Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 100 of 130
Found at i:19522983 original size:20 final size:20
Alignment explanation
Indices: 19522917--19522983 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 20
19522907 ATTTGCATGA
* *
19522917 TTATATATTTAATTACAAGAT
1 TTATATATTTAATTATATG-T
* *
19522938 TTATATATTATTATT-TGCATGA
1 TTATATATT-TAATTAT--ATGT
19522960 TTATATATTTAATTATATGT
1 TTATATATTTAATTATATGT
19522980 TTAT
1 TTAT
19522984 TTAAATGGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
20 7 0.19
21 13 0.36
22 14 0.39
23 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (20 bp):
TTATATATTTAATTATATGT
Found at i:19523090 original size:20 final size:20
Alignment explanation
Indices: 19523053--19523095 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19523043 GTATGGTATA
* * *
19523053 TATATATTTATTTGCATGAT
1 TATATAGTTAATTACATGAT
*
19523073 TATATAGTTAATTACATGTT
1 TATATAGTTAATTACATGAT
19523093 TAT
1 TAT
19523096 TTGCATGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (20 bp):
TATATAGTTAATTACATGAT
Found at i:19523127 original size:53 final size:53
Alignment explanation
Indices: 19522941--19523158 Score: 195
Period size: 55 Copynumber: 4.0 Consensus size: 53
19522931 ACAAGATTTA
* * ** *
19522941 TATATTATTATTTGCATGATTATATATTTAATTATATGTTTATTTAAATGGTT
1 TATATTATTATTTGCATGATTATATAGTTAATTACATGTTTATTTGCATGATT
* * * * * * * *
19522994 TATGTATTACTATTTGCATGATTATATATATTTAACTGCATATTTATTTGTATGGTA
1 TA--TATTATTATTTGCATGA-T-TATATAGTTAATTACATGTTTATTTGCATGATT
19523051 TATATATATTTATTTGCATGATTATATAGTTAATTACATGTTTATTTGCATGATT
1 TATAT-TA-TTATTTGCATGATTATATAGTTAATTACATGTTTATTTGCATGATT
* * * ** *
19523106 TACATTATTAATTGCATGATTATGT-GTTTAATTGGATGTCTATTTGCATGATT
1 TATATTATTATTTGCATGATTATATAG-TTAATTACATGTTTATTTGCATGATT
19523159 ATTAATTTAT
Statistics
Matches: 136, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 41 0.30
54 2 0.01
55 49 0.36
56 4 0.03
57 39 0.29
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (53 bp):
TATATTATTATTTGCATGATTATATAGTTAATTACATGTTTATTTGCATGATT
Found at i:19523214 original size:32 final size:32
Alignment explanation
Indices: 19523153--19523214 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
19523143 GTCTATTTGC
* ***
19523153 ATGATTATTAATTTATTTATTTGTGTGATTGT
1 ATGATTATTAATATATTTATTTACATGATTGT
19523185 ATGATTATTAATATATTTATTTACATGATT
1 ATGATTATTAATATATTTATTTACATGATT
19523215 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTACATGATTGT
Found at i:19523277 original size:24 final size:25
Alignment explanation
Indices: 19523222--19523277 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
19523212 ATTATTTATT
*
19523222 TATTAT-TATTATTGCATGATATGA
1 TATTATATATTATTGCATGATATAA
*
19523246 TATTATATGTTATTGCATGAT-TAA
1 TATTATATATTATTGCATGATATAA
19523270 TATTATAT
1 TATTATAT
19523278 TTGAATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (25 bp):
TATTATATATTATTGCATGATATAA
Found at i:19523414 original size:20 final size:20
Alignment explanation
Indices: 19523391--19523439 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
19523381 ATTTGCATGA
*
19523391 ATGGTTATTAGTATATTTGC
1 ATGGTTATTAATATATTTGC
*
19523411 ATGGTTATTAATATCTTTGC
1 ATGGTTATTAATATATTTGC
19523431 ATGG-TATTA
1 ATGGTTATTA
19523440 TTGCATGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGGTTATTAATATATTTGC
Found at i:19523445 original size:13 final size:13
Alignment explanation
Indices: 19523427--19523469 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
19523417 ATTAATATCT
*
19523427 TTGCATGGTATTA
1 TTGCATGATATTA
19523440 TTGCATGATCATATA
1 TTGCATGAT-AT-TA
19523455 TTTGCATGATATTA
1 -TTGCATGATATTA
19523469 T
1 T
19523470 ATATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.35
14 4 0.15
15 4 0.15
16 9 0.35
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (13 bp):
TTGCATGATATTA
Found at i:19523470 original size:16 final size:15
Alignment explanation
Indices: 19523421--19523471 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
19523411 ATGGTTATTA
* *
19523421 ATATCTTTGCATGGT
1 ATATATTTGCATGAT
19523436 AT-TA-TTGCATGAT
1 ATATATTTGCATGAT
19523449 CATATATTTGCATGAT
1 -ATATATTTGCATGAT
19523465 ATTATAT
1 A-TATAT
19523472 ATTTATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.27
14 3 0.10
15 5 0.17
16 14 0.47
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (15 bp):
ATATATTTGCATGAT
Found at i:19524888 original size:37 final size:37
Alignment explanation
Indices: 19524838--19524912 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
19524828 TGCAGTTTTG
* * *
19524838 ACATCTATCTGTCATATTTCATAATCATGATTGTAGT
1 ACATCCATCTGTCATATCTCATAATCATGATTGCAGT
* * *
19524875 ACATCCATTTGTCATATCTCCTAATCATTATTGCAGT
1 ACATCCATCTGTCATATCTCATAATCATGATTGCAGT
19524912 A
1 A
19524913 ATAGCAAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.41
Consensus pattern (37 bp):
ACATCCATCTGTCATATCTCATAATCATGATTGCAGT
Found at i:19530758 original size:2 final size:2
Alignment explanation
Indices: 19530753--19530979 Score: 132
Period size: 2 Copynumber: 113.5 Consensus size: 2
19530743 TGCTTTTGCG
* * * * * * *
19530753 TA TA TA TA TA TA TG CA TA TA TA TA TG TG TG TG TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
19530795 TA TA TA TA TA TA CA TA TA -A GTG TG TA TA AA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
19530837 TA TA TG TA TA TA TA CA TG TA TA TA TA TA TA CA TA CA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * * * *
19530879 TA TA TA TA TG CA TA TT TG TG CA TA TA TG CA TA TT TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
19530921 TG TA TG TG TG TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19530963 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
19530980 GAAGAATGAT
Statistics
Matches: 175, Mismatches: 48, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
1 1 0.01
2 174 0.99
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (2 bp):
TA
Found at i:19536712 original size:22 final size:20
Alignment explanation
Indices: 19536656--19536727 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
19536646 TCCATATTGC
19536656 ATATTTTATTTATACATATAT
1 ATATTTTATTTATA-ATATAT
19536677 ATATTTTATTTATAATATCAT
1 ATATTTTATTTATAATAT-AT
19536698 -TATTCTTCATTTATAAT-TAT
1 ATATT-TT-ATTTATAATATAT
*
19536718 -TTTTTTATTT
1 ATATTTTATTT
19536728 CATCAAATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
18 4 0.09
19 2 0.04
20 13 0.28
21 19 0.40
22 9 0.19
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTTATTTATAATATAT
Found at i:19539070 original size:64 final size:64
Alignment explanation
Indices: 19538944--19539070 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
19538934 GCCGAATGTA
* * * * * **
19538944 GACTCCTTGGATTTGAGAGTGTTTAGCCAAATAGGGTACTTGGAAATCATCTTAATTGTTCATG
1 GACTCATTGGATTTGAAAGTGTTCAGCCAAATAGGATACTTGGAAATCATCCTAATCATTCATG
**
19539008 GACTCATTGGATTTGAAAGTGTTCAGCCAAATAGGATACTTGGAAATCATCCTGGTCATTCAT
1 GACTCATTGGATTTGAAAGTGTTCAGCCAAATAGGATACTTGGAAATCATCCTAATCATTCAT
19539071 CTTACCTTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (64 bp):
GACTCATTGGATTTGAAAGTGTTCAGCCAAATAGGATACTTGGAAATCATCCTAATCATTCATG
Found at i:19541018 original size:16 final size:16
Alignment explanation
Indices: 19540977--19541023 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
19540967 AATTTGCGTT
*
19540977 AATTCAAGTTCAAAAAAA
1 AATTCAAGTTC--AAATA
19540995 AATT--AGTTCAAATA
1 AATTCAAGTTCAAATA
19541009 AATTCAAGTTCAAAT
1 AATTCAAGTTCAAAT
19541024 CAGATTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 8 0.31
16 14 0.54
18 4 0.15
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (16 bp):
AATTCAAGTTCAAATA
Found at i:19544323 original size:24 final size:23
Alignment explanation
Indices: 19544278--19544322 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19544268 CTAAACCAAT
19544278 AACTAAACTAAAGAAATAAAAAG
1 AACTAAACTAAAGAAATAAAAAG
*
19544301 AACTAAAACTAAA-AACTAAAAA
1 AACT-AAACTAAAGAAATAAAAA
19544323 AAAAGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.71, C:0.11, G:0.04, T:0.13
Consensus pattern (23 bp):
AACTAAACTAAAGAAATAAAAAG
Found at i:19546509 original size:23 final size:23
Alignment explanation
Indices: 19546475--19546533 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
19546465 AGCTTAGTAT
* *
19546475 AATAAAAATAACTTGAAAGCAT-A
1 AATAAAACTAACTT-AAAACATGA
19546498 AATAAAACTAACTTAAAACATGA
1 AATAAAACTAACTTAAAACATGA
19546521 AATACAAAGCTAA
1 AATA-AAA-CTAA
19546534 ATAGAGCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 3 0.10
25 4 0.13
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (23 bp):
AATAAAACTAACTTAAAACATGA
Found at i:19547303 original size:20 final size:21
Alignment explanation
Indices: 19547259--19547303 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
19547249 CTTTCCTCCT
*
19547259 CTTTAGGCTCTCTAAAATCAG
1 CTTTAGGCTCTCCAAAATCAG
* *
19547280 CTTTAGGCTTTCCAAGAT-AG
1 CTTTAGGCTCTCCAAAATCAG
19547300 CTTT
1 CTTT
19547304 TCACATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (21 bp):
CTTTAGGCTCTCCAAAATCAG
Found at i:19548728 original size:22 final size:22
Alignment explanation
Indices: 19548670--19548717 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
19548660 TATCAAGATA
*
19548670 TACATA-ATCTTATATGATATG
1 TACATAGAGCTTATATGATATG
*
19548691 TACATAGAGCTTATATGCTATG
1 TACATAGAGCTTATATGATATG
19548713 TACAT
1 TACAT
19548718 TGGATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
TACATAGAGCTTATATGATATG
Found at i:19548940 original size:22 final size:22
Alignment explanation
Indices: 19548864--19548984 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 22
19548854 TATAACTACC
* * * *
19548864 ATGTACATCTCTCAAAAGCACT
1 ATGTACATATCCCAAAAACATT
* ** *
19548886 ATGTACATATCTCAAATGCA-C
1 ATGTACATATCCCAAAAACATT
19548907 ATGTACATATCCCAAAAACATT
1 ATGTACATATCCCAAAAACATT
* *
19548929 ATGTACATATCCTAAAAATATT
1 ATGTACATATCCCAAAAACATT
* ** **
19548951 AAGTACATATTGCAAAATTATT
1 ATGTACATATCCCAAAAACATT
*
19548973 ATATACATATCC
1 ATGTACATATCC
19548985 TAAATGAGTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 17 0.21
22 63 0.79
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (22 bp):
ATGTACATATCCCAAAAACATT
Found at i:19550531 original size:22 final size:22
Alignment explanation
Indices: 19550503--19550544 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19550493 CCCCTCCCTC
19550503 CCCTCTCCCACTTTCCCTCTGT
1 CCCTCTCCCACTTTCCCTCTGT
* *
19550525 CCCTCTCCCTCTTTCTCTCT
1 CCCTCTCCCACTTTCCCTCT
19550545 CCCTCTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.55, G:0.02, T:0.40
Consensus pattern (22 bp):
CCCTCTCCCACTTTCCCTCTGT
Found at i:19550533 original size:14 final size:14
Alignment explanation
Indices: 19550516--19550555 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
19550506 TCTCCCACTT
*
19550516 TCCCTCTGTCCCTC
1 TCCCTCTTTCCCTC
*
19550530 TCCCTCTTTCTCTC
1 TCCCTCTTTCCCTC
19550544 TCCCTCTTTCCC
1 TCCCTCTTTCCC
19550556 CAGCGTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.55, G:0.03, T:0.42
Consensus pattern (14 bp):
TCCCTCTTTCCCTC
Found at i:19550788 original size:27 final size:27
Alignment explanation
Indices: 19550735--19550789 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19550725 GGTTTTGGTG
*
19550735 TTATATTTGTTAAAATTTTTGTTGCTT
1 TTATATTTGTTAAAATTTTTGTAGCTT
* *
19550762 TTATGTTTGTTGAAATTTGTT-TAGCTT
1 TTATATTTGTTAAAATTT-TTGTAGCTT
19550789 T
1 T
19550790 GGGTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.62
Consensus pattern (27 bp):
TTATATTTGTTAAAATTTTTGTAGCTT
Found at i:19551632 original size:335 final size:335
Alignment explanation
Indices: 19550980--19551650 Score: 1118
Period size: 335 Copynumber: 2.0 Consensus size: 335
19550970 TTGGGGTTTG
19550980 TTATATATTTTCTAACTTTTAGATATGTAAGATTTAGGGTTGGTTAATTTGGGTTTGATGTGCAT
1 TTATATATTTTCTAACTTTTAGATATGTAAGATTTAGGGTTGGTTAATTTGGGTTTGATGTGCAT
* *
19551045 TAATATTTATATATATTTGTATGGATGTCTTATATTTCATATTTTCTACATTTTAATAATAATTA
66 TAATATTTATATATATTTGTATGGATGTCTTATAGTTAATATTTTCTACATTTTAATAATAATTA
* *
19551110 TAGAAATTAAAATTATTTATTTCGATTTGAAGTTATAATTTATATATTACTAATAGTTATCACAT
131 TAAAAATTAAAATTATTTATTTCGATTTGAAGTTATAATTTATATATTACTAATAGTAATCACAT
* *
19551175 TTTGAAGTAATTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTTTATATTTGATAGT
196 TTTGAAGTAAGTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTATATATTTGATAGT
19551240 TTACTGAAATTTATATATTACTAATTATTGAAATATTGTGGTTTGATTGCATTGATCAAACTTAA
261 TTACTGAAATTTATATATTACTAATTATTGAAATATTGTGGTTTGATTGCATTGATCAAACTTAA
19551305 TATAAATAAA
326 TATAAATAAA
* *
19551315 TTATATATTTAT-TAACTTTTAGATGTGTAAGATTTAGGGTTGGTTAATTTGGGTTTGATGTGTA
1 TTATATATTT-TCTAACTTTTAGATATGTAAGATTTAGGGTTGGTTAATTTGGGTTTGATGTGCA
* *
19551379 TTAATATTTTTATATATTTGTATGGATGTTTTATAGTTAATA-TTTCTACATTTTAATAATAATT
65 TTAATATTTATATATATTTGTATGGATGTCTTATAGTTAATATTTTCTACATTTTAATAATAATT
* * * *
19551443 ATAAAAATTAAAATTATTTATATT-GATTT-TAGATTATAATTTATATATTGCTAATGGCTAATG
130 ATAAAAATTAAAATTATTTAT-TTCGATTTGAAG-TTATAATTTATATATTACTAATAG-TAATC
19551506 ATCATTTTGAAGTAAGTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTATATATTTG
192 A-CATTTTGAAGTAAGTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTATATATTTG
* *
19551571 ATAGTTTAGTGAAATTTATATATTACTAATTATTGAAATATTGT-GTTTGATTGTATTGATCAAA
256 ATAGTTTACTGAAATTTATATATTACTAATTATTGAAATATTGTGGTTTGATTGCATTGATCAAA
19551635 CTTAATATAAATAAA
321 CTTAATATAAATAAA
19551650 T
1 T
19551651 AAAATCATTA
Statistics
Matches: 315, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
333 2 0.01
334 69 0.22
335 139 0.44
336 105 0.33
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (335 bp):
TTATATATTTTCTAACTTTTAGATATGTAAGATTTAGGGTTGGTTAATTTGGGTTTGATGTGCAT
TAATATTTATATATATTTGTATGGATGTCTTATAGTTAATATTTTCTACATTTTAATAATAATTA
TAAAAATTAAAATTATTTATTTCGATTTGAAGTTATAATTTATATATTACTAATAGTAATCACAT
TTTGAAGTAAGTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTATATATTTGATAGT
TTACTGAAATTTATATATTACTAATTATTGAAATATTGTGGTTTGATTGCATTGATCAAACTTAA
TATAAATAAA
Found at i:19552113 original size:16 final size:16
Alignment explanation
Indices: 19552079--19552117 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19552069 GCTCATATAG
*
19552079 TTAATCAATAAAAATGT
1 TTAA-CAATAAAAAGGT
*
19552096 TTAACAATACAAAGGT
1 TTAACAATAAAAAGGT
19552112 TTAACA
1 TTAACA
19552118 CTTTATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (16 bp):
TTAACAATAAAAAGGT
Found at i:19555716 original size:17 final size:17
Alignment explanation
Indices: 19555694--19555729 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19555684 TAGAAGAACT
*
19555694 TGATAATCCTACATTTG
1 TGATAATCCTACACTTG
19555711 TGATAATCCTACACTTG
1 TGATAATCCTACACTTG
19555728 TG
1 TG
19555730 GCCAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (17 bp):
TGATAATCCTACACTTG
Found at i:19555815 original size:3 final size:3
Alignment explanation
Indices: 19555787--19555878 Score: 112
Period size: 3 Copynumber: 30.7 Consensus size: 3
19555777 AAAATAAAAA
* * * * * * *
19555787 GAT GAC GAT AAT GGT GAT GGT GAT GAT GAT GAT GAT GAA AAG GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
19555835 GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
19555879 AACACATGAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:19559599 original size:21 final size:21
Alignment explanation
Indices: 19559573--19559614 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19559563 TAAAATTATC
19559573 ATGATATTTATTTAATTAATT
1 ATGATATTTATTTAATTAATT
19559594 ATGATATTTATTTAATTAATT
1 ATGATATTTATTTAATTAATT
19559615 TTACTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATGATATTTATTTAATTAATT
Found at i:19576382 original size:11 final size:11
Alignment explanation
Indices: 19576368--19576392 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19576358 ATAAATCTAG
19576368 AATATTACTAA
1 AATATTACTAA
19576379 AATATTACTAA
1 AATATTACTAA
19576390 AAT
1 AAT
19576393 GATATCATCA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTACTAA
Found at i:19579672 original size:2 final size:2
Alignment explanation
Indices: 19579665--19579706 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
19579655 GCAGCCTAAG
19579665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19579707 GATCACCATC
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):
TA
Found at i:19579826 original size:3 final size:3
Alignment explanation
Indices: 19579818--19579860 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19579808 TCAATATAAA
19579818 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19579861 TTTAAATCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19581210 original size:22 final size:22
Alignment explanation
Indices: 19581185--19581242 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
19581175 GGATAGTGAT
* *
19581185 GAAAAGAAAAGAGATTAGACCA
1 GAAAAGAAAAGAGATGAAACCA
*
19581207 GAAAAGAATAGAGTATGAAACCA
1 GAAAAGAAAAGAG-ATGAAACCA
*
19581230 AAAAAG-AAAGAGA
1 GAAAAGAAAAGAGA
19581243 ATTTGAGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 17 0.57
23 12 0.40
ACGTcount: A:0.62, C:0.07, G:0.22, T:0.09
Consensus pattern (22 bp):
GAAAAGAAAAGAGATGAAACCA
Found at i:19581234 original size:23 final size:21
Alignment explanation
Indices: 19581186--19581242 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
19581176 GATAGTGATG
* * *
19581186 AAAAGAAAAGAGATTAGACCAG
1 AAAAG-AAAGAGATGAAACCAA
19581208 AAAAGAATAGAGTATGAAACCAA
1 AAAAGAA-AGAG-ATGAAACCAA
19581231 AAAAGAAAGAGA
1 AAAAGAAAGAGA
19581243 ATTTGAGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 13 0.43
23 14 0.47
ACGTcount: A:0.63, C:0.07, G:0.21, T:0.09
Consensus pattern (21 bp):
AAAAGAAAGAGATGAAACCAA
Found at i:19581424 original size:40 final size:40
Alignment explanation
Indices: 19581374--19581454 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
19581364 CATGACTATG
* *
19581374 CATAATTAATTGATAACTTCCTTATACCTAAA-ATACTCAA
1 CATAACTAATTGACAACTTCCTTATACCTAAATA-ACTCAA
*
19581414 CATAACTAATTGACAACTTCCTTATCCCTAAATAACTCAA
1 CATAACTAATTGACAACTTCCTTATACCTAAATAACTCAA
19581454 C
1 C
19581455 GAGGTCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (40 bp):
CATAACTAATTGACAACTTCCTTATACCTAAATAACTCAA
Found at i:19585006 original size:2 final size:2
Alignment explanation
Indices: 19584990--19585039 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
19584980 TAATTCCATT
19584990 TC TC TC -C TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19585030 TC TC TC TC TC
1 TC TC TC TC TC
19585040 AATCTTTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:19587545 original size:85 final size:83
Alignment explanation
Indices: 19587418--19587575 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 83
19587408 AATTAAACAC
*
19587418 AAAATCAAATGAAAAAAAAATAAAATGATTTACTTATGATTTTAAACTATCTAACATCAAAATCA
1 AAAATCAAATGAAAAAAAAAAAAAATGATTTACTTATGATTTTAAACTATCTAACATCAAAATCA
19587483 AGATTGAAACTAAATAAA
66 AGATTGAAACTAAATAAA
**
19587501 AAAATCAAATGAAAAAGTAAAAAAAAATGATTTACTTATGATTTTAAGTTATCTAACATCAAAAT
1 AAAATCAAATGAAAAA--AAAAAAAAATGATTTACTTATGATTTTAAACTATCTAACATCAAAAT
19587566 CAAGATTGAA
64 CAAGATTGAA
19587576 GCTTGATTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
83 16 0.23
85 54 0.77
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (83 bp):
AAAATCAAATGAAAAAAAAAAAAAATGATTTACTTATGATTTTAAACTATCTAACATCAAAATCA
AGATTGAAACTAAATAAA
Found at i:19597117 original size:18 final size:17
Alignment explanation
Indices: 19597096--19597141 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
19597086 TGTAACTCTC
*
19597096 ATAAAAAATAGCAAAG-GG
1 ATAAAAAATA--AAAGTGA
19597114 ATAAAAAATAAAAGTGA
1 ATAAAAAATAAAAGTGA
19597131 ATAAAAAATAA
1 ATAAAAAATAA
19597142 GAAAAACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 10 0.38
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (17 bp):
ATAAAAAATAAAAGTGA
Found at i:19601025 original size:10 final size:9
Alignment explanation
Indices: 19600986--19601045 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 9
19600976 TAGTTGTATC
19600986 TATTCATGT
1 TATTCATGT
19600995 ATATATACATGT
1 -TAT-T-CATGT
*
19601007 TAGTCATGT
1 TATTCATGT
19601016 CTATTCATGT
1 -TATTCATGT
*
19601026 ATATCCATGT
1 -TATTCATGT
19601036 TATTCATGT
1 TATTCATGT
19601045 T
1 T
19601046 TATTTGTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 14 0.33
10 20 0.48
11 3 0.07
12 5 0.12
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (9 bp):
TATTCATGT
Found at i:19601042 original size:29 final size:30
Alignment explanation
Indices: 19600984--19601049 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
19600974 ATTAGTTGTA
19600984 TCTATTCATGTATATATACATGTTAGTCATG
1 TCTATTCATG-ATATATACATGTTAGTCATG
* *
19601015 TCTATTCATG-TATATCCATGTTATTCATG
1 TCTATTCATGATATATACATGTTAGTCATG
*
19601044 TTTATT
1 TCTATT
19601050 TGTATCGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.50
Consensus pattern (30 bp):
TCTATTCATGATATATACATGTTAGTCATG
Found at i:19601956 original size:21 final size:22
Alignment explanation
Indices: 19601930--19601980 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
19601920 AATTATATAG
19601930 TATTTTTTTTA-ATATTAAAAC
1 TATTTTTTTTATATATTAAAAC
* * *
19601951 TCTTTTTTTTATATTTTAAAAT
1 TATTTTTTTTATATATTAAAAC
19601973 TATTTTTT
1 TATTTTTT
19601981 ATGCTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTTTTTATATATTAAAAC
Found at i:19602304 original size:23 final size:21
Alignment explanation
Indices: 19602260--19602304 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
19602250 TGTTGGGTTA
*
19602260 ATAAAAATATTTTGAAATATT
1 ATAAAAATATTTTGAAAAATT
*
19602281 ATAAAAATATATATTTAAAAATT
1 ATAAAAATAT-T-TTGAAAAATT
19602304 A
1 A
19602305 AATTATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAAAATATTTTGAAAAATT
Found at i:19603954 original size:24 final size:26
Alignment explanation
Indices: 19603914--19603969 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
19603904 TTTGAATCGA
*
19603914 TCCAATTG-AACCATTTTTGAACTGG
1 TCCAAGTGAAACCATTTTTGAACTGG
19603939 T-CAAGTGAAACC-TTTTTGAACTGG
1 TCCAAGTGAAACCATTTTTGAACTGG
19603963 TCCAAGT
1 TCCAAGT
19603970 CGATGTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (26 bp):
TCCAAGTGAAACCATTTTTGAACTGG
Found at i:19604150 original size:16 final size:17
Alignment explanation
Indices: 19604118--19604153 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19604108 TATTTTTTTA
19604118 TTTTTGTTTTATTTATAT
1 TTTTTGTTTTA-TTATAT
19604136 TTTTTGTTTTA-TATAT
1 TTTTTGTTTTATTATAT
19604152 TT
1 TT
19604154 ATTTAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTGTTTTATTATAT
Found at i:19604228 original size:14 final size:15
Alignment explanation
Indices: 19604209--19604238 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19604199 ATGTTTATAG
19604209 TAAATAATAAT-GAA
1 TAAATAATAATAGAA
19604223 TAAATAATAATAGAA
1 TAAATAATAATAGAA
19604238 T
1 T
19604239 TATTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
TAAATAATAATAGAA
Found at i:19607383 original size:21 final size:20
Alignment explanation
Indices: 19607350--19607388 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
19607340 TATTCAAATG
19607350 AAAAAAAGTCAAAAAAATAA
1 AAAAAAAGTCAAAAAAATAA
*
19607370 AAAAAAATTCCAAAAAAAT
1 AAAAAAAGT-CAAAAAAAT
19607389 GAAGAGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAAAGTCAAAAAAATAA
Found at i:19609703 original size:34 final size:35
Alignment explanation
Indices: 19609612--19609714 Score: 99
Period size: 33 Copynumber: 3.0 Consensus size: 35
19609602 AGTTCAAATC
* * *
19609612 TCTTTGTTTTTGGACTTG-TGGTTTAATCTTGGTCA
1 TCTTTATTTTTGGACTTGAT-GTTTAATCCTAGTCA
*
19609647 T-TTTATTTTT-GACTTGCA-GTTTAATCCTAGT-T
1 TCTTTATTTTTGGACTTG-ATGTTTAATCCTAGTCA
* *
19609679 TCTTTATTTTTGGACTTGATGTTTAGTCCAAGTCA
1 TCTTTATTTTTGGACTTGATGTTTAATCCTAGTCA
19609714 T
1 T
19609715 TTCATTTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
32 1 0.02
33 27 0.49
34 25 0.45
35 2 0.04
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (35 bp):
TCTTTATTTTTGGACTTGATGTTTAATCCTAGTCA
Found at i:19609815 original size:100 final size:100
Alignment explanation
Indices: 19609680--19609865 Score: 218
Period size: 100 Copynumber: 1.9 Consensus size: 100
19609670 ATCCTAGTTT
** * * *
19609680 CTTTATTTTTGGACTTGATGTTTAGTCCAAGTCATTTCATTTATT-AACTTCGGTTTAGT-GCAA
1 CTTTATTTTTCAACTTGATGTTTAGTCCAAGTCATTTCATTT-TTCAACTTCGGTTCAATCCCAA
*
19609743 GTTATTTTATCATTAGACTTTGGTTCAATCTAGGTTA
65 -TCATTTTATCATTAGACTTTGGTTCAATCTAGGTTA
* * *
19609780 CTTTATTTTTCAACTTG-TGGTTTAGTCTTAA-TCATTTTATTTTTCAACTTTGGTTCAATCCCA
1 CTTTATTTTTCAACTTGAT-GTTTAGTC-CAAGTCATTTCATTTTTCAACTTCGGTTCAATCCCA
*
19609843 ATCATTTTATCTTTAGACTTTGG
64 ATCATTTTATCATTAGACTTTGG
19609866 GCTAGTTCAG
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
99 3 0.04
100 64 0.89
101 5 0.07
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (100 bp):
CTTTATTTTTCAACTTGATGTTTAGTCCAAGTCATTTCATTTTTCAACTTCGGTTCAATCCCAAT
CATTTTATCATTAGACTTTGGTTCAATCTAGGTTA
Found at i:19609846 original size:33 final size:33
Alignment explanation
Indices: 19609781--19609865 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
19609771 TCTAGGTTAC
* * **
19609781 TTTATTTTTCAACTTGTGGTTTAGTCTTAATCAT
1 TTTATTTTTCAACTT-TGGTTCAATCCCAATCAT
19609815 TTTATTTTTCAACTTTGGTTCAATCCCAATCAT
1 TTTATTTTTCAACTTTGGTTCAATCCCAATCAT
*
19609848 TTTATCTTT-AGACTTTGG
1 TTTATTTTTCA-ACTTTGG
19609866 GCTAGTTCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.02
33 29 0.64
34 15 0.33
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (33 bp):
TTTATTTTTCAACTTTGGTTCAATCCCAATCAT
Found at i:19623343 original size:51 final size:53
Alignment explanation
Indices: 19623248--19623350 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 53
19623238 ATTATCTGTA
* * *
19623248 AAAAATACCTTCAATAATCCTCTATCTATTTTTATAACATGATTATACAAGGT
1 AAAAATACCTTCAATAATCCACTATCAATTTTTATAACAGGATTATACAAGGT
* * *
19623301 AAAAATGCCTTCAGTAAT-CACT-TCAATTTTT-TACACAGGATTATTCAAGG
1 AAAAATACCTTCAATAATCCACTATCAATTTTTATA-ACAGGATTATACAAGG
19623351 CGTTTTAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.05
51 22 0.51
52 3 0.07
53 16 0.37
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (53 bp):
AAAAATACCTTCAATAATCCACTATCAATTTTTATAACAGGATTATACAAGGT
Found at i:19627920 original size:21 final size:21
Alignment explanation
Indices: 19627894--19627943 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
19627884 ATCTAGCTAG
19627894 CCTGACAGTTAAATCAGAGTT
1 CCTGACAGTTAAATCAGAGTT
19627915 CCTGACAGTTAAATCAGAGTT
1 CCTGACAGTTAAATCAGAGTT
*
19627936 CTTGACAG
1 CCTGACAG
19627944 GTCGGGTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
CCTGACAGTTAAATCAGAGTT
Found at i:19634722 original size:9 final size:9
Alignment explanation
Indices: 19634708--19634737 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19634698 GATATTTTAT
19634708 TAATTAAAA
1 TAATTAAAA
19634717 TAATTAAAA
1 TAATTAAAA
19634726 TATATTAAAA
1 TA-ATTAAAA
19634736 TA
1 TA
19634738 TAAAAATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:19634734 original size:10 final size:10
Alignment explanation
Indices: 19634710--19634739 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19634700 TATTTTATTA
19634710 ATTAAAATA-
1 ATTAAAATAT
19634719 ATTAAAATAT
1 ATTAAAATAT
19634729 ATTAAAATAT
1 ATTAAAATAT
19634739 A
1 A
19634740 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:19640264 original size:15 final size:15
Alignment explanation
Indices: 19640246--19640307 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
19640236 CCCATCAATT
*
19640246 TTTTTTTCTTTTTCCT
1 TTTTTTTCTTTTT-CA
19640262 TTTTTTTCATTCTTTTCA
1 TTTTTTTC--T-TTTTCA
*
19640280 TTTTTTTTTTTTTCA
1 TTTTTTTCTTTTTCA
*
19640295 TTTCTTTCTTTTT
1 TTTTTTTCTTTTT
19640308 TAAAAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 17 0.44
16 9 0.23
18 9 0.23
19 4 0.10
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTCTTTTTCA
Found at i:19640266 original size:19 final size:18
Alignment explanation
Indices: 19640244--19640290 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
19640234 GTCCCATCAA
*
19640244 TTTTTTTTTCTTTTTCCTT
1 TTTTTTTTTC-TTTTCATT
*
19640263 TTTTTTCATTCTTTTCATT
1 TTTTTT-TTTCTTTTCATT
19640282 TTTTTTTTT
1 TTTTTTTTT
19640291 TTCATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.79
20 3 0.12
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTCTTTTCATT
Found at i:19640277 original size:25 final size:22
Alignment explanation
Indices: 19640247--19640308 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 22
19640237 CCATCAATTT
19640247 TTTTTTCTTTTTCCTTTTTTTTCA
1 TTTTTTCTTTTT--TTTTTTTTCA
19640271 TTCTTTTCATTTTTTTTTTTTTCA
1 TT-TTTTC-TTTTTTTTTTTTTCA
19640295 TTTCTTTCTTTTTT
1 TTT-TTTCTTTTTT
19640309 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.20
24 18 0.51
25 5 0.14
26 5 0.14
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTTTTTCA
Found at i:19640298 original size:20 final size:19
Alignment explanation
Indices: 19640244--19640308 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 19
19640234 GTCCCATCAA
19640244 TTTTTTTTTC-TT--TTTC
1 TTTTTTTTTCATTCATTTC
* *
19640260 CTTTTTTTTCATTCTTTTC
1 TTTTTTTTTCATTCATTTC
**
19640279 ATTTTTTTTTTTTTCATTTC
1 -TTTTTTTTTCATTCATTTC
19640299 TTTCTTTTTT
1 TTT-TTTTTT
19640309 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.23
17 2 0.05
19 7 0.18
20 21 0.54
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTCATTCATTTC
Found at i:19642828 original size:38 final size:39
Alignment explanation
Indices: 19642781--19642861 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
19642771 ATATATAGTA
*
19642781 AATGAAAAAGGTTAGTA-AACATAATATATACAAGGAAC
1 AATGAAAAAGGTGAGTAGAACATAATATATACAAGGAAC
* **
19642819 AATGTAAAAGGTGAGTATGCCCATAATATATACAAGGAAC
1 AATGAAAAAGGTGAGTA-GAACATAATATATACAAGGAAC
19642859 AAT
1 AAT
19642862 TTATAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.41
40 22 0.59
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.22
Consensus pattern (39 bp):
AATGAAAAAGGTGAGTAGAACATAATATATACAAGGAAC
Found at i:19643983 original size:14 final size:13
Alignment explanation
Indices: 19643959--19643992 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
19643949 GCAATAATAT
19643959 AAAATATCATGCA
1 AAAATATCATGCA
19643972 AAAATCATCATGCA
1 AAAAT-ATCATGCA
*
19643986 ATAATAT
1 AAAATAT
19643993 AAGATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (13 bp):
AAAATATCATGCA
Found at i:19644003 original size:20 final size:19
Alignment explanation
Indices: 19643949--19644174 Score: 91
Period size: 18 Copynumber: 12.2 Consensus size: 19
19643939 ATAACATTAG
19643949 GCAATAATATAAAATATCAT
1 GCAATAATAT-AAATATCAT
*
19643969 GCAA-AA-AT---CATCAT
1 GCAATAATATAAATATCAT
19643983 GCAATAATATAAGATATCAT
1 GCAATAATATAA-ATATCAT
*
19644003 GC-A-AATATTAATCA-CATT
1 GCAATAATATAAAT-ATCA-T
19644021 GC-A-AATATAATATACTCAT
1 GCAATAATATAA-ATA-TCAT
*
19644040 ACAA-ATATAATAATATAATCAT
1 GCAATA-AT-ATAA-AT-ATCAT
*
19644062 GCCATTAATATAAATTATCAT
1 G-CAATAATATAAA-TATCAT
19644083 GCAATAATAGTAAAATATCAT
1 GCAATAATA-T-AAATATCAT
*
19644104 GC---AAT-TAATTATCAT
1 GCAATAATATAAATATCAT
*
19644119 GTAA-AA-ATAAA-ATCAT
1 GCAATAATATAAATATCAT
19644135 GC-A-AATAT-AATATCTTAT
1 GCAATAATATAAATATC--AT
*
19644153 GCAATAGTA-AAATATCAT
1 GCAATAATATAAATATCAT
19644171 GCAA
1 GCAA
19644175 ATATCACCAC
Statistics
Matches: 163, Mismatches: 13, Indels: 62
0.68 0.05 0.26
Matches are distributed among these distances:
14 9 0.06
15 16 0.10
16 14 0.09
17 9 0.06
18 33 0.20
19 8 0.05
20 31 0.19
21 18 0.11
22 19 0.12
23 5 0.03
24 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (19 bp):
GCAATAATATAAATATCAT
Found at i:19644083 original size:21 final size:22
Alignment explanation
Indices: 19644057--19644112 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
19644047 TAATAATATA
*
19644057 ATCATGCCATTAATA-TAAATT
1 ATCATGCCATTAATAGTAAAAT
*
19644078 ATCATG-CAATAATAGTAAAAT
1 ATCATGCCATTAATAGTAAAAT
*
19644099 ATCATGCAATTAAT
1 ATCATGCCATTAAT
19644113 TATCATGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (22 bp):
ATCATGCCATTAATAGTAAAAT
Found at i:19644156 original size:18 final size:16
Alignment explanation
Indices: 19644096--19644178 Score: 71
Period size: 16 Copynumber: 5.0 Consensus size: 16
19644086 ATAATAGTAA
19644096 AATATCATGC-AAT-T
1 AATATCATGCAAATAT
* *
19644110 AATTATCATGTAAAAAT
1 AA-TATCATGCAAATAT
*
19644127 AAAATCATGCAAATAT
1 AATATCATGCAAATAT
*
19644143 AATATCTTATGCAATAGTAA
1 AATATC--ATGCAA-A-TAT
19644163 AATATCATGCAAATAT
1 AATATCATGCAAATAT
19644179 CACCACCACG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 2 0.04
15 7 0.13
16 20 0.37
17 4 0.07
18 12 0.22
19 1 0.02
20 8 0.15
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (16 bp):
AATATCATGCAAATAT
Found at i:19644175 original size:36 final size:35
Alignment explanation
Indices: 19644068--19644178 Score: 106
Period size: 36 Copynumber: 3.1 Consensus size: 35
19644058 TCATGCCATT
19644068 AATATAAATTATCATGCAATAATAGTAAAATATCATGC-
1 AATAT-AATTATCATGC---AATAGTAAAATATCATGCA
* * *
19644106 AAT-TAATTATCATGTAAAAAT-AAA-ATCATGCA
1 AATATAATTATCATGCAATAGTAAAATATCATGCA
19644138 AATATAA-TATCTTATGCAATAGTAAAATATCATGCA
1 AATATAATTATC--ATGCAATAGTAAAATATCATGCA
19644174 AATAT
1 AATAT
19644179 CACCACCACG
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
31 7 0.11
32 10 0.16
33 7 0.11
34 7 0.11
35 3 0.05
36 23 0.38
37 1 0.02
38 3 0.05
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.32
Consensus pattern (35 bp):
AATATAATTATCATGCAATAGTAAAATATCATGCA
Found at i:19644466 original size:13 final size:13
Alignment explanation
Indices: 19644424--19644467 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
19644414 AATAATAGAA
* *
19644424 AAAACAAAAAATT
1 AAAATAAAAAATC
19644437 AAAA-AAAAAATC
1 AAAATAAAAAATC
*
19644449 AAAATAAAAAATG
1 AAAATAAAAAATC
19644462 AAAATA
1 AAAATA
19644468 GAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAATC
Found at i:19644966 original size:19 final size:19
Alignment explanation
Indices: 19644942--19644979 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19644932 TTTCCTGAAT
* *
19644942 CCAAAATTCAAATCAAAAA
1 CCAAAAATCAAAACAAAAA
19644961 CCAAAAATCAAAACAAAAA
1 CCAAAAATCAAAACAAAAA
19644980 TTCTTGGATT
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:0.68, C:0.21, G:0.00, T:0.11
Consensus pattern (19 bp):
CCAAAAATCAAAACAAAAA
Found at i:19645400 original size:6 final size:6
Alignment explanation
Indices: 19645391--19645438 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
19645381 TTTTTTTACC
* * * * *
19645391 AAAACT AAAAAT AAAATC AAAATT AAAATT AAAATC AAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
19645439 TTTGGCCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATT
Found at i:19645417 original size:18 final size:18
Alignment explanation
Indices: 19645390--19645436 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
19645380 GTTTTTTTAC
*
19645390 CAAAACTAAAAATAAAAT
1 CAAAATTAAAAATAAAAT
*
19645408 CAAAATTAAAATTAAAAT
1 CAAAATTAAAAATAAAAT
*
19645426 CAAAATCAAAA
1 CAAAATTAAAA
19645437 TTTTTGGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (18 bp):
CAAAATTAAAAATAAAAT
Found at i:19646358 original size:10 final size:10
Alignment explanation
Indices: 19646343--19646378 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
19646333 TAATCATTAG
19646343 TAAAAGAAAA
1 TAAAAGAAAA
*
19646353 TAAAAGAAAG
1 TAAAAGAAAA
19646363 TAAAAGAAAA
1 TAAAAGAAAA
*
19646373 AAAAAG
1 TAAAAG
19646379 TTTTTAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (10 bp):
TAAAAGAAAA
Found at i:19646364 original size:20 final size:20
Alignment explanation
Indices: 19646341--19646378 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19646331 GATAATCATT
*
19646341 AGTAAAAGAAAATAAAAGAA
1 AGTAAAAGAAAAAAAAAGAA
19646361 AGTAAAAGAAAAAAAAAG
1 AGTAAAAGAAAAAAAAAG
19646379 TTTTTAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AGTAAAAGAAAAAAAAAGAA
Found at i:19647815 original size:4 final size:4
Alignment explanation
Indices: 19647801--19647913 Score: 65
Period size: 4 Copynumber: 28.2 Consensus size: 4
19647791 ATATATTTAC
* * * *
19647801 AAAT AAA- AAAT AAAT AAAAT AAAT ACAT AAAT AAAC AAAT AAAC ACAT
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
19647849 AAA- AACAT AAA- AAA- AAAC ACAT GAAT AAAT AAAG AAAGT CAAAT AAAT
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T -AAAT AAAT
*
19647897 GAAT AAAAT AAA- AAAT A
1 AAAT -AAAT AAAT AAAT A
19647914 CCAAGATTCG
Statistics
Matches: 83, Mismatches: 17, Indels: 18
0.70 0.14 0.15
Matches are distributed among these distances:
3 14 0.17
4 56 0.67
5 10 0.12
6 3 0.04
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:19647832 original size:17 final size:16
Alignment explanation
Indices: 19647801--19647835 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19647791 ATATATTTAC
19647801 AAATAAAAAATAAATA
1 AAATAAAAAATAAATA
*
19647817 AAATAAATACATAAATA
1 AAATAAA-AAATAAATA
19647834 AA
1 AA
19647836 CAAATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAAAATAAATA
Found at i:19647833 original size:28 final size:27
Alignment explanation
Indices: 19647801--19647865 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
19647791 ATATATTTAC
*
19647801 AAATAAAAAATAAATAAAATAAATACAT
1 AAATAAAAAATAAA-AAAATAAAAACAT
* *
19647829 AAATAAACAAATAAACACATAAAAACAT
1 AAATAAA-AAATAAAAAAATAAAAACAT
19647857 AAA-AAAAAA
1 AAATAAAAAA
19647866 CACATGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 20 0.61
29 7 0.21
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (27 bp):
AAATAAAAAATAAAAAAATAAAAACAT
Found at i:19647880 original size:22 final size:23
Alignment explanation
Indices: 19647827--19647881 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
19647817 AAATAAATAC
19647827 ATAAATAAACAAATAAACACATA
1 ATAAATAAACAAATAAACACATA
*
19647850 AAAACATAAA-AAA-AAACACATGA
1 ATAA-ATAAACAAATAAACACAT-A
19647873 ATAAATAAA
1 ATAAATAAA
19647882 GAAAGTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 13 0.46
23 10 0.36
24 5 0.18
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.15
Consensus pattern (23 bp):
ATAAATAAACAAATAAACACATA
Found at i:19649171 original size:52 final size:51
Alignment explanation
Indices: 19649114--19649379 Score: 217
Period size: 52 Copynumber: 5.0 Consensus size: 51
19649104 CTGAAAAATG
* * *
19649114 AATTAGAAAATGGGATCCTCTAAATAAAGGCTCAACAACTTTAAAACCTTTA
1 AATTAGGAAATGGGCTCCTCTAACTAAAGGCTCAACAACTTTAAAA-CTTTA
* * * *
19649166 AATTAGGAAATGGGCTCTTCTAACCAAAGGTTCAACAACTTGACAACTTTAAAAATTTTA
1 AATTAGGAAATGGGCTCCTCTAACTAAAGG--C-TC-A----ACAACTTT-AAAACTTTA
* * * * * * * *
19649226 AAATAAGAAGTAGGCTTCTTTAACTAGAGGCTCCACAACTTTAAAACTTTA
1 AATTAGGAAATGGGCTCCTCTAACTAAAGGCTCAACAACTTTAAAACTTTA
* * *
19649277 AAATAGGAAATGGGCTCATCTAACTAAAGGCTTAACAACTTTGAAAACTTTA
1 AATTAGGAAATGGGCTCCTCTAACTAAAGGCTCAACAACTTT-AAAACTTTA
** * **
19649329 AATTAGGAAATGGGCTATTCTAACCAAAGGCTTGACAACTTTCAAAACTTT
1 AATTAGGAAATGGGCTCCTCTAACTAAAGGCTCAACAACTTT-AAAACTTT
19649380 TTAATTTTCT
Statistics
Matches: 170, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
51 41 0.24
52 87 0.51
54 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
58 1 0.01
60 33 0.19
61 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (51 bp):
AATTAGGAAATGGGCTCCTCTAACTAAAGGCTCAACAACTTTAAAACTTTA
Found at i:19655627 original size:23 final size:23
Alignment explanation
Indices: 19655596--19655645 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
19655586 ATCTCATTTA
*
19655596 CCCTTTTTTCTTCACATGACGTT
1 CCCTATTTTCTTCACATGACGTT
* *
19655619 CCCTATTTTTTTCATATGACGTT
1 CCCTATTTTCTTCACATGACGTT
19655642 CCCT
1 CCCT
19655646 GTCCTCATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.30, G:0.08, T:0.48
Consensus pattern (23 bp):
CCCTATTTTCTTCACATGACGTT
Found at i:19661085 original size:73 final size:73
Alignment explanation
Indices: 19660999--19661151 Score: 234
Period size: 73 Copynumber: 2.1 Consensus size: 73
19660989 AATATGTTGG
* * * ** *
19660999 TGGTAAAGTCTTTTGAAAATTATTTTTTTCTTAAAATTTAATTTTTAAAAATTCAGAAGGTTTTC
1 TGGTAAAGCCTTTTCAAAACTATTTTTTTCTTAAAACCTAATTTTCAAAAATTCAGAAGGTTTTC
*
19661064 CAATATGT
66 CAATATAT
*
19661072 TGGTAAAGCCTTTTCAAAACTATTTTTTTCTTAAAACCTAATTTTCAAAAATTCATAAGGTTTTC
1 TGGTAAAGCCTTTTCAAAACTATTTTTTTCTTAAAACCTAATTTTCAAAAATTCAGAAGGTTTTC
19661137 CAATATAT
66 CAATATAT
19661145 TGGTAAA
1 TGGTAAA
19661152 AACTTAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (73 bp):
TGGTAAAGCCTTTTCAAAACTATTTTTTTCTTAAAACCTAATTTTCAAAAATTCAGAAGGTTTTC
CAATATAT
Found at i:19661265 original size:4 final size:4
Alignment explanation
Indices: 19661256--19661336 Score: 53
Period size: 4 Copynumber: 20.0 Consensus size: 4
19661246 AAATGAAAAT
* *
19661256 TAAA TAAA TAAA TAAA CAAA TAAA -AACA T-AA -AAA TACACA TGAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TA-A-A TAAA TAAA
* *
19661304 TAAA GAAA T-AA TCAAA TAAA TGAA TAAAA TAAA
1 TAAA TAAA TAAA T-AAA TAAA TAAA T-AAA TAAA
19661337 AAAAAACTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
3 8 0.13
4 42 0.70
5 8 0.13
6 2 0.03
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:19661305 original size:28 final size:27
Alignment explanation
Indices: 19661261--19661339 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
19661251 AAAATTAAAT
19661261 AAATAAAT-AA-ACAAATAAAAACATAA-
1 AAATAAATGAATA-AAATAAAAA-ATAAC
19661287 AAATACACATGAAT-AAATAAAGAAATAATC
1 AAATA-A-ATGAATAAAATAAA-AAATAA-C
19661317 AAATAAATGAATAAAATAAAAAA
1 AAATAAATGAATAAAATAAAAAA
19661340 AAACTAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
26 5 0.11
27 1 0.02
28 22 0.49
29 12 0.27
30 5 0.11
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (27 bp):
AAATAAATGAATAAAATAAAAAATAAC
Found at i:19664108 original size:28 final size:28
Alignment explanation
Indices: 19664076--19664130 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
19664066 TTCTTCTTCT
19664076 TTTATGATATTTTTGCAT-ATTTTTATTA
1 TTTAT-ATATTTTTGCATCATTTTTATTA
*
19664104 TTTATTTATTTTTGCATCATTTTTATT
1 TTTATATATTTTTGCATCATTTTTATT
19664131 TGCATTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTATATATTTTTGCATCATTTTTATTA
Found at i:19664237 original size:20 final size:20
Alignment explanation
Indices: 19664198--19664257 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
19664188 GATTCATTAC
19664198 ACATT-ATTGCATGATAATTT
1 ACATTAATTGCATGAT-ATTT
* *
19664218 ATATTAATTGTATGATATTT
1 ACATTAATTGCATGATATTT
*
19664238 ACATTATTTGCATGATATTT
1 ACATTAATTGCATGATATTT
19664258 TTTTTTACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 25 0.74
21 9 0.26
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
ACATTAATTGCATGATATTT
Found at i:19668333 original size:24 final size:23
Alignment explanation
Indices: 19668306--19668368 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
19668296 AAAAATGATG
19668306 AAAAATGAAAAAAAAAAAAAAAAC
1 AAAAA-GAAAAAAAAAAAAAAAAC
* *
19668330 AAAAAGCAAAAAAAAAAAAAAGAG
1 AAAAAG-AAAAAAAAAAAAAAAAC
* *
19668354 AAAAACAAGAAAAAA
1 AAAAAGAAAAAAAAA
19668369 GGAAAACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
24 25 0.74
ACGTcount: A:0.86, C:0.05, G:0.08, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAAAAAAAAAAAAAAC
Found at i:19668350 original size:17 final size:16
Alignment explanation
Indices: 19668313--19668374 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
19668303 ATGAAAAATG
19668313 AAAAAAA-AAAAAAAA
1 AAAAAAAGAAAAAAAA
*
19668328 ACAAAAAGCAAAAAAAA
1 AAAAAAAG-AAAAAAAA
*
19668345 AAAAAAGAGAAAAACAAG
1 AAAAAA-AGAAAAA-AAA
*
19668363 AAAAAAGGAAAA
1 AAAAAAAGAAAA
19668375 CTTAAACTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.15
17 23 0.59
18 10 0.26
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAA
Found at i:19668357 original size:11 final size:10
Alignment explanation
Indices: 19668313--19668368 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
19668303 ATGAAAAATG
19668313 AAAAAAA-AA
1 AAAAAAAGAA
*
19668322 AAAAAAACAA
1 AAAAAAAGAA
*
19668332 AAAGCAAAAAAA
1 AAA--AAAAGAA
19668344 AAAAAAAGAGA
1 AAAAAAAGA-A
*
19668355 AAAACAAGAA
1 AAAAAAAGAA
19668365 AAAA
1 AAAA
19668369 GGAAAACTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.17
10 15 0.38
11 9 0.22
12 9 0.22
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:19668375 original size:16 final size:16
Alignment explanation
Indices: 19668313--19668375 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
19668303 ATGAAAAATG
19668313 AAAAAAAAA--AAAA-
1 AAAAAAAAAGGAAAAC
* * *
19668326 AAACAAAAAGCAAAAA
1 AAAAAAAAAGGAAAAC
19668342 AAAAAAAAAGAGAAAAAC
1 AAAAAAAAAG-G-AAAAC
*
19668360 AAGAAAAAAGGAAAAC
1 AAAAAAAAAGGAAAAC
19668376 TTAAACTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.20
15 4 0.10
16 14 0.35
17 1 0.03
18 13 0.32
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGGAAAAC
Found at i:19669742 original size:86 final size:86
Alignment explanation
Indices: 19669649--19669812 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
19669639 AAGTCTTTAT
* * * * *
19669649 GAACCTAAAACTTTTACGAATCTAGAATCTCTGTGAAACTTGAAATATTGTGAATCTTTCATTCT
1 GAACCTAAAACCTTTACGAATCTAGAACCTCTGTAAAACCTGAAATATTGTGAATCTTCCATTCT
19669714 TACAAATCTGAAAGTCCTTGC
66 TACAAATCTGAAAGTCCTTGC
* *
19669735 GAACCTAAAACCTTTGCGAATCTAGAACCTTTGTAAAACCTGAAATATTGTGAATCTTCCATTCT
1 GAACCTAAAACCTTTACGAATCTAGAACCTCTGTAAAACCTGAAATATTGTGAATCTTCCATTCT
**
19669800 TGTAAATCTGAAA
66 TACAAATCTGAAA
19669813 ATCTTTACAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (86 bp):
GAACCTAAAACCTTTACGAATCTAGAACCTCTGTAAAACCTGAAATATTGTGAATCTTCCATTCT
TACAAATCTGAAAGTCCTTGC
Found at i:19669753 original size:17 final size:17
Alignment explanation
Indices: 19669731--19669767 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19669721 CTGAAAGTCC
19669731 TTGCGAACCTAAAACCT
1 TTGCGAACCTAAAACCT
* *
19669748 TTGCGAATCTAGAACCT
1 TTGCGAACCTAAAACCT
19669765 TTG
1 TTG
19669768 TAAAACCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (17 bp):
TTGCGAACCTAAAACCT
Found at i:19671733 original size:5 final size:5
Alignment explanation
Indices: 19671723--19671749 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19671713 AAAAATTTTA
19671723 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
19671750 TCCAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:19673175 original size:17 final size:17
Alignment explanation
Indices: 19673153--19673185 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19673143 TTTAGGGCTT
*
19673153 GGTTTAAGTTAAGTTTG
1 GGTTTAAGGTAAGTTTG
19673170 GGTTTAAGGTAAGTTT
1 GGTTTAAGGTAAGTTT
19673186 ATGGTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (17 bp):
GGTTTAAGGTAAGTTTG
Found at i:19673272 original size:20 final size:19
Alignment explanation
Indices: 19673210--19673382 Score: 125
Period size: 20 Copynumber: 8.8 Consensus size: 19
19673200 GGTTAAGAGG
* * *
19673210 TTGACTTTAGGTTTTACGAT
1 TTGACTTT-GGGTTTAGGGT
* *
19673230 TTGACTTTGGGGTTTTGGAT
1 TTGACTTT-GGGTTTAGGGT
*
19673250 TTGACTTTAAGGTTTAGGGT
1 TTGACTTT-GGGTTTAGGGT
* *
19673270 TTGAATTTGGGTTTATGGT
1 TTGACTTTGGGTTTAGGGT
* *
19673289 TAGATTTTAGGGTTT-GGAGT
1 TTGACTTT-GGGTTTAGG-GT
* *
19673309 TTGAGTTTGGCGTTTAGGGG
1 TTGACTTTGG-GTTTAGGGT
* * *
19673329 TTAACTTTGGATTTTAGTGT
1 TTGACTTTGG-GTTTAGGGT
19673349 TTGACTTTAGGGTTTAGGGT
1 TTGACTTT-GGGTTTAGGGT
19673369 TTGAC-TTGGGTTTA
1 TTGACTTTGGGTTTA
19673383 ACGTTAAGTT
Statistics
Matches: 122, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
18 7 0.06
19 20 0.16
20 91 0.75
21 4 0.03
ACGTcount: A:0.16, C:0.05, G:0.31, T:0.48
Consensus pattern (19 bp):
TTGACTTTGGGTTTAGGGT
Found at i:19673273 original size:40 final size:40
Alignment explanation
Indices: 19673210--19673375 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
19673200 GGTTAAGAGG
* * * *
19673210 TTGACTTTAGGTTTTACGATTTGACTTTGGGGTTTTGGAT
1 TTGACTTTAGGTTTTAGGGTTTGACTTTGGGGTTTAGGGT
* *
19673250 TTGACTTTAAGG-TTTAGGGTTTGAATTT-GGGTTTATGGT
1 TTGACTTT-AGGTTTTAGGGTTTGACTTTGGGGTTTAGGGT
* * * * * *
19673289 TAGATTTTAGGGTTT-GGAGTTTGAGTTTGGCGTTTAGGGG
1 TTGACTTTAGGTTTTAGG-GTTTGACTTTGGGGTTTAGGGT
* * *
19673329 TTAACTTT-GGATTTTAGTGTTTGACTTTAGGGTTTAGGGT
1 TTGACTTTAGG-TTTTAGGGTTTGACTTTGGGGTTTAGGGT
19673369 TTGACTT
1 TTGACTT
19673376 GGGTTTAACG
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
38 5 0.05
39 28 0.29
40 61 0.62
41 4 0.04
ACGTcount: A:0.16, C:0.05, G:0.31, T:0.48
Consensus pattern (40 bp):
TTGACTTTAGGTTTTAGGGTTTGACTTTGGGGTTTAGGGT
Found at i:19679139 original size:102 final size:102
Alignment explanation
Indices: 19678958--19679164 Score: 396
Period size: 102 Copynumber: 2.0 Consensus size: 102
19678948 TCCTTTATTC
19678958 CTACTGCTATGGCATATGGTTAACCAATCGTCGGTACAAAATGATGACACATAAGAATAATATGA
1 CTACTGCTATGGCATATGGTTAACCAATCGTCGGTACAAAATGATGACACATAAGAATAATATGA
19679023 TTAAAAGTTCGGTTAATGGGTAAATTCATGTTGTTTT
66 TTAAAAGTTCGGTTAATGGGTAAATTCATGTTGTTTT
*
19679060 CTACTGCTATGGCATATGGTTAACCAATCGTCGGTACGAAATGATGACACATAAGAATAATATGA
1 CTACTGCTATGGCATATGGTTAACCAATCGTCGGTACAAAATGATGACACATAAGAATAATATGA
*
19679125 TTAAAAGTTGGGTTAATGGGTAAATTCATGTTGTTTT
66 TTAAAAGTTCGGTTAATGGGTAAATTCATGTTGTTTT
19679162 CTA
1 CTA
19679165 TGATTTGATA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (102 bp):
CTACTGCTATGGCATATGGTTAACCAATCGTCGGTACAAAATGATGACACATAAGAATAATATGA
TTAAAAGTTCGGTTAATGGGTAAATTCATGTTGTTTT
Found at i:19681156 original size:9 final size:9
Alignment explanation
Indices: 19681142--19681169 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19681132 GGGATAAAAG
19681142 ATCAAAGAA
1 ATCAAAGAA
19681151 ATCAAAGAA
1 ATCAAAGAA
19681160 ATCAAAGAA
1 ATCAAAGAA
19681169 A
1 A
19681170 CAATCCACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.11
Consensus pattern (9 bp):
ATCAAAGAA
Found at i:19682056 original size:7 final size:7
Alignment explanation
Indices: 19682044--19682145 Score: 55
Period size: 7 Copynumber: 14.0 Consensus size: 7
19682034 ACCACTTTCC
19682044 AAACCTT
1 AAACCTT
19682051 AAACCTT
1 AAACCTT
19682058 ATGAA-CTCT
1 A--AACCT-T
*
19682067 AAACGCTA
1 AAAC-CTT
19682075 AAACC-T
1 AAACCTT
*
19682081 AAACATT
1 AAACCTT
* *
19682088 AGACCAT
1 AAACCTT
* *
19682095 AATCCAT
1 AAACCTT
*
19682102 AAACCAT
1 AAACCTT
19682109 AAACCTT
1 AAACCTT
*
19682116 AAACCCT
1 AAACCTT
19682123 AAACCTT
1 AAACCTT
*
19682130 ACAAACCCT
1 --AAACCTT
19682139 AAACCTT
1 AAACCTT
19682146 CCAAGCTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
6 4 0.05
7 51 0.70
8 6 0.08
9 12 0.16
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (7 bp):
AAACCTT
Found at i:19682137 original size:16 final size:14
Alignment explanation
Indices: 19682044--19682145 Score: 71
Period size: 14 Copynumber: 7.0 Consensus size: 14
19682034 ACCACTTTCC
*
19682044 AAACCTTAAACCTT
1 AAACCCTAAACCTT
*
19682058 ATGAACTCTAAACGC-T
1 A--AACCCTAAAC-CTT
* *
19682074 AAAACCTAAACATT
1 AAACCCTAAACCTT
* * * *
19682088 AGACCATAATCCAT
1 AAACCCTAAACCTT
*
19682102 AAACCATAAACCTT
1 AAACCCTAAACCTT
19682116 AAACCCTAAACCTT
1 AAACCCTAAACCTT
19682130 ACAAACCCTAAACCTT
1 --AAACCCTAAACCTT
19682146 CCAAGCTTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
14 42 0.63
16 24 0.36
17 1 0.01
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:19682357 original size:17 final size:18
Alignment explanation
Indices: 19682337--19682370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19682327 GAAAAAATGT
19682337 TTTCAAATAAA-ATAATA
1 TTTCAAATAAATATAATA
*
19682354 TTTCAACTAAATATAAT
1 TTTCAAATAAATATAAT
19682371 CATTAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTCAAATAAATATAATA
Found at i:19682810 original size:14 final size:14
Alignment explanation
Indices: 19682791--19682819 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19682781 AACTTTTAAA
19682791 TCTTTTACATATTT
1 TCTTTTACATATTT
19682805 TCTTTTACATATTT
1 TCTTTTACATATTT
19682819 T
1 T
19682820 ATTTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.66
Consensus pattern (14 bp):
TCTTTTACATATTT
Found at i:19690698 original size:34 final size:34
Alignment explanation
Indices: 19690660--19690730 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
19690650 GTTTTTACAT
* *
19690660 AAAACGTCATTAAATTTAGA-GGCATTTATAGTAG
1 AAAACGTCACTAAATTTA-ACGACATTTATAGTAG
*
19690694 AAAACGTCACTAAATTTAACGACGTTTATAGTAG
1 AAAACGTCACTAAATTTAACGACATTTATAGTAG
19690728 AAA
1 AAA
19690731 GCATTGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (34 bp):
AAAACGTCACTAAATTTAACGACATTTATAGTAG
Found at i:19691582 original size:34 final size:34
Alignment explanation
Indices: 19691529--19691594 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
19691519 GTAGAAATGC
* *
19691529 AACAAATCAGACAGGAAGTTT-AGAGATTTGACCT
1 AACAAATCAAACAGAAAGTTTAAG-GATTTGACCT
*
19691563 AACAAATCAAACTGAAAGTTTAAGGATTTGAC
1 AACAAATCAAACAGAAAGTTTAAGGATTTGAC
19691595 TTAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (34 bp):
AACAAATCAAACAGAAAGTTTAAGGATTTGACCT
Found at i:19691915 original size:60 final size:60
Alignment explanation
Indices: 19691803--19691917 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
19691793 GGGAAAGTGT
* * * * **
19691803 GATTATTAAAGGCATTTTTAGCTAAAAATGCATTCAATAATTATTTTTAATTTTTTTAAA
1 GATTATTAAAGGCATTTCTAGCTAAAAATACATTAAATAATCATTTCCAATTTTTTTAAA
* * *
19691863 GATTATTTAAGGCATTTCTAGCTAAAAATACCTTAAATAATCCTTTCCAATTTTT
1 GATTATTAAAGGCATTTCTAGCTAAAAATACATTAAATAATCATTTCCAATTTTT
19691918 GAAATAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (60 bp):
GATTATTAAAGGCATTTCTAGCTAAAAATACATTAAATAATCATTTCCAATTTTTTTAAA
Found at i:19697121 original size:232 final size:233
Alignment explanation
Indices: 19696606--19697155 Score: 579
Period size: 234 Copynumber: 2.4 Consensus size: 233
19696596 GAGTTAAAAC
* ** *
19696606 AATTGTAAACAT-ATGAAAAGTAA-AAACAATTGTAAAAAAATATTATTATAAAAGT-AATAGTT
1 AATTCTAAACATAATGAAAAGTAAGAAA-AACAGTAAAAAAATATTATTATAAAA-TAAATAATT
* * * * *
19696668 ATGTTGACAACGTAAAATTTTAATTATTTATTATTCTTGTAAATATAAAAAAATAGCTAAAATTT
64 ATGATGACAACATAAAATTTTAATTAATTATTATTATTGTAAATATAAAAAAATAACTAAAATTT
* * *
19696733 AAAAAAAAAATTGATAATGTAAACAAGTAAGAAGTAACTTAAAATTATTATTAATTAAAATAAAA
129 -AAAAAAAAATTGATAATGTAAACAAGTAAGAAGTAAATTAAAATTAATATCAATTAAAATAAAA
*
19696798 TGTGTTAGAAGTGTCATAACACATTAAGAAAAATTTATCAT
193 TGTGTAAGAAGTGTCATAACACATTAAGAAAAATTTATCAT
* * *
19696839 AATTCTAAACATGATGAAAAGTAAGAAAAACAGTAAAAATATATTATTATAACATAAATAATTAT
1 AATTCTAAACATAATGAAAAGTAAGAAAAACAGTAAAAAAATATTATTATAAAATAAATAATTAT
* * *
19696904 GATGACAATATAAAATTTTAATTAATTATTGTTATTGTATATATAAATAAAATAACTAGAAA-TT
66 GATGACAACATAAAATTTTAATTAATTATTATTATTGTAAATATAAA-AAAATAACTA-AAATTT
* *
19696968 -AAAAAAAA-TGATAATGTAAAACAAGTGAGAAG-AAATGTAAAATTAATA-CCATTAAACATAA
129 AAAAAAAAATTGATAATGT-AAACAAGTAAGAAGTAAAT-TAAAATTAATATCAATTAAA-ATAA
* ** * *
19697029 AATG-GATAATAAGTGTTGTAATACATTACA-AAAAA-TTATGAT
191 AATGTG-TAAGAAGTGTCATAACACATTA-AGAAAAATTTATCAT
* * * * * * *
19697071 AATTCTAAACGTAATG-GATGATAAGAACAACCGTAAAAAAATATTATTATAATATAAATATTTA
1 AATTCTAAACATAATGAAAAG-TAAGAAAAACAGTAAAAAAATATTATTATAAAATAAATAATT-
19697135 AAT-AT-ACAACATAAAAATTTT
64 -ATGATGACAACAT-AAAATTTT
19697156 TTGATAAAAA
Statistics
Matches: 268, Mismatches: 35, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
231 2 0.01
232 82 0.31
233 83 0.31
234 84 0.31
235 14 0.05
236 3 0.01
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (233 bp):
AATTCTAAACATAATGAAAAGTAAGAAAAACAGTAAAAAAATATTATTATAAAATAAATAATTAT
GATGACAACATAAAATTTTAATTAATTATTATTATTGTAAATATAAAAAAATAACTAAAATTTAA
AAAAAAATTGATAATGTAAACAAGTAAGAAGTAAATTAAAATTAATATCAATTAAAATAAAATGT
GTAAGAAGTGTCATAACACATTAAGAAAAATTTATCAT
Found at i:19698169 original size:20 final size:21
Alignment explanation
Indices: 19698144--19698184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19698134 CAAACCGATT
*
19698144 CAAATC-ATCCAAATGCAAAC
1 CAAATCAACCCAAATGCAAAC
*
19698164 CAAATCAACCCAAATTCAAAC
1 CAAATCAACCCAAATGCAAAC
19698185 TTTGAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (21 bp):
CAAATCAACCCAAATGCAAAC
Found at i:19699065 original size:2 final size:2
Alignment explanation
Indices: 19699058--19699089 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19699048 AACTCTCGAT
19699058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19699090 ATACTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19700171 original size:18 final size:17
Alignment explanation
Indices: 19700148--19700207 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
19700138 TACACAAATT
19700148 TATAATATTATTAGAATA
1 TATAATATTA-TAGAATA
* **
19700166 TATAATA-TAAATCATA
1 TATAATATTATAGAATA
19700182 TATTAATATTATAGAATA
1 TA-TAATATTATAGAATA
19700200 TATAATAT
1 TATAATAT
19700208 AAATCATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.18
17 13 0.38
18 15 0.44
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (17 bp):
TATAATATTATAGAATA
Found at i:19700202 original size:34 final size:35
Alignment explanation
Indices: 19700150--19700221 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
19700140 CACAAATTTA
19700150 TAATATTATTAGAATATATAATATAAATCATATAT
1 TAATATTATTAGAATATATAATATAAATCATATAT
19700185 TAATATTA-TAGAATATATAATATAAATCATATAT
1 TAATATTATTAGAATATATAATATAAATCATATAT
19700219 TAA
1 TAA
19700222 CATTCTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 29 0.78
35 8 0.22
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (35 bp):
TAATATTATTAGAATATATAATATAAATCATATAT
Found at i:19708535 original size:39 final size:39
Alignment explanation
Indices: 19708479--19708556 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
19708469 ACCTGATATA
19708479 TCTTTTCCAATGAGTGGTTAGTCAATTCATGGTAGCTCC
1 TCTTTTCCAATGAGTGGTTAGTCAATTCATGGTAGCTCC
* * *
19708518 TCTTTTCCAGTGTGTGGTTAGTTAATTCATGGTAGCTCC
1 TCTTTTCCAATGAGTGGTTAGTCAATTCATGGTAGCTCC
19708557 CAAGATACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (39 bp):
TCTTTTCCAATGAGTGGTTAGTCAATTCATGGTAGCTCC
Found at i:19718405 original size:22 final size:22
Alignment explanation
Indices: 19718380--19718423 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19718370 TGTATATTTA
*
19718380 TATTTGCATCTCTAGAATTAAG
1 TATTTGCATCCCTAGAATTAAG
*
19718402 TATTTGTATCCCTAGAATTAAG
1 TATTTGCATCCCTAGAATTAAG
19718424 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGCATCCCTAGAATTAAG
Found at i:19722303 original size:22 final size:22
Alignment explanation
Indices: 19722277--19722320 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
19722267 TGTATATTTA
*
19722277 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
19722299 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
19722321 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:19727403 original size:39 final size:39
Alignment explanation
Indices: 19727349--19727428 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
19727339 ACACTTCTCA
*
19727349 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
19727388 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
19727427 AA
1 AA
19727429 GCCCAAAGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.40, G:0.04, T:0.20
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
Found at i:19728706 original size:27 final size:27
Alignment explanation
Indices: 19728668--19728722 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19728658 GATATCAGTT
19728668 TTTGGGTTAGCATAATAAGCAGATTCA
1 TTTGGGTTAGCATAATAAGCAGATTCA
19728695 TTTGGGTTAGCATAATAAGCAGATTCA
1 TTTGGGTTAGCATAATAAGCAGATTCA
19728722 T
1 T
19728723 GAACAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (27 bp):
TTTGGGTTAGCATAATAAGCAGATTCA
Found at i:19735006 original size:18 final size:18
Alignment explanation
Indices: 19734978--19735013 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19734968 CATTTTCACG
19734978 AAAATTAAAATATATAAAA
1 AAAATTAAAATAT-TAAAA
19734997 AAAATT-AAATATTAAAA
1 AAAATTAAAATATTAAAA
19735014 TTATTCACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATTAAAATATTAAAA
Found at i:19735344 original size:20 final size:20
Alignment explanation
Indices: 19735296--19735351 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
19735286 AAATAGAATC
19735296 TGAATTAAAC-TAAATTGAA
1 TGAATTAAACTTAAATTGAA
* *
19735315 TG-TTTCAAACTTAAATTTAA
1 TGAATT-AAACTTAAATTGAA
19735335 TGAATTAAACTTCAAAT
1 TGAATTAAACTT-AAAT
19735352 CTCAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.07
19 6 0.20
20 16 0.53
21 6 0.20
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (20 bp):
TGAATTAAACTTAAATTGAA
Found at i:19735497 original size:23 final size:24
Alignment explanation
Indices: 19735471--19735516 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
19735461 AAAACTTCAA
19735471 TTAAATTGAAAACAAAAC-AAAAC
1 TTAAATTGAAAACAAAACTAAAAC
* *
19735494 TTAAATTTAAAATAAAACTAAAA
1 TTAAATTGAAAACAAAACTAAAA
19735517 TTGAACTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (24 bp):
TTAAATTGAAAACAAAACTAAAAC
Found at i:19735510 original size:18 final size:18
Alignment explanation
Indices: 19735484--19735518 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19735474 AATTGAAAAC
*
19735484 AAAACAAAACTTAAATTT
1 AAAACAAAACTAAAATTT
*
19735502 AAAATAAAACTAAAATT
1 AAAACAAAACTAAAATT
19735519 GAACTTTGTA
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:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACAAAACTAAAATTT
Found at i:19735510 original size:28 final size:29
Alignment explanation
Indices: 19735461--19735516 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
19735451 AAAATTTAGG
* *
19735461 AAAACTTCAATTAAATTGAAAAC-AAAAC
1 AAAACTTAAATTAAAATGAAAACTAAAAC
19735489 AAAACTTAAATTTAAAAT-AAAACTAAAA
1 AAAACTTAAA-TTAAAATGAAAACTAAAA
19735517 TTGAACTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (29 bp):
AAAACTTAAATTAAAATGAAAACTAAAAC
Found at i:19758076 original size:69 final size:69
Alignment explanation
Indices: 19758001--19758141 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
19757991 TTTTGCTTGT
* * *
19758001 TTATTGTTCAATTCATTCAATTTTAGCTACTGATTTGTGTTTACTTGTTTTAAGTTTCGATTTAC
1 TTATTGTTCAATTCATTCAATTTTAGCTACCGATTTATGTTTACTTATTTTAAGTTTCGATTTAC
19758066 ATTG
66 ATTG
* *
19758070 TTATTGTTCAATTCATTCAATTTTAGCTACCGATTTATGTTTACTTATTTTAAGTTTCGGTTTGC
1 TTATTGTTCAATTCATTCAATTTTAGCTACCGATTTATGTTTACTTATTTTAAGTTTCGATTTAC
19758135 ATTG
66 ATTG
19758139 TTA
1 TTA
19758142 CAAATAGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.22, C:0.12, G:0.13, T:0.53
Consensus pattern (69 bp):
TTATTGTTCAATTCATTCAATTTTAGCTACCGATTTATGTTTACTTATTTTAAGTTTCGATTTAC
ATTG
Found at i:19760953 original size:15 final size:15
Alignment explanation
Indices: 19760933--19760969 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
19760923 TTCCTCATCA
19760933 TTTTCATTTTCGTCT
1 TTTTCATTTTCGTCT
*
19760948 TTTTCATTTTCTTCT
1 TTTTCATTTTCGTCT
*
19760963 TCTTCAT
1 TTTTCAT
19760970 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTCATTTTCGTCT
Found at i:19760992 original size:24 final size:24
Alignment explanation
Indices: 19760933--19760993 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
19760923 TTCCTCATCA
*
19760933 TTTTCATTTTCGTCTTTTTCATTT
1 TTTTCATTTTCATCTTTTTCATTT
* **
19760957 TCTTC-TTCTTCATCTTTTTTTTTT
1 TTTTCATT-TTCATCTTTTTCATTT
19760981 TTTTCATTTTCAT
1 TTTTCATTTTCAT
19760994 TTTCTACTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.08, C:0.18, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTCATTTTCATCTTTTTCATTT
Found at i:19761011 original size:33 final size:33
Alignment explanation
Indices: 19760947--19761011 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
19760937 CATTTTCGTC
* *
19760947 TTTTTCATTTTCTTCTTCTTCATCTTTTTTTTT
1 TTTTTCATTTTCTTCTTCTACATCTTCTTTTTT
* *
19760980 TTTTTCATTTTCATT-TTCTACTTGTTCTTTTT
1 TTTTTCATTTTC-TTCTTCTACATCTTCTTTTT
19761012 CATCAAGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.74
Consensus pattern (33 bp):
TTTTTCATTTTCTTCTTCTACATCTTCTTTTTT
Found at i:19764740 original size:143 final size:142
Alignment explanation
Indices: 19764235--19764798 Score: 460
Period size: 143 Copynumber: 4.0 Consensus size: 142
19764225 AAAGTCATAG
* ** * *
19764235 TTGCACCTTGAAAAGTGTAAAATTACCAAAATA-CTTTTAGGGGT-ATTTTGTAATTTGATCTTT
1 TTGCA-CTTG-AATGTGTAAAATTACCAAAATACCTTTTAATGGTAATTTTATAATTTGATCTTC
* * * * * * * *
19764298 TTTATGTCAATGTTTTGCGAAAAGCTCTAGATCATATTTTAACATTATTTCATGATTTTTGGTGC
64 CTGATGTCAATTTTTTGCAAAAAGCTCTAAATCATGTTTTAATATTATTTCATGATTTTTGATGC
19764363 A-TAAAAGACCTTGA
129 ATTAAAA-ACCTTGA
* * ** * * * *
19764377 TCGCACTCAGAATGTGTAAAATTTTCAAAATACCTTTT-ATGAGTATTTTTATAAATTAAACTTC
1 TTGCACT-TGAATGTGTAAAATTACCAAAATACCTTTTAATG-GTAATTTTATAATTTGATCTTC
* ** * * * * * * * *
19764441 CTGAGGTTGATTTTTTGCAAAAGGTTTTAGATTATGTGTTGATATTATTTCATGATTTTTTATGC
64 CTGATGTCAATTTTTTGCAAAAAGCTCTAAATCATGTTTTAATATTATTTCATGATTTTTGATGC
19764506 ATTAAAAACCTTGA
129 ATTAAAAACCTTGA
* * * * * * * *
19764520 TTACACTTTAAAATGTGTAAAATTACCAAAAT-GCTCTTAAAGGATATTTTTGTAATTTGATATT
1 TTGCAC-TT-GAATGTGTAAAATTACCAAAATACCTTTTAATGG-TAATTTTATAATTTGATCTT
* * *
19764584 CCTGA-GTCAATTTTTTGCAAAAAGCTTTAAATCATCTTTTAATATTATTTCATGATTTTTGATA
63 CCTGATGTCAATTTTTTGCAAAAAGCTCTAAATCATGTTTTAATATTATTTCATGATTTTTGATG
*
19764648 CATTAAAAACTTTGA
128 CATTAAAAACCTTGA
* * * * *
19764663 TTGCACATTGGATGGTGTGAAATTATCAAAATACCTTTTAATGGTAATTTTATAATTTGACCTTT
1 TTGCAC-TTGAAT-GTGTAAAATTACCAAAATACCTTTTAATGGTAATTTTATAATTTGATCTTC
* * * * ** * *
19764728 CTAATGTCATTTTTTATG--AAAAGCTCCAAATCATGATCAAATATTATTTCATCATTTTTGGTG
64 CTGATGTCAATTTTT-TGCAAAAAGCTCTAAATCATGTTTTAATATTATTTCATGATTTTTGATG
19764791 CATTAAAA
128 CATTAAAA
19764799 TCACAAAAAC
Statistics
Matches: 328, Mismatches: 81, Indels: 25
0.76 0.19 0.06
Matches are distributed among these distances:
141 22 0.07
142 14 0.04
143 226 0.69
144 64 0.20
145 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.43
Consensus pattern (142 bp):
TTGCACTTGAATGTGTAAAATTACCAAAATACCTTTTAATGGTAATTTTATAATTTGATCTTCCT
GATGTCAATTTTTTGCAAAAAGCTCTAAATCATGTTTTAATATTATTTCATGATTTTTGATGCAT
TAAAAACCTTGA
Found at i:19772742 original size:19 final size:19
Alignment explanation
Indices: 19772705--19772743 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
19772695 TTATCTATTA
* *
19772705 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
19772724 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
19772743 T
1 T
19772744 ATATGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:19772981 original size:20 final size:19
Alignment explanation
Indices: 19772901--19772985 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 19
19772891 ATTGTTATTA
*
19772901 ATATATTTGCATGGTAA-T
1 ATATATTTGCATGATAATT
*
19772919 ATAT-TTAT--ATGAT-ACT
1 ATATATT-TGCATGATAATT
* *
19772935 ATATATTTACATGATTATT
1 ATATATTTGCATGATAATT
19772954 AT-TA-TTGCATGATAATT
1 ATATATTTGCATGATAATT
19772971 AATATATTTGCATGA
1 -ATATATTTGCATGA
19772986 CATTCTTACA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
15 1 0.02
16 10 0.19
17 15 0.28
18 14 0.26
19 6 0.11
20 8 0.15
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (19 bp):
ATATATTTGCATGATAATT
Found at i:19777308 original size:81 final size:82
Alignment explanation
Indices: 19777180--19777338 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 82
19777170 TATAATCTTA
* *
19777180 TTTGTCAATACTCTCAAGGCTTTTTACTATGAAAGGATGATAAAAAATACCATTAAAAA-TTTTA
1 TTTGTCAATACTCTCAAGGCTCTTTACTATGAAAGGATGATAAAAAATACCACTAAAAATTTTTA
*
19777244 ATGATATCGTAATCCTG
66 ATAATATCGTAATCCTG
* ** *
19777261 TTTGTCAATACTCTCAAGGCTCTTTACTATGAAATGATGATTGAAAATGCCACTAAAAATTTTTA
1 TTTGTCAATACTCTCAAGGCTCTTTACTATGAAAGGATGATAAAAAATACCACTAAAAATTTTTA
*
19777326 ATAATATGGTAAT
66 ATAATATCGTAAT
19777339 TTCTAAAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
81 53 0.77
82 16 0.23
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (82 bp):
TTTGTCAATACTCTCAAGGCTCTTTACTATGAAAGGATGATAAAAAATACCACTAAAAATTTTTA
ATAATATCGTAATCCTG
Found at i:19780470 original size:43 final size:43
Alignment explanation
Indices: 19780422--19780709 Score: 293
Period size: 43 Copynumber: 6.8 Consensus size: 43
19780412 AGAATGATCT
* * * *
19780422 CATTTTATTTTTTAAAATTTTCAAAGCCTCAGTTATGGGGGAG
1 CATTTTACTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
19780465 CATTTTACTTTTTCAAAG-TTCTAAAACCTCAGTTGTAGGGGAG
1 CATTTTACTTTTTCAAAGTTTC-AAAGCCTCAGTTGTGGGGGAG
19780508 CATTTTACTTTTTCAAAG-TTCTAAAGCCTCAGTTGTGGGGGA-
1 CATTTTACTTTTTCAAAGTTTC-AAAGCCTCAGTTGTGGGGGAG
* * * * * **
19780550 CATTTTACTTTTCCAAAGTTCCAAAGCCACAATTATGAAGGAG
1 CATTTTACTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * *
19780593 TATTTTATTTTTTCAAAGTTTCATAGCCTCAGTTGTGAGTGAG
1 CATTTTACTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
19780636 CATTTTA--TTTTCAAAAGTTTCAAAGCCTAAGTTGTGGGGGAA
1 CATTTTACTTTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* *
19780678 CGTTTTA--TTTTCAAAAGTTCCAAAGCCTCAGT
1 CATTTTACTTTTTC-AAAGTTTCAAAGCCTCAGT
19780710 CATAGGAGAG
Statistics
Matches: 207, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
41 5 0.02
42 88 0.43
43 114 0.55
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (43 bp):
CATTTTACTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Done.