Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 16 of 410
Found at i:4083999 original size:27 final size:27
Alignment explanation
Indices: 4083991--4084083 Score: 59
Period size: 29 Copynumber: 3.3 Consensus size: 27
4083981 TAAATGAAAA
*
4083991 AAATGAAATGATAAA--TAAATAAATTA
1 AAATGAAATTATAAATTTAAATAAA-TA
* *
4084017 AAATGGAAAATATAAATTTAAATAAATTG
1 AAAT-GAAATTATAAATTTAAATAAA-TA
4084046 AAATGTAAA-T-TAAATTTGAAATTCAAATA
1 AAATG-AAATTATAAATTT-AAA-T-AAATA
4084075 GAAATGAAA
1 -AAATGAAA
4084084 AAAAAACCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
26 4 0.07
27 16 0.29
28 5 0.09
29 22 0.40
30 8 0.15
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATGAAATTATAAATTTAAATAAATA
Found at i:4084020 original size:21 final size:22
Alignment explanation
Indices: 4083965--4084021 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
4083955 GTTTAAAAGA
*
4083965 AAATAAATTATAAAT-TTAAATG
1 AAATAAATTA-AAATGATAAATG
* *
4083987 AAA-AAAATGAAATGATAAAT-
1 AAATAAATTAAAATGATAAATG
4084007 AAATAAATTAAAATG
1 AAATAAATTAAAATG
4084022 GAAAATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAATAAATTAAAATGATAAATG
Found at i:4084021 original size:35 final size:33
Alignment explanation
Indices: 4083974--4084043 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 33
4083964 AAAATAAATT
*
4083974 ATAAATTTAAATGAAAAAAATGAAATGATAAATAA
1 ATAAATTAAAATGAAAAAAAT-AAAT-ATAAATAA
* * *
4084009 ATAAATTAAAATGGAAAATATAAATTTAAATAA
1 ATAAATTAAAATGAAAAAAATAAATATAAATAA
4084042 AT
1 AT
4084044 TGAAATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 9 0.29
34 4 0.13
35 18 0.58
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (33 bp):
ATAAATTAAAATGAAAAAAATAAATATAAATAA
Found at i:4084038 original size:29 final size:27
Alignment explanation
Indices: 4083964--4084067 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 27
4083954 AGTTTAAAAG
4083964 AAAAT-AAATTATAAATTTAAATGAAA--
1 AAAATGAAA-TATAAATTTAAAT-AAATT
4083990 AAAATGAAATGATAAA--TAAATAAATT
1 AAAATGAAAT-ATAAATTTAAATAAATT
4084016 AAAATGGAAAATATAAATTTAAATAAATT
1 AAAAT-G-AAATATAAATTTAAATAAATT
*
4084045 GAAATGTAAAT-TAAATTTGAAAT
1 AAAATG-AAATATAAATTT-AAAT
4084068 TCAAATAGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
24 3 0.04
25 5 0.07
26 11 0.16
27 21 0.31
28 13 0.19
29 14 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATGAAATATAAATTTAAATAAATT
Found at i:4086820 original size:30 final size:28
Alignment explanation
Indices: 4086784--4086852 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 28
4086774 ATTATTATAT
*
4086784 TTTATTACTGTCATTATTATTATATTTCTA
1 TTTATTACTCTCATTATTATTAT-TTT-TA
4086814 TTTATTAGCATCTCATTATTATTATTTTTA
1 TTTATTA-C-TCTCATTATTATTATTTTTA
*
4086844 TTTAATACT
1 TTTATTACT
4086853 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 1 0.03
30 15 0.43
31 4 0.11
32 14 0.40
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTATTACTCTCATTATTATTATTTTTA
Found at i:4087146 original size:21 final size:22
Alignment explanation
Indices: 4087093--4087152 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
4087083 TTCTAATATG
* * *
4087093 TATATGTTATGTAGATATTTTAA
1 TATATATTATGTATACATTTT-A
4087116 TATCATATTATGTATACATTTT-
1 TAT-ATATTATGTATACATTTTA
*
4087138 TATATATTACGTATA
1 TATATATTATGTATA
4087153 TATATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.34
22 3 0.09
23 3 0.09
24 15 0.47
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:4087384 original size:18 final size:18
Alignment explanation
Indices: 4087363--4087418 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
4087353 ATTATATGTG
4087363 TATATAATA-TACTTTTTA
1 TATATAATATTA-TTTTTA
4087381 TATATAATATTATTTTTA
1 TATATAATATTATTTTTA
*
4087399 TATAT-ATCATTATATTTA
1 TATATAAT-ATTATTTTTA
4087417 TA
1 TA
4087419 CTTATTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATATTATTTTTA
Found at i:4100059 original size:17 final size:17
Alignment explanation
Indices: 4100039--4100077 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4100029 AACAAGTAGT
* *
4100039 AGAAGTTAAAAGTTAAA
1 AGAAGTGAAAAATTAAA
4100056 AGAAGTGAAAAATTAAA
1 AGAAGTGAAAAATTAAA
*
4100073 TGAAG
1 AGAAG
4100078 AGTTAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (17 bp):
AGAAGTGAAAAATTAAA
Found at i:4100656 original size:16 final size:17
Alignment explanation
Indices: 4100635--4100666 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4100625 TTTACGTACA
4100635 TAATTTTTA-AAATAAG
1 TAATTTTTATAAATAAG
4100651 TAATTTTTATAAATAA
1 TAATTTTTATAAATAA
4100667 TTAAAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATTTTTATAAATAAG
Found at i:4109524 original size:43 final size:43
Alignment explanation
Indices: 4109461--4109545 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
4109451 GGCAATGCCT
*
4109461 TAGTAAAAATATATGTTAAATTATCACTAGAATGAATTTGTTC
1 TAGTAAAAATATATGCTAAATTATCACTAGAATGAATTTGTTC
4109504 TAGTAAAAATATATGCTAAATTATCACTAGAATGAATTTGTT
1 TAGTAAAAATATATGCTAAATTATCACTAGAATGAATTTGTT
4109546 GAACATTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (43 bp):
TAGTAAAAATATATGCTAAATTATCACTAGAATGAATTTGTTC
Found at i:4114362 original size:15 final size:15
Alignment explanation
Indices: 4114342--4114375 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4114332 CTTGTTTTCC
4114342 TTTCTTTT-TCTCATT
1 TTTCTTTTCTCTC-TT
4114357 TTTCTTTTCTCTCTT
1 TTTCTTTTCTCTCTT
4114372 TTTC
1 TTTC
4114376 ACTCTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTTTCTCTCTT
Found at i:4124317 original size:24 final size:24
Alignment explanation
Indices: 4124290--4124344 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
4124280 ATATGTACAG
*
4124290 TCAGAAACAGATAC-AGTTTCAGAT
1 TCAGAAACAGAT-CTAGATTCAGAT
*
4124314 TCAGAATCAGATCTAGATTCAGAT
1 TCAGAAACAGATCTAGATTCAGAT
4124338 TACAGAA
1 T-CAGAA
4124345 GCAAATATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 21 0.78
25 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (24 bp):
TCAGAAACAGATCTAGATTCAGAT
Found at i:4128614 original size:12 final size:13
Alignment explanation
Indices: 4128584--4128611 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4128574 TGTAACAACA
4128584 AGGTTTTTTCTTT
1 AGGTTTTTTCTTT
4128597 AGGTTTTTTCTTT
1 AGGTTTTTTCTTT
4128610 AG
1 AG
4128612 TTTCTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.11, C:0.07, G:0.18, T:0.64
Consensus pattern (13 bp):
AGGTTTTTTCTTT
Found at i:4131036 original size:27 final size:27
Alignment explanation
Indices: 4130997--4131065 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
4130987 TCTAAACTTA
4130997 TTTATTATCATTTTAAATAGCTTT-TACGT
1 TTTATT-T-ATTTTAAATAGCTTTATAC-T
* *
4131026 TTTATTTATTTTGATTAGCTTTATACT
1 TTTATTTATTTTAAATAGCTTTATACT
*
4131053 GTT-TTTATTTTAA
1 TTTATTTATTTTAA
4131066 TTTGTTATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.26
27 16 0.46
28 4 0.11
29 6 0.17
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (27 bp):
TTTATTTATTTTAAATAGCTTTATACT
Found at i:4140734 original size:18 final size:19
Alignment explanation
Indices: 4140699--4140739 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
4140689 ATTAAACAGT
4140699 TCGAGTTATTCGTGTTAA-
1 TCGAGTTATTCGTGTTAAC
4140717 TCGAGTTATTCG-GATTAAC
1 TCGAGTTATTCGTG-TTAAC
4140736 TCGA
1 TCGA
4140740 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (19 bp):
TCGAGTTATTCGTGTTAAC
Found at i:4142050 original size:18 final size:19
Alignment explanation
Indices: 4142023--4142061 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4142013 ATTATACAAG
4142023 AATTAC-AAAAATACATAA
1 AATTACAAAAAATACATAA
* *
4142041 AATTAGAAAAAATATATAA
1 AATTACAAAAAATACATAA
4142060 AA
1 AA
4142062 AAATATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AATTACAAAAAATACATAA
Found at i:4142688 original size:6 final size:6
Alignment explanation
Indices: 4142655--4142686 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4142645 CAACTACACT
*
4142655 GGTTGG GGTTGG GGTTGG GGTTGG GGCTGG GG
1 GGTTGG GGTTGG GGTTGG GGTTGG GGTTGG GG
4142687 CTCCTCGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.03, G:0.69, T:0.28
Consensus pattern (6 bp):
GGTTGG
Found at i:4143660 original size:2 final size:2
Alignment explanation
Indices: 4143653--4143677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4143643 ATGTTAAGTG
4143653 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
4143678 CACGTGGCTT
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:4144162 original size:18 final size:17
Alignment explanation
Indices: 4144132--4144193 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
4144122 ATATTCGTCA
4144132 ATAAATAATTTAAAAATT
1 ATAAA-AATTTAAAAATT
*
4144150 ATAAAAATATTAAATAA-A
1 ATAAAAAT-TTAAA-AATT
*
4144168 ACTCAAAATTTAAGAAATT
1 A-TAAAAATTTAA-AAATT
4144187 ATAAAAA
1 ATAAAAA
4144194 AATCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 3 0.09
18 22 0.63
19 10 0.29
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:4144447 original size:30 final size:31
Alignment explanation
Indices: 4144413--4144475 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
4144403 TAGTAAAGGT
* *
4144413 AAAATTACACTTTGATCCTTT-AAAATTATA
1 AAAATTACAATTTAATCCTTTAAAAATTATA
*
4144443 AAAATTTCAATTTAATCCTTTAAAAATTATA
1 AAAATTACAATTTAATCCTTTAAAAATTATA
4144474 AA
1 AA
4144476 GATATAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.40
Consensus pattern (31 bp):
AAAATTACAATTTAATCCTTTAAAAATTATA
Found at i:4147421 original size:30 final size:29
Alignment explanation
Indices: 4147381--4147441 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4147371 AGCCTATATC
*
4147381 TTTATAATTTTTAAAGAATTAAATTA-AATT
1 TTTATAA-TTTTAAA-AATTAAAATATAATT
*
4147411 TTTATTATTTTAAAAATTAAAATATAATT
1 TTTATAATTTTAAAAATTAAAATATAATT
4147440 TT
1 TT
4147442 AACTTTACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 13 0.46
30 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTATAATTTTAAAAATTAAAATATAATT
Found at i:4153902 original size:20 final size:19
Alignment explanation
Indices: 4153862--4153902 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4153852 CTTTATATTG
* *
4153862 TTTTATTTTCAAAATGGTA
1 TTTTATTTTCAAAAAGATA
4153881 TTTTGATTTTCAAAAAGATA
1 TTTT-ATTTTCAAAAAGATA
4153901 TT
1 TT
4153903 CGATCGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTTATTTTCAAAAAGATA
Found at i:4154437 original size:12 final size:13
Alignment explanation
Indices: 4154422--4154452 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4154412 TGCAATTTGT
4154422 AATAAAA-ATGTA
1 AATAAAACATGTA
4154434 AATAAAACATGTA
1 AATAAAACATGTA
4154447 AATAAA
1 AATAAA
4154453 TAATAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (13 bp):
AATAAAACATGTA
Found at i:4154477 original size:3 final size:3
Alignment explanation
Indices: 4154451--4154510 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
4154441 CATGTAAATA
* * * * *
4154451 AAT AAT AAC AAT AAT GAT AGAT AAT AAT AAT AGT AAT AGT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
4154497 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
4154511 ATAAAAGCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4154821 original size:61 final size:60
Alignment explanation
Indices: 4154699--4154822 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 60
4154689 TGAAATTAAA
* * *
4154699 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTGAATTGAGTTCAAAATAAAAATTAG
1 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAATAGAGTT-AAAACAAAAATTAG
* *
4154760 GGCCTAAATTATAATAAAATAAATGCCTAAAGGATTAAATCAGAAGTT-AAACAAAATTTAG
1 GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAAT-AG-AGTTAAAACAAAAATTAG
4154821 GG
1 GG
4154823 GATAGATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 51 0.91
62 1 0.02
63 4 0.07
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (60 bp):
GGCCTAAATCATAATAAAATAAATGCCTAAAGGATTAAATAGAGTTAAAACAAAAATTAG
Found at i:4158050 original size:72 final size:72
Alignment explanation
Indices: 4157933--4158075 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
4157923 TAATCAATTC
* *
4157933 AAGCCCACAACCGTCCATCATAAGTCTTCATGGAATAATTACCATTTAAGGCCATAAAATTCAAA
1 AAGCCCACAACCGTCCATCATAAGTCTTCATAGAATAATTACCATTTAAGGCCATAAAATTAAAA
4157998 TTACTTA
66 TTACTTA
* *
4158005 AAGCCTACAACCGTCCATCTTAAGTCTTCATAGAATAATTACCATTTAAGGCCATAAAATTAAAA
1 AAGCCCACAACCGTCCATCATAAGTCTTCATAGAATAATTACCATTTAAGGCCATAAAATTAAAA
4158070 TTACTT
66 TTACTT
4158076 TAACCATTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (72 bp):
AAGCCCACAACCGTCCATCATAAGTCTTCATAGAATAATTACCATTTAAGGCCATAAAATTAAAA
TTACTTA
Found at i:4158463 original size:24 final size:25
Alignment explanation
Indices: 4158436--4158484 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4158426 TTTTTTTTAT
*
4158436 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
4158460 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
4158485 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:4158477 original size:25 final size:23
Alignment explanation
Indices: 4158448--4158512 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
4158438 AATAAAAAAC
*
4158448 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
4158473 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
4158494 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
4158513 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:4158507 original size:19 final size:20
Alignment explanation
Indices: 4158474--4158512 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4158464 TCAAATACAT
4158474 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
4158494 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
4158513 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:4160383 original size:16 final size:16
Alignment explanation
Indices: 4160359--4160401 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4160349 AAATGTCTTC
4160359 AACTCAAAATAACCTAA
1 AACT-AAAATAACCTAA
* *
4160376 AACTAAAATTACCTTA
1 AACTAAAATAACCTAA
4160392 AACTTAAAAT
1 AAC-TAAAAT
4160402 TTAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (16 bp):
AACTAAAATAACCTAA
Found at i:4161393 original size:13 final size:13
Alignment explanation
Indices: 4161375--4161400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4161365 AATTTATCAT
4161375 TCTCCTATTTGAA
1 TCTCCTATTTGAA
4161388 TCTCCTATTTGAA
1 TCTCCTATTTGAA
4161401 AGAAATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TCTCCTATTTGAA
Found at i:4161731 original size:14 final size:15
Alignment explanation
Indices: 4161707--4161736 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4161697 TGATTTAAAG
4161707 TTTTATAAAAAATAA
1 TTTTATAAAAAATAA
4161722 TTTT-TAAAAAATAA
1 TTTTATAAAAAATAA
4161736 T
1 T
4161737 ATTAATTATT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTATAAAAAATAA
Found at i:4164719 original size:22 final size:21
Alignment explanation
Indices: 4164674--4164729 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
4164664 TCTAGGGACA
*
4164674 AAATGAAATTTTAATATTTAAT
1 AAATTAAA-TTTAATATTTAAT
*
4164696 AAATTAAATTTAATA-TTATT
1 AAATTAAATTTAATATTTAAT
4164716 ATAATTAATATTTA
1 A-AATTAA-ATTTA
4164730 GCATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 13 0.43
22 12 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTAAATTTAATATTTAAT
Found at i:4166583 original size:30 final size:30
Alignment explanation
Indices: 4166547--4166607 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4166537 ATGGTTGTAG
4166547 TTAGATTGCACATCCATTGTCTGTGTTTGT
1 TTAGATTGCACATCCATTGTCTGTGTTTGT
4166577 TTAGATTGCACATCCATTGTCTGTGTTTGT
1 TTAGATTGCACATCCATTGTCTGTGTTTGT
4166607 T
1 T
4166608 GCATGATTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (30 bp):
TTAGATTGCACATCCATTGTCTGTGTTTGT
Found at i:4170460 original size:2 final size:2
Alignment explanation
Indices: 4170453--4170495 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4170443 AATATGCTTT
*
4170453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4170495 T
1 T
4170496 TTATGGCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4170893 original size:19 final size:19
Alignment explanation
Indices: 4170847--4170894 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4170837 GTATATATTT
4170847 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
4170865 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
4170884 TAAGTTTTATT
1 TAAATTTTATT
4170895 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:4170956 original size:43 final size:43
Alignment explanation
Indices: 4170908--4171000 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
4170898 ATTCTAGAAA
*
4170908 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAAGGAAC
* *
4170951 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAAGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAAGGAAC
4170994 TATTTTC
1 TATTTTC
4171001 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAAGGAAC
Found at i:4172925 original size:16 final size:15
Alignment explanation
Indices: 4172904--4172951 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4172894 GATGTGAATA
4172904 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
4172920 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
4172935 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
4172951 A
1 A
4172952 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:4172927 original size:24 final size:24
Alignment explanation
Indices: 4172900--4172955 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4172890 TAATGATGTG
*
4172900 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
4172924 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
4172948 AATAATAA
1 AATAATAA
4172956 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:4172934 original size:8 final size:8
Alignment explanation
Indices: 4172900--4172951 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4172890 TAATGATGTG
*
4172900 AATAATAA
1 AATATTAA
4172908 AATATATAA
1 AATAT-TAA
4172917 AATA-TAA
1 AATATTAA
4172924 AATATTAA
1 AATATTAA
*
4172932 AATATCAA
1 AATATTAA
*
4172940 AATATTAG
1 AATATTAA
4172948 AATA
1 AATA
4172952 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:4173126 original size:20 final size:20
Alignment explanation
Indices: 4173069--4173128 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
4173059 AATACTACAT
4173069 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
4173088 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
4173111 AAATATGTACATAATATA
1 AAATATGTACATAATATA
4173129 GTGTTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:4173170 original size:22 final size:24
Alignment explanation
Indices: 4173107--4173171 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
4173097 CGTGATAATA
*
4173107 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
4173132 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
4173155 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
4173172 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:4173220 original size:25 final size:23
Alignment explanation
Indices: 4173191--4173319 Score: 88
Period size: 23 Copynumber: 5.6 Consensus size: 23
4173181 TAGAAAAAAA
*
4173191 AATATAAATAATATAATATTAAAG
1 AATATACATAATATAATATT-AAG
* * *
4173215 ATATATACATAAAATAGTA-TAAT
1 A-ATATACATAATATAATATTAAG
*
4173238 ATATATACGTAATATAGA-ATTTAA-
1 A-ATATACATAATATA-ATA-TTAAG
* * *
4173262 AATATACCTAATATATTA-AAAG
1 AATATACATAATATAATATTAAG
*
4173284 AATATATATAATATAATATTAAG
1 AATATACATAATATAATATTAAG
4173307 AAATATA-ATAATA
1 -AATATACATAATA
4173320 ACAAAAAAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 40 0.48
24 9 0.11
25 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
AATATACATAATATAATATTAAG
Found at i:4173890 original size:30 final size:30
Alignment explanation
Indices: 4173812--4173946 Score: 148
Period size: 30 Copynumber: 4.5 Consensus size: 30
4173802 TAGGTACAAG
* *
4173812 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * * *
4173842 AGGTAATGGAGCAA-GTGTGGATAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
4173872 TGGTGGTGAAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
4173902 TGGTGGTGGAAAAGGTGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
4173932 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
4173947 CTAAGATTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 2 0.02
30 88 0.98
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:4175554 original size:13 final size:14
Alignment explanation
Indices: 4175536--4175566 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4175526 ATGTATGAAT
4175536 ATATACATATAT-A
1 ATATACATATATCA
4175549 ATATACATATATCA
1 ATATACATATATCA
4175563 ATAT
1 ATAT
4175567 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACATATATCA
Found at i:4175630 original size:17 final size:17
Alignment explanation
Indices: 4175599--4175648 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4175589 AACAACAACC
*
4175599 ATTAATAATAATAATACT
1 ATTAATAAAAATAATA-T
4175617 -TTAA-AAAAATTAATAT
1 ATTAATAAAAA-TAATAT
4175633 ATTAATAAAAATAATA
1 ATTAATAAAAATAATA
4175649 GTAACAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAATAAAAATAATAT
Found at i:4177429 original size:54 final size:54
Alignment explanation
Indices: 4177324--4177434 Score: 136
Period size: 54 Copynumber: 2.0 Consensus size: 54
4177314 ATGTGAACCC
*
4177324 AAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AA
1 AAGGCTCAACCCACATCTCGCAATATGAGTTGATTTTGAAAAAGTA-AAATTGAA
* * * *
4177378 AAGGTTCAACCCACCTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAA
1 AAGGCTCAACCCACATCTCGCAATATGAGTTGATT-TTGAA-AAAGTAAAATTGAA
4177433 AA
1 AA
4177435 CAGAAATTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
54 36 0.73
55 9 0.18
56 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACCCACATCTCGCAATATGAGTTGATTTTGAAAAAGTAAAATTGAA
Found at i:4177915 original size:144 final size:145
Alignment explanation
Indices: 4177523--4178152 Score: 838
Period size: 145 Copynumber: 4.2 Consensus size: 145
4177513 ATTAAAAGGT
* * ** ** * * * *
4177523 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAA-ACATAAATTGAAATTACCTCAACGTGTC
** * * * * *
4177588 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATA--AG-AATTGAAATTA
65 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TGA-ACTAAAAAGCAGAAATTGAAAATA
*
4177650 CCTCAGCGTGCCC-GAGGT
127 CCTCAGCGTGCCCTGAGGC
* *
4177668 TCAACTCACTTCTCGCGATATGAATTGATTTTTTTGAAACATAAATTGAAATTACCTCAACGTGT
1 TCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGAAACATAAATTGAAATTACCTCAACGTGT
4177733 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACC
64 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACC
4177798 TCAGCGTGCCC-GAGGC
129 TCAGCGTGCCCTGAGGC
4177814 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
4177879 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACCTC
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACCTC
4177944 AGCGTGCCCTGAGGC
131 AGCGTGCCCTGAGGC
4177959 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
* *
4178024 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAATTAAAAAGTAGA
66 TGAGGCTCAACTCACCTCTCGCAATATGA---G------TT-G-----ATGAACTAAAAAGCAGA
4178089 AATTGAAAATACCTCAGCGTGCCCTGAGGC
116 AATTGAAAATACCTCAGCGTGCCCTGAGGC
4178119 TCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 TCAACTCACTTCTCGCAATATGAGTTGATTTTTG
4178153 GAAAAAACAA
Statistics
Matches: 440, Mismatches: 24, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
143 5 0.01
144 113 0.26
145 125 0.28
146 110 0.25
147 4 0.01
148 1 0.00
154 2 0.00
155 1 0.00
160 79 0.18
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (145 bp):
TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACCTC
AGCGTGCCCTGAGGC
Found at i:4190769 original size:13 final size:14
Alignment explanation
Indices: 4190751--4190781 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4190741 ATGTATGAAT
4190751 ATATACATATAT-A
1 ATATACATATATCA
4190764 ATATACATATATCA
1 ATATACATATATCA
4190778 ATAT
1 ATAT
4190782 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACATATATCA
Found at i:4190845 original size:17 final size:17
Alignment explanation
Indices: 4190814--4190863 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4190804 AACAACAACC
*
4190814 ATTAATAATAATAATACT
1 ATTAATAAAAATAATA-T
4190832 -TTAA-AAAAATTAATAT
1 ATTAATAAAAA-TAATAT
4190848 ATTAATAAAAATAATA
1 ATTAATAAAAATAATA
4190864 GTAACAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAATAAAAATAATAT
Found at i:4191359 original size:15 final size:16
Alignment explanation
Indices: 4191341--4191374 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
4191331 AAAAAGAAGA
4191341 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
4191356 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
4191371 GAGA
1 GAGA
4191375 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:4191360 original size:22 final size:22
Alignment explanation
Indices: 4191335--4191387 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
4191325 AGAAAAAAAA
4191335 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
4191357 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
*
4191379 AGAGGAGAG
1 AGAAGAGAG
4191388 GGCTCCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:4192230 original size:43 final size:43
Alignment explanation
Indices: 4192182--4192274 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
4192172 ATTCTAGAAA
*
4192182 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
* *
4192225 TATTTTCTTTTTATGTTTTAGTAGTTTATTAAAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
4192268 TATTTTC
1 TATTTTC
4192275 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
Found at i:4192896 original size:13 final size:13
Alignment explanation
Indices: 4192878--4192905 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4192868 TGTTTTTAAC
4192878 TTCACAAGCATAA
1 TTCACAAGCATAA
4192891 TTCACAAGCATAA
1 TTCACAAGCATAA
4192904 TT
1 TT
4192906 AAAAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (13 bp):
TTCACAAGCATAA
Found at i:4193287 original size:27 final size:26
Alignment explanation
Indices: 4193257--4193307 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4193247 TTATTTAATA
4193257 TTTACTGATAAAGTATATA-ATATATCT
1 TTTACT-ATAAA-TATATATATATATCT
*
4193284 TTTACTATATATATATATATATAT
1 TTTACTATAAATATATATATATAT
4193308 ATATATATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTACTATAAATATATATATATATCT
Found at i:4193294 original size:2 final size:2
Alignment explanation
Indices: 4193289--4193315 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4193279 TATCTTTTAC
4193289 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4193316 CTTTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4193338 original size:34 final size:33
Alignment explanation
Indices: 4193270--4193338 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
4193260 ACTGATAAAG
* *
4193270 TATATAATATATCTTTTACTATATATATATATA
1 TATATAATATATCTTTTACTAAATATATAAATA
* * *
4193303 TATATATATATATCTTTTATTAAATTTTTAAATA
1 TATATA-ATATATCTTTTACTAAATATATAAATA
4193337 TA
1 TA
4193339 AACAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (33 bp):
TATATAATATATCTTTTACTAAATATATAAATA
Found at i:4193362 original size:17 final size:18
Alignment explanation
Indices: 4193324--4193362 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4193314 ATCTTTTATT
* *
4193324 AAATTTTTAAATATAAAC
1 AAATTTTTAAATAGAAAA
4193342 AAATTTTT-AATAGAAAA
1 AAATTTTTAAATAGAAAA
4193359 AAAT
1 AAAT
4193363 GCCTCTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATTTTTAAATAGAAAA
Found at i:4194248 original size:6 final size:6
Alignment explanation
Indices: 4194237--4194262 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4194227 TATTTTCACC
4194237 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
4194263 GGGACCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:4194556 original size:16 final size:17
Alignment explanation
Indices: 4194511--4194558 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4194501 TATGACATAC
4194511 TTTATTACTACACTTAACA
1 TTTATTA-TACA-TTAACA
*
4194530 TTTATTAATACATTAA-T
1 TTTATT-ATACATTAACA
4194547 TTTATTATACAT
1 TTTATTATACAT
4194559 CTCCACGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 4 0.15
19 10 0.37
20 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTATACATTAACA
Found at i:4194604 original size:35 final size:35
Alignment explanation
Indices: 4194551--4194617 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
4194541 ATTAATTTTA
4194551 TTATACATCTCCACGATTTATATCCACATTTTGTG
1 TTATACATCTCCACGATTTATATCCACATTTTGTG
* * * * *
4194586 TTATACATTTCTATGATTTATATTCGCATTTT
1 TTATACATCTCCACGATTTATATCCACATTTT
4194618 ATGCGGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.49
Consensus pattern (35 bp):
TTATACATCTCCACGATTTATATCCACATTTTGTG
Found at i:4195862 original size:2 final size:2
Alignment explanation
Indices: 4195855--4195891 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4195845 TTAAGCACGA
4195855 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4195892 ATTGGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4196963 original size:31 final size:31
Alignment explanation
Indices: 4196910--4196969 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4196900 GGTACTAAAG
* * *
4196910 TAAATATTGAAACCATACTCAAATACCAAGT
1 TAAACATTGAAACAAAACTCAAATACCAAGT
* *
4196941 TAAACATTGAAACAAAATTCAAATTCCAA
1 TAAACATTGAAACAAAACTCAAATACCAA
4196970 ATACTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (31 bp):
TAAACATTGAAACAAAACTCAAATACCAAGT
Found at i:4197970 original size:29 final size:26
Alignment explanation
Indices: 4197938--4197990 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
4197928 TATTTTACAA
4197938 ATATTAAATTATTTATATAATTTTATTAT
1 ATATTAAATT-TTTA-A-AATTTTATTAT
*
4197967 ATATTATATTTTTAAAATTTTATT
1 ATATTAAATTTTTAAAATTTTATT
4197991 TTTTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 1 0.04
28 4 0.17
29 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATTAAATTTTTAAAATTTTATTAT
Found at i:4197977 original size:17 final size:14
Alignment explanation
Indices: 4197946--4197991 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4197936 AAATATTAAA
4197946 TTATTTATATAATT
1 TTATTTATATAATT
4197960 TTA-TTATAT-ATT
1 TTATTTATATAATT
* * *
4197972 ATATTTTTAAAATT
1 TTATTTATATAATT
4197986 TTATTT
1 TTATTT
4197992 TTTATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:4198005 original size:24 final size:27
Alignment explanation
Indices: 4197945--4198005 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
4197935 CAAATATTAA
* *
4197945 ATTATTTATATAATTTTATTATATATT
1 ATTATTTTTAAAATTTTATTATATATT
4197972 A-TATTTTTAAAATTTTATT-T-T-TT
1 ATTATTTTTAAAATTTTATTATATATT
4197995 ATTATTTTTAA
1 ATTATTTTTAA
4198006 TGGTATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 3 0.10
24 10 0.32
25 1 0.03
26 16 0.52
27 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTATTTTTAAAATTTTATTATATATT
Found at i:4200906 original size:46 final size:45
Alignment explanation
Indices: 4200835--4200926 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 45
4200825 CTATCCAAGC
4200835 CCTTTTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
1 CCTTTTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
*
4200880 CCTTATTTTTTCCCTTTAATCCATGCTTTTTCCTAACGTATTTCAA
1 CCTT-TTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
4200926 C
1 C
4200927 TTTGCTGACA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.09
46 41 0.91
ACGTcount: A:0.20, C:0.27, G:0.03, T:0.50
Consensus pattern (45 bp):
CCTTTTTTTTCCCTTTAATCCATGCTTTTTCCTAACATATTTCAA
Found at i:4202630 original size:179 final size:180
Alignment explanation
Indices: 4202316--4202680 Score: 669
Period size: 179 Copynumber: 2.0 Consensus size: 180
4202306 TTAATGCAAT
* * *
4202316 TATACATGAAACTTTGATTATCATTTAATTATATATATTTTTAAAAAATAAATACTTCAAATTTC
1 TATAAATGAAACTTTGATTATCATTTAATCATACATATTTTTAAAAAATAAATACTTCAAATTTC
*
4202381 TTTTCATGTTAGATAAATACAATTATTTATATATACAATATGTAAACATAAAATGATATTATATT
66 TTTTCATGTTAGATAAATACAATTATTTATATATACAATATGTAAACATAAAATGATATTATACT
4202446 GATAATTATTTTAGAGATTTGTGAAAATCGAGTCAAATTAAAATTTC-TG
131 GATAATTATTTTAGAGATTTGTGAAAATCGAGTCAAATTAAAATTTCATG
*
4202495 TATAAATGAAATTTTGATTATCATTTAATCATACATATTTTTAAAAAATAAATACTTCAAATTTC
1 TATAAATGAAACTTTGATTATCATTTAATCATACATATTTTTAAAAAATAAATACTTCAAATTTC
*
4202560 TTTTCATGTTAGATAAATACAATTATTTATATATGCAATATGTAAACATAAAATGATATTATACT
66 TTTTCATGTTAGATAAATACAATTATTTATATATACAATATGTAAACATAAAATGATATTATACT
4202625 GATAATTATTTTAGAGATTTGTGAAAATCGAGTCAAATTAAAATTTCATG
131 GATAATTATTTTAGAGATTTGTGAAAATCGAGTCAAATTAAAATTTCATG
4202675 TATAAA
1 TATAAA
4202681 ATTACACAAA
Statistics
Matches: 179, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
179 171 0.96
180 8 0.04
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (180 bp):
TATAAATGAAACTTTGATTATCATTTAATCATACATATTTTTAAAAAATAAATACTTCAAATTTC
TTTTCATGTTAGATAAATACAATTATTTATATATACAATATGTAAACATAAAATGATATTATACT
GATAATTATTTTAGAGATTTGTGAAAATCGAGTCAAATTAAAATTTCATG
Found at i:4202702 original size:29 final size:30
Alignment explanation
Indices: 4202659--4202717 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4202649 AAATCGAGTC
*
4202659 AAATTAAAATTTCATGTATAAAATTACACA
1 AAATTAAAATTTCATATATAAAATTACACA
* * *
4202689 AAATTATAA-TTCATATATAACATTGCACA
1 AAATTAAAATTTCATATATAAAATTACACA
4202718 TTTAACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATTAAAATTTCATATATAAAATTACACA
Found at i:4207424 original size:28 final size:28
Alignment explanation
Indices: 4207371--4207424 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
4207361 TAAAAATTAT
* *
4207371 AATCATATTTGTATTAAATAATAATGAA
1 AATCATATTTATATTAAATAACAATGAA
*
4207399 AATCATATTTATATTAAATACCAATG
1 AATCATATTTATATTAAATAACAATG
4207425 TTGAAAGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (28 bp):
AATCATATTTATATTAAATAACAATGAA
Found at i:4218099 original size:6 final size:6
Alignment explanation
Indices: 4218088--4218112 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4218078 AAAATTGAAT
4218088 GAAAGA GAAAGA GAAAGA GAAAGA G
1 GAAAGA GAAAGA GAAAGA GAAAGA G
4218113 CAGGGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:4221171 original size:28 final size:28
Alignment explanation
Indices: 4221134--4221189 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4221124 AAGAATCGAA
4221134 AATATTTTATGAGATTTTTATAAATTTT
1 AATATTTTATGAGATTTTTATAAATTTT
4221162 AATATTTTATGAGATTTTTATAAATTTT
1 AATATTTTATGAGATTTTTATAAATTTT
4221190 CTTCAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (28 bp):
AATATTTTATGAGATTTTTATAAATTTT
Found at i:4221663 original size:2 final size:2
Alignment explanation
Indices: 4221656--4221686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4221646 TATGAGTTTT
4221656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4221687 TTGTCTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4225693 original size:83 final size:82
Alignment explanation
Indices: 4225537--4225694 Score: 180
Period size: 83 Copynumber: 1.9 Consensus size: 82
4225527 TTACAATAGT
* * *
4225537 AAAAATATAATTTTACTATTTTAATAATTTATATCTTTATAATTTTAAAAGATTAAATCAAATTT
1 AAAAATATAATTTTACTATTTTAATAATTTAAATCTTTAAAATTTTAAAAGATTAAATAAAATTT
*
4225602 TTATCATTTTTAAGGGA
66 TTACCATTTTTAAGGGA
* * *
4225619 AAAAAGTATAATTTTA-T-TTTTACTAATTTAAAAT-TTTAAAAATTTTAAAGGGCTTAAATAAA
1 AAAAA-TATAATTTTACTATTTTAATAATTT-AAATCTTT-AAAATTTTAAA-AGATTAAAT-AA
4225681 AATTTTT-CCATTTT
61 AATTTTTACCATTTT
4225695 AGGGCGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
81 14 0.22
82 19 0.30
83 23 0.36
84 8 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (82 bp):
AAAAATATAATTTTACTATTTTAATAATTTAAATCTTTAAAATTTTAAAAGATTAAATAAAATTT
TTACCATTTTTAAGGGA
Found at i:4225965 original size:2 final size:2
Alignment explanation
Indices: 4225958--4225989 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4225948 TTCTAAGCAT
4225958 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
4225990 AGAATTTCAA
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:4230829 original size:15 final size:14
Alignment explanation
Indices: 4230808--4230859 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
4230798 TTTTATTTAG
4230808 ATTATATTTTAGTT
1 ATTATATTTTAGTT
* **
4230822 ATTTATATTTAAAAT
1 A-TTATATTTTAGTT
*
4230837 ATTATGTTTTAGTT
1 ATTATATTTTAGTT
4230851 ACTTATATT
1 A-TTATATT
4230860 ATTATTTTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (14 bp):
ATTATATTTTAGTT
Found at i:4231083 original size:18 final size:18
Alignment explanation
Indices: 4231060--4231102 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4231050 GTTCAAGGTG
4231060 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4231078 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
4231096 TAATTAA
1 TAATTAA
4231103 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4231941 original size:24 final size:25
Alignment explanation
Indices: 4231907--4231960 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
4231897 TTTTTTTGTT
4231907 TTATTTAATATTAATAT-AATTATA
1 TTATTTAATATTAATATAAATTATA
* *
4231931 TTATTTGATATTAATATAAATTTTA
1 TTATTTAATATTAATATAAATTATA
4231956 TTATT
1 TTATT
4231961 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATTTAATATTAATATAAATTATA
Found at i:4234490 original size:17 final size:17
Alignment explanation
Indices: 4234468--4234514 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
4234458 ATAAAAGGGT
4234468 TTGTTTTAATTAACTAA
1 TTGTTTTAATTAACTAA
* * *
4234485 TTGTTTAAACTAATTAA
1 TTGTTTTAATTAACTAA
*
4234502 TTGATTTAATTAA
1 TTGTTTTAATTAA
4234515 AGCAAAGAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGTTTTAATTAACTAA
Found at i:4238955 original size:3 final size:3
Alignment explanation
Indices: 4238949--4239019 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
4238939 ATCTAAGATT
* * *
4238949 TTA TTA TTA TTA TTAA TTA TTA GTA -TA GTC TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4238993 TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
4239020 ATTTTAAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.07
3 52 0.88
4 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4240435 original size:23 final size:23
Alignment explanation
Indices: 4240398--4240462 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
4240388 GATTTATAAT
4240398 ATTCTGGATGTGTTTGGGTTGGAC
1 ATTCTGG-TGTGTTTGGGTTGGAC
4240422 ATTCTGGTGTGTTTGGGTTGGAC
1 ATTCTGGTGTGTTTGGGTTGGAC
*
4240445 ATTCTGGTGTGGTTGGGT
1 ATTCTGGTGTGTTTGGGT
4240463 GGAATCTGCG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 33 0.82
24 7 0.17
ACGTcount: A:0.09, C:0.08, G:0.40, T:0.43
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGTTGGAC
Found at i:4245426 original size:19 final size:19
Alignment explanation
Indices: 4245402--4245453 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
4245392 CACACCTAGG
*
4245402 TGGCACGACCGTGTCTCAA
1 TGGCACGCCCGTGTCTCAA
*
4245421 TGGCACGCCCGTGTCTCCA
1 TGGCACGCCCGTGTCTCAA
*
4245440 TGACACGCCCGTGT
1 TGGCACGCCCGTGT
4245454 TGTCATCCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.15, C:0.37, G:0.27, T:0.21
Consensus pattern (19 bp):
TGGCACGCCCGTGTCTCAA
Found at i:4247783 original size:46 final size:46
Alignment explanation
Indices: 4247730--4247902 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
4247720 TGGTTGAGCA
* *
4247730 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* * * *
4247776 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T--G
*
4247821 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* *
4247869 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4247903 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
Found at i:4247886 original size:93 final size:93
Alignment explanation
Indices: 4247727--4247897 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
4247717 GGATGGTTGA
* * * *
4247727 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4247792 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
4247820 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4247885 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4247898 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4250319 original size:16 final size:16
Alignment explanation
Indices: 4250298--4250329 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4250288 CTTTTACACT
4250298 ATATTCAATCTAGTCC
1 ATATTCAATCTAGTCC
4250314 ATATTCAATCTAGTCC
1 ATATTCAATCTAGTCC
4250330 TTTCACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
ATATTCAATCTAGTCC
Found at i:4254811 original size:28 final size:28
Alignment explanation
Indices: 4254780--4254869 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
4254770 TTTATTTTAG
4254780 ATTAATTAAATATTCATATTTCATAATA
1 ATTAATTAAATATTCATATTTCATAATA
* *
4254808 ATTATATAAATAAATAATTAAT-TTTC-TATTA
1 ATTA-AT---TAAAT-ATTCATATTTCATAATA
* * *
4254839 ATTAAATAAATAATCATATTTTATAATA
1 ATTAATTAAATATTCATATTTCATAATA
4254867 ATT
1 ATT
4254870 TTATGAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
26 4 0.08
27 8 0.17
28 11 0.23
29 2 0.04
30 1 0.02
31 8 0.17
32 9 0.19
33 5 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAATTAAATATTCATATTTCATAATA
Found at i:4254856 original size:59 final size:59
Alignment explanation
Indices: 4254738--4255552 Score: 1077
Period size: 59 Copynumber: 14.2 Consensus size: 59
4254728 AAAAGATGGG
*
4254738 TCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAATTAAAT--AT--
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * * **
4254793 TCATATTTCATAATAATTATATAAATAAATAATTAATTTTCTATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4254852 TCATATTTTATAATAATTTTATGAATAATTAATTAATTTTTGACTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * * *
4254911 TCATATTTCACAAAAAATTTATGAATAATTAATTTATTTTTGATTAATTAGATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4254970 TCATATTTCATAATAATTCTATGAATAATTAATTCATTTTAGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4255029 TCATAGTTCATAATAATTTTATCAATAATT-ATTTATTTTAGATTAATTAAATAAATAT
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * *
4255087 TCATATTTCATAATAATTATACGAATAATTAATTAATTTTAAATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4255146 TCATATTTTATAATAATTTTATGAATAACTAATTTATTTTAG----ATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
*
4255201 TCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGATTAATTAAAT--AT--
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4255256 TTATATTTCATAAT-A----AT---TAATTAA--T-TTTCA-ATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* *
4255303 TCATATTTTATAATAATTTTATGAATAATTAATTTATTTTTGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * *
4255362 CCATATTTCATAATAATTTTATGAATAACTAATTTATTTTCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
* * * * *
4255421 TCATATTTTATAATAATTGTAGGAATAATTAATTAATTTTAGATTAATTAATTAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
*
4255480 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
*
4255539 TCACATTTCATAAT
1 TCATATTTCATAAT
4255553 GATTATCATA
Statistics
Matches: 662, Mismatches: 73, Indels: 46
0.85 0.09 0.06
Matches are distributed among these distances:
43 11 0.02
44 4 0.01
45 3 0.00
47 19 0.03
48 1 0.00
50 2 0.00
52 2 0.00
54 1 0.00
55 119 0.18
57 5 0.01
58 55 0.08
59 440 0.66
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (59 bp):
TCATATTTCATAATAATTTTATGAATAATTAATTTATTTTAGATTAATTAAATAAATAA
Found at i:4254899 original size:19 final size:20
Alignment explanation
Indices: 4254865--4254902 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4254855 TATTTTATAA
4254865 TAATTTTATGAATAATTAAT
1 TAATTTTATGAATAATTAAT
*
4254885 TAATTTT-TGACTAATTAA
1 TAATTTTATGAATAATTAA
4254903 ATAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TAATTTTATGAATAATTAAT
Found at i:4255298 original size:216 final size:217
Alignment explanation
Indices: 4255052--4255471 Score: 648
Period size: 216 Copynumber: 1.9 Consensus size: 217
4255042 TAATTTTATC
* *
4255052 AATAATTATTTATTTTAGATTAATTAAATAAATATTCATATTTCATAATAATTATACGAATAATT
1 AATAATTATTAATTTTAGATTAATTAAATAAATAATCATATTTCATAATAATTATACGAATAATT
* *
4255117 AATTAATTTTAAATTAATTAAATAAATAATCATATTTTATAATAATTTTATGAATAACTAATTTA
66 AATTAATTTTAAATTAATTAAATAAATAACCATATTTCATAATAATTTTATGAATAACTAATTTA
* * *
4255182 TTTT-A-GATTAAATAAATAATCATATTTCATAATAATTCTATGAATAATTAATTTATTTTAGAT
131 TTTTCATAATTAAATAAATAATCATATTTCATAATAATTCTAGGAATAATTAATTAATTTTAGAT
4255245 TAATTAAATATTTATATTTCAT
196 TAATTAAATATTTATATTTCAT
* * *
4255267 AATAATTAATTAATTTTCA-ATTAATTAAATAAATAATCATATTTTATAATAATTTTATGAATAA
1 AATAATT-ATTAATTTT-AGATTAATTAAATAAATAATCATATTTCATAATAATTATACGAATAA
* **
4255331 TTAATTTATTTTTGATTAATTAAATAAATAACCATATTTCATAATAATTTTATGAATAACTAATT
64 TTAATTAATTTTAAATTAATTAAATAAATAACCATATTTCATAATAATTTTATGAATAACTAATT
* *
4255396 TATTTTCGATTAATTAAATAAATAATCATATTTTATAATAATTGTAGGAATAATTAATTAATTTT
129 TATTTTC-A-TAATTAAATAAATAATCATATTTCATAATAATTCTAGGAATAATTAATTAATTTT
4255461 AGATTAATTAA
192 AGATTAATTAA
4255472 TTAAATAATC
Statistics
Matches: 184, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
215 7 0.04
216 115 0.62
217 1 0.01
218 1 0.01
220 60 0.33
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (217 bp):
AATAATTATTAATTTTAGATTAATTAAATAAATAATCATATTTCATAATAATTATACGAATAATT
AATTAATTTTAAATTAATTAAATAAATAACCATATTTCATAATAATTTTATGAATAACTAATTTA
TTTTCATAATTAAATAAATAATCATATTTCATAATAATTCTAGGAATAATTAATTAATTTTAGAT
TAATTAAATATTTATATTTCAT
Found at i:4255457 original size:23 final size:21
Alignment explanation
Indices: 4255431--4255480 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 21
4255421 TCATATTTTA
4255431 TAATAATTGTAGGAATAATTAAT
1 TAATAATT-TA-GAATAATTAAT
*
4255454 TAAT--TTTAGATTAATTAAT
1 TAATAATTTAGAATAATTAAT
4255473 TAAATAAT
1 T-AATAAT
4255481 CATATTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 11 0.48
20 5 0.22
21 2 0.09
22 1 0.04
23 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
TAATAATTTAGAATAATTAAT
Found at i:4255588 original size:25 final size:25
Alignment explanation
Indices: 4255560--4255609 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4255550 AATGATTATC
4255560 ATAACTTACATAAACATTTAAACAT
1 ATAACTTACATAAACATTTAAACAT
4255585 ATAACTTACATAAACATTTAAACAT
1 ATAACTTACATAAACATTTAAACAT
4255610 TTAAAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAAACATTTAAACAT
Found at i:4261974 original size:3 final size:3
Alignment explanation
Indices: 4261966--4261991 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4261956 TAACAAACAA
4261966 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4261992 AGACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4268613 original size:28 final size:29
Alignment explanation
Indices: 4268546--4268614 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
4268536 AGCAATCCCG
*
4268546 AAAATCTTCAAAATCAAAAACCCTAAACA
1 AAAATCTCCAAAATCAAAAACCCTAAACA
* * * *
4268575 AAAATCCCCAAAATC-AAAACCCTTACCC
1 AAAATCTCCAAAATCAAAAACCCTAAACA
4268603 AAAATCTCCAAA
1 AAAATCTCCAAA
4268615 TTTGACAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (29 bp):
AAAATCTCCAAAATCAAAAACCCTAAACA
Found at i:4269034 original size:29 final size:29
Alignment explanation
Indices: 4268992--4269047 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
4268982 AACATTTTAT
4268992 TTTAATAATTTTATATTTCAAAAAAATAA
1 TTTAATAATTTTATATTTCAAAAAAATAA
4269021 TTTAATAATTTTATATTTCAAAAAAAT
1 TTTAATAATTTTATATTTCAAAAAAAT
4269048 TAATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TTTAATAATTTTATATTTCAAAAAAATAA
Found at i:4274517 original size:19 final size:18
Alignment explanation
Indices: 4274478--4274514 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4274468 AAAAAGAACG
4274478 ATAAAACCCTCCACATCA
1 ATAAAACCCTCCACATCA
4274496 ATAAAACCC-CTCACATCA
1 ATAAAACCCTC-CACATCA
4274514 A
1 A
4274515 ATATTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAACCCTCCACATCA
Found at i:4277707 original size:15 final size:15
Alignment explanation
Indices: 4277656--4277709 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 15
4277646 ATAGAAATAG
4277656 AAAAAGAAAAA-GAA
1 AAAAAGAAAAAGGAA
* **
4277670 ACAAAGTGAAAGGAA
1 AAAAAGAAAAAGGAA
4277685 ACATAAAGAAAAAGGAA
1 A-A-AAAGAAAAAGGAA
4277702 AAAAAGAA
1 AAAAAGAA
4277710 GGAGAAAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 8 0.26
15 10 0.32
16 1 0.03
17 12 0.39
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAAGGAA
Found at i:4278384 original size:100 final size:100
Alignment explanation
Indices: 4278211--4278411 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
4278201 GCTAACGTTG
*
4278211 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCGAAATTTCTGGT
1 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCAAAATTTCTGGT
4278276 TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
66 TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
4278311 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCAAAATTTCTGGT
1 TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCAAAATTTCTGGT
4278376 TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
66 TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
4278411 T
1 T
4278412 TAAATTTTGA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (100 bp):
TACCAGAATCCTCGACTAAAAAGGATAAAGATAAAGTCGACGAGGAATAGCTCAAAATTTCTGGT
TTGTATTTCTATAATCTGAATCTAGTTATTAATTA
Found at i:4278830 original size:40 final size:40
Alignment explanation
Indices: 4278706--4278845 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
4278696 GACTTCGAGT
* * * * *
4278706 CGATGAGACACTGGGTGTCAATTTACTACTTCAAATTAATT
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATT-ATC
* ** *
4278747 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATC
4278784 CGATGAGAG-ACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAG-GCACTGGGTGTCAAATTATTACTTCGAATTATC
* *
4278824 CAATGAGGCACTGGGTGCCAAA
1 CGATGAGGCACTGGGTGTCAAA
4278846 CTGGTGTGTT
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
37 16 0.20
38 12 0.15
39 3 0.04
40 32 0.41
41 16 0.20
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (40 bp):
CGATGAGGCACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:4279767 original size:46 final size:47
Alignment explanation
Indices: 4279704--4279977 Score: 360
Period size: 46 Copynumber: 5.9 Consensus size: 47
4279694 TTCGACATGA
* * * * *
4279704 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* ** * **
4279750 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
4279797 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * *
4279843 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * *
4279889 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
4279935 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCA
4279978 GAGAGCACAC
Statistics
Matches: 207, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
46 167 0.81
47 40 0.19
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:4282120 original size:11 final size:11
Alignment explanation
Indices: 4282104--4282155 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
4282094 TATACTAAAT
4282104 AAATAATAATA
1 AAATAATAATA
*
4282115 AAATAAT-ATT
1 AAATAATAATA
* *
4282125 AAATATCTCATA
1 AAATA-ATAATA
*
4282137 AAATATTAATA
1 AAATAATAATA
4282148 AAATAATA
1 AAATAATA
4282156 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:4287468 original size:27 final size:27
Alignment explanation
Indices: 4287430--4287485 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4287420 AGATACCAAG
4287430 GTGCTATTTGATAAACTAAAAAATTAA
1 GTGCTATTTGATAAACTAAAAAATTAA
4287457 GTGCTATTTGATAAACTAAAAAATTAA
1 GTGCTATTTGATAAACTAAAAAATTAA
4287484 GT
1 GT
4287486 ACCAAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (27 bp):
GTGCTATTTGATAAACTAAAAAATTAA
Found at i:4288049 original size:4 final size:4
Alignment explanation
Indices: 4288040--4288065 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4288030 TAACACTTAA
4288040 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
4288066 TCCTCCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4295868 original size:10 final size:10
Alignment explanation
Indices: 4295850--4295908 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
4295840 AGCTAATGGA
4295850 ATATATATGT
1 ATATATATGT
*
4295860 ATGTATATGT
1 ATATATATGT
* *
4295870 -T-TAT-GGA
1 ATATATATGT
*
4295877 ATATATATAT
1 ATATATATGT
*
4295887 ATATATATAT
1 ATATATATGT
4295897 ATATATATGT
1 ATATATATGT
4295907 AT
1 AT
4295909 GTATCTGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
7 1 0.03
8 4 0.10
9 4 0.10
10 30 0.77
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (10 bp):
ATATATATGT
Found at i:4295884 original size:2 final size:2
Alignment explanation
Indices: 4295877--4295904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4295867 TGTTTATGGA
4295877 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
4295905 GTATGTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4298156 original size:2 final size:2
Alignment explanation
Indices: 4298149--4298273 Score: 125
Period size: 2 Copynumber: 64.5 Consensus size: 2
4298139 CAATTTGAAC
4298149 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
* * * * *
4298191 TA TA TA TA TG T- TA AA TA T- TA AA TA TA TCA -A AA TA T- TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
4298230 AA CA AA AA TA -A 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
4298271 TA T
1 TA T
4298274 TATGCATGTC
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
1 5 0.05
2 100 0.94
3 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4299568 original size:19 final size:17
Alignment explanation
Indices: 4299544--4299578 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
4299534 GATTTAGATA
4299544 TATATTAAATTATTTTTAT
1 TATATT-AATT-TTTTTAT
4299563 TATATTAATTTTTTTA
1 TATATTAATTTTTTTA
4299579 CTTGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATTAATTTTTTTAT
Found at i:4305386 original size:13 final size:14
Alignment explanation
Indices: 4305368--4305396 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4305358 TTTAATTTTT
4305368 TATATAAAAA-TAA
1 TATATAAAAAGTAA
4305381 TATATAAAAAGTAA
1 TATATAAAAAGTAA
4305395 TA
1 TA
4305397 CGAACGGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TATATAAAAAGTAA
Found at i:4306164 original size:33 final size:33
Alignment explanation
Indices: 4306127--4306203 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
4306117 AGTCTGTTGG
* *
4306127 TAAGTGGCACGCCCAAGTTCTTTCGTCTGCAGA
1 TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
* * *
4306160 TAAGTAGCACGCCCAAGTTCTATCGTTTGCCCA
1 TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
*
4306193 TAAGTGACACG
1 TAAGTGGCACG
4306204 TTTTGAAGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (33 bp):
TAAGTGGCACGCCCAAGTTCTATCGTCTGCACA
Found at i:4311316 original size:13 final size:14
Alignment explanation
Indices: 4311285--4311318 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4311275 AGGTTCTATG
4311285 AAAAAATAGTTTTT
1 AAAAAATAGTTTTT
*
4311299 TAAAAATA-TTTTT
1 AAAAAATAGTTTTT
4311312 AAAAAAT
1 AAAAAAT
4311319 TTGATTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AAAAAATAGTTTTT
Found at i:4314954 original size:26 final size:25
Alignment explanation
Indices: 4314911--4314960 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4314901 GAAAAAGGAG
* **
4314911 GAGAAGATGGAAGGGAAGAAGAAAAA
1 GAGAAGATGAAAAAGAAGAA-AAAAA
4314937 GAGAAGATGAAAAAGAAGAAAAAA
1 GAGAAGATGAAAAAGAAGAAAAAA
4314961 GAAAGGATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (25 bp):
GAGAAGATGAAAAAGAAGAAAAAAA
Found at i:4322811 original size:162 final size:168
Alignment explanation
Indices: 4322522--4322960 Score: 516
Period size: 162 Copynumber: 2.6 Consensus size: 168
4322512 GAACAATCTG
* * * * *
4322522 AATCAATTACATCATCTGCTTCACAATCTT-AAGTTCAAGAGATTCATAACAAAACCAAAGCAAC
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAA-TAAACCAAAGCAAT
* * * * * *
4322586 CGGTTAATGAATTCTCTGAGGTTTATTTCCATTAG-AGATGCGATAATTAAAACTCCTGATAAAT
65 CGGTTAATGAATTCTCGGAAGTTCATTTCAATT-GTAGATGCGATAAATAAAACTCCGGATAAAT
* *
4322650 TGAAATAAACAAAGCTTTACCTGCACATAATT-C-AA-T-
129 TGAAATAAACAAAGCTTCACCAGCACATAATTACGAATTA
* *
4322686 AA-CAATTACATTATCTGTTTAACAATCTTAAAGTTCAA-CGATTCATAATAAACCAAAGGAATC
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATC
* * *
4322749 GGTTTATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGTTAAATACAACTCCGGATAAATTG
66 GGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGATAAATAAAACTCCGGATAAATTG
4322814 AAATAAACAAAGCTTCACCAGCACATAATTCAACAGGAATTCA
131 AAATAAACAAAGCTTCACCAGCACATAATT--AC--GAATT-A
* ** * * *
4322857 AATAAATTACATTATCCATTTCACAATCTTAAAGTTTAAGCGGTTCATAATAAATCAAAAGCAAT
1 AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAA-CCAAAGCAAT
* *
4322922 CGGTTCATGATTTCTCGGAAGTTCATTTCAATTGTAGAT
65 CGGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGAT
4322961 TCCAAATTTT
Statistics
Matches: 233, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
161 1 0.00
162 94 0.40
163 33 0.14
164 10 0.04
165 1 0.00
168 2 0.01
169 1 0.00
171 2 0.01
172 31 0.13
173 13 0.06
174 45 0.19
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (168 bp):
AATCAATTACATTATCTGTTTCACAATCTTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATC
GGTTAATGAATTCTCGGAAGTTCATTTCAATTGTAGATGCGATAAATAAAACTCCGGATAAATTG
AAATAAACAAAGCTTCACCAGCACATAATTACGAATTA
Found at i:4333606 original size:45 final size:45
Alignment explanation
Indices: 4333552--4333714 Score: 211
Period size: 45 Copynumber: 3.6 Consensus size: 45
4333542 AAGGATACTA
4333552 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
** * * ** *
4333597 TGTAAGACCATGTCAAGACATGGCATCAGCATTGATTAAGGA-CTCCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTA-AG-GCAAGGATC-CCG
**
4333644 TGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
4333689 TGTAAGACCATGTCAAGACATGGCAT
1 TGTAAGACCATGTCAAGACATGGCAT
4333715 CGCCATTGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
45 59 0.61
46 4 0.04
47 33 0.34
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (45 bp):
TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
Found at i:4333660 original size:47 final size:46
Alignment explanation
Indices: 4333597--4333753 Score: 167
Period size: 47 Copynumber: 3.4 Consensus size: 46
4333587 AAGGATCCCG
**
4333597 TGTAAGACCATGTCAAGACATGGCATCAGCATTGATTAAGGACTCCA
1 TGTAAGACCACATCAAGACATGGCATC-GCATTGATTAAGGACTCCA
* * * ** *
4333644 TGTAAGACCACATCAAGACATGGCATTG--GTAAGGCAAGGA-TCCCG
1 TGTAAGACCACATCAAGACATGGCATCGCATTGA-TTAAGGACT-CCA
**
4333689 TGTAAGACCATGTCAAGACATGGCATCGCCATTGATTAAGGACTCCA
1 TGTAAGACCACATCAAGACATGGCATCG-CATTGATTAAGGACTCCA
4333736 TGTAAGACCACATCAAGA
1 TGTAAGACCACATCAAGA
4333754 TATAGCATTG
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
44 3 0.03
45 32 0.37
46 1 0.01
47 47 0.55
48 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (46 bp):
TGTAAGACCACATCAAGACATGGCATCGCATTGATTAAGGACTCCA
Found at i:4333697 original size:92 final size:92
Alignment explanation
Indices: 4333551--4333796 Score: 386
Period size: 92 Copynumber: 2.6 Consensus size: 92
4333541 TAAGGATACT
**
4333551 ATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
1 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
4333616 ATGGCATCAG-CATTGATTAAGGACTCC
66 ATGGCATC-GCCATTGATTAAGGACTCC
4333643 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
1 ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
4333708 ATGGCATCGCCATTGATTAAGGACTCC
66 ATGGCATCGCCATTGATTAAGGACTCC
* * * * *
4333735 ATGTAAGACCACATCAAGATATAGCATTGGCACTAAGACAAGGATACCATGTAAGACCATGT
1 ATGTAAGACCACATCAAGACATGGCATTGG---TAAGGCAAGGATCCCGTGTAAGACCATGT
4333797 TTGGAACATG
Statistics
Matches: 143, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
91 1 0.01
92 116 0.81
95 26 0.18
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGTAAGACCACATCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGAC
ATGGCATCGCCATTGATTAAGGACTCC
Found at i:4333829 original size:47 final size:47
Alignment explanation
Indices: 4333768--4333890 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
4333758 GCATTGGCAC
*
4333768 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
1 TAAGACAAGGATACCATGTAAGACCATGCTTGGAACATGGCATTTGA
** * * *
4333815 TAAGACAAAAATACCATGTAATACTATGCTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGCTTGGAACATGGCATTTGA
* *
4333862 TAAGATAAGGATATCATGTAAGACCATGC
1 TAAGACAAGGATACCATGTAAGACCATGC
4333891 CAATGCATGG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGCTTGGAACATGGCATTTGA
Found at i:4333997 original size:55 final size:54
Alignment explanation
Indices: 4333876--4334064 Score: 188
Period size: 55 Copynumber: 3.5 Consensus size: 54
4333866 ATAAGGATAT
* * * ** *
4333876 CATGTAAGACCATGCCAATG-CATGGCATTGATAAGTTTTATAAGGCAATGAAAT
1 CATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGCAAAGGTAC
* * *
4333930 CATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTAC
* *
4333985 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAAGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAAGG-TAC
* * *
4334038 CACGTAAGACAATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
4334065 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.04
53 32 0.28
54 34 0.30
55 43 0.38
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTAC
Found at i:4334075 original size:53 final size:53
Alignment explanation
Indices: 4333933--4334080 Score: 156
Period size: 53 Copynumber: 2.8 Consensus size: 53
4333923 ATGAAATCAT
* * * * *
4333933 GTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCAT
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAAGCAAAGGTACCAC
* * *
4333988 GTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAAGC-AAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAGCAAAGG-TACCAC
* * *
4334041 GTAAGACAATGTCAAGACATGGCAATGGTAAGTTCA-AAAG
1 GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAG
4334081 AAAAAGGTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
52 8 0.10
53 40 0.51
54 1 0.01
55 29 0.37
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAAGCAAAGGTACCAC
Found at i:4337480 original size:27 final size:27
Alignment explanation
Indices: 4337435--4337492 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
4337425 AGTTGCATCA
* * *
4337435 GCGATGGCACCGTCAGGCATGGAGGTT
1 GCGATGGCACCATCAGGCACGGAGGCT
* *
4337462 GCGATGGCACTATCGGGCACGGAGGCT
1 GCGATGGCACCATCAGGCACGGAGGCT
4337489 GCGA
1 GCGA
4337493 CAATAGCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.16
Consensus pattern (27 bp):
GCGATGGCACCATCAGGCACGGAGGCT
Found at i:4337663 original size:31 final size:30
Alignment explanation
Indices: 4337622--4337789 Score: 110
Period size: 31 Copynumber: 5.5 Consensus size: 30
4337612 CTAAAGATAA
*
4337622 TATTATTTTAATATTTATCTAAATAGTATTT
1 TATTAATTTAATATTTATCTAAATA-TATTT
* * * *
4337653 TATTAATTTAATATTAATAT-GAGATATTT
1 TATTAATTTAATATTTATCTAAATATATTT
* * * *
4337682 AATTTAATTTAACATTTATCTAGATAATGTTT
1 TA-TTAATTTAATATTTATCTAAAT-ATATTT
* * **
4337714 TATTAATTTAA-AATTAACATAAGATATCA-AA
1 TATTAATTTAATATTTATC-TAA-ATAT-ATTT
* *
4337745 T-TTAACTTAATATTTATCTAGATTATATTT
1 TATTAATTTAATATTTATCTA-AATATATTT
4337775 TATTAATTTAATATT
1 TATTAATTTAATATT
4337790 AATGTGATTA
Statistics
Matches: 102, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
29 7 0.07
30 36 0.35
31 51 0.50
32 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATTAATTTAATATTTATCTAAATATATTT
Found at i:4337699 original size:61 final size:60
Alignment explanation
Indices: 4337619--4337792 Score: 213
Period size: 61 Copynumber: 2.8 Consensus size: 60
4337609 TTTCTAAAGA
* * *
4337619 TAATATTATTTTAATATTTATCTAAATAGTATTTTATTAATTTAATATTAATATGAGATATT
1 TAAT-TTAATTTAATATTTATCTAAATA-TATTTTATTAATTTAATATTAATATAAGATATC
* * * * *
4337681 TAATTTAATTTAACATTTATCTAGATAATGTTTTATTAATTTAAAATTAACATAAGATATC
1 TAATTTAATTTAATATTTATCTAAAT-ATATTTTATTAATTTAATATTAATATAAGATATC
* * *
4337742 AAATTTAACTTAATATTTATCTAGATTATATTTTATTAATTTAATATTAAT
1 TAATTTAATTTAATATTTATCTA-AATATATTTTATTAATTTAATATTAAT
4337793 GTGATTAATT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
61 88 0.94
62 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (60 bp):
TAATTTAATTTAATATTTATCTAAATATATTTTATTAATTTAATATTAATATAAGATATC
Done.