACTATGA
* *
10120481 GAACAAATAAATGACATCTTACTAGATTCGCCAAACTCCATTGTGTGTTGCATCAGTGACTGATG
261 GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* *
10120546 ACATCTA-AAAATGTTCGTAATTAATGAAATCCGCAAAATGTTGTATTTATGCATGTTTTGCTTT
326 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
* *
10120610 GGACTTTTATTATCTTTTGTTCGTACAAAATACAAAAATTCCAACTGTAACAACCTGTATTATTG
391 GGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCCAACTGTAACAACCTGCATTATTG
10120675 TTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCACCT
456 TTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCACCT
* * * * *
10120740 CTTACCAAATAGGTTTCAATAATAACATAATGCCCAACTACAATCGCGTAAGC-TTTTTTTTCCA
521 CTTACCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGCTTTTTTTTTCCA
** * *
10120804 GTGTAAGAATATCTCACGTGCTTCATGTGCAGAGACTATGAGAACAAATAAAGGACACCTTACTA
586 ACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTTACTA
** * * *
10120869 GATTCGTCAAACGCCATTAGGTGTTGCATCAGTGATTGATGACAGCTACAAAAAGTTCGTAATTA
651 GATTCACCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTAATTA
*
10120934 ATGAAATCTGTAAAAGGT
716 ATGAAATCCGTAAAAGGT
* *
10120952 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTAT-TATTTTTCATACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
* * * *
10121016 AATTGTAACAACTTGCTTTATTGTTGGAACTAAAAAAAAGGTATATAAATTTAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* *
10121081 TGATTATCAACAAATGGCACCACCTTTTGCCAAAGAGGTTTTAATAATTGCGTAACACCCAACTA
131 TGATTATCAACAAATGGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
* * * *
10121146 GAATCACGAAAGCTTTTTTTTCCAACGTTAGAATATCTCACGTACTTCGTGTTCATAGACTATGA
196 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGCAAAGACTATGA
10121211 GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
261 GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
10121276 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
326 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
* *
10121341 GGACTTTTATTATCTTTTGTTCGTACGGAATACAAAAATTTCAACTGTAACAACCTGCATTATTG
391 GGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCCAACTGTAACAACCTGCATTATTG
10121406 TTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCACCT
456 TTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCACCT
* * *
10121471 TTTTCCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGAAAGC---TTTTTTCCA
521 CTTACCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGCTTTTTTTTTCCA
* * * *
10121533 ACGTAAGAATATCTCACGTGTTTTGTGTGCAGAAACTATGAGAACAAATAAAAGACATCTTACTA
586 ACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTTACTA
* *
10121598 GATTCACCAAACTCCATTAGGTGTTGCATTAGTGACTGATGACATCTACAAAAAGTTCGCAATTA
651 GATTCACCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTAATTA
10121663 ATGAAATCCGTAAAAGGT
716 ATGAAATCCGTAAAAGGT
* * *
10121681 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTTTTCGTACAGAATACAAAAGTTCA
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
* * * * *
10121746 AACTATAACAACCAGCATTGTTGTTGGAACCAAAAAAAAGATATATAAATTGAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* *
10121811 TGATTATCAACAAATAGCACCACCTCTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
131 TGATTATCAACAAATGGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
* * * * * *
10121876 GAATCACGTAAGCTTTTTTTTCCAATGTAAGAATATCTCAAGTGCTTCGTATGCACAGACTATAA
196 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGCAAAGACTATGA
* * * *
10121941 GAACAAATAAAGGACATCTTATTAGATTCACCAAACTCCATTGCGTGTTGCATCAGTGGCTGATG
261 GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* *
10122006 ACATCTACAAAAAGTTTGTAATTAATGATATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
326 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
* * * * * * *
10122071 GAAC-TTTATTATCTCTTATTCGTACAGAATACACAAATTTCAAACTATGACAACCTGCATTATT
391 GGACTTTTATTATCTTTTGTTCGTACAGAATACA-AAAATTCCAACTGTAACAACCTGCATTATT
* * * *
10122135 AG-TGAAACTAAAAAAAATATATAAATTTAAGGAAGAAAGAATGATTATCGACAAATGGCACCAC
455 -GTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCAC
* * * * *
10122199 CTCTT-CGCAAAGAGGTTTCAATAATAGCGTAATGCCCAACTAAAATCATGCAAACTTTTTTTTT
519 CTCTTAC-CAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGCTTTTTTTTT
* * * * * * *
10122263 CCAACGTAAGAATATCTCACGTGTTTTGTGTGTAGAGAGTATGAGAATAAATAAAAGATATCTTA
583 CCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTTA
* * * * *
10122328 CTAGATTCTCCAAACTCCATTAAGTATTGCGTCAGTGATTGATGACATCTACAAAAAGTTCGTAA
648 CTAGATTCACCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTAA
10122393 TTAATG
713 TTAATG
10122399 GATTTCGCAA
Statistics
Matches: 2642, Mismatches: 249, Indels: 39
0.90 0.08 0.01
Matches are distributed among these distances:
727 118 0.04
728 117 0.04
729 431 0.16
730 742 0.28
731 358 0.14
732 9 0.00
733 130 0.05
734 81 0.03
735 173 0.07
736 272 0.10
737 211 0.08
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (733 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTATCTTTTTTTCGTACAGAATACAAAAATTCC
AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
TGATTATCAACAAATGGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGCAAAGACTATGA
GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGTTGTATTTATGCATGTTTTGCTTT
GGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCCAACTGTAACAACCTGCATTATTG
TTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATGATTATCAACAAATGGCACCACCT
CTTACCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGAATCACGTAAGCTTTTTTTTTCCA
ACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGAACAAATAAAAGACACCTTACTA
GATTCACCAAACTCCATTAGGTGTTGCATCAGTGACTGATGACATCTACAAAAAGTTCGTAATTA
ATGAAATCCGTAAAAGGT
Found at i:10122410 original size:366 final size:365
Alignment explanation
Indices: 10118755--10122398 Score: 5141
Period size: 366 Copynumber: 10.0 Consensus size: 365
10118745 GATTATTTTA
*** * * * * * **
10118755 TGTATTTATGCATGTTTCATTTTGGATTTTTACTATCTCTTGATCGTATAGAATACACCAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * *
10118820 AACTGTAACAACATGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTTAGAAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAA-ATATATAAATTTAAGGAAGAAAAAAT
* * * * * * * *
10118885 GATTATCGATAAATGGCACCACCTCTTACTAAAGAGGTTACGAGAATAGCCTAAAG-CCAACTAG
130 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
* * *
10118949 AATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCATGTGCAAAGATTATGA
195 AATCACGTAAGC-TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
* *
10119014 GAACAAATAAAAGATATCTTACTAGATTCGCCAAACTCCATTGGGTGGTGCATCAGTGACTGATG
259 GAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* *
10119079 ACATTTACAAAAAGTTCGTAATTAATGAAATCCGCAAAATGT
324 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
10119121 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCATACATAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * *
10119186 AACTGCAACAACCTGCATTATTATTGGAACTAAAAAAAGATATATAAATTTAAGAAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAA-ATATATAAATTTAAGGAAGAAAAAAT
* * *
10119251 GATTATCGACATATGGCACCACCTCTTACCAAAGAGGTTTCAATAATTGCGTAACGCCCAACTAG
130 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
* * * * *
10119316 AATCACGTAAGCTTTTTTTTTTCCAACATAAGAATGTCTCATGTGCTTCGTGTACAGAGACTCTG
195 AATCACGTAAGC--TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* * * * * * *
10119381 AGAATAAATAAATGACACCTTACTAGATTCACCAAAATCCAATGAGTGTTGCATCAGTGACTGAT
258 AGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
* * * *
10119446 GACATCTATAAAAAGTTCGTAATTAATGAAATTCGTAAAATGT
323 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
10119489 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTGTCTTTTGTTCGTACATAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* *
10119554 AACTATAACAACCAGCATTATTGTTGGAACTAAAAAAAAAGATATATAAATTTAAGGAAGAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACT--AAAAAAA-ATATATAAATTTAAGGAAGAAAAA
* * * * * ** *
10119619 ATGACTATAAAGAAATGACACCACTTCTTACCAAAGAGGTTTCAATAATTTCGTAACACCCAACT
128 ATGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACT
* * *
10119684 AGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACATACTTCGTGTGCAAAAGACTAT
193 AGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGC-AGAGACTAT
* * * * * *
10119749 GAGAATAAATAAAGGACATCTTACTAGATTCGCGAAACTCCATTGGATGTTACATCAGTGATTGA
257 GAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGA
* * * *
10119814 TGATACCTACAAAAAATTTGTAATTAATGAAATCCGCAAAAGGT
322 TGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
10119858 TGTATTTATGCATGTTTTGATTTGGACTTTTATTATCTTTTGTTCGTACGGAATATAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * *
10119923 TACTGTAACAACCTGCTTTATTGTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATG
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAATG
* * *
10119988 ATTATCAACAAATGGCACCACCTCTTACCAAAAAGGTTTCAATAATAGCGTAATGCCTAACTAGA
131 ATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGA
* *
10120053 ATCATGTAAGCTTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAAAGACTATGA
196 ATCACGTAAGC--TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
*
10120118 GAACAAATAAAAGACAT-TTACTAGATTCGCCAAACTCCATTAGGTGTTGCATCAGTGACTGATG
259 GAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* * *
10120182 ACATTTATAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
324 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
*
10120224 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTTTTCGTACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
*
10120289 AACTGTAACAACCTGCTTTATTGTTGGAACT-AAAAAAATATATAAATTTAAGGAAGAAAAAATG
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAATG
* * * * *
10120353 ATTATTAACAAATAGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTAGA
131 ATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGA
* * * *
10120418 ATCACGTAAGCTTCTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGTATAGACTATGAGA
196 ATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGA
* *
10120483 ACAAATAAATGACATCTTACTAGATTCGCCAAACTCCATTGTGTGTTGCATCAGTGACTGATGAC
261 ACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGAC
* *
10120548 ATCTA-AAAATGTTCGTAATTAATGAAATCCGCAAAATGT
326 ATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
*
10120587 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAAAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* *
10120652 AACTGTAACAACCTGTATTATTGTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATG
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAATG
* * * * *
10120717 ATTATCAACAAATGGCACCACCTCTTACCAAATAGGTTTCAATAATAACATAATGCCCAACTACA
131 ATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGA
* ** *
10120782 ATCGCGTAAGCTTTTTTTTCCAGTGTAAGAATATCTCACGTGCTTCATGTGCAGAGACTATGAGA
196 ATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGA
* * * * * *
10120847 ACAAATAAAGGACACCTTACTAGATTCGTCAAACGCCATTAGGTGTTGCATCAGTGATTGATGAC
261 ACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGAC
* * *
10120912 AGCTACAAAAAGTTCGTAATTAATGAAATCTGTAAAAGGT
326 ATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
10120952 TGTATTTATGCATGTTTTGCTTTGGACTTTTAGTAT-TATTT-TTCATACAGAATACAAAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCT-TTTGTTCGTACAGAATACAAAAATTC
* * *
10121015 CAATTGTAACAACTTGCTTTATTGTTGGAACTAAAAAAAAGGTATATAAATTTAAGGAAGAAAAA
65 CAACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAA--TATATAAATTTAAGGAAGAAAAA
* * * * *
10121080 ATGATTATCAACAAATGGCACCACCTTTTGCCAAAGAGGTTTTAATAATTGCGTAACACCCAACT
128 ATGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACT
* * * * *
10121145 AGAATCACGAAAGCTTTTTTTTCCAACGTTAGAATATCTCACGTACTTCGTGTTCATAGACTATG
193 AGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
*
10121210 AGAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
258 AGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
10121275 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
323 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
10121318 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACGGAATACAAAAATTTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
*
10121383 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAATATATATAAATTTAAGGAAGAAAAAATG
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAATG
* * * *
10121448 ATTATCAACAAATGGCACCACCTTTTTCCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAGA
131 ATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGA
* * * *
10121513 ATCACGAAAGC--TTTTTTCCAACGTAAGAATATCTCACGTGTTTTGTGTGCAGAAACTATGAGA
196 ATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGA
* * *
10121576 ACAAATAAAAGACATCTTACTAGATTCACCAAACTCCATTAGGTGTTGCATTAGTGACTGATGAC
261 ACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGAC
* *
10121641 ATCTACAAAAAGTTCGCAATTAATGAAATCCGTAAAAGGT
326 ATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
10121681 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTTTTCGTACAGAATACAAAAGTTCA
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * * * *
10121746 AACTATAACAACCAGCATTGTTGTTGGAACCAAAAAAAAGATATATAAATTGAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAA-CTAAAAAAA-ATATATAAATTTAAGGAAGAAAAAA
* * *
10121811 TGATTATCAACAAATAGCACCACCTCTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
129 TGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTA
* * * * *
10121876 GAATCACGTAAGCTTTTTTTTCCAATGTAAGAATATCTCAAGTGCTTCGTATGCACAGACTATAA
194 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
* * * * *
10121941 GAACAAATAAAGGACATCTTATTAGATTCACCAAACTCCATTGCGTGTTGCATCAGTGGCTGATG
259 GAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* *
10122006 ACATCTACAAAAAGTTTGTAATTAATGATATCCGCAAAAGGT
324 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * * *
10122048 TGTATTTATGCATGTTTTGCTTTGAAC-TTTATTATCTCTTATTCGTACAGAATACACAAATTTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACA-AAAATTC
* * * * *
10122112 AAACTATGACAACCTGCATTATTAG-TGAAACTAAAAAAAATATATAAATTTAAGGAAGAAAGAA
65 CAACTGTAACAACCTGCATTATT-GTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAA
* *
10122176 TGATTATCGACAAATGGCACCACCTCTT-CGCAAAGAGGTTTCAATAATAGCGTAATGCCCAACT
129 TGATTATCAACAAATGGCACCACCTCTTAC-CAAAGAGGTTTCAATAATAGCGTAACGCCCAACT
* * * * * * * *
10122240 AAAATCATGCAAACTTTTTTTTTCCAACGTAAGAATATCTCACGTGTTTTGTGTGTAGAGAGTAT
193 AGAATCACGTAAGC-TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
* * * ** * * *
10122305 GAGAATAAATAAAAGATATCTTACTAGATTCTCCAAACTCCATTAAGTATTGCGTCAGTGATTGA
257 GAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGA
10122370 TGACATCTACAAAAAGTTCGTAATTAATG
322 TGACATCTACAAAAAGTTCGTAATTAATG
10122399 GATTTCGCAA
Statistics
Matches: 2928, Mismatches: 327, Indels: 46
0.89 0.10 0.01
Matches are distributed among these distances:
363 417 0.14
364 321 0.11
365 447 0.15
366 850 0.29
367 303 0.10
368 304 0.10
369 185 0.06
370 101 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (365 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAATATATAAATTTAAGGAAGAAAAAATG
ATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAGA
ATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAGA
ACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGAC
ATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
Found at i:10122986 original size:32 final size:32
Alignment explanation
Indices: 10122941--10123004 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
10122931 AACGTCCAAC
10122941 AAGATCTAAAATATCCTTCGA-TTATTTATAAT
1 AAGATCTAAAATATCCTT-GAGTTATTTATAAT
* * *
10122973 AAGATTTAGAATATCCTTTAGTTATTTATAAT
1 AAGATCTAAAATATCCTTGAGTTATTTATAAT
10123005 TGTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (32 bp):
AAGATCTAAAATATCCTTGAGTTATTTATAAT
Found at i:10124873 original size:2 final size:2
Alignment explanation
Indices: 10124866--10124896 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10124856 AGCTTTGTTT
10124866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10124897 TTATTACTTA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10125158 original size:2 final size:2
Alignment explanation
Indices: 10125151--10125178 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10125141 TTTAACCATA
10125151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10125179 TAAAAAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10128221 original size:18 final size:18
Alignment explanation
Indices: 10128198--10128233 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10128188 TATATTGCAT
10128198 GCAACTATGTATTAGGAA
1 GCAACTATGTATTAGGAA
*
10128216 GCAACTATGTTTTAGGAA
1 GCAACTATGTATTAGGAA
10128234 ACTACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (18 bp):
GCAACTATGTATTAGGAA
Found at i:10128240 original size:18 final size:18
Alignment explanation
Indices: 10128199--10128240 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10128189 ATATTGCATG
*
10128199 CAACTATGTATTAGGAAG
1 CAACTATGTATTAGGAAA
*
10128217 CAACTATGTTTTAGGAAA
1 CAACTATGTATTAGGAAA
*
10128235 CTACTA
1 CAACTA
10128241 AGTCCAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
CAACTATGTATTAGGAAA
Found at i:10128862 original size:20 final size:22
Alignment explanation
Indices: 10128833--10128878 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
10128823 CTTATTATTA
10128833 AAAACGTT-AAAATATTTCAAG
1 AAAACGTTAAAAATATTTCAAG
* *
10128854 AAAAC-TTAAAAATGTTTCACG
1 AAAACGTTAAAAATATTTCAAG
10128875 AAAA
1 AAAA
10128879 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAACGTTAAAAATATTTCAAG
Found at i:10128885 original size:21 final size:21
Alignment explanation
Indices: 10128841--10128886 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10128831 TAAAAACGTT
* *
10128841 AAAATATTTCAAGAAAACTTA
1 AAAATATTTCAAGAAAAATAA
* *
10128862 AAAATGTTTCACGAAAAATAA
1 AAAATATTTCAAGAAAAATAA
10128883 AAAA
1 AAAA
10128887 ATTAGTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAATATTTCAAGAAAAATAA
Found at i:10129153 original size:46 final size:47
Alignment explanation
Indices: 10129086--10129271 Score: 216
Period size: 46 Copynumber: 4.0 Consensus size: 47
10129076 CAATATTCTA
*
10129086 AAAAACCTTAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATT
1 AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATT
* * * * *
10129133 AAAAATCT-TAAATGTCTCAAGGCAACCAAAGAA-ATAGTAAATTATT
1 AAAAACCTCAAAATGTTTCAAGACAAACAAA-AAGATAGTAAATTATT
* * *
10129179 AAAAACCTCAAAATGTTTTAAGAC-AACAAAGAGGTAGTAAATTATT
1 AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATT
* * * * *
10129225 TAAAATCTCAAAATCTTTCAAGACAAATAAAAATATAGTAAATTATT
1 AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATT
10129272 CTAAGATAAC
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 75 0.66
47 38 0.33
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (47 bp):
AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATT
Found at i:10129246 original size:93 final size:93
Alignment explanation
Indices: 10129086--10129271 Score: 241
Period size: 93 Copynumber: 2.0 Consensus size: 93
10129076 CAATATTCTA
* * *
10129086 AAAAACCTTAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATTAAAAATCTTAAATGTCTC
1 AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATTAAAAATCTAAAATCTCTC
* *
10129151 AAGGCAACCAAAGAA-ATAGTAAATTATT
66 AAGACAAACAAA-AATATAGTAAATTATT
* * * * *
10129179 AAAAACCTCAAAATGTTTTAAGAC-AACAAAGAGGTAGTAAATTATTTAAAATCTCAAAATCTTT
1 AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATTAAAAATCT-AAAATCTCT
*
10129243 CAAGACAAATAAAAATATAGTAAATTATT
65 CAAGACAAACAAAAATATAGTAAATTATT
10129272 CTAAGATAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
92 29 0.36
93 51 0.64
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (93 bp):
AAAAACCTCAAAATGTTTCAAGACAAACAAAAAGATAGTAAATTATTAAAAATCTAAAATCTCTC
AAGACAAACAAAAATATAGTAAATTATT
Found at i:10129922 original size:20 final size:20
Alignment explanation
Indices: 10129889--10129933 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10129879 AATAGAATAA
* *
10129889 ATTTTAATACTTTTTTAAAT
1 ATTTTAATAATTTTTGAAAT
*
10129909 ATTTTTATAATTTTTGAAAT
1 ATTTTAATAATTTTTGAAAT
10129929 -TTTTA
1 ATTTTA
10129934 TTTTTGTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTAATAATTTTTGAAAT
Found at i:10129947 original size:27 final size:25
Alignment explanation
Indices: 10129910--10129960 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
10129900 TTTTTAAATA
10129910 TTTTTATAATTTT-TGAAATTTTTAT
1 TTTTTATAATTTTAT-AAATTTTTAT
10129935 TTTTGTATAAATTTTATAAATTTTTA
1 TTTT-TAT-AATTTTATAAATTTTTA
10129961 AAATTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 15 0.65
28 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTATAATTTTATAAATTTTTAT
Found at i:10129964 original size:18 final size:17
Alignment explanation
Indices: 10129900--10129965 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
10129890 TTTTAATACT
10129900 TTTTTAAATATTTTTATAA
1 TTTTTAAA-ATTTTTA-AA
* *
10129919 TTTTTGAAATTTTT-AT
1 TTTTTAAAATTTTTAAA
10129935 TTTTGTATAAATTTTATAAA
1 TTTT-TA-AAATTTT-TAAA
10129955 TTTTTAAAATT
1 TTTTTAAAATT
10129966 CTATTTTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.13
17 1 0.03
18 18 0.46
19 10 0.26
20 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAAAATTTTTAAA
Found at i:10136603 original size:16 final size:16
Alignment explanation
Indices: 10136572--10136601 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10136562 TATTATGTAT
10136572 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
10136588 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
10136602 TACTATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:10146011 original size:42 final size:43
Alignment explanation
Indices: 10145921--10146012 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
10145911 TCCTAATTGG
10145921 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* *
10145964 GAAAATAGTTCCCTTATTCTAGTAAACTA-TAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
10146007 -AAAATA
1 GAAAATA
10146013 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 17 0.37
43 29 0.63
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:10150695 original size:43 final size:44
Alignment explanation
Indices: 10150634--10150726 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
10150624 TCCTAATTGG
10150634 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
10150677 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
10150721 -AAAATA
1 GAAAATA
10150727 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:10150770 original size:19 final size:18
Alignment explanation
Indices: 10150748--10150787 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
10150738 TGAATAAAAC
10150748 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
10150767 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
10150785 TTA
1 TTA
10150788 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:10153095 original size:11 final size:11
Alignment explanation
Indices: 10153079--10153103 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10153069 AATGAAAAAA
10153079 ACCCATTCCTT
1 ACCCATTCCTT
10153090 ACCCATTCCTT
1 ACCCATTCCTT
10153101 ACC
1 ACC
10153104 ATAGGAACAT
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:0.20, C:0.48, G:0.00, T:0.32
Consensus pattern (11 bp):
ACCCATTCCTT
Found at i:10153347 original size:141 final size:141
Alignment explanation
Indices: 10153092--10153354 Score: 404
Period size: 141 Copynumber: 1.9 Consensus size: 141
10153082 CATTCCTTAC
*
10153092 CCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCAAGCTGTTAAAAGACAGGT
1 CCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCAAACTGTTAAAAGACAGGT
* * * *
10153157 GTTTAAAGAAAGTTGCTCCTCCTAGAAGTTGATTCCTATTTGCTCTGGCTATTGCTTGATAGCCA
66 GTTCAAAGAAAGTTGCTCCTCCTACAAGTTGATTCCTATTAGCTCTGGCTACTGCTTGATAGCCA
10153222 TAATGAAAAAA
131 TAATGAAAAAA
10153233 CCATTCCTTACCAT-GGAAACATTCTTCATAAAGCTGTAGTTACAGCAAACTGTTAAAAGACAGG
1 CCATTCCTTACCATAGG-AACATTCTTCATAAAGCTGTAGTTACAGCAAACTGTTAAAAGACAGG
* ** * *
10153297 TGTTCAAAGAAAGTTGTTGTTTCC-ACAAGTTGATTCTTATTAGCTTTGGCTACTGCTT
65 TGTTCAAAGAAAGTTGCT-CCTCCTACAAGTTGATTCCTATTAGCTCTGGCTACTGCTT
10153355 TATAAAAGCT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
140 2 0.02
141 105 0.95
142 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (141 bp):
CCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCAAACTGTTAAAAGACAGGT
GTTCAAAGAAAGTTGCTCCTCCTACAAGTTGATTCCTATTAGCTCTGGCTACTGCTTGATAGCCA
TAATGAAAAAA
Found at i:10175292 original size:13 final size:13
Alignment explanation
Indices: 10175274--10175299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10175264 ATTATATGAA
10175274 ATTAATATTACTT
1 ATTAATATTACTT
10175287 ATTAATATTACTT
1 ATTAATATTACTT
10175300 TTCACTTTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATATTACTT
Found at i:10178705 original size:6 final size:6
Alignment explanation
Indices: 10178694--10178732 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
10178684 AATCTATCTC
10178694 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
10178733 GTTTGTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:10181399 original size:49 final size:49
Alignment explanation
Indices: 10181327--10181426 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
10181317 AGGTATATAC
10181327 ACATATAAGGATCCACGATTATACTCCGGGAAGAATTTTTTAAATTCAA
1 ACATATAAGGATCCACGATTATACTCCGGGAAGAATTTTTTAAATTCAA
10181376 ACATATAAGGATCCACGATTATACTCCGGGAAGAATTTTTTAAATTCAA
1 ACATATAAGGATCCACGATTATACTCCGGGAAGAATTTTTTAAATTCAA
10181425 AC
1 AC
10181427 TATCTTTCCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (49 bp):
ACATATAAGGATCCACGATTATACTCCGGGAAGAATTTTTTAAATTCAA
Found at i:10181867 original size:65 final size:65
Alignment explanation
Indices: 10181798--10181939 Score: 162
Period size: 65 Copynumber: 2.2 Consensus size: 65
10181788 GTTCAAGAGC
* *
10181798 TTTGG-AAGACTCAATATCT-CATTCAGGATCTTGAAATTGAGAAGACCTGATATCTCATTCAGA
1 TTTGGAAAGA-TCAATAT-TGCATTCAGGAGCTTGAAATTGAGAAGACCTAATATCTCATTCAGA
10181861 AG
64 AG
* * * * * *
10181863 TTTGGAAAGATCGATATTGCATTTAGGAGCTTGAGATTGAGAAGACTTAATATCTCGTTCAGGAG
1 TTTGGAAAGATCAATATTGCATTCAGGAGCTTGAAATTGAGAAGACCTAATATCTCATTCAGAAG
* *
10181928 ATTGGGAAGATC
1 TTTGGAAAGATC
10181940 CGATTTTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 1 0.02
65 60 0.92
66 4 0.06
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (65 bp):
TTTGGAAAGATCAATATTGCATTCAGGAGCTTGAAATTGAGAAGACCTAATATCTCATTCAGAAG
Found at i:10184775 original size:18 final size:18
Alignment explanation
Indices: 10184740--10184794 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
10184730 CGTGATCCGA
*
10184740 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
* *
10184757 TTTAAAACACTAAAA-TT
1 TTGAAAACACGAAAATTT
10184774 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAATTT
10184792 TTG
1 TTG
10184795 GGATCCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:10185369 original size:26 final size:27
Alignment explanation
Indices: 10185326--10185379 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
10185316 TATGTATACC
*
10185326 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
10185352 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
10185379 A
1 A
10185380 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:10185414 original size:18 final size:17
Alignment explanation
Indices: 10185388--10185441 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
10185378 AATAAGCATA
10185388 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
10185407 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
10185425 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
10185441 A
1 A
10185442 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:10185859 original size:29 final size:30
Alignment explanation
Indices: 10185827--10185884 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10185817 TATTAGCAGC
* *
10185827 ATGAAAATGATAA-AATAACAAATATTTAA
1 ATGAAAATAATAAGAACAACAAATATTTAA
* *
10185856 ATGAAGATAATAAGAACAGCAAATATTTA
1 ATGAAAATAATAAGAACAACAAATATTTA
10185885 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (30 bp):
ATGAAAATAATAAGAACAACAAATATTTAA
Found at i:10190255 original size:19 final size:19
Alignment explanation
Indices: 10190231--10190277 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
10190221 GGTATAGAAC
10190231 ACACGCCCGGGTGCTAAGA
1 ACACGCCCGGGTGCTAAGA
10190250 ACACGCCCGGGTGCTAAGA
1 ACACGCCCGGGTGCTAAGA
10190269 ACACGCCCG
1 ACACGCCCG
10190278 TGTCCCGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.26, C:0.36, G:0.30, T:0.09
Consensus pattern (19 bp):
ACACGCCCGGGTGCTAAGA
Found at i:10194395 original size:13 final size:14
Alignment explanation
Indices: 10194374--10194402 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10194364 TGAAAAATGG
10194374 ATTAGAAAATATTT
1 ATTAGAAAATATTT
10194388 ATTA-AAAATATTT
1 ATTAGAAAATATTT
10194401 AT
1 AT
10194403 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:10195486 original size:15 final size:15
Alignment explanation
Indices: 10195463--10195506 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10195453 TATCAAATTT
10195463 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
10195478 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
10195493 ATATTGATTGAAAT
1 ATATTGATTGAAAT
10195507 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:10195911 original size:23 final size:23
Alignment explanation
Indices: 10195883--10195940 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
10195873 TAATATTCCG
10195883 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
10195906 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
10195929 GGTGTGTTTGGG
1 GGTGTGTTTGGG
10195941 AGGAATCCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.07, C:0.03, G:0.43, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:10196066 original size:18 final size:19
Alignment explanation
Indices: 10196045--10196085 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10196035 AATGAAATGA
10196045 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10196063 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10196082 GAAA
1 GAAA
10196086 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10198406 original size:13 final size:13
Alignment explanation
Indices: 10198388--10198414 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10198378 TATAATATAT
10198388 AAGAAACAAAAGA
1 AAGAAACAAAAGA
10198401 AAGAAACAAAAGA
1 AAGAAACAAAAGA
10198414 A
1 A
10198415 TAAAAAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAACAAAAGA
Found at i:10199184 original size:15 final size:15
Alignment explanation
Indices: 10199164--10199220 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
10199154 CGATGAATTT
10199164 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
10199179 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
10199194 ATTGAATTTATATTG
1 ATTGAATTTATATTG
10199209 ATTGAA-TTATAT
1 ATTGAATTTATAT
10199221 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:10199622 original size:23 final size:23
Alignment explanation
Indices: 10199592--10199678 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
10199582 GCTTTATCGA
* *
10199592 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
10199615 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
10199636 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
10199658 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
10199679 ACTGATCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:10199863 original size:18 final size:19
Alignment explanation
Indices: 10199840--10199880 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10199830 AATGAAATGA
10199840 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10199858 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10199877 GAAA
1 GAAA
10199881 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10199877 original size:26 final size:26
Alignment explanation
Indices: 10199831--10199887 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10199821 AACTGTTGGA
*
10199831 ATGAAATGAGAAATTGAATTGAGAAT
1 ATGAAATGAGAAATTGAATTGAAAAT
*
10199857 -TGAAATTGAGATA-TGAGATTGAAAAT
1 ATGAAA-TGAGAAATTGA-ATTGAAAAT
10199883 ATGAA
1 ATGAA
10199888 CCAAAAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (26 bp):
ATGAAATGAGAAATTGAATTGAAAAT
Found at i:10204958 original size:18 final size:18
Alignment explanation
Indices: 10204925--10204979 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
10204915 CGTGATCCGA
*
10204925 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
10204942 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
10204959 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAATTT
10204977 TTG
1 TTG
10204980 GGATCCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:10205550 original size:26 final size:27
Alignment explanation
Indices: 10205507--10205560 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
10205497 TATGTATACC
*
10205507 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
10205533 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
10205560 A
1 A
10205561 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:10205595 original size:18 final size:17
Alignment explanation
Indices: 10205569--10205622 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
10205559 AATAAGCATA
10205569 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
10205588 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
10205606 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
10205622 A
1 A
10205623 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:10205688 original size:3 final size:3
Alignment explanation
Indices: 10205680--10205729 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10205670 AAAAATAAGT
* * *
10205680 ATA ATA AT- ATA TTA GATA GTA A-A ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10205724 ATA ATA
1 ATA ATA
10205730 TGTGAAGGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10206040 original size:29 final size:30
Alignment explanation
Indices: 10206008--10206064 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
10205998 ATTAGCAGCG
* *
10206008 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
* *
10206037 TGAAGATAATAAGAACAGCAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
10206065 GAAAGTAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:10207826 original size:2 final size:2
Alignment explanation
Indices: 10207819--10207845 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10207809 TTTGTTCTTT
10207819 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10207846 GATAACCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10209077 original size:2 final size:2
Alignment explanation
Indices: 10209070--10209106 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10209060 TTATTTTCTT
10209070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10209107 TCCGACATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10211782 original size:31 final size:31
Alignment explanation
Indices: 10211737--10211802 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
10211727 GTTATTGGAC
* * *
10211737 TATTCAAAATTTTTTATTTAAATCACTGAAT
1 TATTCAAAAGTTTTTATTGAAATCACTAAAT
* *
10211768 TATTCGAAAGTTTTTATTGAAGTCACTAAAT
1 TATTCAAAAGTTTTTATTGAAATCACTAAAT
10211799 TATT
1 TATT
10211803 AACTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (31 bp):
TATTCAAAAGTTTTTATTGAAATCACTAAAT
Found at i:10211818 original size:28 final size:29
Alignment explanation
Indices: 10211747--10211818 Score: 67
Period size: 31 Copynumber: 2.4 Consensus size: 29
10211737 TATTCAAAAT
* *
10211747 TTTTTATTTAAA-TCACTGAATTATTCGAAAG
1 TTTTT-TTTAAAGTCACTAAATTATT--AAAC
* *
10211778 TTTTTATTGAAGTCACTAAATTATT-AAC
1 TTTTTTTTAAAGTCACTAAATTATTAAAC
10211806 TTTTTTTTAAAGT
1 TTTTTTTTAAAGT
10211819 TTAACTAGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 13 0.38
30 4 0.12
31 17 0.50
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (29 bp):
TTTTTTTTAAAGTCACTAAATTATTAAAC
Found at i:10212128 original size:11 final size:11
Alignment explanation
Indices: 10212091--10212132 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
10212081 TTAACAGTTC
10212091 AATAATTTAAAT
1 AATAATTT-AAT
*
10212103 AAAAATTTTAA-
1 AATAA-TTTAAT
10212114 AATAATTTAAT
1 AATAATTTAAT
10212125 AATAATTT
1 AATAATTT
10212133 CGTAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 6 0.23
13 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:10223568 original size:28 final size:28
Alignment explanation
Indices: 10223520--10223575 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10223510 CAGTTTATAA
*
10223520 TTTTATTGTTTATATTTGGGTTTTAAGG
1 TTTTATTGTTTATATTTGGGTTTCAAGG
* *
10223548 TTTTATTTTTTCT-TTTAGGGTTTCAAGG
1 TTTTATTGTTTATATTT-GGGTTTCAAGG
10223576 CTAGAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.61
Consensus pattern (28 bp):
TTTTATTGTTTATATTTGGGTTTCAAGG
Found at i:10233490 original size:17 final size:16
Alignment explanation
Indices: 10233470--10233515 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
10233460 CAAAAAACTT
*
10233470 AAAATTTTAAAAATTAC
1 AAAATTTTAAAAA-TAA
10233487 AAAATTTTAAAAATAA
1 AAAATTTTAAAAATAA
10233503 AAAATATTTAAAA
1 AAAAT-TTTAAAA
10233516 TTCAAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTTTAAAAATAA
Found at i:10233498 original size:16 final size:16
Alignment explanation
Indices: 10233470--10233522 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
10233460 CAAAAAACTT
10233470 AAAATTTTAAAAATTAC
1 AAAATTTT-AAAATTAC
* *
10233487 AAAATTTTAAAAATAA
1 AAAATTTTAAAATTAC
10233503 AAAATATTTAAAATT-C
1 AAAAT-TTTAAAATTAC
10233519 AAAA
1 AAAA
10233523 CTTAAAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTTTAAAATTAC
Found at i:10239657 original size:19 final size:19
Alignment explanation
Indices: 10239633--10239670 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10239623 ATATTCATAC
*
10239633 GGTTCATGATTAAGAAAAT
1 GGTTCATAATTAAGAAAAT
*
10239652 GGTTCATAATTGAGAAAAT
1 GGTTCATAATTAAGAAAAT
10239671 TATGCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (19 bp):
GGTTCATAATTAAGAAAAT
Found at i:10240826 original size:15 final size:15
Alignment explanation
Indices: 10240803--10240840 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10240793 AATTCAGTAC
*
10240803 TTAACTTTTTAA-TA
1 TTAATTTTTTAACTA
10240817 TTTAATTTTTTAACTA
1 -TTAATTTTTTAACTA
10240833 TTAATTTT
1 TTAATTTT
10240841 CAATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTTTTAACTA
Found at i:10246951 original size:22 final size:22
Alignment explanation
Indices: 10246923--10246967 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10246913 ACCAGCTGTT
10246923 TAAATATATATTTATATATTCA
1 TAAATATATATTTATATATTCA
10246945 TAAATATATATTTATATATTCA
1 TAAATATATATTTATATATTCA
10246967 T
1 T
10246968 TTATTTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATATATATTTATATATTCA
Found at i:10247324 original size:53 final size:53
Alignment explanation
Indices: 10247244--10247350 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
10247234 AAGACAGACG
10247244 AAATTACCCTAGACAGAGTGTGCTGCTTACATACCTCCTTTGCATTGCCTTTT
1 AAATTACCCTAGACAGAGTGTGCTGCTTACATACCTCCTTTGCATTGCCTTTT
10247297 AAATTACCCTAGACAGAGTGTGCTGCTTACATACCTCCTTTGCATTGCCTTTT
1 AAATTACCCTAGACAGAGTGTGCTGCTTACATACCTCCTTTGCATTGCCTTTT
10247350 A
1 A
10247351 CTCCTGATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (53 bp):
AAATTACCCTAGACAGAGTGTGCTGCTTACATACCTCCTTTGCATTGCCTTTT
Found at i:10262451 original size:31 final size:29
Alignment explanation
Indices: 10262411--10262493 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
10262401 TTTAAATGCC
*
10262411 TATAATTAAAATAAAATTAAAATTTTATG
1 TATAATTAAAATAAAATTAAAATTTTATA
* * * *
10262440 TATACATTTAAACTAAAATCAAAGTATTATA
1 TATA-A-TTAAAATAAAATTAAAATTTTATA
*
10262471 TATAATT-ACATAAAATTAAAATT
1 TATAATTAAAATAAAATTAAAATT
10262494 CATATATCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
28 11 0.26
29 6 0.14
30 2 0.05
31 23 0.55
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (29 bp):
TATAATTAAAATAAAATTAAAATTTTATA
Found at i:10265663 original size:2 final size:2
Alignment explanation
Indices: 10265656--10265683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10265646 AATAAAAGAA
10265656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10265684 TGAAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10266182 original size:2 final size:2
Alignment explanation
Indices: 10266175--10266216 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10266165 TTTACGCAAG
10266175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10266217 GACAAGAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10266733 original size:20 final size:20
Alignment explanation
Indices: 10266708--10266748 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10266698 TTCAACATTA
10266708 ATAGAATATTATGTACGTTG
1 ATAGAATATTATGTACGTTG
10266728 ATAGAATATTATGTACGTTG
1 ATAGAATATTATGTACGTTG
10266748 A
1 A
10266749 CAATTGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (20 bp):
ATAGAATATTATGTACGTTG
Found at i:10268433 original size:29 final size:29
Alignment explanation
Indices: 10268400--10268462 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
10268390 CCAAATTAAA
10268400 CACCCTACTAAACCGAT-CACTAACTCCAT
1 CACCCTACTAAACC-ATCCACTAACTCCAT
*
10268429 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
10268458 CACCC
1 CACCC
10268463 CCACACCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CACCCTACTAAACCATCCACTAACTCCAT
Found at i:10268475 original size:37 final size:37
Alignment explanation
Indices: 10268429--10268503 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
10268419 CTAACTCCAT
10268429 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
10268466 CACCCTACTAAACCGTCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
10268503 C
1 C
10268504 TATATCCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.55, G:0.01, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:10268505 original size:18 final size:18
Alignment explanation
Indices: 10268445--10268517 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
10268435 ACTAAACCAT
10268445 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
10268463 CCAC-ACC-CTACTAAACCGT
1 CCACTACCTCCA-T-CACC-C
10268482 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
**
10268500 CCACTATATCCATCACCC
1 CCACTACCTCCATCACCC
10268518 TACTTGTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.10
18 23 0.55
19 7 0.17
20 4 0.10
21 2 0.05
ACGTcount: A:0.26, C:0.55, G:0.01, T:0.18
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:10268618 original size:12 final size:12
Alignment explanation
Indices: 10268576--10268625 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
10268566 ATTGTATGGG
*
10268576 GAGGATTTTGGA
1 GAGGATTTTTGA
10268588 GAGGA-TTTTGA
1 GAGGATTTTTGA
10268599 GAGGATTTTTG-
1 GAGGATTTTTGA
*
10268610 GAGGAATTTTTTA
1 GAGG-ATTTTTGA
10268623 GAG
1 GAG
10268626 AATACACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 14 0.42
12 16 0.48
13 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (12 bp):
GAGGATTTTTGA
Found at i:10268625 original size:24 final size:23
Alignment explanation
Indices: 10268576--10268619 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10268566 ATTGTATGGG
*
10268576 GAGGATTTTGGAGAGGATTTTGA
1 GAGGATTTTGGAGAGAATTTTGA
10268599 GAGGATTTTTGGAG-GAATTTT
1 GAGGA-TTTTGGAGAGAATTTT
10268620 TTAGAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (23 bp):
GAGGATTTTGGAGAGAATTTTGA
Found at i:10268962 original size:19 final size:18
Alignment explanation
Indices: 10268938--10268974 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
10268928 TTATGTTTCA
10268938 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
10268957 TATTATTATATATTTATT
1 TATTATTATATATTTATT
10268975 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:10268985 original size:17 final size:14
Alignment explanation
Indices: 10268946--10268976 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10268936 CATATTATTA
*
10268946 TATTATTTATTTAT
1 TATTATATATTTAT
10268960 TATTATATATTTAT
1 TATTATATATTTAT
10268974 TAT
1 TAT
10268977 GTAAATATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:10271015 original size:19 final size:19
Alignment explanation
Indices: 10270991--10271037 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10270981 GACGTCTTCT
*
10270991 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCACAT-CA
10271010 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
10271029 TGTGCATTA
1 TTTGCATTA
10271038 ATTCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:10277590 original size:25 final size:25
Alignment explanation
Indices: 10277556--10277782 Score: 195
Period size: 25 Copynumber: 9.4 Consensus size: 25
10277546 GACTTTAGCA
10277556 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAG
****
10277581 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAG
*
10277603 TGCTCTCTGATATTTAGCACACCAG
1 TGCTCTCTGATATTTAGCACGCCAG
* * ****
10277628 TACTTTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAG
10277650 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAG
****
10277675 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAG
* * *
10277697 TGCTTTCTGATATTTAGCGCGCCAA
1 TGCTCTCTGATATTTAGCACGCCAG
*
10277722 TGCTCTCTGAT-TACTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAG
*
10277747 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGCCAG
10277772 TGCTCTCTGAT
1 TGCTCTCTGAT
10277783 TAGCACATTT
Statistics
Matches: 156, Mismatches: 35, Indels: 22
0.73 0.16 0.10
Matches are distributed among these distances:
22 49 0.31
23 3 0.02
24 4 0.03
25 99 0.63
26 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.36
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACGCCAG
Found at i:10277597 original size:22 final size:23
Alignment explanation
Indices: 10277556--10277824 Score: 170
Period size: 25 Copynumber: 11.4 Consensus size: 23
10277546 GACTTTAGCA
**
10277556 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTG--ATTTAGCACATCAG
**
10277581 TGCTCTCTGA-TTAGCACATTTG
1 TGCTCTCTGATTTAGCACATCAG
*
10277603 TGCTCTCTGATATTTAGCACACCAG
1 TGCTCTCTG--ATTTAGCACATCAG
* * **
10277628 TACTTTCTGA-TTAGCACATTTG
1 TGCTCTCTGATTTAGCACATCAG
**
10277650 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTG--ATTTAGCACATCAG
**
10277675 TGCTCTCTGA-TTAGCACATTTG
1 TGCTCTCTGATTTAGCACATCAG
* * ** *
10277697 TGCTTTCTGATATTTAGCGCGCCAA
1 TGCTCTCTG--ATTTAGCACATCAG
**
10277722 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATT--TAGCACATCAG
*
10277747 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTG--ATTTAGCACATCAG
**
10277772 TGCTCTCTGA-TTAGCACATTTG
1 TGCTCTCTGATTTAGCACATCAG
* *
10277794 TGCTCTCTG-TATAGCACTTCAG
1 TGCTCTCTGATTTAGCACATCAG
10277816 TGCTCTCTG
1 TGCTCTCTG
10277825 TTCATTAGTG
Statistics
Matches: 190, Mismatches: 40, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
22 84 0.44
23 7 0.04
24 3 0.02
25 93 0.49
27 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (23 bp):
TGCTCTCTGATTTAGCACATCAG
Found at i:10277628 original size:47 final size:47
Alignment explanation
Indices: 10277556--10277824 Score: 373
Period size: 47 Copynumber: 5.7 Consensus size: 47
10277546 GACTTTAGCA
10277556 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
* * *
10277603 TGCTCTCTGATATTTAGCACACCAGTACTTTCTGATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
10277650 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
* * * ****
10277697 TGCTTTCTGATATTTAGCGCGCCAATGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGA-T--TAGCACATTTG
*
10277747 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
**
10277794 TGCTCTCTG-TA--TAGCACTTCAGTGCTCTCTG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTG
10277825 TTCATTAGTG
Statistics
Matches: 197, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
44 19 0.10
46 2 0.01
47 136 0.69
48 1 0.01
49 1 0.01
50 38 0.19
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (47 bp):
TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTTG
Found at i:10279529 original size:43 final size:43
Alignment explanation
Indices: 10279460--10279623 Score: 240
Period size: 43 Copynumber: 3.8 Consensus size: 43
10279450 TTTATTGGAA
*
10279460 AAAAACGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGTG
1 AAAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGG-G
* *
10279504 -AAAGCGACGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGAGGG
1 AAAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
* *
10279546 AAAAGCGCCGCTAAAGGTCAAGGTTTTTAACGGCATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
* **
10279589 AAAAGCGCCGCTAAAGGCCAAGCCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCG
10279624 CTTTTTTTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 106 0.99
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
Found at i:10279733 original size:31 final size:31
Alignment explanation
Indices: 10279698--10279780 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
10279688 CTTCCTGCAT
* *
10279698 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
10279729 TAAAATGCAACCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
10279760 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
10279781 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 27 0.61
33 17 0.39
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:10285493 original size:9 final size:9
Alignment explanation
Indices: 10285479--10285606 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
10285469 ATGTATTAGT
10285479 TAAGTTATG
1 TAAGTTATG
10285488 TAAGTTGTTATG
1 TAA---GTTATG
*
10285500 TACGTTATG
1 TAAGTTATG
*
10285509 TGAGTTATG
1 TAAGTTATG
*
10285518 TAAATTATG
1 TAAGTTATG
10285527 TAAGTTATG
1 TAAGTTATG
*
10285536 TGAGTTATG
1 TAAGTTATG
10285545 TAAGTGGTTATG
1 TAA---GTTATG
*
10285557 TAAATTATG
1 TAAGTTATG
*
10285566 TAAGTTATA
1 TAAGTTATG
*
10285575 TGAGTTATG
1 TAAGTTATG
10285584 TAAGTTATG
1 TAAGTTATG
* *
10285593 TAATTTATT
1 TAAGTTATG
10285602 TAAGT
1 TAAGT
10285607 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Done.