Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 24 of 77
Found at i:4666179 original size:12 final size:12
Alignment explanation
Indices: 4666162--4666208 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
4666152 AACCTAATCT
4666162 AATAAATAAAAA
1 AATAAATAAAAA
*
4666174 AATAAAAAAAACA
1 AATAAATAAAA-A
* *
4666187 AATAAACAAATA
1 AATAAATAAAAA
4666199 AATAAATAAA
1 AATAAATAAA
4666209 TTGAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:4667092 original size:20 final size:19
Alignment explanation
Indices: 4667057--4667102 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
4667047 AAAAAAAAAA
*
4667057 AAAAAGAAATCTGATAAACG
1 AAAAA-AAATCAGATAAACG
4667077 AGAAAAAAATCAGATAAACG
1 A-AAAAAAATCAGATAAACG
4667097 AAAAAA
1 AAAAAA
4667103 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAAAATCAGATAAACG
Found at i:4667126 original size:26 final size:26
Alignment explanation
Indices: 4667046--4667126 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
4667036 AATCTCAACC
4667046 AAAAAA-AAAAAAAAA-AGA-AATCTG
1 AAAAAAGAAAAAAAAACAGATAAT-TG
* * * **
4667070 ATAAACGAGAAAAAAATCAGATAAACG
1 AAAAAAGA-AAAAAAAACAGATAATTG
4667097 AAAAAAGAAAAAAAAACAGATAATT-
1 AAAAAAGAAAAAAAAACAGATAATTG
4667122 AAAAA
1 AAAAA
4667127 TAATAATAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
24 4 0.09
25 6 0.14
26 21 0.49
27 10 0.23
28 2 0.05
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAACAGATAATTG
Found at i:4667139 original size:21 final size:21
Alignment explanation
Indices: 4667114--4667174 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
4667104 AAAAAAAAAC
*
4667114 AGATAATTAAAAATAATAATA
1 AGATAATTAAAAATAATAACA
* *
4667135 AGATAAATAAAAAATACT-ACA
1 AGAT-AATTAAAAATAATAACA
* *
4667156 AGATAAATAAAAAAAATAA
1 AGATAATTAAAAATAATAA
4667175 ATTATAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 9 0.29
21 11 0.35
22 11 0.35
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (21 bp):
AGATAATTAAAAATAATAACA
Found at i:4667176 original size:4 final size:4
Alignment explanation
Indices: 4667158--4667307 Score: 56
Period size: 4 Copynumber: 36.2 Consensus size: 4
4667148 ATACTACAAG
* * * *
4667158 ATAA ATAAA AAAA ATAA ATTATA AT-A ATAA ATAT ATAA CTAG ATAA ATAA
1 ATAA AT-AA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * *
4667208 CATAC ATAT ATAGA TATTA ACAGA A-AA ATAA ATAA ATAA ATAA ATAA
1 -ATAA ATAA ATA-A -ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * * *
4667255 AGAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATAA AT-A ATAA ATAC
1 ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA
4667303 ATAA A
1 ATAA A
4667308 ATACAAAAAA
Statistics
Matches: 107, Mismatches: 26, Indels: 26
0.67 0.16 0.16
Matches are distributed among these distances:
3 11 0.10
4 78 0.73
5 12 0.11
6 6 0.06
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:4667327 original size:12 final size:12
Alignment explanation
Indices: 4667305--4667364 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
4667295 ATAAATACAT
4667305 AAAATACAAAAAA
1 AAAATA-AAAAAA
*
4667318 AAAATAAAAATA
1 AAAATAAAAAAA
*
4667330 AAAAT-AAAATA
1 AAAATAAAAAAA
*
4667341 AAAATAAAAATAC
1 AAAATAAAAA-AA
*
4667354 ACAATAAAAAA
1 AAAATAAAAAA
4667365 TCAAATTGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 11 0.27
12 15 0.37
13 15 0.37
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:4667338 original size:17 final size:17
Alignment explanation
Indices: 4667290--4667363 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
4667280 AATAATAAAT
*
4667290 AAATAATAAAT-ACATAA
1 AAATAA-AAATAAAATAA
* *
4667307 AATACAAAAAAAAAATAA
1 AA-ATAAAAATAAAATAA
4667325 AAATAAAAATAAAATAA
1 AAATAAAAATAAAATAA
4667342 AAATAAAAATACACAATAA
1 AAATAAAAATA-A-AATAA
4667361 AAA
1 AAA
4667364 ATCAAATTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
17 29 0.60
18 11 0.23
19 8 0.17
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:4667339 original size:30 final size:29
Alignment explanation
Indices: 4667286--4667363 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 29
4667276 TAGTAATAAT
4667286 AAATAAATAATAAATACATAAAATACAAAAAAA
1 AAATAAA-AATAAA-A-ATAAAATA-AAAAAAA
*
4667319 AAATAAAAATAAAAATAAAATAAAAATAA
1 AAATAAAAATAAAAATAAAATAAAAAAAA
*
4667348 AAATACACAATAAAAA
1 AAATA-AAAATAAAAA
4667364 ATCAAATTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 11 0.26
30 17 0.40
31 1 0.02
32 6 0.14
33 7 0.17
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (29 bp):
AAATAAAAATAAAAATAAAATAAAAAAAA
Found at i:4667349 original size:11 final size:11
Alignment explanation
Indices: 4667280--4667349 Score: 63
Period size: 11 Copynumber: 6.2 Consensus size: 11
4667270 AATACATAGT
4667280 AATAATAAAT-A
1 AATAA-AAATAA
4667291 AATAATAAAT-A
1 AATAA-AAATAA
* *
4667302 CATAAAATACAA
1 AATAAAA-ATAA
*
4667314 AAAAAAAATAAA
1 AATAAAAAT-AA
4667326 AATAAAAATAA
1 AATAAAAATAA
4667337 AATAAAAATAA
1 AATAAAAATAA
4667348 AA
1 AA
4667350 ATACACAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
10 2 0.04
11 32 0.64
12 16 0.32
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:4670766 original size:2 final size:2
Alignment explanation
Indices: 4670754--4670789 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4670744 ATTCATTCTC
*
4670754 AT AT TT 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
4670790 TCTTGACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4671735 original size:21 final size:20
Alignment explanation
Indices: 4671692--4671752 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
4671682 ATAAAAAATA
*
4671692 TAAAAATAATAAAAAATAATTT
1 TAAATATAA-AAAAAA-AATTT
4671714 TAAATATAAAAATAAAAATTT
1 TAAATATAAAAA-AAAAATTT
*
4671735 TAAATATTAAAAAAAAAT
1 TAAATATAAAAAAAAAAT
4671753 AAAAACATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.17
21 19 0.53
22 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATATAAAAAAAAAATTT
Found at i:4671744 original size:28 final size:27
Alignment explanation
Indices: 4671687--4671757 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
4671677 TTAATATAAA
*
4671687 AAATATAAAAATAATAAAAAATAATTTT
1 AAATATAAAAATAA-AAAAAATAATATT
***
4671715 AAATATAAAAATAAAAATTTTAAATATT
1 AAATATAAAAATAAAAAAAAT-AATATT
4671743 AAA-A-AAAAATAAAAA
1 AAATATAAAAATAAAAA
4671758 CATAATTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 11 0.29
27 5 0.13
28 22 0.58
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATATAAAAATAAAAAAAATAATATT
Found at i:4672579 original size:152 final size:155
Alignment explanation
Indices: 4672335--4672627 Score: 493
Period size: 152 Copynumber: 1.9 Consensus size: 155
4672325 TTTTAAACTC
* * *
4672335 AAAAATCTTTTTTTTTTTTGTTTAGCATTAAAGTTGAAAGAAAAAAGTAATTTTTGAATGCAAAA
1 AAAAATCTATTTTTTTATTGTTTAGCATTAAAGTTGAAAGAAAAAAGCAATTTTTGAATGCAAAA
*
4672400 GTTATTTTTAACAGCAATGCTAAACTACTTTCAATTACTTACAATATTTTTTCACAATAATTTTA
66 GTTATTTTTAACAGCAATGCTAAACTACTTTCAATTACTTACAATATTTTTTCACAATAATTTCA
4672465 AAGATTTAAAATTAATTTCTAACCG
131 AAGATTTAAAATTAATTTCTAACCG
* *
4672490 AAAAATC-ATTTTTTTATTGTTTAGCATTAAGGTTGAAA-AAAAAAGCAGTTTTTGAATGCAAAA
1 AAAAATCTATTTTTTTATTGTTTAGCATTAAAGTTGAAAGAAAAAAGCAATTTTTGAATGCAAAA
* *
4672553 TTTA-TTTTAACAGCAATGCTAAACTACTTTCAATTACTTATAATATTTTTTCACAATAATTTCA
66 GTTATTTTTAACAGCAATGCTAAACTACTTTCAATTACTTACAATATTTTTTCACAATAATTTCA
4672617 AAGATTTAAAA
131 AAGATTTAAAA
4672628 ATTTTAATTG
Statistics
Matches: 130, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
152 69 0.53
153 26 0.20
154 28 0.22
155 7 0.05
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (155 bp):
AAAAATCTATTTTTTTATTGTTTAGCATTAAAGTTGAAAGAAAAAAGCAATTTTTGAATGCAAAA
GTTATTTTTAACAGCAATGCTAAACTACTTTCAATTACTTACAATATTTTTTCACAATAATTTCA
AAGATTTAAAATTAATTTCTAACCG
Found at i:4676617 original size:17 final size:18
Alignment explanation
Indices: 4676597--4676631 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4676587 TTGAATAGGT
4676597 TGTTTGGTT-GATTTTTA
1 TGTTTGGTTGGATTTTTA
4676614 TGTTTGGTTGGATTTTTA
1 TGTTTGGTTGGATTTTTA
4676632 CAGAACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.00, G:0.26, T:0.63
Consensus pattern (18 bp):
TGTTTGGTTGGATTTTTA
Found at i:4676890 original size:6 final size:7
Alignment explanation
Indices: 4676846--4676921 Score: 54
Period size: 7 Copynumber: 11.6 Consensus size: 7
4676836 AAATTTCATA
*
4676846 AAACCTT
1 AAACCCT
*
4676853 AAACCTT
1 AAACCCT
4676860 AAA--CT
1 AAACCCT
*
4676865 AAACTCT
1 AAACCCT
*
4676872 AGACCCT
1 AAACCCT
4676879 AAACCC-
1 AAACCCT
4676885 AAACCCT
1 AAACCCT
*
4676892 AAACTCT
1 AAACCCT
4676899 AAA-CCT
1 AAACCCT
* *
4676905 TAA-CTT
1 AAACCCT
4676911 AAACCCT
1 AAACCCT
4676918 AAAC
1 AAAC
4676922 TAACCTTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 4 0.07
6 14 0.25
7 37 0.67
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:4676895 original size:39 final size:39
Alignment explanation
Indices: 4676846--4676921 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
4676836 AAATTTCATA
* *
4676846 AAACCTTAAAC-CTTAAA-CTAAACTCTAGACCCTAAACCC
1 AAACCCTAAACTC-TAAACCTAAACT-TAAACCCTAAACCC
*
4676885 AAACCCTAAACTCTAAACCTTAACTTAAACCCTAAAC
1 AAACCCTAAACTCTAAACCTAAACTTAAACCCTAAAC
4676922 TAACCTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 25 0.78
40 7 0.22
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (39 bp):
AAACCCTAAACTCTAAACCTAAACTTAAACCCTAAACCC
Found at i:4676920 original size:26 final size:26
Alignment explanation
Indices: 4676846--4676922 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
4676836 AAATTTCATA
4676846 AAACCTTAAACCTTAAA--CTAAACTCT
1 AAACCTT-AA-CTTAAACCCTAAACTCT
* * **
4676872 AGACCCTAAACCCAAACCCTAAACTCT
1 A-AACCTTAACTTAAACCCTAAACTCT
4676899 AAACCTTAACTTAAACCCTAAACT
1 AAACCTTAACTTAAACCCTAAACT
4676923 AACCTTAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.10
26 22 0.55
27 14 0.35
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.22
Consensus pattern (26 bp):
AAACCTTAACTTAAACCCTAAACTCT
Found at i:4676922 original size:13 final size:13
Alignment explanation
Indices: 4676846--4676922 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
4676836 AAATTTCATA
*
4676846 AAACCTTAAACCTT
1 AAACCCTAAA-CTT
4676860 AAA--CTAAACTCT
1 AAACCCTAAACT-T
* **
4676872 AGACCCTAAACCC
1 AAACCCTAAACTT
4676885 AAACCCTAAACTCT
1 AAACCCTAAACT-T
*
4676899 AAA-CCTTAACTT
1 AAACCCTAAACTT
4676911 AAACCCTAAACT
1 AAACCCTAAACT
4676923 AACCTTAATC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.04
12 11 0.22
13 24 0.49
14 12 0.24
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.22
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:4677073 original size:19 final size:17
Alignment explanation
Indices: 4677049--4677095 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
4677039 TCAAGTTTAA
4677049 ATTATCATCCATTCATCGT
1 ATTATCAT-CATTCAT-GT
4677068 ATTATCAT-ATTCATGT
1 ATTATCATCATTCATGT
4677084 ATT-TCATGCATT
1 ATTATCAT-CATT
4677096 TGTTTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 9 0.35
19 8 0.31
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTATCATCATTCATGT
Found at i:4678450 original size:64 final size:65
Alignment explanation
Indices: 4678323--4678460 Score: 165
Period size: 64 Copynumber: 2.1 Consensus size: 65
4678313 TTTAAAAAAT
** * **
4678323 AATAATTTTTTAAAACTAAATTCATGAATCTTACTAAACTATTGAAATATTTTCATTGGTTAAA-
1 AATAATTTTAAAAAACTAAATTCATGAATCTTACTAAAATATTGAAATATTTTCAAAGGTTAAAG
* *
4678387 AATAATTTTAAAAAATTAAATTCATGAATCTTA-TCAAAATATTGAAATA-TTTCAAAGATTTAA
1 AATAATTTTAAAAAACTAAATTCATGAATCTTACT-AAAATATTGAAATATTTTCAAAG-GTTAA
4678450 AG
64 AG
*
4678452 AAAAATTTT
1 AATAATTTT
4678461 GGAATATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
63 7 0.11
64 48 0.76
65 8 0.13
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (65 bp):
AATAATTTTAAAAAACTAAATTCATGAATCTTACTAAAATATTGAAATATTTTCAAAGGTTAAAG
Found at i:4685201 original size:13 final size:14
Alignment explanation
Indices: 4685183--4685217 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
4685173 TCCAATTTAG
4685183 ATTTTTTATT-AAT
1 ATTTTTTATTCAAT
4685196 ATTTTTTATTCAAT
1 ATTTTTTATTCAAT
*
4685210 TTTTTTTA
1 ATTTTTTA
4685218 GTAAAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTTATTCAAT
Found at i:4687533 original size:9 final size:8
Alignment explanation
Indices: 4687514--4687558 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
4687504 AATTTCAACC
4687514 AAAAAAA-
1 AAAAAAAT
4687521 AAAAAAATT
1 AAAAAAA-T
4687530 AAAAAAAT
1 AAAAAAAT
*
4687538 AAAAACAT
1 AAAAAAAT
*
4687546 AAAAACAT
1 AAAAAAAT
4687554 AAAAA
1 AAAAA
4687559 CACTAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
7 7 0.20
8 21 0.60
9 7 0.20
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:4687548 original size:16 final size:17
Alignment explanation
Indices: 4687514--4687560 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
4687504 AATTTCAACC
*
4687514 AAAAAAA-AAAAAAATT
1 AAAAAAATAAAAACATT
4687530 AAAAAAATAAAAACA-T
1 AAAAAAATAAAAACATT
*
4687546 AAAAACATAAAAACA
1 AAAAAAATAAAAACA
4687561 CTAAGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 22 0.79
17 6 0.21
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAACATT
Found at i:4698175 original size:22 final size:22
Alignment explanation
Indices: 4698125--4698175 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4698115 AAATTGCTAG
*
4698125 AAAAAAATTCTAGAAACAAACT
1 AAAAAAATTCTAGAAACAAAAT
*
4698147 -AAGAAATTCATAGAAA-AAAAT
1 AAAAAAATTC-TAGAAACAAAAT
4698168 AAAAAAAT
1 AAAAAAAT
4698176 CCCTCATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.18
Consensus pattern (22 bp):
AAAAAAATTCTAGAAACAAAAT
Found at i:4704086 original size:15 final size:15
Alignment explanation
Indices: 4704041--4704086 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4704031 TTATTTTGAT
4704041 TTGAT-TTTTAAATA
1 TTGATATTTTAAATA
* *
4704055 GT-ATAATTTTAATTA
1 TTGAT-ATTTTAAATA
4704070 TTGATATTTTAAATA
1 TTGATATTTTAAATA
4704085 TT
1 TT
4704087 TTATTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 2 0.08
14 1 0.04
15 20 0.80
16 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTGATATTTTAAATA
Found at i:4705213 original size:17 final size:17
Alignment explanation
Indices: 4705182--4705222 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4705172 ATGATTTATC
4705182 AATAAAATAATATTTTT
1 AATAAAATAATATTTTT
4705199 AATAGAAATAA-ATTTTT
1 AATA-AAATAATATTTTT
4705216 AA-AAAAT
1 AATAAAAT
4705223 TAAAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 1 0.04
17 12 0.52
18 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AATAAAATAATATTTTT
Found at i:4706710 original size:27 final size:28
Alignment explanation
Indices: 4706680--4706734 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4706670 AAATGAGAAA
*
4706680 GAAAT-AAAG-AAGTAAAAATATTTTTAT
1 GAAATCAAAGTAAATAAAAAT-TTTTTAT
*
4706707 GAAATCAAAGTAAATAAATATTTTTTAT
1 GAAATCAAAGTAAATAAAAATTTTTTAT
4706735 TTTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 11 0.46
29 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (28 bp):
GAAATCAAAGTAAATAAAAATTTTTTAT
Found at i:4706934 original size:18 final size:19
Alignment explanation
Indices: 4706911--4706950 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4706901 GTAAATCAAA
* *
4706911 TATTTTTA-TAAATTATTT
1 TATTTTTACAAAATTAATT
4706929 TATTTTTACAAAATTAATT
1 TATTTTTACAAAATTAATT
4706948 TAT
1 TAT
4706951 ATTATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTTACAAAATTAATT
Found at i:4708239 original size:22 final size:22
Alignment explanation
Indices: 4708207--4708249 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4708197 AATGCATGTC
*
4708207 GTCATTGTGTAGAAATATATTA
1 GTCATTATGTAGAAATATATTA
*
4708229 GTCATTATGTAGAACTATATT
1 GTCATTATGTAGAAATATATT
4708250 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (22 bp):
GTCATTATGTAGAAATATATTA
Found at i:4709531 original size:19 final size:18
Alignment explanation
Indices: 4709488--4709531 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
4709478 AACTCACTTA
*
4709488 AATACAAAATATAGTAAT
1 AATAAAAAATATAGTAAT
4709506 AACTAAAAAATATAGTAAT
1 AA-TAAAAAATATAGTAAT
4709525 GAATAAA
1 -AATAAA
4709532 TCATACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (18 bp):
AATAAAAAATATAGTAAT
Found at i:4709548 original size:17 final size:17
Alignment explanation
Indices: 4709526--4709559 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4709516 TATAGTAATG
*
4709526 AATAAATCATACAATAT
1 AATAAATAATACAATAT
4709543 AATAAATAATACAATAT
1 AATAAATAATACAATAT
4709560 TAACAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATAATACAATAT
Found at i:4709567 original size:17 final size:17
Alignment explanation
Indices: 4709534--4709582 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
4709524 TGAATAAATC
*
4709534 ATACAATA-TAATAAATA
1 ATACAATATTAA-CAATA
4709551 ATACAATATTAACAATA
1 ATACAATATTAACAATA
*
4709568 TTA-AA-ATTAACAATA
1 ATACAATATTAACAATA
4709583 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.34
16 2 0.07
17 14 0.48
18 3 0.10
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
ATACAATATTAACAATA
Found at i:4709572 original size:24 final size:25
Alignment explanation
Indices: 4709536--4709590 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
4709526 AATAAATCAT
4709536 ACAATATAATAAATAAT-ACAATATTA
1 ACAATAT-ATAAA-AATAACAATATTA
*
4709562 ACAATAT-TAAAATTAACAATATTA
1 ACAATATATAAAAATAACAATATTA
4709586 A-AATA
1 ACAATA
4709591 ATCATTATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
24 14 0.52
26 7 0.26
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (25 bp):
ACAATATATAAAAATAACAATATTA
Found at i:4709578 original size:15 final size:15
Alignment explanation
Indices: 4709558--4709589 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4709548 ATAATACAAT
4709558 ATTAACAATATTAAA
1 ATTAACAATATTAAA
4709573 ATTAACAATATTAAA
1 ATTAACAATATTAAA
4709588 AT
1 AT
4709590 AATCATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAACAATATTAAA
Found at i:4709705 original size:24 final size:25
Alignment explanation
Indices: 4709678--4709725 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4709668 AACTCCTAAC
4709678 CATTC-AAAACTG-TAAACTAAAAAT
1 CATTCGAAAA-TGATAAACTAAAAAT
4709702 CATTCGAAAATGATAAACTAAAAA
1 CATTCGAAAATGATAAACTAAAAA
4709726 AATAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (25 bp):
CATTCGAAAATGATAAACTAAAAAT
Found at i:4709776 original size:23 final size:21
Alignment explanation
Indices: 4709749--4709806 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
4709739 CTCGAGAATA
4709749 AAGAAAAAAATAATTAAAAAAAT
1 AAGAAAAAAATAA--AAAAAAAT
**
4709772 AAGAACTAAATAAAAAAAAAT
1 AAGAAAAAAATAAAAAAAAAT
*
4709793 -ATAAAAAAATAAAA
1 AAGAAAAAAATAAAA
4709807 GAATATTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.37
21 8 0.27
23 11 0.37
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (21 bp):
AAGAAAAAAATAAAAAAAAAT
Found at i:4709799 original size:30 final size:30
Alignment explanation
Indices: 4709743--4709804 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
4709733 AATTGACTCG
4709743 AGAATAAAGAAAAAAATAATTAAAAAAATA
1 AGAATAAAGAAAAAAATAATTAAAAAAATA
*
4709773 AGAACTAAATAAAAAAA-AATATAAAAAAATA
1 AGAA-TAAAGAAAAAAATAAT-TAAAAAAATA
4709804 A
1 A
4709805 AAGAATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (30 bp):
AGAATAAAGAAAAAAATAATTAAAAAAATA
Found at i:4710097 original size:49 final size:49
Alignment explanation
Indices: 4710018--4710111 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
4710008 CCACAATTGC
* *
4710018 TCTCTCCACTATAGTGAACATTCAAGTTCACTTTCATAACATTTGATGT
1 TCTCTCCACTATAGTGAACATCCAAATTCACTTTCATAACATTTGATGT
* *
4710067 TCTCTTCACTAT-GATGAACATCCAAATTCACTTTCATAATATTTG
1 TCTCTCCACTATAG-TGAACATCCAAATTCACTTTCATAACATTTG
4710112 GTGCTTATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (49 bp):
TCTCTCCACTATAGTGAACATCCAAATTCACTTTCATAACATTTGATGT
Found at i:4713559 original size:25 final size:25
Alignment explanation
Indices: 4713531--4713581 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4713521 AAAAAGTAAT
*
4713531 AAACATCTCTTATTTTCATAATTGA
1 AAACAACTCTTATTTTCATAATTGA
* * *
4713556 AAACAACTTTTTTTTTCATATTTGA
1 AAACAACTCTTATTTTCATAATTGA
4713581 A
1 A
4713582 CTTATTTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (25 bp):
AAACAACTCTTATTTTCATAATTGA
Found at i:4714038 original size:13 final size:13
Alignment explanation
Indices: 4714020--4714049 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4714010 TACTTTCTAG
*
4714020 AAAATAAAAATAA
1 AAAATAAAAACAA
4714033 AAAATAAAAACAA
1 AAAATAAAAACAA
4714046 AAAA
1 AAAA
4714050 CATTTTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAATAAAAACAA
Found at i:4714690 original size:99 final size:99
Alignment explanation
Indices: 4714497--4714694 Score: 238
Period size: 99 Copynumber: 2.0 Consensus size: 99
4714487 TATTGACAAC
* * * *
4714497 TAATGGCAGCACAAGAGACAAATACAAATATATAGCCTTGATACATAATACTAAATTGGGATGCC
1 TAATGGCAGCACAAGAAACAAATACAAACATATAGCCTTGATACATAATACTAAAATGAGATGCC
** * * *
4714562 AAAATAAGCGTACAGACCTAGAAAGCCTTAAACA
66 AAAATAAGAATACAAAACTAAAAAGCCTTAAACA
* * *
4714596 TAATGGCTGCACAATAAACAAATGA-AAACATATAGCCTTGATACAT-GTAGCTAAAATGAGATG
1 TAATGGCAGCACAAGAAACAAAT-ACAAACATATAGCCTTGATACATAATA-CTAAAATGAGATG
* *
4714659 CCAAAATGAGAATACAAAACTAAAAATCCTTAAACA
64 CCAAAATAAGAATACAAAACTAAAAAGCCTTAAACA
4714695 AAATATTACC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
98 2 0.02
99 80 0.96
100 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (99 bp):
TAATGGCAGCACAAGAAACAAATACAAACATATAGCCTTGATACATAATACTAAAATGAGATGCC
AAAATAAGAATACAAAACTAAAAAGCCTTAAACA
Found at i:4714872 original size:13 final size:13
Alignment explanation
Indices: 4714854--4714882 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4714844 TAACTTAGAT
4714854 AAAGTGATGCAGA
1 AAAGTGATGCAGA
4714867 AAAGTGATGCAGA
1 AAAGTGATGCAGA
4714880 AAA
1 AAA
4714883 CCAATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (13 bp):
AAAGTGATGCAGA
Found at i:4715949 original size:61 final size:62
Alignment explanation
Indices: 4715854--4715983 Score: 226
Period size: 61 Copynumber: 2.1 Consensus size: 62
4715844 TTCATCAATG
4715854 ATTTCATTATTAAGGCACATAAGTAGTAGAAATTAATGCTTTTTCCTTG-AATACAAATGCA
1 ATTTCATTATTAAGGCACATAAGTAGTAGAAATTAATGCTTTTTCCTTGTAATACAAATGCA
* * *
4715915 ATTTCATTATTAAGGTACTTAAGTAGTAGAAATTAATGCTTTTTCCTTGTAATATAAATGCA
1 ATTTCATTATTAAGGCACATAAGTAGTAGAAATTAATGCTTTTTCCTTGTAATACAAATGCA
4715977 ATTTCAT
1 ATTTCAT
4715984 ACAAATTGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
61 47 0.72
62 18 0.28
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (62 bp):
ATTTCATTATTAAGGCACATAAGTAGTAGAAATTAATGCTTTTTCCTTGTAATACAAATGCA
Found at i:4724420 original size:133 final size:134
Alignment explanation
Indices: 4724182--4724441 Score: 355
Period size: 133 Copynumber: 1.9 Consensus size: 134
4724172 ACTAAAACAC
* * *
4724182 TTGTTTACAACAACATTATCACATGAGAGCAAGAAAATATTGATACCCCATATAAGTCAATGGCA
1 TTGTTTACAACAACATTATCACATGAGAACAAGAAAATATTGACACCCCATATAAGTCAATAGCA
*
4724247 AAACTATTAATCCAGGGGCAAGTGCACTAAGCTACAATCAAAAGGTTAC-TTCAATAGTCATGTA
66 AAACCATTAATCCAGGGGCAAGTGCACTAAGCTACAATCAAAAGGTTACTTTCAATAGTCATGTA
4724311 TCTA
131 TCTA
* ** * *
4724315 TTGTTTACAACAACATTGTCACATGAGAACAA-ATAAATATTGACATTCCATATAATTCAATAGT
1 TTGTTTACAACAACATTATCACATGAGAACAAGA-AAATATTGACACCCCATATAAGTCAATAGC
* ** * *
4724379 AAAACCATTAGTCCA-TTGCTAAGTGCATTAGGCTACAATCAAAAGGTTACTTTCAATAGTCAT
65 AAAACCATTAATCCAGGGGC-AAGTGCACTAAGCTACAATCAAAAGGTTACTTTCAATAGTCAT
4724442 ATGCATCTAG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
132 3 0.03
133 95 0.86
134 12 0.11
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (134 bp):
TTGTTTACAACAACATTATCACATGAGAACAAGAAAATATTGACACCCCATATAAGTCAATAGCA
AAACCATTAATCCAGGGGCAAGTGCACTAAGCTACAATCAAAAGGTTACTTTCAATAGTCATGTA
TCTA
Found at i:4726626 original size:10 final size:10
Alignment explanation
Indices: 4726611--4726636 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4726601 ACCTCCCAAT
4726611 AAAAAATTAA
1 AAAAAATTAA
4726621 AAAAAATTAA
1 AAAAAATTAA
4726631 AAAAAA
1 AAAAAA
4726637 CAACTGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:4726787 original size:22 final size:21
Alignment explanation
Indices: 4726732--4726788 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
4726722 AAAGATTCAT
*
4726732 TTAATAAATATTATATTTATA
1 TTAATAAATAATATATTTATA
4726753 TATAATAAA-AATATAATTTATAA
1 T-TAATAAATAATAT-ATTTAT-A
4726776 TTAA-AAATAATAT
1 TTAATAAATAATAT
4726789 TCATTCTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.26
22 21 0.68
23 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAATAAATAATATATTTATA
Found at i:4727564 original size:15 final size:14
Alignment explanation
Indices: 4727536--4727565 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4727526 ATTTGTTTCG
*
4727536 TGAAAAATGATTTT
1 TGAAAAATAATTTT
4727550 TGAAAAATAATTTT
1 TGAAAAATAATTTT
4727564 TG
1 TG
4727566 TATTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TGAAAAATAATTTT
Found at i:4727770 original size:18 final size:18
Alignment explanation
Indices: 4727747--4727986 Score: 99
Period size: 18 Copynumber: 13.8 Consensus size: 18
4727737 ATTTTACTTG
4727747 TAAATAATATTATATTAA
1 TAAATAATATTATATTAA
*
4727765 TAAATAA-ATAATATT-A
1 TAAATAATATTATATTAA
*
4727781 T--AT--TA-CA-ATTAA
1 TAAATAATATTATATTAA
* *
4727793 TAAATAATATTCTATGAA
1 TAAATAATATTATATTAA
4727811 TAAATAATA-TACTATTAA
1 TAAATAATATTA-TATTAA
4727829 T--AT-A-A-TATATTAA
1 TAAATAATATTATATTAA
*
4727842 TAAA-AATAATTAGA--AA
1 TAAATAAT-ATTATATTAA
* * *
4727858 TAATATTATAATCTATTAA
1 TAA-ATAATATTATATTAA
* *
4727877 TAAATAAAATTATATTGA
1 TAAATAATATTATATTAA
*
4727895 TAAATAA-A--ATAATAA
1 TAAATAATATTATATTAA
*
4727910 TAAATATTATTAATTTAATTAA
1 TAAATAATATT-A--T-ATTAA
*
4727932 TAAATATTATTATAGTATATGAA
1 TAAATA--A-TAT--TATATTAA
4727955 TAAATAATA-TATTATTAA
1 TAAATAATATTA-TATTAA
4727973 TAAATAATATTATA
1 TAAATAATATTATA
4727987 ATATACTAAT
Statistics
Matches: 165, Mismatches: 24, Indels: 66
0.65 0.09 0.26
Matches are distributed among these distances:
11 3 0.02
12 3 0.02
13 8 0.05
14 7 0.04
15 14 0.08
16 12 0.07
17 16 0.10
18 64 0.39
19 8 0.05
20 2 0.01
21 2 0.01
22 10 0.06
23 10 0.06
24 1 0.01
25 3 0.02
26 1 0.01
27 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAATAATATTATATTAA
Found at i:4727799 original size:24 final size:22
Alignment explanation
Indices: 4727747--4728007 Score: 122
Period size: 22 Copynumber: 11.3 Consensus size: 22
4727737 ATTTTACTTG
4727747 TAAATAATATTATATTAATAAA
1 TAAATAATATTATATTAATAAA
*
4727769 TAAATAATATTATATTACAATTAA
1 TAAATAATATTATATT--AATAAA
* *
4727793 TAAATAATATTCTATGAATAAA
1 TAAATAATATTATATTAATAAA
* *
4727815 TAATATACTATTA-ATATAATATA
1 TAA-ATAATATTATAT-TAATAAA
* * * *
4727838 TTAATAAAAATA-ATT-AGAAA
1 TAAATAATATTATATTAATAAA
* * *
4727858 TAATATTATAATCTATTAATAAA
1 TAA-ATAATATTATATTAATAAA
*
4727881 TAAAATTATATTGATA--AATAAA
1 T-AAATAATATT-ATATTAATAAA
* *
4727903 -ATAATAATAAATATTATTAATTTAA
1 TA-AATAAT-ATTA-TATTAA-TAAA
* *
4727928 TTAATAAATATTATTATAGTATATGAA
1 TAAAT-AATATTA-TAT--TA-ATAAA
4727955 TAAATAATA-TATTATTAATAAA
1 TAAATAATATTA-TATTAATAAA
* * *
4727977 TAATATTATAATATACTAATAAA
1 TAA-ATAATATTATATTAATAAA
4728000 TAATATAA
1 TAA-ATAA
4728008 AGAATAATAA
Statistics
Matches: 185, Mismatches: 32, Indels: 43
0.71 0.12 0.17
Matches are distributed among these distances:
20 6 0.03
21 13 0.07
22 54 0.29
23 49 0.26
24 27 0.15
25 19 0.10
26 7 0.04
27 9 0.05
28 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATAATATTATATTAATAAA
Found at i:4727934 original size:84 final size:85
Alignment explanation
Indices: 4727770--4727923 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 85
4727760 ATTAATAAAT
* * * *
4727770 AAATAATATTATATTACAATTAATAAATAATATTCTATGAATAAATAATATACTATTAATATAAT
1 AAATAATATTATAATACAATTAATAAATAAAATTATATGAATAAATAATATACTAATAATATAAT
4727835 ATATTAATAAAAATAATTAG
66 ATATTAATAAAAATAATTAG
*
4727855 AAATAATATTATAAT-CTATTAATAAATAAAATTATATTG-ATAAATAA-A-A-TAATAATA-AA
1 AAATAATATTATAATACAATTAATAAATAAAATTATA-TGAATAAATAATATACTAATAATATAA
4727914 TATTATTAAT
65 TA-TATTAAT
4727924 TTAATTAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
80 4 0.06
81 14 0.23
82 1 0.02
83 1 0.02
84 26 0.42
85 16 0.26
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (85 bp):
AAATAATATTATAATACAATTAATAAATAAAATTATATGAATAAATAATATACTAATAATATAAT
ATATTAATAAAAATAATTAG
Found at i:4727984 original size:41 final size:41
Alignment explanation
Indices: 4727927--4728006 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
4727917 TATTAATTTA
* *
4727927 ATTAATAAATATTATTATAGTATA-TGAATAAATAATATATT
1 ATTAATAAATAATATTATAATATACT-AATAAATAATATATT
4727968 ATTAATAAATAATATTATAATATACTAATAAATAATATA
1 ATTAATAAATAATATTATAATATACTAATAAATAATATA
4728007 AAGAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (41 bp):
ATTAATAAATAATATTATAATATACTAATAAATAATATATT
Found at i:4728077 original size:18 final size:19
Alignment explanation
Indices: 4728042--4728077 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4728032 AGTATTTTTT
4728042 ATATTAACATAATATTGTA
1 ATATTAACATAATATTGTA
*
4728061 ATATTAA-ATATTATTGT
1 ATATTAACATAATATTGT
4728078 TAAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
ATATTAACATAATATTGTA
Found at i:4728165 original size:25 final size:25
Alignment explanation
Indices: 4728100--4728166 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
4728090 ATTTTTTAAG
*
4728100 TTTAATGATTTTAATAATGAATAATT
1 TTTAAT-ATTTTAATAATAAATAATT
** *
4728126 TCAATATATTTTAATCATAAATAATT
1 TTTA-ATATTTTAATAATAAATAATT
4728152 TTTAATATTTTAATA
1 TTTAATATTTTAATA
4728167 GTTATATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 10 0.30
26 21 0.64
27 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTAATATTTTAATAATAAATAATT
Found at i:4729914 original size:25 final size:25
Alignment explanation
Indices: 4729886--4729959 Score: 112
Period size: 25 Copynumber: 2.9 Consensus size: 25
4729876 TATTAAGCTT
4729886 AAGCTCGAATTTAATTTAAAATTCG
1 AAGCTCGAATTTAATTTAAAATTCG
4729911 AAGCTCGAATTTAATTTAAAATTCG
1 AAGCTCGAATTTAATTTAAAATTCG
* * *
4729936 AAACTCGAAACTTGATTTAAAATT
1 AAGCTCG-AATTTAATTTAAAATT
4729960 AATCGAGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 31 0.69
26 14 0.31
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (25 bp):
AAGCTCGAATTTAATTTAAAATTCG
Found at i:4731062 original size:40 final size:40
Alignment explanation
Indices: 4730997--4731076 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
4730987 AGAATGCATT
4730997 ATTCACAATAGCATACACAAGTCATACCAAATCTCAGACA
1 ATTCACAATAGCATACACAAGTCATACCAAATCTCAGACA
* * *
4731037 ATTCACAATAGCCTAC-CCAGTTCATATCAAATCTCAGACA
1 ATTCACAATAGCATACACAAG-TCATACCAAATCTCAGACA
4731077 TTTAGAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.41, C:0.29, G:0.07, T:0.23
Consensus pattern (40 bp):
ATTCACAATAGCATACACAAGTCATACCAAATCTCAGACA
Found at i:4735813 original size:16 final size:17
Alignment explanation
Indices: 4735786--4735818 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4735776 TAAAATTTTT
4735786 AATTATTTTTTTGAAAA
1 AATTATTTTTTTGAAAA
4735803 AATTATTTTTTT-AAAA
1 AATTATTTTTTTGAAAA
4735819 TTAAAAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AATTATTTTTTTGAAAA
Found at i:4737895 original size:16 final size:16
Alignment explanation
Indices: 4737876--4737921 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
4737866 TAATATATCT
4737876 TTAACAATTGGTATTC
1 TTAACAATTGGTATTC
4737892 TTAACAATTGGTATTC
1 TTAACAATTGGTATTC
4737908 TTAACAATTGGTAT
1 TTAACAATTGGTAT
4737922 GAGCTTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (16 bp):
TTAACAATTGGTATTC
Found at i:4738578 original size:17 final size:17
Alignment explanation
Indices: 4738556--4738608 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
4738546 TTAATTCTAT
4738556 TAATAAAAAGATAAAAA
1 TAATAAAAAGATAAAAA
4738573 TAATAAAAA-ATAGAAAA
1 TAATAAAAAGATA-AAAA
* *
4738590 TGAGAAAAACGA-AAAAA
1 TAATAAAAA-GATAAAAA
4738607 TA
1 TA
4738609 GGTGTTGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.10
17 25 0.83
18 1 0.03
19 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (17 bp):
TAATAAAAAGATAAAAA
Found at i:4739343 original size:31 final size:32
Alignment explanation
Indices: 4739307--4739367 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
4739297 TTTTATTCTT
*
4739307 TAATTGATTGCTTATTCA-TTTGTTTTATGCA
1 TAATTGATTACTTATTCACTTTGTTTTATGCA
* *
4739338 TAATTGTTTATTTATTCACTTTGTTTTATG
1 TAATTGATTACTTATTCACTTTGTTTTATG
4739368 GTTTTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.59
Consensus pattern (32 bp):
TAATTGATTACTTATTCACTTTGTTTTATGCA
Found at i:4744206 original size:15 final size:15
Alignment explanation
Indices: 4744168--4744210 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4744158 TAATATAGTT
* *
4744168 ATGTATAAATTTATA
1 ATGTATACATTAATA
4744183 ATTGT-TACATTAATA
1 A-TGTATACATTAATA
4744198 ATGTATACATTAA
1 ATGTATACATTAA
4744211 AATTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (15 bp):
ATGTATACATTAATA
Found at i:4744861 original size:29 final size:29
Alignment explanation
Indices: 4744817--4744900 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
4744807 ATGTAGCTCC
4744817 TATTTATTCATGTATATTAGTGTTATTCA
1 TATTTATTCATGTATATTAGTGTTATTCA
* * * *
4744846 TATTTATTCTTATATATCAATGTTATTCA
1 TATTTATTCATGTATATTAGTGTTATTCA
*
4744875 TGTTTATTCATGTATATTAGTGTTAT
1 TATTTATTCATGTATATTAGTGTTAT
4744901 CAGTGTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (29 bp):
TATTTATTCATGTATATTAGTGTTATTCA
Found at i:4744886 original size:10 final size:10
Alignment explanation
Indices: 4744819--4744892 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
4744809 GTAGCTCCTA
4744819 TTTATTCATG
1 TTTATTCATG
*
4744829 TATATT-A-G
1 TTTATTCATG
*
4744837 TGTTATTCATA
1 T-TTATTCATG
4744848 TTTATTC-T-
1 TTTATTCATG
*
4744856 TATATATCAATG
1 TTTAT-TC-ATG
4744868 -TTATTCATG
1 TTTATTCATG
4744877 TTTATTCATG
1 TTTATTCATG
*
4744887 TATATT
1 TTTATT
4744893 AGTGTTATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
8 6 0.12
9 11 0.22
10 28 0.56
11 5 0.10
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (10 bp):
TTTATTCATG
Found at i:4746540 original size:28 final size:28
Alignment explanation
Indices: 4746509--4746565 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4746499 CAATCGTTCT
4746509 ATTTTAGTTTGATTATCTTCAATTATTA
1 ATTTTAGTTTGATTATCTTCAATTATTA
4746537 ATTTTAGTTTGATTATCTTCAATTATTA
1 ATTTTAGTTTGATTATCTTCAATTATTA
4746565 A
1 A
4746566 AAATAGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (28 bp):
ATTTTAGTTTGATTATCTTCAATTATTA
Found at i:4746576 original size:28 final size:28
Alignment explanation
Indices: 4746517--4746578 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
4746507 CTATTTTAGT
*** *
4746517 TTGATTATCTTCAATTATTAATTTTAGT
1 TTGATTATCTTCAATTATTAAAAATAGA
4746545 TTGATTATCTTCAATTATTAAAAATAGA
1 TTGATTATCTTCAATTATTAAAAATAGA
4746573 TTGATT
1 TTGATT
4746579 GATTTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (28 bp):
TTGATTATCTTCAATTATTAAAAATAGA
Found at i:4746911 original size:18 final size:18
Alignment explanation
Indices: 4746866--4746915 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
4746856 CACCCGACCC
*
4746866 TATATATATGTATAAAAT
1 TATATATATTTATAAAAT
* * **
4746884 TTTATTTATTTATTTAAT
1 TATATATATTTATAAAAT
4746902 TATATATATTTATA
1 TATATATATTTATA
4746916 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATATTTATAAAAT
Found at i:4747251 original size:18 final size:18
Alignment explanation
Indices: 4747219--4747269 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
4747209 TATTTTTTAT
* *
4747219 TATTTATTTAATTATATA
1 TATTTATATATTTATATA
*
4747237 TATTTATATATTTATTTA
1 TATTTATATATTTATATA
*
4747255 -AGTT-TATATTTATAT
1 TATTTATATATTTATAT
4747270 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 10 0.36
17 3 0.11
18 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTATATATTTATATA
Found at i:4747304 original size:20 final size:19
Alignment explanation
Indices: 4747258--4747316 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
4747248 TTATTTAAGT
4747258 TTATATTTATATTTTAAAAA
1 TTAT-TTTATATTTTAAAAA
4747278 TTATTTTATA-TTTAAAAA
1 TTATTTTATATTTTAAAAA
4747296 TAATATTTTATTAATTTTAAA
1 T--TATTTTA-T-ATTTTAAA
4747317 TGAATCTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 11 0.32
21 1 0.03
22 1 0.03
23 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTTTATATTTTAAAAA
Found at i:4747307 original size:18 final size:19
Alignment explanation
Indices: 4747260--4747307 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
4747250 ATTTAAGTTT
*
4747260 ATATTTATATTTTAAAAATT
1 ATATTTATA-TTTAAAAATA
4747280 AT-TTTATATTTAAAAATA
1 ATATTTATATTTAAAAATA
4747298 ATATTT-TATT
1 ATATTTATATT
4747308 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 15 0.58
19 9 0.35
20 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTATATTTAAAAATA
Found at i:4751401 original size:26 final size:26
Alignment explanation
Indices: 4751349--4751401 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4751339 GTGATATCAT
*
4751349 AAAAATTTTATAAAAAAATCTAAAAA
1 AAAAATTTTATAAAAAAATATAAAAA
*
4751375 AAAAATTATT-TAAAAAAA-ATAACAA
1 AAAAATT-TTATAAAAAAATATAAAAA
4751400 AA
1 AA
4751402 TCTAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 15 0.62
27 2 0.08
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTTTATAAAAAAATATAAAAA
Found at i:4752186 original size:22 final size:22
Alignment explanation
Indices: 4752137--4752191 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4752127 AATTAAAATT
* *
4752137 TTATATGATATGTACATAATGC
1 TTATAAGATATGTACATAATAC
* * *
4752159 TCATAAGATGTGTACATAGTAC
1 TTATAAGATATGTACATAATAC
4752181 TTATAAGATAT
1 TTATAAGATAT
4752192 ATATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
TTATAAGATATGTACATAATAC
Found at i:4752367 original size:41 final size:38
Alignment explanation
Indices: 4752317--4752398 Score: 128
Period size: 41 Copynumber: 2.1 Consensus size: 38
4752307 TACAAAATGC
4752317 TTTTGGGACATGTATATTGTACTTATATAGGATATATAGCA
1 TTTTGGGACATGTATATTGTAC-T-TATAGGATATATA-CA
*
4752358 TTTTGGGACATGTATATTTTACTTATAGGATATATACA
1 TTTTGGGACATGTATATTGTACTTATAGGATATATACA
4752396 TTT
1 TTT
4752399 AGATGTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 5 0.12
39 13 0.32
40 1 0.03
41 21 0.52
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (38 bp):
TTTTGGGACATGTATATTGTACTTATAGGATATATACA
Found at i:4771254 original size:27 final size:27
Alignment explanation
Indices: 4771224--4771277 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4771214 TTGTTTGTGG
4771224 ATTGCCTTATAGTTTTAAAGTTTTTGT
1 ATTGCCTTATAGTTTTAAAGTTTTTGT
*
4771251 ATTGCCTTGTAGTTTTAAAGTTTTTGT
1 ATTGCCTTATAGTTTTAAAGTTTTTGT
4771278 TTAAGGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (27 bp):
ATTGCCTTATAGTTTTAAAGTTTTTGT
Found at i:4777463 original size:21 final size:21
Alignment explanation
Indices: 4777439--4777483 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4777429 ATTTGAAATG
*
4777439 AAAATTTTA-TTAAAATAATA
1 AAAAATTTACTTAAAATAATA
**
4777459 AAAAATTTACTTTTAATAATA
1 AAAAATTTACTTAAAATAATA
4777480 AAAA
1 AAAA
4777484 TAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTTACTTAAAATAATA
Found at i:4778853 original size:13 final size:13
Alignment explanation
Indices: 4778832--4778866 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4778822 ATAACAAATG
4778832 ATATATAAAGAAC
1 ATATATAAAGAAC
*
4778845 ATATCTAAAGAAC
1 ATATATAAAGAAC
4778858 ATATATAAA
1 ATATATAAA
4778867 AGCATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:4795316 original size:20 final size:21
Alignment explanation
Indices: 4795283--4795339 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
4795273 AGCTTTATTT
* *
4795283 TTTTTTTTGGATTTTTAG-GTA
1 TTTTTTTAGTATTTTT-GTGTA
*
4795304 -TTTTTTAGTA-TTTTGTTTA
1 TTTTTTTAGTATTTTTGTGTA
4795323 TTTTTTTAGTATTTTTG
1 TTTTTTTAGTATTTTTG
4795340 CATGATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 18 0.60
21 5 0.17
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (21 bp):
TTTTTTTAGTATTTTTGTGTA
Found at i:4796014 original size:56 final size:55
Alignment explanation
Indices: 4795925--4796043 Score: 186
Period size: 56 Copynumber: 2.1 Consensus size: 55
4795915 ATTTTCTTTC
*
4795925 AAAAATAAAAAAAAATTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATTAAAA
1 AAAAAT-AAAAAAAATTCTAAATAGACCTAAATGGTGAAAAATTTAGAAATTAAAA
*
4795981 AAGAAATAAAAAAATTTCTAAATAGAGCC-AAATGGTGAAAAATTTAGAAATTAAAA
1 AA-AAATAAAAAAAATTCTAAATAGA-CCTAAATGGTGAAAAATTTAGAAATTAAAA
4796037 AAAAATA
1 AAAAATA
4796044 TTTTTAATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
55 5 0.08
56 48 0.81
57 6 0.10
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (55 bp):
AAAAATAAAAAAAATTCTAAATAGACCTAAATGGTGAAAAATTTAGAAATTAAAA
Found at i:4800046 original size:17 final size:16
Alignment explanation
Indices: 4800020--4800055 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4800010 TGAAAGAATG
*
4800020 AAAGAAAAAAATGAAA
1 AAAGAAAAAAATCAAA
4800036 AAAGAAAAAAAATCAAA
1 AAAG-AAAAAAATCAAA
4800053 AAA
1 AAA
4800056 TAGGAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAAATCAAA
Found at i:4801403 original size:21 final size:21
Alignment explanation
Indices: 4801370--4801423 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4801360 TGTTGAATGT
* *
4801370 GAATATTTAAATTTCAAATAA
1 GAATCTTTGAATTTCAAATAA
*
4801391 GAATCTTTGAATTTCAAATGA
1 GAATCTTTGAATTTCAAATAA
4801412 GAATCTTTGAAT
1 GAATCTTTGAAT
4801424 CTTTGAGGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (21 bp):
GAATCTTTGAATTTCAAATAA
Found at i:4801487 original size:87 final size:88
Alignment explanation
Indices: 4801315--4801506 Score: 203
Period size: 87 Copynumber: 2.2 Consensus size: 88
4801305 ATTTTGGAGT
* * * * *
4801315 TTTCAAATAAGAATCTTTGAATTTTTGAGGTGTGAACCTAAAATTTGTTGAATGTGAATATTTAA
1 TTTCAAATGAGAATCTTTGAATCTTTGAGGCGTGAACCTAAAATTTGTCGAATGTGAATATTCAA
* *
4801380 ATTTCAAATAAGAATCTTTGAA-
66 ATCTAAAATAAGAATCTTTGAAC
* *
4801402 TTTCAAATGAGAATCTTTGAATCTTTGAGGCGTGAAACCCTAAAGTTTGTCGAATGTGAATCTTC
1 TTTCAAATGAGAATCTTTGAATCTTTGAGGCGTG-AA-CCTAAAATTTGTCGAATGTGAATATTC
* *
4801467 GAA-CTAAAATGAA-AGT-TTTGAAC
64 AAATCTAAAAT-AAGAATCTTTGAAC
***
4801490 TTTTGGATGAGAATCTT
1 TTTCAAATGAGAATCTT
4801507 CAAAATTTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
87 37 0.43
88 23 0.26
89 27 0.31
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (88 bp):
TTTCAAATGAGAATCTTTGAATCTTTGAGGCGTGAACCTAAAATTTGTCGAATGTGAATATTCAA
ATCTAAAATAAGAATCTTTGAAC
Found at i:4801536 original size:43 final size:42
Alignment explanation
Indices: 4801473--4801561 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 42
4801463 CTTCGAACTA
* *
4801473 AAATGAAAGTTTTGAACTTTTGGATGAGAATCTTCAAAATTT
1 AAATGAAAGCTTAGAACTTTTGGATGAGAATCTTCAAAATTT
* * *
4801515 AAATGAAAAGCTTAGAACTTTTGGATGTGAATCTTGAAAGTTT
1 AAATG-AAAGCTTAGAACTTTTGGATGAGAATCTTCAAAATTT
4801558 AAAT
1 AAAT
4801562 AAGAATCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGAAAGCTTAGAACTTTTGGATGAGAATCTTCAAAATTT
Found at i:4801874 original size:42 final size:42
Alignment explanation
Indices: 4801809--4802417 Score: 556
Period size: 42 Copynumber: 14.2 Consensus size: 42
4801799 CAATGAGCCT
* * *
4801809 TTTA-TTTTTCAAAGTTATGGTTGCCTCTATTTAAAGGAGTAA
1 TTTATTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAA
*
4801851 TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGATCAA
1 TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
*
4801893 TTTATTTTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGC-A
1 TTTA-TTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAA
* * * *
4801936 TTT-TGTTTTTCAAAGTTGTGTTGTGTTGCTTTTATTTAGATGAGTAA
1 TTTAT-TTTTTCAAA-----GTTGTGTTGCCTCTATTTAGAGGAGCAA
* *
4801983 TTTATTTTTCCAAAGTTGTGTTCCCTCTATTTAGAGGAGCAA
1 TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
* *
4802025 TTTATTTTTTCAAAGTTGTGATTGCTTCTATTTAGAGGAGTAA
1 TTTATTTTTTCAAAGTTGTG-TTGCCTCTATTTAGAGGAGCAA
*
4802068 TTT-TATTTTTCAAAGTTGTGTTGTGTTGTCTCTATTTAGAGGAGCAA
1 TTTAT-TTTTTCAAA-----GTTGTGTTGCCTCTATTTAGAGGAGCAA
* * * *
4802115 TTTATTTTTTCAAAGTTATGGTTGCTTCTATTTAGAAGAGCAT
1 TTTATTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAA
* * * * *
4802158 TTTA-TTTTCCAAAGTTATGGTTACCTCTATTTAGAAGAGCAT
1 TTTATTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAA
* * * * *
4802200 TTTATTTTTTTAAATTTGTGATTGCCTCTATTTAAAAGAGCAT
1 TTTATTTTTTCAAAGTTGTG-TTGCCTCTATTTAGAGGAGCAA
* *
4802243 TTTA-TTTTTCAAAGTTGTGTTGCCTTTATTTAGAGGAGCAT
1 TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
* *
4802284 TTTA-TTTTTCAAAGTTATGGTTGCCTCTGTTTAGAGGAGC-A
1 TTTATTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAA
* * * ** *
4802325 TTT-TTTATCCAAAGTTGTGGTGCCTCTATTTA-ATAAGCAT
1 TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
* * *
4802365 TTTATTTTTTCAAAGTGGTGGGGTGGGCCTCTGTTTAGAGGAG-AA
1 TTTATTTTTTCAAAGT--T-GTGT-TGCCTCTATTTAGAGGAGCAA
4802410 TTTATTTT
1 TTTATTTT
4802418 CAAGTTGGTA
Statistics
Matches: 473, Mismatches: 63, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.01
40 15 0.03
41 61 0.13
42 156 0.33
43 121 0.26
44 21 0.04
45 19 0.04
46 20 0.04
47 48 0.10
48 8 0.02
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
Found at i:4802071 original size:132 final size:129
Alignment explanation
Indices: 4801828--4802417 Score: 605
Period size: 132 Copynumber: 4.6 Consensus size: 129
4801818 CAAAGTTATG
* * *
4801828 GTTGCCTCTATTTAAAGGAGTAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGATCAA
1 GTTGCTTCTATTTAAAGGAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
*
4801893 TTTATTTTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTGTTTTTCAAAGTTGTGTT
66 TTTA--TTTTTCAAAGTTATGGTTGCCTCTATTTAGAAGAGCATTTT-TTTTTCAAAGTTGTGTT
4801958 GT
128 GT
* * * * * *
4801960 GTTGCTTTTATTTAGATGAGTAATTTATTTTTCCAAAGTTGTGTTCCCTCTATTTAGAGGAGCAA
1 GTTGCTTCTATTTAAAGGAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
* * * * *
4802025 TTTATTTTTTCAAAGTTGTGATTGCTTCTATTTAGAGGAGTAATTTTATTTTTCAAAGTTGTGTT
66 TTTA-TTTTTCAAAGTTATGGTTGCCTCTATTTAGAAGAG-CATTTT-TTTTTCAAAGTTGTGTT
4802090 GT
128 GT
* * * *
4802092 GTTG-TCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCTTCTATTTAGAAGAGC
1 GTTGCT-TCTATTTAAAGGAGCAATTTATTTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGC
* * * *
4802156 ATTTTATTTTCCAAAGTTATGGTTACCTCTATTTAGAAGAGCATTTTATTTTTTTAAA-TT-TG-
64 AATTTATTTTTCAAAGTTATGGTTGCCTCTATTTAGAAGAGCA-TTT-TTTTTTCAAAGTTGTGT
4802218 TG-
127 TGT
* * * * * *
4802220 ATTGCCTCTATTTAAAAGAGCATTTTA-TTTTTCAAAGTTGTGTTGCCTTTATTTAGAGGAGCAT
1 GTTGCTTCTATTTAAAGGAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
* * * *
4802284 TTTATTTTTCAAAGTTATGGTTGCCTCTGTTTAGAGGAGCATTTTTTATCCAAAG-T-TG-TG-
66 TTTATTTTTCAAAGTTATGGTTGCCTCTATTTAGAAGAGCATTTTTTTTTCAAAGTTGTGTTGT
* * * * *
4802344 G-TGCCTCTATTTAATA--AGCATTTTATTTTTTCAAAGTGGTGGGGTGGGCCTCTGTTTAGAGG
1 GTTGCTTCTATTTAA-AGGAGCAATTTATTTTTTCAAAGT--T-GTGT-TGCCTCTATTTAGAGG
4802406 AG-AATTTATTTT
61 AGCAATTTATTTT
4802418 CAAGTTGGTA
Statistics
Matches: 394, Mismatches: 51, Indels: 32
0.83 0.11 0.07
Matches are distributed among these distances:
122 9 0.02
123 24 0.06
124 13 0.03
125 4 0.01
126 69 0.18
127 28 0.07
128 21 0.05
129 2 0.01
130 2 0.01
131 37 0.09
132 161 0.41
133 24 0.06
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.47
Consensus pattern (129 bp):
GTTGCTTCTATTTAAAGGAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAA
TTTATTTTTCAAAGTTATGGTTGCCTCTATTTAGAAGAGCATTTTTTTTTCAAAGTTGTGTTGT
Found at i:4802082 original size:85 final size:84
Alignment explanation
Indices: 4801808--4802456 Score: 602
Period size: 85 Copynumber: 7.6 Consensus size: 84
4801798 TCAATGAGCC
* * *
4801808 TTTTATTTTTCAAAGTTATGGTTGCCTCTATTTAAAGGAGTAATTTATTTTTTCAAAGTTGT-GT
1 TTTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGT
*
4801872 TGCCTCTATTTAGAGGATCAA
65 TGCCTCTATTTAGAGGA-GAA
* *
4801893 TTTATTTTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGC-ATTT-TGTTTTTCAAAGTTGTG
1 TTT-TATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAATTTAT-TTTTTCAAAG-T-TG
* * *
4801956 TTGTGTTGCTTTTATTTAGATGAGTAA
61 -TG-GTTGCCTCTATTTAGAGGAG-AA
* *
4801983 -TTTATTTTTCCAAAGTTGTGTTCCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGAT
1 TTTTATTTTT-CAAAGTTGTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGT
*
4802047 TGCTTCTATTTAGAGGAGTAA
65 TGCCTCTATTTAGAGGAG-AA
* *
4802068 TTTTATTTTTCAAAGTTGTGTTGTGTTGTCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTA
1 TTTTATTTTTCAAA-----GTTGTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTG
* * *
4802133 TGGTTGCTTCTATTTAGAAGAGCA
61 TGGTTGCCTCTATTTAGAGGAGAA
* * * * * * * *
4802157 TTTTATTTTCCAAAGTTATGGTTACCTCTATTTAGAAGAGCATTTTATTTTTTTAAATTTGTGAT
1 TTTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGT
* * *
4802222 TGCCTCTATTTAAAAGAGCA
65 TGCCTCTATTTAGAGGAGAA
* * *
4802242 TTTTATTTTTCAAAGTTGTGTTGCCTTTATTTAGAGGAGCATTTTA-TTTTTCAAAGTTATGGTT
1 TTTTATTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTT
* *
4802306 GCCTCTGTTTAGAGGAGCA
66 GCCTCTATTTAGAGGAGAA
* * * ** * *
4802325 TTTT-TTATCCAAAGTTGTGGTGCCTCTATTTA-ATAAGCATTTTATTTTTTCAAAGTGGTGGGG
1 TTTTATTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGT--TGTGG
* *
4802388 TGGGCCTCTGTTTAGAGGAGAA
64 T-TGCCTCTATTTAGAGGAGAA
* * *
4802410 -TTTA-TTTTC-AAGTTG-GTAGTGCCGCTGTTTAGAGGAGC-TTTTATTTT
1 TTTTATTTTTCAAAGTTGTGT--TGCCTCTATTTAGAGGAGCAATTTATTTT
4802457 ATTTCTTTCT
Statistics
Matches: 476, Mismatches: 62, Indels: 53
0.81 0.10 0.09
Matches are distributed among these distances:
81 10 0.02
82 36 0.08
83 40 0.08
84 58 0.12
85 135 0.28
86 45 0.09
87 4 0.01
88 27 0.06
89 39 0.08
90 82 0.17
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.47
Consensus pattern (84 bp):
TTTTATTTTTCAAAGTTGTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTT
GCCTCTATTTAGAGGAGAA
Found at i:4803559 original size:26 final size:26
Alignment explanation
Indices: 4803525--4803574 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
4803515 AGCTATATTT
*
4803525 TTTTCTTTTTTATTTA-TTTTTTTGTA
1 TTTTCTTTTTT-TTTAGTATTTTTGTA
*
4803551 TTTTGTTTTTTTTTAGTATTTTTG
1 TTTTCTTTTTTTTTAGTATTTTTG
4803575 ATAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (26 bp):
TTTTCTTTTTTTTTAGTATTTTTGTA
Found at i:4803561 original size:15 final size:14
Alignment explanation
Indices: 4803520--4803562 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
4803510 CATCGAGCTA
*
4803520 TATTTTTTTCTTTTT
1 TATTTTTTT-TTTTG
*
4803535 TATTTATTTTTTTG
1 TATTTTTTTTTTTG
4803549 TATTTTGTTTTTTT
1 TATTTT-TTTTTTT
4803563 TTAGTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (14 bp):
TATTTTTTTTTTTG
Found at i:4803562 original size:18 final size:19
Alignment explanation
Indices: 4803520--4803572 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
4803510 CATCGAGCTA
* *
4803520 TATTTTTTTCTTTTTTATT
1 TATTTTTTTGTATTTTATT
*
4803539 TATTTTTTTGTATTTTGTT
1 TATTTTTTTGTATTTTATT
*
4803558 T-TTTTTTAGTATTTT
1 TATTTTTTTGTATTTT
4803573 TGATAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (19 bp):
TATTTTTTTGTATTTTATT
Found at i:4803805 original size:9 final size:9
Alignment explanation
Indices: 4803776--4803824 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
4803766 ATTTATTTTC
*
4803776 AAAACAAAA
1 AAAATAAAA
*
4803785 AAAAGAAGAA
1 AAAATAA-AA
4803795 AAAATAAAA
1 AAAATAAAA
4803804 AAAATATAAA
1 AAAATA-AAA
4803814 AAACATAAAA
1 AAA-ATAAAA
4803824 A
1 A
4803825 TATAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 14 0.40
10 18 0.51
11 3 0.09
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.08
Consensus pattern (9 bp):
AAAATAAAA
Found at i:4803814 original size:17 final size:18
Alignment explanation
Indices: 4803794--4803833 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4803784 AAAAAGAAGA
4803794 AAAAATA-AAAAAAATAT
1 AAAAATACAAAAAAATAT
*
4803811 AAAAA-ACATAAAAATAT
1 AAAAATACAAAAAAATAT
4803828 AAAAAT
1 AAAAAT
4803834 TTTGAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACAAAAAAATAT
Found at i:4803832 original size:9 final size:9
Alignment explanation
Indices: 4803793--4803832 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
4803783 AAAAAAGAAG
*
4803793 AAAAAATAA
1 AAAAAATAT
4803802 AAAAAATAT
1 AAAAAATAT
*
4803811 AAAAAACAT
1 AAAAAATAT
4803820 -AAAAATAT
1 AAAAAATAT
4803828 AAAAA
1 AAAAA
4803833 TTTTGAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAATAT
Found at i:4804678 original size:31 final size:31
Alignment explanation
Indices: 4804643--4804704 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4804633 AAAAATACAA
4804643 GCTATTTGATTAGTTATTAAGTTTTATTCTT
1 GCTATTTGATTAGTTATTAAGTTTTATTCTT
4804674 GCTATTTGATTAGTTATTAAGTTTTATTCTT
1 GCTATTTGATTAGTTATTAAGTTTTATTCTT
4804705 ACTCTTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (31 bp):
GCTATTTGATTAGTTATTAAGTTTTATTCTT
Found at i:4806092 original size:19 final size:19
Alignment explanation
Indices: 4806060--4806097 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4806050 TCCTTCGTAT
4806060 TCTCTCTAAATTCTTCCCA
1 TCTCTCTAAATTCTTCCCA
* *
4806079 TCTCTTTAATTTCTTCCCA
1 TCTCTCTAAATTCTTCCCA
4806098 AATCTCATTT
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:0.18, C:0.34, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTCTCTAAATTCTTCCCA
Found at i:4808668 original size:30 final size:31
Alignment explanation
Indices: 4808605--4808674 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
4808595 ATTTTGAATC
*
4808605 AATTAAA-CTCCTAAACATCTATTTTCATTT
1 AATTAAATCTCCTAAACATCTATTTTCATAT
*
4808635 AATTAAATC-CCTAAACATTTATTTTC-TCAT
1 AATTAAATCTCCTAAACATCTATTTTCAT-AT
4808665 AATTAAATCT
1 AATTAAATCT
4808675 TCAAATAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.03
30 33 0.94
31 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.43
Consensus pattern (31 bp):
AATTAAATCTCCTAAACATCTATTTTCATAT
Found at i:4810468 original size:30 final size:31
Alignment explanation
Indices: 4810422--4810479 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
4810412 AATTGAAAAT
*
4810422 TTTAATTAAAATAAAAATAGATGTTTAATGA
1 TTTAATTAAAATAAAAATAAATGTTTAATGA
*
4810453 TTTAATT-AGATAAAAATAAATGTTTAA
1 TTTAATTAAAATAAAAATAAATGTTTAA
4810480 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.40
Consensus pattern (31 bp):
TTTAATTAAAATAAAAATAAATGTTTAATGA
Found at i:4810540 original size:19 final size:18
Alignment explanation
Indices: 4810512--4810547 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4810502 TTATTGTAAT
4810512 ATAATATTAAAATTTTAA
1 ATAATATTAAAATTTTAA
*
4810530 ATAATTATTAAATTTTTA
1 ATAA-TATTAAAATTTTA
4810548 TTAGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATATTAAAATTTTAA
Found at i:4816284 original size:22 final size:22
Alignment explanation
Indices: 4816256--4816301 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4816246 TGAAAATAAA
4816256 ATATTATCTTAAAAATTAAAAT
1 ATATTATCTTAAAAATTAAAAT
* * *
4816278 ATATTATTTTTAAAATTGAAAT
1 ATATTATCTTAAAAATTAAAAT
4816300 AT
1 AT
4816302 GAAGATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTATCTTAAAAATTAAAAT
Found at i:4817626 original size:32 final size:31
Alignment explanation
Indices: 4817589--4817655 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
4817579 CCAAATCGAA
**
4817589 CAAATTTAAAATAATTTGTATTTAAAATGATT
1 CAAATTTAAAATAATTTAAATTT-AAATGATT
* *
4817621 CAAATTTAAAATTATTTAAATTTAAATTATT
1 CAAATTTAAAATAATTTAAATTTAAATGATT
4817652 CAAA
1 CAAA
4817656 CTTGAAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 11 0.35
32 20 0.65
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
CAAATTTAAAATAATTTAAATTTAAATGATT
Found at i:4817627 original size:16 final size:16
Alignment explanation
Indices: 4817589--4817673 Score: 73
Period size: 16 Copynumber: 5.4 Consensus size: 16
4817579 CCAAATCGAA
*
4817589 CAAATTTAAAATAATT
1 CAAATTTAAAATGATT
***
4817605 TGTATTTAAAATGATT
1 CAAATTTAAAATGATT
*
4817621 CAAATTTAAAATTATT
1 CAAATTTAAAATGATT
* *
4817637 TAAATTT-AAATTATT
1 CAAATTTAAAATGATT
* *
4817652 CAAACTTGAAATGATT
1 CAAATTTAAAATGATT
*
4817668 CGAATT
1 CAAATT
4817674 AGCGCAATCC
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
15 13 0.24
16 41 0.76
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
CAAATTTAAAATGATT
Found at i:4819919 original size:52 final size:51
Alignment explanation
Indices: 4819832--4819988 Score: 224
Period size: 52 Copynumber: 3.0 Consensus size: 51
4819822 TGGACAATAA
*
4819832 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAG-GGATTCTTAATAGGTAAGTTT
*
4819884 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGGGATTCTTAATAGGTAAGTTT
* * * * *
4819936 GACTTACAGGAGAAGAATTCTAAGATGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGGGATTCTTAATAGGTAAGTTT
4819988 G
1 G
4819989 TATGGTTATA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 90 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:4822787 original size:14 final size:15
Alignment explanation
Indices: 4822756--4822797 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
4822746 CATTTAATCT
*
4822756 TAAAATAAATAGTAC
1 TAAAATAAATAATAC
4822771 TAAAATAAA-AATAC
1 TAAAATAAATAATAC
4822785 TAAAATAAATAAT
1 TAAAATAAATAAT
4822798 GAGCTCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (15 bp):
TAAAATAAATAATAC
Found at i:4826371 original size:133 final size:133
Alignment explanation
Indices: 4826210--4826475 Score: 523
Period size: 133 Copynumber: 2.0 Consensus size: 133
4826200 ATCTTAGATA
4826210 TTTGAACAAATGATTTTATGCAATTAGTCATGCACTAAATCACACATAAGCTTTCAAATCTCATA
1 TTTGAACAAATGATTTTATGCAATTAGTCATGCACTAAATCACACATAAGCTTTCAAATCTCATA
4826275 AAAAAATCATTTAGCCATGCATTGATACAATTTCAATGATCGTGTGTCATGTATATTTATGAGTG
66 AAAAAATCATTTAGCCATGCATTGATACAATTTCAATGATCGTGTGTCATGTATATTTATGAGTG
4826340 TTT
131 TTT
4826343 TTTGAACAAATGATTTTATGCAATTAGTCATGCACTAAATCACACATAAGCTTTCAAATCTCATA
1 TTTGAACAAATGATTTTATGCAATTAGTCATGCACTAAATCACACATAAGCTTTCAAATCTCATA
*
4826408 AAAAAATCATTTAGCCATGCATTGATACAATTTCAATGGTCGTGTGTCATGTATATTTATGAGTG
66 AAAAAATCATTTAGCCATGCATTGATACAATTTCAATGATCGTGTGTCATGTATATTTATGAGTG
4826473 TTT
131 TTT
4826476 CAAAGCCAAT
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (133 bp):
TTTGAACAAATGATTTTATGCAATTAGTCATGCACTAAATCACACATAAGCTTTCAAATCTCATA
AAAAAATCATTTAGCCATGCATTGATACAATTTCAATGATCGTGTGTCATGTATATTTATGAGTG
TTT
Found at i:4830229 original size:22 final size:22
Alignment explanation
Indices: 4830204--4830248 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4830194 TAATTATAGC
4830204 AATTCTTAAGATTATTACCAAT
1 AATTCTTAAGATTATTACCAAT
*
4830226 AATTCTTAAGATTATTACGAAT
1 AATTCTTAAGATTATTACCAAT
4830248 A
1 A
4830249 GAATTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTCTTAAGATTATTACCAAT
Found at i:4835564 original size:15 final size:15
Alignment explanation
Indices: 4835544--4835573 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4835534 TCAAAAAATC
4835544 CCCTACAACAATTCA
1 CCCTACAACAATTCA
4835559 CCCTACAACAATTCA
1 CCCTACAACAATTCA
4835574 TCTTGGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (15 bp):
CCCTACAACAATTCA
Found at i:4840691 original size:595 final size:595
Alignment explanation
Indices: 4839560--4841349 Score: 2980
Period size: 595 Copynumber: 3.0 Consensus size: 595
4839550 CTATAAGAAG
* * * * * * * *
4839560 ATGACGTATTAGCGACAATTTTGTAGCAGCCTTTCACTTACAAATACCGCTAGCTTTCGTGTTTT
1 ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
* * * * * **
4839625 TATAAAACTTAAGGCGTTTATTATTAAAATGTCACTAAATGTTCAAATAG-TAGTGTTGTTACTT
66 TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGA-CATTGTTACTT
*** * * * *
4839689 ATAAACATCACCCAAGACTTAATATCAGCGACGTTTTTCAATTAAAACGCCTTGAATAATCCTGC
130 ATAAATGCCACCCAAGACTTGATATCAGCGGCGTTTTTTAACTAAAACGCCTTGAATAATCCTGC
* ** * *
4839754 CTT-AAAATTTTCAATGAATACTAAAGGCATATTTTTGGCAGACAA--TTTTAACAATCACCTAA
195 CTTAAAAATTTT-AGTGAATACTAAA-GCATATTTTTGGCAGACAACGCCTCAATAATCACCTAA
* * *
4839816 TAAAAAATTATATGAGATTATTAAAGGCATTTTCTACAAGAAACGCGTTTAATAATTGGACCAAA
258 TAAAAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAA
* *
4839881 AAATTTCACAAGCTTATTGAAGTCGTTTTTGTTCAAAAATGCCTTCAATAAATATCATATCAAAA
323 AAATTTCACAAGCTTATTGAAGTCGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAA
* * *
4839946 TTTTTGGATTGTACGGATGTTAACTATAAAGTTCTAGGTTTGATCCCTCCCTTTAGCATTTTTTG
388 TGTTTGGA-TGTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGCATTTTTTG
4840011 GGTTTTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACC
452 GGTTTTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACC
4840076 AATTGCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAA
517 AATTGCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAA
4840141 TCCATAAGAAAAAT
582 TCCATAAGAAAAAT
4840155 ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
1 ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
4840220 TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGACATTGTTACTTA
66 TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGACATTGTTACTTA
* * **
4840285 TAAATGCCACCCAAGACTTGATATCAGCGGTGTTTTTTTTACTAAAACGCCTTGAATAATCCTTT
131 TAAATGCCACCCAAGACTTGATATCAGCGGCG-TTTTTTAACTAAAACGCCTTGAATAATCCTGC
*
4840350 TTTAAAAATTTTAGTGAATACTAAAGCATATTTTTGGCAGACAACGCCTCAATAATCACCTAATA
195 CTTAAAAATTTTAGTGAATACTAAAGCATATTTTTGGCAGACAACGCCTCAATAATCACCTAATA
4840415 AAAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAAAA
260 AAAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAAAA
*
4840480 ATTTCACAAGCTTATTGAAGTTGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAATG
325 ATTTCACAAGCTTATTGAAGTCGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAATG
4840545 TTTGGATGTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGC-TTTTTTGGGT
390 TTTGGATGTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGCATTTTTTGGGT
4840609 TTTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACCAAT
455 TTTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACCAAT
4840674 TGCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAATCC
520 TGCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAATCC
4840739 ATAAGAAAAAT
585 ATAAGAAAAAT
4840750 ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
1 ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
4840815 TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGACATTGTTACTTA
66 TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGACATTGTTACTTA
* * * *
4840880 TAAATGCCACCCAAGACTTGATATCAACAGCGTTTCTTGACTAAAACGCCTTGAATAATCCTGCC
131 TAAATGCCACCCAAGACTTGATATCAGCGGCGTTTTTTAACTAAAACGCCTTGAATAATCCTGCC
*
4840945 TTAAAAATTTTAGTGAATACTAAAGACATATTTTTGGCAGACAACGCCTCAATAATCACCTAGTA
196 TTAAAAATTTTAGTGAATACTAAAG-CATATTTTTGGCAGACAACGCCTCAATAATCACCTAATA
4841010 AAAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAAAA
260 AAAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAAAA
4841075 ATTTCACAAGCTTATTGAAGTCGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAATG
325 ATTTCACAAGCTTATTGAAGTCGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAATG
*
4841140 TTTGGATCGTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGCTTTTTTTGGG
390 TTTGGAT-GTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGCATTTTTTGGG
* * *
4841205 TTTTTGCAGAGATTATTTGTAATTGATTATTCTATGTGTTTTCTTGGCAAAAATGCCTTCACCAA
454 TTTTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACCAA
* * * * *
4841270 TTGCTTTAAAAACTTTTGCAATGAATATTGAAGGTATTTTTCACAAAGAAACGCCCTTAATAATC
519 TTGCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAATC
4841335 CATAA-AAAAAT
584 CATAAGAAAAAT
4841346 ATGA
1 ATGA
4841350 AACCTATTCT
Statistics
Matches: 1128, Mismatches: 59, Indels: 15
0.94 0.05 0.01
Matches are distributed among these distances:
594 53 0.05
595 642 0.57
596 145 0.13
597 288 0.26
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (595 bp):
ATGACGTATTAGTGATAGTTTTGTAGCAGTCTTTCATTTACAAACACCGTTAGCTTCCGTGTTTT
TATAAAACTTAAGGCGTTTCTTATCAAAATGCCACTAAATATTCAAATAGCGACATTGTTACTTA
TAAATGCCACCCAAGACTTGATATCAGCGGCGTTTTTTAACTAAAACGCCTTGAATAATCCTGCC
TTAAAAATTTTAGTGAATACTAAAGCATATTTTTGGCAGACAACGCCTCAATAATCACCTAATAA
AAAATTATATGAGATTATTGAAGGCGTTTTCTACAAGAAACGCCTTTAATAATTGGACCAAAAAA
TTTCACAAGCTTATTGAAGTCGTTTTTGTTAAAAAACGCCTTCAATAAATATCATATCAAAATGT
TTGGATGTACGGATGTTAACTATAAAGTTCTAGGTTCGATCCTTCCCTTTAGCATTTTTTGGGTT
TTTGCAGAGATTATTTGCAATTGATTATTTTAGGTGTTTTCTTGGCAAAAATGCCTTCACCAATT
GCTTTAAAAAATTTTGCAATGAATATTGAAGGTGTTTTTCGCAGAGAAACGCCTTTAATAATCCA
TAAGAAAAAT
Found at i:4841873 original size:241 final size:241
Alignment explanation
Indices: 4841493--4842036 Score: 869
Period size: 241 Copynumber: 2.3 Consensus size: 241
4841483 CTTAAAGATG
* * * *
4841493 TTTTTGGCTCAAAACGCCTTTAATATTCTAGACGATAAATTTTAATGGTCAGATTATTAAAGGCG
1 TTTTTGGCTCAAAATGCCTTTAATATTCTAGACAATAAATTTTAATGGTCGGATTATTGAAGGCG
4841558 GTTATATCCAAAAATACCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTACCCATAGGAA
66 GTTATATCCAAAAATACCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTACCCATAGGAA
4841623 AACGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAAAGTGTTTTTTTAAAACG
131 AACGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAAAGTGTTTTTTTAAAACG
*
4841688 CCTTCAATAATCTATACAAAAAAGACACAACGGATTCTTGAAA-AT
196 CCTTCAATAATCTATACAAAAAAGACACAACAGATTCTTGAAACAT
*
4841733 ATTTTTGGCTCAAAATGCCTTTAATATTCTGGACAATAAATTTTAATGGTCGGATTATTGAAGGC
1 -TTTTTGGCTCAAAATGCCTTTAATATTCTAGACAATAAATTTTAATGGTCGGATTATTGAAGGC
* * * *
4841798 GGTTATATCTAAAAATGCCTTCAATAACATTTTGTTATGGATTATTCAAGGTGTTACCCATAGGA
65 GGTTATATCCAAAAATACCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTACCCATAGGA
* *
4841863 AAACGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTGTTTTTTTAAAAC
130 AAACGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAAAGTGTTTTTTTAAAAC
*
4841928 GCCTTCAATAATCTATACAAAAAAGACACGACAGATTCTTGAAAGCAT
195 GCCTTCAATAATCTATACAAAAAAGACACAACAGATTCTTGAAA-CAT
** * * * **
4841976 TTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTT--TGGGAGGATTATTGAAGG
1 TTTTTGGCTCAAAATGCCTTTAATATTCTAGACAATAAATTTTAATGGTCGGATTATTGAAGG
4842037 TAATTTTGGT
Statistics
Matches: 280, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
240 16 0.06
241 225 0.80
242 37 0.13
243 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (241 bp):
TTTTTGGCTCAAAATGCCTTTAATATTCTAGACAATAAATTTTAATGGTCGGATTATTGAAGGCG
GTTATATCCAAAAATACCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTACCCATAGGAA
AACGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAAAGTGTTTTTTTAAAACG
CCTTCAATAATCTATACAAAAAAGACACAACAGATTCTTGAAACAT
Found at i:4842324 original size:304 final size:301
Alignment explanation
Indices: 4841765--4842667 Score: 1168
Period size: 304 Copynumber: 3.0 Consensus size: 301
4841755 AATATTCTGG
* *
4841765 ACAATAAATTTTAATGGTCGGATTATTGAAGGCGGTTATATCTAAAAATGCCTTCAATAACATTT
1 ACAATAAATTTTAATGGTCGGATTATTGAAGGCGGTTATATCCAAAAACGCCTTCAATAACATTT
* * *
4841830 TGTTATGGATTATTCAAGGTGTTACCCATAGGAAAACGCCCTTCATAATCCATTCGATTAATTTT
66 TGTTAAGGATTATTCAAGGCGTTACCCATAGGAAAA-GTCCTTCATAATCCATTCGATTAATTTT
* * *
4841895 TAGTTGGTATTATTGAAGGTGTTTTTTTAAAACGCCTTCAATAATCTATACAAAAAAGACACGAC
130 TAGTTGGTATTATTGAAGGTGTTTTTTTAAAATGCC-TCAATAATATATACAAAAAAGACGCGAC
*
4841960 AGATTCTTGAAA-GCATTTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGGA
194 GGATTCTT-AAAGGCA-TTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGG-
* * *
4842024 GGATTATTGAAGGTAATTTTGGTAAAAAACGCTATTGATATTCCAA
256 GGATTATTGAAGGCAATTTTGGTAAAAAACGCCATTAATATTCCAA
* * * *
4842070 ACAATAAA-TTTAATGGTCGAATTATTGAAGGCAGTTATATCCATAAACGCCTTCAATAATATTT
1 ACAATAAATTTTAATGGTCGGATTATTGAAGGCGGTTATATCCAAAAACGCCTTCAATAACATTT
* * * * *
4842134 TATTAAGGATTATTCAAGGCGTTACCCCGTAAGAAAATGTTCTTCATAATCTATTCGATTAATTT
66 TGTTAAGGATTATTCAAGGCGTTA-CCCATAGGAAAA-GTCCTTCATAATCCATTCGATTAATTT
* * *
4842199 TTAGTTGGTATTATTGAAGGTGTTTTTTTAAAATGCCTACAAGAATTTATACAAAAAAGACGTGA
129 TTAGTTGGTATTATTGAAGGTGTTTTTTTAAAATGCCT-CAATAATATATACAAAAAAGACGCGA
* * *
4842264 CGGATTCTTAAAGGCATTTTTTGCCCAAAATGCCTTTAATATTTCGCACAATAAATTTTTGGTGG
193 CGGATTCTTAAAGGCATTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGG-GG
* ** *
4842329 GATTATTGAAGGCAGTTTTGGTAAAAAATACCATTAATATTCCAG
257 GATTATTGAAGGCAATTTTGGTAAAAAACGCCATTAATATTCCAA
* * *
4842374 ACGATAAATTTTAATGGT-GGATTATTGAAGGCGGTTATATCCAGAAACGCCCTCAATAACATTT
1 ACAATAAATTTTAATGGTCGGATTATTGAAGGCGGTTATATCCAAAAACGCCTTCAATAACATTT
* * * * * *
4842438 TGTTAGGGATTATTCAAAGCGTTGCCCATAGGAAAACTCCTTTCATAATCCATTCAATTCATTTT
66 TGTTAAGGATTATTCAAGGCGTTACCCATAGGAAAAGTCC-TTCATAATCCATTCGATTAATTTT
** * * ** *
4842503 TAGTTTCTATTGTTTAAGGCATTTTTTTAAAATGCCTCAATAATCCATATA-AAAAAAGATGCGA
130 TAGTTGGTATTATTGAAGGTGTTTTTTTAAAATGCCTCAATAAT--ATATACAAAAAAGACGCGA
* * *
4842567 CGGAGTT-TTGAAGGCATTTTTTTCTCAAAACGCCTTTAATATTCCACACAATAAATTTTTGGGG
193 CGGA-TTCTTAAAGGCATTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGGG
* * * *
4842631 GATTATTGAAGACGATTTTGGTTAAAAACGCCTTTAA
257 GATTATTGAAGGCAATTTTGGTAAAAAACGCCATTAA
4842668 AATTTTCTAT
Statistics
Matches: 518, Mismatches: 71, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
302 40 0.08
303 126 0.24
304 231 0.45
305 121 0.23
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (301 bp):
ACAATAAATTTTAATGGTCGGATTATTGAAGGCGGTTATATCCAAAAACGCCTTCAATAACATTT
TGTTAAGGATTATTCAAGGCGTTACCCATAGGAAAAGTCCTTCATAATCCATTCGATTAATTTTT
AGTTGGTATTATTGAAGGTGTTTTTTTAAAATGCCTCAATAATATATACAAAAAAGACGCGACGG
ATTCTTAAAGGCATTTTTTTCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGGGGATT
ATTGAAGGCAATTTTGGTAAAAAACGCCATTAATATTCCAA
Found at i:4846058 original size:80 final size:79
Alignment explanation
Indices: 4845957--4846201 Score: 303
Period size: 80 Copynumber: 3.1 Consensus size: 79
4845947 ACCATTAAGT
* * * * * *
4845957 AAACCATTCAGCATACGATTCAGCCCTCCGATATCATACAAAATCATTCAACAAAACAATATTAG
1 AAACCATTCAGCATACGATTCAGCCC-CCAATATCATACAATACCATTTAGCAAAACAATATCAG
* * *
4846022 ACAACAAAGTTCAAC
65 ATAACAAGGTTCAGC
* * * * * *
4846037 AAACCATTCAGTATATGATTCAGCCCCCTAATATCATATAATACCATTTGGCAATACAATATCAA
1 AAACCATTCAGCATACGATTCAGCCCCC-AATATCATACAATACCATTTAGCAAAACAATATCAG
4846102 ATAACAAGGTTCAGC
65 ATAACAAGGTTCAGC
* * *
4846117 AAATCATTCAACATACGATTCAGCCCCCAATATCATACAATACCATTTAGCAAAA-AAAATCAGA
1 AAACCATTCAGCATACGATTCAGCCCCCAATATCATACAATACCATTTAGCAAAACAATATCAGA
4846181 TAACAAGGTTCAGC
66 TAACAAGGTTCAGC
4846195 AAACCAT
1 AAACCAT
4846202 AATATTTAAG
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
78 27 0.19
79 26 0.19
80 86 0.62
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.23
Consensus pattern (79 bp):
AAACCATTCAGCATACGATTCAGCCCCCAATATCATACAATACCATTTAGCAAAACAATATCAGA
TAACAAGGTTCAGC
Found at i:4849925 original size:33 final size:33
Alignment explanation
Indices: 4849853--4849925 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
4849843 AATATAGAGG
* * * *
4849853 CATTTTTAGATACAAATGCCTCCGAAGTAGCGA
1 CATTTTTAGATACAAATGCCACCGAAGCAACAA
* *
4849886 CCTTTTTAGTTACAAATGCCACCGAAGCAACAA
1 CATTTTTAGATACAAATGCCACCGAAGCAACAA
4849919 CATTTTT
1 CATTTTT
4849926 CTCATAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (33 bp):
CATTTTTAGATACAAATGCCACCGAAGCAACAA
Found at i:4852855 original size:21 final size:21
Alignment explanation
Indices: 4852821--4852880 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
4852811 ACGGCTACAA
4852821 AAAGA-TCACTTGGATTTAAG
1 AAAGAGTCACTTGGATTTAAG
* *
4852841 AAATAGTCGCTTGGATTTAAG
1 AAAGAGTCACTTGGATTTAAG
4852862 AAAGAGTCACTTGGATTTA
1 AAAGAGTCACTTGGATTTA
4852881 TCCATGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (21 bp):
AAAGAGTCACTTGGATTTAAG
Found at i:4853027 original size:15 final size:15
Alignment explanation
Indices: 4852998--4853034 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4852988 AGGATTTGGT
4852998 TTATTTATTTATTTA
1 TTATTTATTTATTTA
4853013 TTATATTATTT-TTTA
1 TTAT-TTATTTATTTA
4853028 TTATTTA
1 TTATTTA
4853035 AATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:4853072 original size:18 final size:16
Alignment explanation
Indices: 4853034--4853140 Score: 53
Period size: 16 Copynumber: 6.4 Consensus size: 16
4853024 TTTATTATTT
*
4853034 AAATATATATAAATTG
1 AAATATATATAAATTA
4853050 AAATATATATAAATGTA
1 AAATATATATAAAT-TA
4853067 ATAATA-A-ATAAATCATA
1 A-AATATATATAAAT--TA
*
4853084 GAATAT-TAATAATATTA
1 AAATATAT-ATAA-ATTA
*
4853101 ATAATATA-AT-CATATA
1 A-AATATATATAAAT-TA
* *
4853117 GAATAATATATAAATAA
1 AAAT-ATATATAAATTA
4853134 AAATATA
1 AAATATA
4853141 GAATATTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 26
0.66 0.09 0.25
Matches are distributed among these distances:
15 5 0.07
16 32 0.46
17 15 0.22
18 15 0.22
19 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
AAATATATATAAATTA
Found at i:4853112 original size:31 final size:30
Alignment explanation
Indices: 4853068--4853153 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 30
4853058 ATAAATGTAA
4853068 TAATAAATAAATCATAGAATATTAATAATAT
1 TAATAAAT-AATCATAGAATATTAATAATAT
*
4853099 TAATAATATAATCATATAGA-A-TAAT-ATAT
1 TAATAA-ATAATCATAGA-ATATTAATAATAT
*
4853128 AAATAAA-AAT-ATAGAATATTATATAA
1 TAATAAATAATCATAGAATATTA-ATAA
4853154 ATAAAATGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 5 0.11
28 3 0.07
29 10 0.22
30 4 0.09
31 15 0.33
32 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (30 bp):
TAATAAATAATCATAGAATATTAATAATAT
Found at i:4853133 original size:24 final size:24
Alignment explanation
Indices: 4853112--4853159 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4853102 TAATATAATC
4853112 ATATAGAATAATATATAAATAAAA
1 ATATAGAATAATATATAAATAAAA
*
4853136 ATATAGAATATTATATAAATAAAA
1 ATATAGAATAATATATAAATAAAA
4853160 TGTGTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
ATATAGAATAATATATAAATAAAA
Found at i:4865412 original size:36 final size:36
Alignment explanation
Indices: 4865367--4865447 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
4865357 AAAAAATTTT
* *
4865367 ATTAAAAAATCTTAAATA-TTGTAAAAATTATAAAAA
1 ATTAAAAAATATGAAATATTTGTAAAAATTAT-AAAA
* *
4865403 ATTAAAAAATATGAAATATTTTTAGAAATTATAAAA
1 ATTAAAAAATATGAAATATTTGTAAAAATTATAAAA
4865439 ATTAAAAAA
1 ATTAAAAAA
4865448 GAATAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 29 0.73
37 11 0.28
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTAAAAAATATGAAATATTTGTAAAAATTATAAAA
Found at i:4868706 original size:18 final size:16
Alignment explanation
Indices: 4868678--4868719 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
4868668 ATGGAAATAA
*
4868678 AAGGA-AAGAAAAGGG
1 AAGGAGAAGAAAAAGG
4868693 AGATGGAGAAGAAAAAGG
1 A-A-GGAGAAGAAAAAGG
4868711 AAGGAGAAG
1 AAGGAGAAG
4868720 GAGAAAGGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 4 0.17
18 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (16 bp):
AAGGAGAAGAAAAAGG
Found at i:4869262 original size:30 final size:30
Alignment explanation
Indices: 4869176--4869262 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
4869166 ACTTAAATAA
* * *
4869176 AATTTGTATCTAAATAATTTATTTAAATTTT
1 AATTTGTACCTAAATAA-ATATTTAACTTTT
*
4869207 AATTTTTATCC-AAATAAATCA-TTAACTTTT
1 AATTTGTA-CCTAAATAAAT-ATTTAACTTTT
*
4869237 AATTTGTACCTAAATAAGTATTTAAC
1 AATTTGTACCTAAATAAATATTTAAC
4869263 ATAAATCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 3 0.07
30 28 0.61
31 14 0.30
32 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (30 bp):
AATTTGTACCTAAATAAATATTTAACTTTT
Found at i:4871084 original size:16 final size:16
Alignment explanation
Indices: 4871062--4871097 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
4871052 TCTGTTAAAA
4871062 TAAAAAATTAAAAAAATT
1 TAAAAAA-T-AAAAAATT
4871080 TAAAAAATAAAAAATT
1 TAAAAAATAAAAAATT
4871096 TA
1 TA
4871098 TACTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAATAAAAAATT
Found at i:4871495 original size:3 final size:3
Alignment explanation
Indices: 4871487--4871521 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4871477 TTTTGGATTT
4871487 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4871522 TCAATGGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4878020 original size:3 final size:3
Alignment explanation
Indices: 4878012--4878059 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
4878002 TCGCCCCCTT
*
4878012 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4878058 TA
1 TA
4878060 TTTGTTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:4887238 original size:2 final size:2
Alignment explanation
Indices: 4887231--4887255 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4887221 AGTGAATTAG
4887231 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 A
4887256 CACACACATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4887278 original size:130 final size:130
Alignment explanation
Indices: 4887108--4887359 Score: 414
Period size: 130 Copynumber: 1.9 Consensus size: 130
4887098 TCATTTCTCG
* * *
4887108 TATATATAAATATATATATACATACATGCTACACCATGTATGAAATCCAATGTGACTAAAAGGTT
1 TATATATAAATATATATACACACACATGCTACACCATGTATGAAATCCAATGTGACTAAAAAGTT
*
4887173 GAAATAGAAAAATATAAAAGTTTATATATGCGTAATTTATATATTGTTAGTGAATTAGATATATA
66 GAAATAGAAAAATATAAAAGTTTATATATGCATAATTTATATATTGTTAGTGAATTAGATATATA
* * * * *
4887238 TATATATATATATATATACACACACATTCTACATCGTGTATGAACTCCAATGTGACTAAAAAGTT
1 TATATATAAATATATATACACACACATGCTACACCATGTATGAAATCCAATGTGACTAAAAAGTT
*
4887303 GAAGTAGAAAAATATAAAAGTTTATATATGCATAATTTATATATTGTTAGTGAATTA
66 GAAATAGAAAAATATAAAAGTTTATATATGCATAATTTATATATTGTTAGTGAATTA
4887360 TATGATAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 112 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (130 bp):
TATATATAAATATATATACACACACATGCTACACCATGTATGAAATCCAATGTGACTAAAAAGTT
GAAATAGAAAAATATAAAAGTTTATATATGCATAATTTATATATTGTTAGTGAATTAGATATATA
Done.