Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 11 of 210
Found at i:3766254 original size:25 final size:25
Alignment explanation
Indices: 3766226--3766273 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3766216 TGAATATTTA
3766226 ATTAAGGAAGT-GAAATTGAAATGTG
1 ATTAAGGAA-TAGAAATTGAAATGTG
**
3766251 ATTATTGAATAGAAATTGAAATG
1 ATTAAGGAATAGAAATTGAAATG
3766274 GTTTGAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (25 bp):
ATTAAGGAATAGAAATTGAAATGTG
Found at i:3766654 original size:41 final size:37
Alignment explanation
Indices: 3766605--3766708 Score: 102
Period size: 37 Copynumber: 2.7 Consensus size: 37
3766595 TTCGACCTTG
3766605 AGTCGATGAGACACTGGGTGTCATACTGTTACTTCGG-TT
1 AGTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGCTT
** **
3766644 AGATTCGATGAGTTACTGGGTACCAACTTACTTCGGCTT
1 AG--TCGATGAGACACTGGGTGTCAACTTACTTCGGCTT
* *
3766683 CGCCGATGAGACACTGGGTGTCAACT
1 AGTCGATGAGACACTGGGTGTCAACT
3766709 ATTGCTTCGA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
37 19 0.37
38 9 0.17
39 5 0.10
40 2 0.04
41 17 0.33
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (37 bp):
AGTCGATGAGACACTGGGTGTCAACTTACTTCGGCTT
Found at i:3767264 original size:17 final size:18
Alignment explanation
Indices: 3767234--3767267 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3767224 ATTATCAGAA
*
3767234 TTGACATTGTATGAATTG
1 TTGACATTGAATGAATTG
3767252 TTGA-ATTGAATGAATT
1 TTGACATTGAATGAATT
3767268 ATTGGAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (18 bp):
TTGACATTGAATGAATTG
Found at i:3767659 original size:2 final size:2
Alignment explanation
Indices: 3767652--3767685 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3767642 GTTGGGTGTA
3767652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3767686 TGTAACAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3767792 original size:66 final size:67
Alignment explanation
Indices: 3767685--3767818 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 67
3767675 TATATATATA
3767685 TTGTAACAGCCTAATTTTTAGTGGTGTCGGAAACAGTGATTGGAGATCACTAAATGTGACTAGTG
1 TTGTAACAGCCTAATTTTTAGTGGTGTCGGAAACAGTGATTGGAGATCACTAAATGTGACTAGTG
3767750 AG
66 AG
3767752 TTGTAACAG-CTAATTTTTAGTGGTGTCGGAAACAGTGATTGGAGATCACTAAATGTGACTAGTG
1 TTGTAACAGCCTAATTTTTAGTGGTGTCGGAAACAGTGATTGGAGATCACTAAATGTGACTAGTG
3767816 AG
66 AG
3767818 T
1 T
3767819 CTTAAAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 58 0.87
67 9 0.13
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (67 bp):
TTGTAACAGCCTAATTTTTAGTGGTGTCGGAAACAGTGATTGGAGATCACTAAATGTGACTAGTG
AG
Found at i:3767898 original size:17 final size:16
Alignment explanation
Indices: 3767867--3767908 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
3767857 GAATTTAGAA
3767867 GAATTTTTGAATTAGT
1 GAATTTTTGAATTAGT
*
3767883 GAATTTTGTGATTTAGT
1 GAATTTT-TGAATTAGT
3767900 GAATTTTTG
1 GAATTTTTG
3767909 CGATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (16 bp):
GAATTTTTGAATTAGT
Found at i:3769224 original size:46 final size:46
Alignment explanation
Indices: 3769155--3769386 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
3769145 CATGGCAAAG
*
3769155 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* * *
3769201 TATGAAAAGTAGGTATGGTGTTTCAGCGAAGAAAACCATATTGAGGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGA-GT
3769248 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
3769294 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACAATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* * *
3769340 TGTGAAAAGTAGGTATGTTATTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
3769386 T
1 T
3769387 ATAGCAATGT
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 130 0.75
47 43 0.25
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:3769314 original size:93 final size:92
Alignment explanation
Indices: 3769155--3769388 Score: 378
Period size: 93 Copynumber: 2.5 Consensus size: 92
3769145 CATGGCAAAG
*
3769155 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGT
* * *
3769220 GTTTCAGCGAAGAAAACCATATTGAGGT
66 GTTTCAACGAAGAAAACAATACTGA-GT
*
3769248 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGT
*
3769313 GTTTCAATGAAGAAAACAATACTGAGT
66 GTTTCAACGAAGAAAACAATACTGAGT
* * *
3769340 TGTGAAAAGTAGGTATGTTATTTCAATGAAGAAAACCATACTGAGTTAT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTAT
3769389 AGCAATGTGA
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 47 0.36
93 84 0.64
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (92 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGT
GTTTCAACGAAGAAAACAATACTGAGT
Found at i:3777975 original size:21 final size:21
Alignment explanation
Indices: 3777949--3777991 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3777939 TACCTGGGTT
*
3777949 TTTTTTTTTTTTTTTTTCTAA
1 TTTTTTTTTTTTTTTGTCTAA
3777970 TTTTTTTTTTTTTTTGTCTAA
1 TTTTTTTTTTTTTTTGTCTAA
3777991 T
1 T
3777992 ATGATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTGTCTAA
Found at i:3800428 original size:51 final size:51
Alignment explanation
Indices: 3800352--3800533 Score: 301
Period size: 51 Copynumber: 3.6 Consensus size: 51
3800342 TTTGAGTACT
*
3800352 TCTGATCAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
3800403 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
3800454 TTTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGATTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
3800505 TCTGATTAGGGACAAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGACAAGTGATAA
3800534 ATGTGATCCG
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 121 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:3815054 original size:25 final size:25
Alignment explanation
Indices: 3815024--3815119 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
3815014 AGCACTAACA
3815024 TGCTAATAATCAGAGAGCACAGATG
1 TGCTAATAATCAGAGAGCACAGATG
* * *
3815049 TACTAATAATCAGAGAGCACTGACG
1 TGCTAATAATCAGAGAGCACAGATG
*
3815074 TGCTAATAATCAGAGAGCACTGATG
1 TGCTAATAATCAGAGAGCACAGATG
*
3815099 TGCTAATAATTAGAGAGCACA
1 TGCTAATAATCAGAGAGCACA
3815120 CTAAGGTTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
TGCTAATAATCAGAGAGCACAGATG
Found at i:3815068 original size:50 final size:50
Alignment explanation
Indices: 3815014--3815118 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
3815004 AATGTACTAA
3815014 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
1 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
* * * * *
3815064 AGCACTGACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAATTAGAG
1 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
3815114 AGCAC
1 AGCAC
3815119 ACTAAGGTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (50 bp):
AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
Found at i:3815757 original size:47 final size:48
Alignment explanation
Indices: 3815682--3815815 Score: 137
Period size: 47 Copynumber: 2.8 Consensus size: 48
3815672 TGCACATAAT
*
3815682 CACATATCACACACCAAAGCCATAGCCCAGCCATGGTCTTACACGG-AAG
1 CACATAT--CACACCAAAGCCATAGCCCAACCATGGTCTTACACGGAAAG
* * * * *
3815731 CACATATCACACCGATGCCATAGCCCAACTATGGTCTTATACGGAAAT
1 CACATATCACACCAAAGCCATAGCCCAACCATGGTCTTACACGGAAAG
* ** * *
3815779 CACATATCACA-TATTGCCATGGTCCAACCATGGTCTT
1 CACATATCACACCAAAGCCATAGCCCAACCATGGTCTT
3815816 TTTCATCAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
47 52 0.72
48 13 0.18
49 7 0.10
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (48 bp):
CACATATCACACCAAAGCCATAGCCCAACCATGGTCTTACACGGAAAG
Found at i:3828140 original size:4 final size:4
Alignment explanation
Indices: 3828131--3828168 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
3828121 ATATTCCTGC
*
3828131 ACAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
3828169 GTGATAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:3837737 original size:15 final size:16
Alignment explanation
Indices: 3837703--3837739 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3837693 AACAACCAGT
*
3837703 TCAA-ACAATGGGTCA
1 TCAATACAATGGGACA
3837718 TCAATACAATGGGACA
1 TCAATACAATGGGACA
3837734 -CAATAC
1 TCAATAC
3837740 GCTCCAGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (16 bp):
TCAATACAATGGGACA
Found at i:3837957 original size:4 final size:4
Alignment explanation
Indices: 3837948--3837974 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3837938 ATGTAATAGC
3837948 ATCT ATCT ATCT ATCT ATCT ATCT ATC
1 ATCT ATCT ATCT ATCT ATCT ATCT ATC
3837975 AAGTATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
ATCT
Found at i:3842006 original size:3 final size:3
Alignment explanation
Indices: 3842000--3842025 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3841990 ATCACAAAAA
3842000 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3842026 ACAAAACCAT
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:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3845013 original size:22 final size:23
Alignment explanation
Indices: 3844985--3845029 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3844975 ATGCAATCTT
3844985 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
3845007 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
3845030 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:3845039 original size:22 final size:23
Alignment explanation
Indices: 3844995--3845039 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3844985 AGATATGATA
*
3844995 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
3845018 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
3845040 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:3845224 original size:19 final size:21
Alignment explanation
Indices: 3845200--3845238 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3845190 GGCTTACTGT
*
3845200 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
3845219 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
3845239 TTAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:3845466 original size:3 final size:3
Alignment explanation
Indices: 3845458--3845497 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
3845448 ATTAATTTTG
*
3845458 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
3845498 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3845466 original size:15 final size:15
Alignment explanation
Indices: 3845442--3845496 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
3845432 GTTTTTAGTC
3845442 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
3845456 TGTTATTATTATTTT
1 TATTATTATTAATTT
3845471 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
3845485 ATATTATTATTA
1 -TATTATTATTA
3845497 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:3845473 original size:12 final size:12
Alignment explanation
Indices: 3845444--3845495 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
3845434 TTTTAGTCTA
3845444 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
3845456 TGTTATTATTAT
1 TTTTATTATTAT
3845468 TTTTATTATTAT
1 TTTTATTATTAT
3845480 ATTATATATTATTAT
1 -TT-T-TATTATTAT
3845495 T
1 T
3845496 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:3845846 original size:52 final size:51
Alignment explanation
Indices: 3845765--3845864 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 51
3845755 GTTTTTATAT
3845765 TATACTTATATATTTCATTTTTTAGTAAATGCATGAATATATTTTATATGTG
1 TATACTTATATATTTCATTTTTTAGTAAATGCAT-AATATATTTTATATGTG
* * * *
3845817 TATATTTATAT-TTTCCTTGTTTTCA-TAAATGCATTATGTATTTTATAT
1 TATACTTATATATTTCATT-TTTT-AGTAAATGCATAATATATTTTATAT
3845865 ATATATAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
51 18 0.43
52 23 0.55
53 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (51 bp):
TATACTTATATATTTCATTTTTTAGTAAATGCATAATATATTTTATATGTG
Found at i:3849276 original size:530 final size:530
Alignment explanation
Indices: 3848275--3849333 Score: 2093
Period size: 530 Copynumber: 2.0 Consensus size: 530
3848265 TTCTGCTGAA
*
3848275 CCACCAGCTTTTTACATTTATAGAGTTTTTACAAACGGCTAACTAACACCAGTACCTGTTACCAA
1 CCACCAGCTTTCTACATTTATAGAGTTTTTACAAACGGCTAACTAACACCAGTACCTGTTACCAA
3848340 CTAACTAACTGCTAACAACTAACTATAACAGTTAACTACTATATTAAACCTTAATATGCCTCCAG
66 CTAACTAACTGCTAACAACTAACTATAACAGTTAACTACTATATTAAACCTTAATATGCCTCCAG
3848405 CTACTTGACCTCTGCTGCTGGTTCTTGTTTGGAGAAAACCTTTAGATTCGACCGAAACTTTGTAA
131 CTACTTGACCTCTGCTGCTGGTTCTTGTTTGGAGAAAACCTTTAGATTCGACCGAAACTTTGTAA
3848470 ACAAGGGAGCAGATAAGGGTTTTGTGAAAATATTAGCTACTTGATCCTGTCCTGGAACATGTTCC
196 ACAAGGGAGCAGATAAGGGTTTTGTGAAAATATTAGCTACTTGATCCTGTCCTGGAACATGTTCC
3848535 ACAACTAGCTGTCCAGCTGCAACCTTCTCCCTAATAAAAAAAATCCAACTCCACGTGTTTGAACT
261 ACAACTAGCTGTCCAGCTGCAACCTTCTCCCTAATAAAAAAAATCCAACTCCACGTGTTTGAACT
3848600 TCGAATGTAACACTGGATTGGCTGACACAACAACAGCCTCAGAACTATCACACCATATCTTAGCT
326 TCGAATGTAACACTGGATTGGCTGACACAACAACAGCCTCAGAACTATCACACCATATCTTAGCT
3848665 CTCTTGAAGGGAACAACATGCAACTCAGACAAAAGAGATTCGAGCCACACGACCTCAGTAACCGT
391 CTCTTGAAGGGAACAACATGCAACTCAGACAAAAGAGATTCGAGCCACACGACCTCAGTAACCGT
3848730 TGTTTCTTAGATCCCCAAGCCATAGGGTTGCCACAAAAAAAAACACAGAAACCTGAAGTAGACCG
456 TGTTTCTTAGATCCCCAAGCCATAGGGTTGCCACAAAAAAAAACACAGAAACCTGAAGTAGACCG
3848795 TCTATCGTCG
521 TCTATCGTCG
3848805 CCACCAGCTTTCTACATTTATAGAGTTTTTTACAAAC-GCTAACTAACACCAGTACCTGTTACCA
1 CCACCAGCTTTCTACATTTATAGAG-TTTTTACAAACGGCTAACTAACACCAGTACCTGTTACCA
3848869 ACTAACTAACTGCTAACAACTAACTATAACAGTTAACTACTATATTAAACCTTAATATGCCTCCA
65 ACTAACTAACTGCTAACAACTAACTATAACAGTTAACTACTATATTAAACCTTAATATGCCTCCA
3848934 GCTACTTGACCTCTGCTGCTGGTTCTTGTTTGGAGAAAACCTTTAGATTCGACCGAAACTTTGTA
130 GCTACTTGACCTCTGCTGCTGGTTCTTGTTTGGAGAAAACCTTTAGATTCGACCGAAACTTTGTA
3848999 AACAAGGGAGCAGATAAGGGTTTTGTGAAAATATTAGCTACTTGATCCTGTCCTGGAACATGTTC
195 AACAAGGGAGCAGATAAGGGTTTTGTGAAAATATTAGCTACTTGATCCTGTCCTGGAACATGTTC
3849064 CACAACTAGCTGTCCAGCTGCAACCTTCTCCCTAATAAAAAAAATCCAACTCCACGTGTTTGAAC
260 CACAACTAGCTGTCCAGCTGCAACCTTCTCCCTAATAAAAAAAATCCAACTCCACGTGTTTGAAC
3849129 TTCGAATGTAACACTGGATTGGCTGACACAACAACAGCCTCAGAACTATCACACCATATCTTAGC
325 TTCGAATGTAACACTGGATTGGCTGACACAACAACAGCCTCAGAACTATCACACCATATCTTAGC
3849194 TCTCTTGAAGGGAACAACATGCAACTCAGACAAAAGAGATTCGAGCCACACGACCTCAGTAACCG
390 TCTCTTGAAGGGAACAACATGCAACTCAGACAAAAGAGATTCGAGCCACACGACCTCAGTAACCG
3849259 TTGTTTCTTAGATCCCCAAGCCATAGGGTTGCCACAAAAAAAAACACAGAAACCTGAAGTAGACC
455 TTGTTTCTTAGATCCCCAAGCCATAGGGTTGCCACAAAAAAAAACACAGAAACCTGAAGTAGACC
3849324 GTCTATCGTC
520 GTCTATCGTC
3849334 AACATCAGTG
Statistics
Matches: 527, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
530 516 0.98
531 11 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (530 bp):
CCACCAGCTTTCTACATTTATAGAGTTTTTACAAACGGCTAACTAACACCAGTACCTGTTACCAA
CTAACTAACTGCTAACAACTAACTATAACAGTTAACTACTATATTAAACCTTAATATGCCTCCAG
CTACTTGACCTCTGCTGCTGGTTCTTGTTTGGAGAAAACCTTTAGATTCGACCGAAACTTTGTAA
ACAAGGGAGCAGATAAGGGTTTTGTGAAAATATTAGCTACTTGATCCTGTCCTGGAACATGTTCC
ACAACTAGCTGTCCAGCTGCAACCTTCTCCCTAATAAAAAAAATCCAACTCCACGTGTTTGAACT
TCGAATGTAACACTGGATTGGCTGACACAACAACAGCCTCAGAACTATCACACCATATCTTAGCT
CTCTTGAAGGGAACAACATGCAACTCAGACAAAAGAGATTCGAGCCACACGACCTCAGTAACCGT
TGTTTCTTAGATCCCCAAGCCATAGGGTTGCCACAAAAAAAAACACAGAAACCTGAAGTAGACCG
TCTATCGTCG
Found at i:3854412 original size:105 final size:106
Alignment explanation
Indices: 3854198--3854416 Score: 300
Period size: 105 Copynumber: 2.1 Consensus size: 106
3854188 TCAGACTTTA
* *
3854198 AAAAAAAATTGGGTTTTGGCCTGTCAATGGCTGACACTCAGTACGAAAAAAAGGAAAAAATAATT
1 AAAAAAAATTGAGTTTTGGCCTGTCAATGGCCGACACTCAGTACGAAAAAAAGGAAAAAATAA-T
* ** *
3854263 TTTTTTTGTACTGGCCTGTCAATGGCCGGCACCCAGTACAGT
65 ATTTTAAGTACTGGCCTGTCAATGGCCGACACCCAGTACAGT
* * *
3854305 AAAAAAAATTGAGTTTTGGTCTGTCAATGGCCGGCAC-CAGAGTACGAAAAAAAGTAAAAAA-AA
1 AAAAAAAATTGAGTTTTGGCCTGTCAATGGCCGACACTC--AGTACGAAAAAAAGGAAAAAATAA
*
3854368 -ATTTTAAGTGCTGGCCTGTCAATGGCCGACACCCAGTACAGT
64 TATTTTAAGTACTGGCCTGTCAATGGCCGACACCCAGTACAGT
3854410 AAAAAAA
1 AAAAAAA
3854417 TTTTACTTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
105 44 0.44
106 1 0.01
107 35 0.35
108 20 0.20
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (106 bp):
AAAAAAAATTGAGTTTTGGCCTGTCAATGGCCGACACTCAGTACGAAAAAAAGGAAAAAATAATA
TTTTAAGTACTGGCCTGTCAATGGCCGACACCCAGTACAGT
Found at i:3854461 original size:105 final size:101
Alignment explanation
Indices: 3854267--3854593 Score: 329
Period size: 105 Copynumber: 3.3 Consensus size: 101
3854257 ATAATTTTTT
* * * **
3854267 TTTGTACTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAAAATTGAGTTTTGGTC-TGTCA
1 TTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGT-AAAAAAATTTACTTTTTTTCGTGTCA
* ** * * *
3854331 ATGGCCGGCACCAG-AGTACGAAAAAAAGTAAAAAAAAA
65 GTATCAGGTATCAGTA-TACG-AAAAAAGTAAAAAAAAA
*
3854369 TTTTAAGTGCTGGCCTGTCAATGGCCGACACCCAGTACAGTAAAAAAATTTTACTTTTTTTCGTG
1 -TTT--GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAAA-TTTACTTTTTTTCGTG
3854434 TCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
62 TCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
* * * *
3854474 --T-T--T----TGACAA--GCCAGCACCCAGTACAGTAAAAAAAATTATTTTTTTTCGTGTCAG
1 TTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAAATTTACTTTTTTTCGTGTCAG
3854528 TATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
66 TATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
* *
3854564 TTTGGTGGTGGCCTGCCAATGGCCGGCACC
1 TTT-GTGCTGGCCTGTCAATGGCCGGCACC
3854594 ACCTTTTTTG
Statistics
Matches: 188, Mismatches: 19, Indels: 35
0.78 0.08 0.14
Matches are distributed among these distances:
90 54 0.29
91 23 0.12
92 1 0.01
93 5 0.03
94 1 0.01
96 1 0.01
97 1 0.01
99 1 0.01
100 5 0.03
102 9 0.05
103 3 0.02
104 7 0.04
105 59 0.31
106 17 0.09
107 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (101 bp):
TTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAAATTTACTTTTTTTCGTGTCAG
TATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
Found at i:3854560 original size:91 final size:91
Alignment explanation
Indices: 3854397--3854566 Score: 315
Period size: 90 Copynumber: 1.9 Consensus size: 91
3854387 CAATGGCCGA
*
3854397 CACCCAGTACAGTAAAAAAATTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAA
1 CACCCAGTACAGTAAAAAAATATTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAA
3854462 AGTAAAAAAAAATTTTGACAAGCCAG
66 AGTAAAAAAAAATTTTGACAAGCCAG
*
3854488 CACCCAGTACAGTAAAAAAA-ATTATTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAA
1 CACCCAGTACAGTAAAAAAATATTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAA
3854552 AGTAAAAAAAAATTT
66 AGTAAAAAAAAATTT
3854567 GGTGGTGGCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 57 0.74
91 20 0.26
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (91 bp):
CACCCAGTACAGTAAAAAAATATTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAA
AGTAAAAAAAAATTTTGACAAGCCAG
Found at i:3855016 original size:13 final size:13
Alignment explanation
Indices: 3854998--3855022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3854988 TTAAGAAAGT
3854998 AAAAATTAAAATA
1 AAAAATTAAAATA
3855011 AAAAATTAAAAT
1 AAAAATTAAAAT
3855023 TGTCGCGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTAAAATA
Found at i:3857151 original size:63 final size:64
Alignment explanation
Indices: 3857073--3857200 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
3857063 TAAGATTGTT
3857073 TTATAATATATTATTATTAATAGTATAAATTTATTACATATCATATTTTTAAATTTATCATGTA
1 TTATAATATATTATTATTAATAGTATAAATTTATTACATATCATATTTTTAAATTTATCATGTA
3857137 TTATAATATA-TATTATTAATAGTATAAATTTATTACATATCATATTTTTAAATTTATCATGTA
1 TTATAATATATTATTATTAATAGTATAAATTTATTACATATCATATTTTTAAATTTATCATGTA
3857200 T
1 T
3857201 CATTATTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 54 0.84
64 10 0.16
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (64 bp):
TTATAATATATTATTATTAATAGTATAAATTTATTACATATCATATTTTTAAATTTATCATGTA
Found at i:3857182 original size:32 final size:32
Alignment explanation
Indices: 3857084--3857187 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 32
3857074 TATAATATAT
3857084 TATTATTAATAGTATAAATTTATTACATATCA
1 TATTATTAATAGTATAAATTTATTACATATCA
* * * * *
3857116 TATTTTTAA-A-TTTATCATGTATTATAATAT-A
1 TATTATTAATAGTATA-AATTTATTA-CATATCA
3857147 TATTATTAATAGTATAAATTTATTACATATCA
1 TATTATTAATAGTATAAATTTATTACATATCA
*
3857179 TATTTTTAA
1 TATTATTAA
3857188 ATTTATCATG
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
30 3 0.05
31 21 0.38
32 29 0.52
33 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (32 bp):
TATTATTAATAGTATAAATTTATTACATATCA
Found at i:3863070 original size:2 final size:2
Alignment explanation
Indices: 3863051--3863115 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
3863041 NNNCCTCGCT
* *
3863051 TA TA TA CA TA TA CA -A 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
*
3863092 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
3863116 CTTTCATATC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3864015 original size:15 final size:16
Alignment explanation
Indices: 3863995--3864024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3863985 TGATATGTAA
3863995 AAAT-AAAATAAAGTG
1 AAATAAAAATAAAGTG
3864010 AAATAAAAATAAAGT
1 AAATAAAAATAAAGT
3864025 TATCGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
AAATAAAAATAAAGTG
Found at i:3867609 original size:4 final size:4
Alignment explanation
Indices: 3867593--3867624 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
3867583 GAAATACTAA
*
3867593 TATG TATG GATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
3867625 CACCTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:3869131 original size:16 final size:16
Alignment explanation
Indices: 3869112--3869150 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3869102 TCTAATTAAG
*
3869112 AAAAAAGATAATAGCT
1 AAAAAAAATAATAGCT
* *
3869128 AAAAAAAATCATATCT
1 AAAAAAAATAATAGCT
3869144 AAAAAAA
1 AAAAAAA
3869151 CTAAGATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAAAAAATAATAGCT
Found at i:3883479 original size:26 final size:25
Alignment explanation
Indices: 3883444--3883501 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
3883434 ATGACATGAA
* *
3883444 TTTTCTAAAAATATACAAAAT-ATTT
1 TTTTATAAAAACATA-AAAATAATTT
*
3883469 TATTTATAAAACCATAAAAATAATTT
1 T-TTTATAAAAACATAAAAATAATTT
3883495 TTTTATA
1 TTTTATA
3883502 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATAAAAACATAAAAATAATTT
Found at i:3888896 original size:2 final size:2
Alignment explanation
Indices: 3888889--3889092 Score: 399
Period size: 2 Copynumber: 102.0 Consensus size: 2
3888879 TTAGATGGAT
*
3888889 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3888931 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3888973 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3889015 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3889057 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3889093 GAGTGGAAAG
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
2 200 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3889669 original size:72 final size:73
Alignment explanation
Indices: 3889551--3889685 Score: 209
Period size: 72 Copynumber: 1.9 Consensus size: 73
3889541 CTAAAATCTC
*** *
3889551 AAAAAGTTTTGAGTTGGTCTTCCATTCTAACTAAAAAATCTTGTGGTTCTAGTCATGGAAGAATC
1 AAAAAGTTTTGAGTTGAAATTCCATTCTAACTAAAAAATCTTGTGGTTCCAGTCATGGAAGAATC
3889616 ATGAATGG
66 ATGAATGG
* *
3889624 AAAAA-TTTTGAGTTGAAATTCCATTCTAACTAAAAAATCTTGTGGTTCCAGTTATGGGAGAA
1 AAAAAGTTTTGAGTTGAAATTCCATTCTAACTAAAAAATCTTGTGGTTCCAGTCATGGAAGAA
3889686 CCAGGAACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
72 51 0.91
73 5 0.09
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAGTTTTGAGTTGAAATTCCATTCTAACTAAAAAATCTTGTGGTTCCAGTCATGGAAGAATC
ATGAATGG
Found at i:3896234 original size:11 final size:11
Alignment explanation
Indices: 3896218--3896251 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
3896208 TCAATTATTT
3896218 TCTCAATTTCC
1 TCTCAATTTCC
*
3896229 TCTCAATTTGC
1 TCTCAATTTCC
3896240 TCTCAATTTCC
1 TCTCAATTTCC
3896251 T
1 T
3896252 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:3896246 original size:22 final size:22
Alignment explanation
Indices: 3896214--3896267 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
3896204 TCTCTCAATT
3896214 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
3896234 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
3896257 ATTTCTCTCAA
1 ATTTCTCTCAA
3896268 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:3896295 original size:51 final size:51
Alignment explanation
Indices: 3896231--3896328 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
3896221 CAATTTCCTC
3896231 TCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* * *
3896282 TCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
3896329 TTAATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:3898003 original size:41 final size:39
Alignment explanation
Indices: 3897953--3898171 Score: 143
Period size: 39 Copynumber: 5.2 Consensus size: 39
3897943 ACATTAGAAA
* *
3897953 TATATTAAAAAACACTACCATAAATATAATAAATGTTTAAT
1 TATATTAAAAAACAC-A-AATAAATATAATAAATATTTAAT
* *
3897994 TATATTAAAAAACACAAACAAATATAATAAATATTTTAAA
1 TATATTAAAAAACACAAATAAATATAATAAATA-TTTAAT
* * ** * * *
3898034 TACCAATTACTAAAAATTC-CAAAATAAAAGTTTTTTAACACATTAGAAA
1 TA--TATTA--AAAAA--CAC-AAAT-AAA-TATAATAA-ATATT-TAAT
* *
3898083 TATATTAAAAAACACTACCATAAATATAATAAATGTTTAAT
1 TATATTAAAAAACAC-A-AATAAATATAATAAATATTTAAT
* *
3898124 TATATTAAAAAACACAAACAAATATAATAAATATTTTAT
1 TATATTAAAAAACACAAATAAATATAATAAATATTTAAT
*
3898163 TGTATTAAA
1 TATATTAAA
3898172 TATAATTTTT
Statistics
Matches: 138, Mismatches: 26, Indels: 30
0.71 0.13 0.15
Matches are distributed among these distances:
39 41 0.30
40 9 0.07
41 32 0.23
42 7 0.05
43 6 0.04
44 10 0.07
45 8 0.06
46 4 0.03
47 7 0.05
48 7 0.05
49 7 0.05
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (39 bp):
TATATTAAAAAACACAAATAAATATAATAAATATTTAAT
Found at i:3898135 original size:130 final size:131
Alignment explanation
Indices: 3897901--3898161 Score: 515
Period size: 130 Copynumber: 2.0 Consensus size: 131
3897891 TAAAAAATAT
3897901 AATACCAATTCACTAAAAATTCCAAAATAAAAGTTTTTTAACACATTAGAAATATATTAAAAAAC
1 AATACCAATTCACTAAAAATTCCAAAATAAAAGTTTTTTAACACATTAGAAATATATTAAAAAAC
3897966 ACTACCATAAATATAATAAATGTTTAATTATATTAAAAAACACAAACAAATATAATAAATATTTT
66 ACTACCATAAATATAATAAATGTTTAATTATATTAAAAAACACAAACAAATATAATAAATATTTT
3898031 A
131 A
3898032 AATACCAATT-ACTAAAAATTCCAAAATAAAAGTTTTTTAACACATTAGAAATATATTAAAAAAC
1 AATACCAATTCACTAAAAATTCCAAAATAAAAGTTTTTTAACACATTAGAAATATATTAAAAAAC
3898096 ACTACCATAAATATAATAAATGTTTAATTATATTAAAAAACACAAACAAATATAATAAATATTTT
66 ACTACCATAAATATAATAAATGTTTAATTATATTAAAAAACACAAACAAATATAATAAATATTTT
3898161 A
131 A
3898162 TTGTATTAAA
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 120 0.92
131 10 0.08
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (131 bp):
AATACCAATTCACTAAAAATTCCAAAATAAAAGTTTTTTAACACATTAGAAATATATTAAAAAAC
ACTACCATAAATATAATAAATGTTTAATTATATTAAAAAACACAAACAAATATAATAAATATTTT
A
Found at i:3900335 original size:39 final size:41
Alignment explanation
Indices: 3900249--3900337 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 41
3900239 ACATTAGAAA
* * *
3900249 TATATTAAAAAACACTACCATAAATATAATAAATGTTTAAT
1 TATATTAAAAAACACTACAACAAATATAATAAATATTTAAT
*
3900290 TATATTAAAAAACAC-A-AACAAATATAATAAATATTTTAT
1 TATATTAAAAAACACTACAACAAATATAATAAATATTTAAT
*
3900329 TGTATTAAA
1 TATATTAAA
3900338 TATAATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 27 0.63
40 1 0.02
41 15 0.35
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (41 bp):
TATATTAAAAAACACTACAACAAATATAATAAATATTTAAT
Found at i:3901597 original size:113 final size:114
Alignment explanation
Indices: 3901388--3901614 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 114
3901378 AATTAATTTT
3901388 CAATAAAATTATTTTAAAAATATTTAATTTAATTTCAGCTTGAACCAATTAAAGAATTAAAATTT
1 CAATAAAATTATTTTAAAAATATTTAATTTAATTTCAGCTTGAACCAATTAAAGAATTAAAATTT
3901453 TTATTAGATAAGTATCGTTGCATTTTGATGTATTGTTTAAATTTATCGA
66 TTATTAGATAAGTATCGTTGCATTTTGATGTATTGTTTAAATTTATCGA
3901502 CAATAAAATT-TTTTAAAAATATTTAATTTAATTTCAGCTTGAACCAATTAAAGAATTAAAATTT
1 CAATAAAATTATTTTAAAAATATTTAATTTAATTTCAGCTTGAACCAATTAAAGAATTAAAATTT
3901566 TTATTAGATAAGTATCGTTGCATTTTGATGTATTGTTTAAATTTATCGA
66 TTATTAGATAAGTATCGTTGCATTTTGATGTATTGTTTAAATTTATCGA
3901615 TATTAATTTG
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 103 0.91
114 10 0.09
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (114 bp):
CAATAAAATTATTTTAAAAATATTTAATTTAATTTCAGCTTGAACCAATTAAAGAATTAAAATTT
TTATTAGATAAGTATCGTTGCATTTTGATGTATTGTTTAAATTTATCGA
Found at i:3910719 original size:2 final size:2
Alignment explanation
Indices: 3910712--3910736 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3910702 CCTTAAATTG
3910712 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3910737 GATTTATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3912298 original size:20 final size:20
Alignment explanation
Indices: 3912273--3912310 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3912263 AACAAAAATC
3912273 TATTTAATTA-TAAAATATTT
1 TATTT-ATTATTAAAATATTT
3912293 TATTTATTATTAAAATAT
1 TATTTATTATTAAAATAT
3912311 AAATTGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATTATTAAAATATTT
Found at i:3924672 original size:76 final size:76
Alignment explanation
Indices: 3924586--3924813 Score: 456
Period size: 76 Copynumber: 3.0 Consensus size: 76
3924576 TATATAAAAA
3924586 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
1 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
3924651 ATGTATTTAGC
66 ATGTATTTAGC
3924662 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
1 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
3924727 ATGTATTTAGC
66 ATGTATTTAGC
3924738 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
1 CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
3924803 ATGTATTTAGC
66 ATGTATTTAGC
3924814 GCCCAAGTTC
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 152 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (76 bp):
CAGGAAGGAAACCAGCATCTTATATACATCCCTACAAACCAGCCAGTAAAATTAGCAAAATGAAG
ATGTATTTAGC
Found at i:3931328 original size:9 final size:9
Alignment explanation
Indices: 3931314--3931350 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
3931304 TTTGATTAAA
3931314 AATTACCCG
1 AATTACCCG
3931323 AATTACCCG
1 AATTACCCG
*
3931332 -ATTAACCG
1 AATTACCCG
3931340 AATTACCCG
1 AATTACCCG
3931349 AA
1 AA
3931351 AATTACCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:3931340 original size:17 final size:17
Alignment explanation
Indices: 3931315--3931349 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3931305 TTGATTAAAA
*
3931315 ATTACCCGAATTACCCG
1 ATTAACCGAATTACCCG
3931332 ATTAACCGAATTACCCG
1 ATTAACCGAATTACCCG
3931349 A
1 A
3931350 AAATTACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTACCCG
Found at i:3933602 original size:24 final size:23
Alignment explanation
Indices: 3933574--3933624 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
3933564 TTTATTTTAA
* *
3933574 AATTTGTGTATATATTTGTATTCT
1 AATTTCTGTACATATTT-TATTCT
*
3933598 AATTTTCTTTACATATTTTATTCT
1 AA-TTTCTGTACATATTTTATTCT
3933622 AAT
1 AAT
3933625 GTTAATCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 10 0.43
25 12 0.52
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (23 bp):
AATTTCTGTACATATTTTATTCT
Found at i:3935685 original size:19 final size:21
Alignment explanation
Indices: 3935663--3935701 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3935653 TTTTCATAAA
3935663 TTTTTATA-ATT-TATATATT
1 TTTTTATATATTATATATATT
*
3935682 TTTTTCTATATTATATATAT
1 TTTTTATATATTATATATAT
3935702 ATTGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATATATTATATATATT
Found at i:3936849 original size:31 final size:30
Alignment explanation
Indices: 3936782--3936850 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
3936772 ACGATAACTT
* **
3936782 AAGTGACCAAAATGTAACATTTCAAACATA
1 AAGTGACTAAAATGTAACATGACAAACATA
3936812 AA-TGACTAAAATGTAACATGAGACAAACA-A
1 AAGTGACTAAAATGTAACAT--GACAAACATA
3936842 AAGTGACTA
1 AAGTGACTA
3936851 TTTTGACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 16 0.48
30 5 0.15
31 12 0.36
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (30 bp):
AAGTGACTAAAATGTAACATGACAAACATA
Found at i:3945090 original size:21 final size:22
Alignment explanation
Indices: 3945047--3945094 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
3945037 ACTTTAATAA
*
3945047 AAATATTATATATAAAAATTTTC
1 AAATATTATATAT-AAAAGTTTC
*
3945070 AAATATTATATAT-CAAGTTTC
1 AAATATTATATATAAAAGTTTC
3945091 AAAT
1 AAAT
3945095 TATGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTATATATAAAAGTTTC
Found at i:3961606 original size:14 final size:14
Alignment explanation
Indices: 3961583--3961615 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3961573 TTGTTTAAGG
3961583 TTTAAGATTCAGGA
1 TTTAAGATTCAGGA
*
3961597 TTTAATATTCAGGA
1 TTTAAGATTCAGGA
3961611 TTTAA
1 TTTAA
3961616 AATTTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (14 bp):
TTTAAGATTCAGGA
Found at i:3961947 original size:2 final size:2
Alignment explanation
Indices: 3961940--3961998 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
3961930 TGTTAAATTA
3961940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3961982 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
3961999 GATAACCTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3967093 original size:39 final size:39
Alignment explanation
Indices: 3967039--3967116 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3967029 AAGTTGAAGA
3967039 AAATGGAAGAAATCTTCAAGAACACGGAACTGGTGACAT
1 AAATGGAAGAAATCTTCAAGAACACGGAACTGGTGACAT
3967078 AAATGGAAGAAATCTTCAAGAACACGGAACTGGTGACAT
1 AAATGGAAGAAATCTTCAAGAACACGGAACTGGTGACAT
3967117 TGAAAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (39 bp):
AAATGGAAGAAATCTTCAAGAACACGGAACTGGTGACAT
Found at i:3972337 original size:31 final size:31
Alignment explanation
Indices: 3972290--3972389 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
3972280 TATTTCTTTA
* * * *
3972290 CATGTGTATAATTGAACTAAAATGAAAGTTT
1 CATGTATATATTTGAACCAAAATCAAAGTTT
* *
3972321 TATGTATATATTTGAACCACAATCAAAGTTT
1 CATGTATATATTTGAACCAAAATCAAAGTTT
* *
3972352 CATGTATATATAATTGCACC-GAATCAAAGTTT
1 CATGTATATAT--TTGAACCAAAATCAAAGTTT
3972384 -ATGTAT
1 CATGTAT
3972390 CAATTTACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
31 41 0.71
32 11 0.19
33 6 0.10
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (31 bp):
CATGTATATATTTGAACCAAAATCAAAGTTT
Found at i:3973260 original size:20 final size:20
Alignment explanation
Indices: 3973235--3973275 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3973225 ATTAGCGACA
*
3973235 TGGATCATATT-TACAATATG
1 TGGATCAAATTGTA-AATATG
3973255 TGGATCAAATTGTAAATATG
1 TGGATCAAATTGTAAATATG
3973275 T
1 T
3973276 ACGTACCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (20 bp):
TGGATCAAATTGTAAATATG
Found at i:3974186 original size:87 final size:87
Alignment explanation
Indices: 3974064--3974328 Score: 343
Period size: 87 Copynumber: 2.9 Consensus size: 87
3974054 CACTTGTCCC
* *
3974064 TGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
1 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT
* *
3974128 AAAACTACCACTTATTGTCACT
66 AAAGCTACCACTTATTATCACT
3974150 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT
1 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT
*
3974215 AATGCTACCACTTATCACTTTATCACT
66 AAAGCTACCAC-T-T-A--TTATCACT
* * *
3974242 TGATCAGATAAGTGTAGCTATCAAATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAG
1 TGATCAGATAAGTGTAGC--T--AAT--G-CTACCACTTATCACTTTCTCACTTGATCAGATAAG
3974307 TGTAGCTAAAGCTACCACTTAT
59 TGTAGCTAAAGCTACCACTTAT
3974329 CACTTTATCT
Statistics
Matches: 157, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
86 19 0.12
87 52 0.33
88 1 0.01
89 1 0.01
90 1 0.01
92 25 0.16
94 2 0.01
96 4 0.03
97 1 0.01
98 2 0.01
99 49 0.31
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (87 bp):
TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT
AAAGCTACCACTTATTATCACT
Found at i:3974196 original size:46 final size:46
Alignment explanation
Indices: 3974047--3974348 Score: 368
Period size: 46 Copynumber: 6.6 Consensus size: 46
3974037 TACTTATAAT
* * *
3974047 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
* **
3974090 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
3974136 CAC-T-T-A--TTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
3974177 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
3974223 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTATCAAATAAGTGTAG
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGC--T--AAT--G-CTAC
* *
3974276 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
3974322 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
3974349 AGTACTCAAA
Statistics
Matches: 229, Mismatches: 15, Indels: 27
0.85 0.06 0.10
Matches are distributed among these distances:
41 36 0.16
42 1 0.00
43 12 0.05
44 7 0.03
45 21 0.09
46 105 0.46
47 1 0.00
48 1 0.00
49 2 0.01
50 3 0.01
51 1 0.00
52 1 0.00
53 38 0.17
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:3974269 original size:17 final size:17
Alignment explanation
Indices: 3974244--3974276 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3974234 TTATCACTTG
*
3974244 ATCAGATAAGTGTAGCT
1 ATCAAATAAGTGTAGCT
3974261 ATCAAATAAGTGTAGC
1 ATCAAATAAGTGTAGC
3974277 ACTTATCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (17 bp):
ATCAAATAAGTGTAGCT
Found at i:3975918 original size:11 final size:13
Alignment explanation
Indices: 3975898--3975929 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3975888 AATAAATTAA
3975898 TAAAATATCAT-T
1 TAAAATATCATAT
3975910 TAAAA-ATCATAT
1 TAAAATATCATAT
3975922 TAAAATAT
1 TAAAATAT
3975930 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:3978050 original size:21 final size:22
Alignment explanation
Indices: 3978001--3978041 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3977991 ATTTAATTTC
3978001 AAAAAATTAAGTAATTAAATCG
1 AAAAAATTAAGTAATTAAATCG
3978023 AAAAAATTAA-TAATTAAAT
1 AAAAAATTAAGTAATTAAAT
3978042 GACTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAAAATTAAGTAATTAAATCG
Found at i:3978762 original size:11 final size:11
Alignment explanation
Indices: 3978741--3978798 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
3978731 TTTTGCTCTA
*
3978741 ATTTCGTTGTT
1 ATTTTGTTGTT
*
3978752 GTTTTGTTGTT
1 ATTTTGTTGTT
*
3978763 ATTTTGTTATT
1 ATTTTGTTGTT
* ** *
3978774 ATATTACTATT
1 ATTTTGTTGTT
3978785 ATTTTGTTGTT
1 ATTTTGTTGTT
3978796 ATT
1 ATT
3978799 ATTTGGATAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.16, C:0.03, G:0.14, T:0.67
Consensus pattern (11 bp):
ATTTTGTTGTT
Found at i:3984489 original size:14 final size:14
Alignment explanation
Indices: 3984470--3984500 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3984460 TCGAGCGAGA
3984470 CTTCCAGAATCTTT
1 CTTCCAGAATCTTT
3984484 CTTCCAGAATCTTT
1 CTTCCAGAATCTTT
3984498 CTT
1 CTT
3984501 TTCAAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (14 bp):
CTTCCAGAATCTTT
Found at i:3990091 original size:17 final size:17
Alignment explanation
Indices: 3990071--3990133 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
3990061 GAATTGAATA
3990071 ATTGTATGACTATAGTT
1 ATTGTATGACTATAGTT
*
3990088 ATTGTATGTTA-TATTATTTT
1 ATTGTATG--ACTA-TA-GTT
3990108 AATTGTATGACTATAGTT
1 -ATTGTATGACTATAGTT
3990126 ATTGTATG
1 ATTGTATG
3990134 TTATATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
17 16 0.42
18 4 0.11
19 6 0.16
20 4 0.11
21 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (17 bp):
ATTGTATGACTATAGTT
Found at i:3990111 original size:38 final size:38
Alignment explanation
Indices: 3990069--3990146 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
3990059 ATGAATTGAA
3990069 TAATTGTATGACTATAGTTATTGTATGTTATATTATTT
1 TAATTGTATGACTATAGTTATTGTATGTTATATTATTT
3990107 TAATTGTATGACTATAGTTATTGTATGTTATATTATTT
1 TAATTGTATGACTATAGTTATTGTATGTTATATTATTT
3990145 TA
1 TA
3990147 CTTTTAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (38 bp):
TAATTGTATGACTATAGTTATTGTATGTTATATTATTT
Found at i:3992180 original size:23 final size:23
Alignment explanation
Indices: 3992153--3992320 Score: 214
Period size: 23 Copynumber: 7.3 Consensus size: 23
3992143 AGTGTTATTG
*
3992153 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
3992176 TTCAGTGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
3992199 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * * *
3992222 TTTAGTGCTAGCTAT-AGCTACGT
1 ATCAGTGGTAGCT-TCGGCTACAT
3992245 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
3992268 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3992291 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3992314 ATCAGTG
1 ATCAGTG
3992321 TGCCACTTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
22 2 0.02
23 118 0.97
24 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:3992205 original size:46 final size:46
Alignment explanation
Indices: 3992153--3992320 Score: 264
Period size: 46 Copynumber: 3.7 Consensus size: 46
3992143 AGTGTTATTG
*
3992153 ATCAGTGGTAGCTTCGGCTATATTTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
* * * *
3992199 ATCAGTGGTAGCTTCGGCTACATTTTAGTGCTAGCTATAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
* *
3992245 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
*
3992291 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
3992321 TGCCACTTAT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
Found at i:3997564 original size:83 final size:81
Alignment explanation
Indices: 3997397--3997547 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 81
3997387 AGTGCTACTA
* * *
3997397 TTTTGAGGAAACTATGTTAAATATGTCTCAACGTTTAGTAAATCTCTATTCTTCTTGTCGTTTTC
1 TTTTGAGGAAACTATGTTAAATAGGTCTCAACATTTAGTAAATCTCTATTATTCTTGTCGTTTT-
3997462 AACAACAAATTGCTATTG
65 -ACAACAAATTGCTATTG
*
3997480 TTTTGAGGAAACTGTGTTAAATAGGTCTCAACATTTAGTAAATCTCTATTATTCCTT-TCGTTTT
1 TTTTGAGGAAACTATGTTAAATAGGTCTCAACATTTAGTAAATCTCTATTATT-CTTGTCGTTTT
3997544 -CAAC
65 ACAAC
3997548 TTATTGTTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
80 4 0.06
83 56 0.89
84 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (81 bp):
TTTTGAGGAAACTATGTTAAATAGGTCTCAACATTTAGTAAATCTCTATTATTCTTGTCGTTTTA
CAACAAATTGCTATTG
Found at i:4001631 original size:20 final size:19
Alignment explanation
Indices: 4001593--4001633 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4001583 TAAAATCAAC
* *
4001593 TAATAAATATGTAATTATA
1 TAATAAAAATATAATTATA
4001612 TAATAAAAATATATATTATA
1 TAATAAAAATATA-ATTATA
4001632 TA
1 TA
4001634 TCATTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAATAAAAATATAATTATA
Found at i:4003176 original size:16 final size:16
Alignment explanation
Indices: 4003133--4003215 Score: 53
Period size: 16 Copynumber: 5.0 Consensus size: 16
4003123 TTATTAAAAA
*
4003133 ATTAAATTA-TTTA-T
1 ATTATATTATTTTATT
* *
4003147 ATTATATAAATTTATT
1 ATTATATTATTTTATT
*
4003163 ATTATATTATTTTATA
1 ATTATATTATTTTATT
* *
4003179 ATTTTATTACTTATATAT
1 ATTATATTA-TTTTAT-T
4003197 ATTAATATACTATTTTATT
1 ATT-ATAT--TATTTTATT
4003216 TCTTTTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 7 0.13
15 4 0.08
16 22 0.42
17 5 0.10
18 3 0.06
19 4 0.08
20 5 0.10
21 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATATTATTTTATT
Found at i:4003178 original size:24 final size:24
Alignment explanation
Indices: 4003138--4003205 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
4003128 AAAAAATTAA
4003138 ATTATT-TA-TATTATATAAATTT
1 ATTATTATATTATTATATAAATTT
* *
4003160 ATTATTATATTATTTTATAATTTT
1 ATTATTATATTATTATATAAATTT
4003184 ATTACTTATATATATTAATATA
1 ATTA-TTATAT-TATT-ATATA
4003206 CTATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 6 0.16
23 2 0.05
24 16 0.42
25 6 0.16
26 4 0.11
27 4 0.11
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATATTATTATATAAATTT
Found at i:4007704 original size:15 final size:14
Alignment explanation
Indices: 4007681--4007710 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4007671 TCCCTTTTTC
4007681 TTTTTTTTTAAATT
1 TTTTTTTTTAAATT
4007695 TTTTTATTTTAAATT
1 TTTTT-TTTTAAATT
4007710 T
1 T
4007711 GCCCCATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTAAATT
Found at i:4007803 original size:9 final size:8
Alignment explanation
Indices: 4007777--4007862 Score: 55
Period size: 9 Copynumber: 9.8 Consensus size: 8
4007767 TGTCATTTTT
*
4007777 TTATTTTA
1 TTATATTA
*
4007785 TTCTATTTA
1 TTATA-TTA
4007794 TTGATATTA
1 TT-ATATTA
4007803 TTAATATTAA
1 TT-ATATT-A
* *
4007813 TAATAATAA
1 TTAT-ATTA
*
4007822 TAATATTA
1 TTATATTA
4007830 TTATTATTA
1 TTA-TATTA
4007839 TTATTATTA
1 TTA-TATTA
4007848 TTATTATTA
1 TTA-TATTA
4007857 TTATAT
1 TTATAT
4007863 ACGTCTATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
8 11 0.17
9 48 0.74
10 6 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:4007831 original size:3 final size:3
Alignment explanation
Indices: 4007825--4007860 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4007815 ATAATAATAA
4007825 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4007861 ATACGTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4010721 original size:59 final size:59
Alignment explanation
Indices: 4010593--4010736 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
4010583 TTATAGTTTT
* * * *
4010593 TTTTTCTTTTTTAGTCGCTCAACTATGAAAAGTTACAAAATGGTCACTCAACTAGTAAA
1 TTTTTCTTTTTTAGTCACTCAACTATGAAAAGATACAAAATGATCACTCAACAAGTAAA
* * * *
4010652 TTTCTT-TTTTTTATTCACCCAACTATGAAAA-ATACAAAATGATCACTCAACAATTTAA
1 TTT-TTCTTTTTTAGTCACTCAACTATGAAAAGATACAAAATGATCACTCAACAAGTAAA
*
4010710 TTTTGTCTTTTTTGGTCACTCAACTAT
1 TTTT-TCTTTTTTAGTCACTCAACTAT
4010737 CTTGAATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 1 0.01
58 26 0.37
59 42 0.59
60 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (59 bp):
TTTTTCTTTTTTAGTCACTCAACTATGAAAAGATACAAAATGATCACTCAACAAGTAAA
Found at i:4016151 original size:29 final size:30
Alignment explanation
Indices: 4016087--4016155 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
4016077 CTATAAAAAA
*
4016087 TATTTATCAATTTAGTCTTGAATTATATATT
1 TATTT-TCAATTTAGTATTGAATTATATATT
*
4016118 T-TTTTCAATTTAGTATGTGAATTGT-T-TT
1 TATTTTCAATTTAGTAT-TGAATTATATATT
4016146 TATTTT-AATT
1 TATTTTCAATT
4016156 CGGTATTACG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 7 0.21
29 16 0.47
30 10 0.29
31 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (30 bp):
TATTTTCAATTTAGTATTGAATTATATATT
Found at i:4017552 original size:21 final size:21
Alignment explanation
Indices: 4017528--4017579 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
4017518 GTAGTGACAG
* * *
4017528 TGAGATTAGTTATTGTAGCGA
1 TGAGATTAGATACTGTAGCAA
* *
4017549 TGAGATTTGATACTGTAGTAA
1 TGAGATTAGATACTGTAGCAA
4017570 TGAGATTAGA
1 TGAGATTAGA
4017580 AACATCGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.37
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAA
Found at i:4017611 original size:18 final size:18
Alignment explanation
Indices: 4017590--4017626 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4017580 AACATCGGTG
*
4017590 AGATATGGGTTTGGATTC
1 AGATATGAGTTTGGATTC
4017608 AGATATGAGTTTGGATTC
1 AGATATGAGTTTGGATTC
4017626 A
1 A
4017627 AACACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (18 bp):
AGATATGAGTTTGGATTC
Found at i:4029262 original size:7 final size:7
Alignment explanation
Indices: 4029254--4029283 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4029244 GATTACTACT
*
4029254 TGATACT
1 TGATACA
4029261 TGATACA
1 TGATACA
4029268 TGATACA
1 TGATACA
4029275 TGATACA
1 TGATACA
4029282 TG
1 TG
4029284 CCCAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (7 bp):
TGATACA
Found at i:4034659 original size:3 final size:3
Alignment explanation
Indices: 4034651--4034676 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4034641 AGCAGTCGGC
4034651 CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CC
4034677 AGCTCCGCCG
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:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:4043821 original size:117 final size:117
Alignment explanation
Indices: 4043653--4044465 Score: 1127
Period size: 114 Copynumber: 6.8 Consensus size: 117
4043643 TATTCTTTGA
* *
4043653 ACCCTTTGGCCGACCACGTTTAGGCTTGGCTTTAAGGGGATCTTCCATTTCAACCATGCTATTAC
1 ACCCTTTGGCCGACCACGTTTA-----GGC-TTAAGGGGATCTTCCATTTCAACCTTGCTATCAC
* * * *
4043718 TAAACACTTCAATACTCTGCTCACCACCAATAGTTTTCTTCTTCTTCTTGTTCATTGT
60 TTAACCCTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCATTGT
4043776 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
* * *
4043841 CTTCAATACTTTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCGTTGA
66 CTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCATTGT
* * *
4043893 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGGTTTTCCATTTCAACCCTGCTATCACTTAACC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
* ** *
4043958 CTACAATACAATGTTCACTACCAATAGTTTTCTTCTTCTTCTTCTTCTTCTTCTTCATTGT
66 CTTCAATACTCTGTTCACCACCAATAG--------TT-TTCTTCTTCTTCTTCTTCATTGT
4044019 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
* * *
4044084 CTTCAATACTCTGTTCATCACCAATAG--TT-TTCTTCTTCTTCTTCGTTGA
66 CTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCATTGT
*
4044133 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTGAC-ATCACTTAAC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTG-CTATCACTTAAC
* *
4044197 ACTTCAATACTCTGTTCACCATCAATAGTTTTCTTCCTCTTCTTCTTCTTCATTGT
65 CCTTCAATACTCTGTTCACCACCAATAGTTTTC-T--TCTTCTTCTTCTTCATTGT
*
4044253 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGTTATCACTTAACC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
* * * *
4044318 CTTCAAGAATCTGTTCACCACCAATAG--TT-TTCTTCTTCTTGTTCATTGC
66 CTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCATTGT
**
4044367 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTATTATCACTTAACC
1 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
* *
4044432 CTTCAATAATATGTTCACCACCAATAGTTTTCTT
66 CTTCAATACTCTGTTCACCACCAATAGTTTTCTT
4044466 GTTGTTGTTG
Statistics
Matches: 625, Mismatches: 45, Indels: 46
0.87 0.06 0.06
Matches are distributed among these distances:
114 210 0.34
115 3 0.00
116 5 0.01
117 170 0.27
118 6 0.01
120 102 0.16
123 22 0.04
125 2 0.00
126 105 0.17
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (117 bp):
ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
CTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCATTGT
Found at i:4043995 original size:3 final size:3
Alignment explanation
Indices: 4043987--4044013 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4043977 ACCAATAGTT
4043987 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
4044014 ATTGTACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4044295 original size:234 final size:234
Alignment explanation
Indices: 4043649--4044465 Score: 1219
Period size: 234 Copynumber: 3.4 Consensus size: 234
4043639 TGTTTATTCT
*
4043649 TTGAACCCTTTGGCCGACCACGTTTAGGCTTGGCTTTAAGGGGATCTTCCATTTCAACCATGCTA
1 TTGAACCCTTTGGCCGACCACGTTTA-----GGC-TTAAGGGGATCTTCCATTTCAACCCTGCTA
* * * * *
4043714 TTACTAAACACTTCAATACTCTGCTCACCACCAATAGTTTTC-T--TCTTCTTCTTGTTCATTGT
60 TCACTTAACACTTCAATACTATGTTCACCACCAATAGTTTTCTTCCTCTTCTTCTTCTTCATTGT
4043776 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
125 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
*
4043841 CTTCAATACTTTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCTTCG
190 CTTCAATACTCTGTTCACCACCAATAG--TT-TTCTTCTTCTTCTTCG
* *
4043889 TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGGTTTTCCATTTCAACCCTGCTATCACTT
1 TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTGCTATCACTT
* * * *
4043954 AACCCTACAATACAATGTTCACTACCAATAGTTTTCTTCTTCTTCTTCTTCTTCTTCTTCATTGT
66 AACACTTCAATACTATGTTCACCACCAATAG--TT-TTCTTC--C-TCTTCTTCTTCTTCATTGT
4044019 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
125 ACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACC
*
4044084 CTTCAATACTCTGTTCATCACCAATAGTTTTCTTCTTCTTCTTCG
190 CTTCAATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCG
4044129 TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTGAC-ATCACT
1 TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTG-CTATCACT
* *
4044193 TAACACTTCAATACTCTGTTCACCATCAATAGTTTTCTTCCTCTTCTTCTTCTTCATTGTACCCT
65 TAACACTTCAATACTATGTTCACCACCAATAGTTTTCTTCCTCTTCTTCTTCTTCATTGTACCCT
*
4044258 TTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGTTATCACTTAACCCTTCA
130 TTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACCCTTCA
* * * *
4044323 AGAATCTGTTCACCACCAATAGTTTTCTTCTTCTTGTTCA
195 ATACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCG
* * **
4044363 TTGCACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTATTATCACTT
1 TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTGCTATCACTT
* *
4044428 AACCCTTCAATAATATGTTCACCACCAATAGTTTTCTT
66 AACACTTCAATACTATGTTCACCACCAATAGTTTTCTT
4044466 GTTGTTGTTG
Statistics
Matches: 530, Mismatches: 36, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
234 273 0.52
235 4 0.01
236 2 0.00
237 9 0.02
238 3 0.01
240 128 0.24
241 3 0.01
243 108 0.20
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (234 bp):
TTGAACCCTTTGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCCTGCTATCACTT
AACACTTCAATACTATGTTCACCACCAATAGTTTTCTTCCTCTTCTTCTTCTTCATTGTACCCTT
TGGCCGACCACGTTTAGGCTTAAGGGGATCTTCCATTTCAACCTTGCTATCACTTAACCCTTCAA
TACTCTGTTCACCACCAATAGTTTTCTTCTTCTTCTTCG
Found at i:4046669 original size:12 final size:13
Alignment explanation
Indices: 4046652--4046680 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4046642 GAACGAGTTT
4046652 ATAAGTA-TAATC
1 ATAAGTATTAATC
4046664 ATAAGTATTAATC
1 ATAAGTATTAATC
4046677 ATAA
1 ATAA
4046681 CTAAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (13 bp):
ATAAGTATTAATC
Found at i:4046933 original size:25 final size:25
Alignment explanation
Indices: 4046905--4046955 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
4046895 GTACTTTATG
*
4046905 TATTTATCTATAATTTAA-TTAATAT
1 TATTTA-CAATAATTTAACTTAATAT
*
4046930 TATTTACAATTATTTAACTTAATAT
1 TATTTACAATAATTTAACTTAATAT
4046955 T
1 T
4046956 TATAAGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTACAATAATTTAACTTAATAT
Found at i:4047986 original size:12 final size:12
Alignment explanation
Indices: 4047969--4047995 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4047959 AAAAAAGTAC
4047969 AACTATAATTAA
1 AACTATAATTAA
4047981 AACTATAATTAA
1 AACTATAATTAA
4047993 AAC
1 AAC
4047996 ATCCTTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (12 bp):
AACTATAATTAA
Found at i:4048298 original size:27 final size:27
Alignment explanation
Indices: 4048260--4048322 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
4048250 CGGATGTCAC
*
4048260 AGGCGGCACCAAAGGTGCCTGTGGCAG
1 AGGCGGCACCAAAGGTGCCTGTGCCAG
*
4048287 AGGCGGCACCAAAGGTGCCTTTGCCAG
1 AGGCGGCACCAAAGGTGCCTGTGCCAG
4048314 AGGCGGCAC
1 AGGCGGCAC
4048323 AGGACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.29, G:0.38, T:0.11
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTGTGCCAG
Found at i:4049167 original size:27 final size:27
Alignment explanation
Indices: 4049129--4049197 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
4049119 TTTTAGTCTT
* *
4049129 GTGCCGCATCTGGCAAAGGCACCTTTG
1 GTGCCGCCTCTGGCAAAGACACCTTTG
* *
4049156 GTGCCGCCTCTGCCACAGACACCTTTG
1 GTGCCGCCTCTGGCAAAGACACCTTTG
4049183 GTGCCGCCTCTGGCA
1 GTGCCGCCTCTGGCA
4049198 TCCGATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (27 bp):
GTGCCGCCTCTGGCAAAGACACCTTTG
Found at i:4055164 original size:31 final size:32
Alignment explanation
Indices: 4055108--4055171 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
4055098 TAATATTTTT
*
4055108 ATTTAGTACTTGAGTTTTGGCTTCAAAATTCA
1 ATTTAGTACTTGAGATTTGGCTTCAAAATTCA
* *
4055140 ATTTAGTACTTGA-ATTTGGTTTCAATATTCA
1 ATTTAGTACTTGAGATTTGGCTTCAAAATTCA
4055171 A
1 A
4055172 ATCTATACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (32 bp):
ATTTAGTACTTGAGATTTGGCTTCAAAATTCA
Found at i:4055283 original size:27 final size:27
Alignment explanation
Indices: 4055253--4055307 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
4055243 GCTTTAATGA
4055253 TCAAATTAAGTACCTATGCTTTTTTTT
1 TCAAATTAAGTACCTATGCTTTTTTTT
*
4055280 TCAAATTAAGTACCTATGTTTTTTTTT
1 TCAAATTAAGTACCTATGCTTTTTTTT
4055307 T
1 T
4055308 ACTTGAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (27 bp):
TCAAATTAAGTACCTATGCTTTTTTTT
Found at i:4059923 original size:34 final size:35
Alignment explanation
Indices: 4059865--4059931 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4059855 CAAACACCAG
4059865 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
4059900 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
4059932 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:4060645 original size:19 final size:17
Alignment explanation
Indices: 4060615--4060649 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
4060605 CAAACAATAC
4060615 AAAAAATAAAAAATTAT
1 AAAAAATAAAAAATTAT
4060632 AAAAAATCATAAAAATTA
1 AAAAAAT-A-AAAAATTA
4060650 GAACGGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAATAAAAAATTAT
Found at i:4070991 original size:6 final size:6
Alignment explanation
Indices: 4070980--4071008 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4070970 TTTCAGAGGC
4070980 TTTGGG TTTGGG TTTGGG TTTGGG TTTGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGG
4071009 ATTTTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TTTGGG
Found at i:4072648 original size:23 final size:22
Alignment explanation
Indices: 4072616--4072677 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
4072606 CTCGGCCAGT
*
4072616 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
4072640 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
* *
4072662 TTGTTATCAAAATTAA
1 TTTTTATTAAAATTAA
4072678 TTGTTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 15 0.43
23 15 0.43
24 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:4072678 original size:16 final size:16
Alignment explanation
Indices: 4072654--4072691 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4072644 TATTAAAATT
*
4072654 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
4072670 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
4072686 AAAATT
1 AAAATT
4072692 GTATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:4074383 original size:22 final size:22
Alignment explanation
Indices: 4074347--4074405 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
4074337 GGCCCGGCCT
4074347 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATACCAAAA
**
4074369 ATTTATTTTAAAAAT-TTAAAA
1 ATTTATTTTAAAAATACCAAAA
**
4074390 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
4074406 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 17 0.55
22 8 0.26
23 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTATTTTAAAAATACCAAAA
Found at i:4074385 original size:9 final size:9
Alignment explanation
Indices: 4074373--4074440 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
4074363 CCAAAAATTT
*
4074373 ATTTTAAAA
1 ATTTAAAAA
4074382 ATTTAAAAAA
1 ATTT-AAAAA
4074392 GTATTTTAAAAA
1 --A-TTTAAAAA
*
4074404 TATTT-TAAA
1 -ATTTAAAAA
4074413 A-TTAAAAA
1 ATTTAAAAA
*
4074421 ATTAAAAAA
1 ATTTAAAAA
4074430 ATTTAAAAA
1 ATTTAAAAA
4074439 AT
1 AT
4074441 AAATATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 23 0.48
10 7 0.15
11 2 0.04
12 6 0.12
13 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:4074407 original size:11 final size:11
Alignment explanation
Indices: 4074372--4074413 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
4074362 ACCAAAAATT
4074372 TATTTT-AAAA
1 TATTTTAAAAA
*
4074382 -ATTTAAAAAA
1 TATTTTAAAAA
4074392 GTATTTTAAAAA
1 -TATTTTAAAAA
4074404 TATTTTAAAA
1 TATTTTAAAA
4074414 TTAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 10 0.37
12 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4074525 original size:15 final size:15
Alignment explanation
Indices: 4074491--4074530 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4074481 TGGTGCCCGA
* *
4074491 GGCCCCGCCC-GCCT
1 GGCCCGGCCCAGCCC
4074505 GGCCCGGCCCAGCCC
1 GGCCCGGCCCAGCCC
4074520 GGCCCGGCCCA
1 GGCCCGGCCCA
4074531 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.05, C:0.60, G:0.33, T:0.03
Consensus pattern (15 bp):
GGCCCGGCCCAGCCC
Found at i:4074586 original size:29 final size:30
Alignment explanation
Indices: 4074553--4074609 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4074543 ACCAAAAATT
4074553 TATTTTAAAA-ATAAAAAAATAAAAAAAAG
1 TATTTTAAAATATAAAAAAATAAAAAAAAG
** *
4074582 TATTTTAAAATATTGAAAAATTAAAAAA
1 TATTTTAAAATATAAAAAAATAAAAAAA
4074610 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (30 bp):
TATTTTAAAATATAAAAAAATAAAAAAAAG
Found at i:4074647 original size:181 final size:182
Alignment explanation
Indices: 4074331--4074681 Score: 428
Period size: 186 Copynumber: 1.9 Consensus size: 182
4074321 AAAAATGATA
* *
4074331 AGCCCGGGCCCGGCCTATTTTTTTAATAAATACCAAAAATTTATTTTAAAAATTTAAAAAAGTAT
1 AGCCCGGGCCCGGCCCA-TTTTTTAATAAACACCAAAAATTTATTTTAAAAA-TTAAAAAAG-AT
*** * *
4074396 TTTAAAAATATTTTAAAATTAAAAAATTAAAAAAATTTAAAAAATAAATATATTTATTATATC-G
63 AAAAAAAATATTTTAAAATTAAAAAATTAAAAAAATTAAAAAAATAAATATATTTATTATACCAG
4074460 GGCCGGGCCCGGGCAAAAAAGTGGTGCCCGAGGCCCCGCCCGCCTGGCCCGGCCC
128 GGCCGGGCCCGGGCAAAAAAGTGGTGCCCGAGGCCCCGCCCGCCTGGCCCGGCCC
4074515 AGCCC-GGCCCGGCCCA-TTTTTAATAAACACCAAAAATTTATTTTAAAAA-TAAAAAA-ATAAA
1 AGCCCGGGCCCGGCCCATTTTTTAATAAACACCAAAAATTTATTTTAAAAATTAAAAAAGATAAA
* * * *
4074576 AAAAAGTATTTTAAAATATTGAAAAATT-AAAAAATTAAAAAAATATATTTATTATATT-TGGGC
66 AAAAA-TATTTT-AAA-ATTAAAAAATTAAAAAAATTAAAAAAATAAATATATT-TATTAT--AC
*
4074639 CAGGCCGGGCCGGGCCCGGGCCAAAAAGTGGTGCCCGAGGCCC
125 CA----GGGCCGGGCCCGGGCAAAAAAGTGGTGCCCGAGGCCC
4074682 AGCCTATTTT
Statistics
Matches: 144, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
177 7 0.05
178 6 0.04
179 33 0.23
180 14 0.10
181 33 0.23
183 10 0.07
184 5 0.03
186 36 0.25
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (182 bp):
AGCCCGGGCCCGGCCCATTTTTTAATAAACACCAAAAATTTATTTTAAAAATTAAAAAAGATAAA
AAAAATATTTTAAAATTAAAAAATTAAAAAAATTAAAAAAATAAATATATTTATTATACCAGGGC
CGGGCCCGGGCAAAAAAGTGGTGCCCGAGGCCCCGCCCGCCTGGCCCGGCCC
Found at i:4076347 original size:5 final size:5
Alignment explanation
Indices: 4076337--4076364 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4076327 ATTTTATATA
4076337 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
4076365 ATATTATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:4077373 original size:15 final size:17
Alignment explanation
Indices: 4077343--4077388 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
4077333 CTATTTTTTA
*
4077343 ATTATGTAATATTT-TAT
1 ATTATATAAT-TTTATAT
4077360 -TTATATTAATTTTATAT
1 ATTATA-TAATTTTATAT
4077377 ATTATATAATTT
1 ATTATATAATTT
4077389 CTATCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.28
17 13 0.52
18 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATATAATTTTATAT
Found at i:4081074 original size:152 final size:153
Alignment explanation
Indices: 4080761--4081066 Score: 605
Period size: 152 Copynumber: 2.0 Consensus size: 153
4080751 TGTCCTGCAC
4080761 AATCTTTTCAGTCAGCTCTGCAAGATAAAATGGCACCTGAAATGAAAAAAAAAAACGTTAAAACC
1 AATCTTTTCAGTCAGCTCTGCAAGATAAAATGGCACCTGAAATGAAAAAAAAAAACGTTAAAACC
4080826 TTGACGCTATGACATAATTACAGCATAATACAAAAATAAGTAATTCCAGAAACATTATGAAATAA
66 TTGACGCTATGACATAATTACAGCATAATACAAAAATAAGTAATTCCAGAAACATTATGAAATAA
4080891 TTAGAAATCCAAATTTCAAATGG
131 TTAGAAATCCAAATTTCAAATGG
4080914 AATCTTTTCAG-CAGCTCTGCAAGATAAAATGGCACCTGAAATGAAAAAAAAAAACGTTAAAACC
1 AATCTTTTCAGTCAGCTCTGCAAGATAAAATGGCACCTGAAATGAAAAAAAAAAACGTTAAAACC
4080978 TTGACGCTATGACATAATTACAGCATAATACAAAAATAAGTAATTCCAGAAACATTATGAAATAA
66 TTGACGCTATGACATAATTACAGCATAATACAAAAATAAGTAATTCCAGAAACATTATGAAATAA
4081043 TTAGAAATCCAAATTTCAAATGG
131 TTAGAAATCCAAATTTCAAATGG
4081066 A
1 A
4081067 GCTTTTTCCT
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 142 0.93
153 11 0.07
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (153 bp):
AATCTTTTCAGTCAGCTCTGCAAGATAAAATGGCACCTGAAATGAAAAAAAAAAACGTTAAAACC
TTGACGCTATGACATAATTACAGCATAATACAAAAATAAGTAATTCCAGAAACATTATGAAATAA
TTAGAAATCCAAATTTCAAATGG
Found at i:4090450 original size:13 final size:14
Alignment explanation
Indices: 4090432--4090500 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 14
4090422 CATTTTGCTT
4090432 TTAATTTAT-TTTA
1 TTAATTTATATTTA
4090445 TTAATTTATATTTA
1 TTAATTTATATTTA
** *
4090459 TTCTTTTAATGACATTA
1 TTAATTT-AT-A-TTTA
*
4090476 TT-ACTTATATTTA
1 TTAATTTATATTTA
4090489 TTATATTTATAT
1 TTA-ATTTATAT
4090501 AAAGCAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 14 0.33
14 10 0.23
15 11 0.26
16 3 0.07
17 5 0.12
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (14 bp):
TTAATTTATATTTA
Found at i:4098186 original size:20 final size:20
Alignment explanation
Indices: 4098144--4098189 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4098134 GTGATTTAAC
**
4098144 TCAAAAAATTAAAAAAACCT
1 TCAAAAAATTAAAAAAAAAT
4098164 TCAAAAAA-TAAAATAAAAAT
1 TCAAAAAATTAAAA-AAAAAT
4098184 TCAAAA
1 TCAAAA
4098190 TCCAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.20
Consensus pattern (20 bp):
TCAAAAAATTAAAAAAAAAT
Found at i:4098267 original size:24 final size:24
Alignment explanation
Indices: 4098227--4098287 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
4098217 GAAATAATTA
*
4098227 AAAAAAATTCAAAATAA-ATTTTAT
1 AAAAAAATTAAAAATAATATTTT-T
4098251 AAAAAAA-TAAAATATAATTATTTTT
1 AAAAAAATTAAAA-ATAA-TATTTTT
4098276 AAAAAAGATTAA
1 AAAAAA-ATTAA
4098288 TTTGAGTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 7 0.23
26 6 0.19
27 3 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAAAATTAAAAATAATATTTTT
Found at i:4105866 original size:12 final size:12
Alignment explanation
Indices: 4105846--4105877 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4105836 ATAAACCATA
*
4105846 TGTACTTAATTG
1 TGTAATTAATTG
4105858 TGTAATTAATTG
1 TGTAATTAATTG
4105870 TGTAATTA
1 TGTAATTA
4105878 GAAGACACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (12 bp):
TGTAATTAATTG
Found at i:4122265 original size:38 final size:38
Alignment explanation
Indices: 4122222--4122297 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4122212 AGAATGAGAG
4122222 AATGGTTAAATTAATAAAGAGGGTACAGTTAAAATCCT
1 AATGGTTAAATTAATAAAGAGGGTACAGTTAAAATCCT
4122260 AATGGTTAAATTAATAAAGAGGGTACAGTTAAAATCCT
1 AATGGTTAAATTAATAAAGAGGGTACAGTTAAAATCCT
4122298 CAAGAATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (38 bp):
AATGGTTAAATTAATAAAGAGGGTACAGTTAAAATCCT
Found at i:4130990 original size:2 final size:2
Alignment explanation
Indices: 4130983--4131009 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4130973 ATCAGTTGTG
4130983 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
4131010 GAACACGTAG
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:4140493 original size:29 final size:29
Alignment explanation
Indices: 4140460--4140535 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
4140450 GTGGATACCC
4140460 ACCAAACTCCATTTATATGTACCAAAAGG
1 ACCAAACTCCATTTATATGTACCAAAAGG
4140489 ACCAAACTCCATTTATATGTACCAAAAGG
1 ACCAAACTCCATTTATATGTACCAAAAGG
* *
4140518 ACCAAACCCCATTAATAT
1 ACCAAACTCCATTTATAT
4140536 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (29 bp):
ACCAAACTCCATTTATATGTACCAAAAGG
Found at i:4148543 original size:103 final size:104
Alignment explanation
Indices: 4148419--4148625 Score: 407
Period size: 103 Copynumber: 2.0 Consensus size: 104
4148409 TAATTATTAA
4148419 ATATATTTGTAGGAAATAAAAATAATTAAAATTTGGAAAATATTTAATATAAGTAGTTATAAACG
1 ATATATTTGTAGGAAATAAAAATAATTAAAATTTGGAAAATATTTAATATAAGTAGTTATAAACG
4148484 GGCAAAACACTAAAAAAAGCCCTTTTTTTTTAAATTTAC
66 GGCAAAACACTAAAAAAAGCCCTTTTTTTTTAAATTTAC
4148523 ATATATTTGT-GGAAATAAAAATAATTAAAATTTGGAAAATATTTAATATAAGTAGTTATAAACG
1 ATATATTTGTAGGAAATAAAAATAATTAAAATTTGGAAAATATTTAATATAAGTAGTTATAAACG
4148587 GGCAAAACACTAAAAAAAGCCCTTTTTTTTTAAATTTAC
66 GGCAAAACACTAAAAAAAGCCCTTTTTTTTTAAATTTAC
4148626 CGAAATAGGC
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 93 0.90
104 10 0.10
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (104 bp):
ATATATTTGTAGGAAATAAAAATAATTAAAATTTGGAAAATATTTAATATAAGTAGTTATAAACG
GGCAAAACACTAAAAAAAGCCCTTTTTTTTTAAATTTAC
Found at i:4148669 original size:28 final size:27
Alignment explanation
Indices: 4148612--4148670 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
4148602 AAAGCCCTTT
4148612 TTTTTTAAATTTACCGAAATAGGCCGA
1 TTTTTTAAATTTACCGAAATAGGCCGA
* *
4148639 TTTTTTAATTATTTACCGGAATGGGCC-A
1 TTTTTTAA--ATTTACCGAAATAGGCCGA
4148667 TTTT
1 TTTT
4148671 CCCTGAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 5 0.18
29 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATAGGCCGA
Found at i:4153582 original size:125 final size:124
Alignment explanation
Indices: 4153212--4153610 Score: 574
Period size: 125 Copynumber: 3.2 Consensus size: 124
4153202 GAGGGCATGA
*
4153212 TTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAAAT
1 TTTACACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAAT
*
4153277 CGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGTT
65 CGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGAT
* *
4153337 TTTACACTATTTGCTCAGAAATGT-AAAAAAAA-AATTTCCTACATGACCAACTGTAGCGAAATC
1 TTTACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATC
*
4153400 GCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGAT
66 GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGAT
* * *
4153459 TTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTACTTCTTACATGACCAACTGT-GCTGAAA
1 TTTACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC-GAAA
* * * ***
4153523 TGGCATCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTCGAAGCGAT
64 TCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCAGCGAT
* *
4153584 TTTATACTATTCGAC-CAGAAACGTCAA
1 TTTACACTATTTG-CTCAGAAACGTCAA
4153611 CTCGAAATAA
Statistics
Matches: 250, Mismatches: 18, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
122 103 0.41
123 13 0.05
124 20 0.08
125 113 0.45
126 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATC
GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGAT
Found at i:4156523 original size:46 final size:45
Alignment explanation
Indices: 4156471--4156606 Score: 200
Period size: 46 Copynumber: 3.0 Consensus size: 45
4156461 CCATGGAAAA
*
4156471 TTGTGAAAAGTAGGTTTGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAA-CCATACTGAG
* *
4156517 TTGTGAAAAGTAGGAATAGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAG-AAACCATACTGAG
* *
4156563 ATGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAA-GAAACCATACTG
4156607 GGTTATAGCA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 77 0.95
47 4 0.05
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (45 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAACCATACTGAG
Found at i:4166607 original size:22 final size:23
Alignment explanation
Indices: 4166560--4166609 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
4166550 AACAAGAAGT
* *
4166560 ACAAAACACAAAGAACAAGTTTA
1 ACAAAACACAAAGAACAAATTAA
4166583 ACAAAA-ACAAAG-ACTAAATTAA
1 ACAAAACACAAAGAAC-AAATTAA
4166605 ACAAA
1 ACAAA
4166610 CAAAACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 16 0.67
23 6 0.25
ACGTcount: A:0.66, C:0.16, G:0.06, T:0.12
Consensus pattern (23 bp):
ACAAAACACAAAGAACAAATTAA
Found at i:4167315 original size:22 final size:22
Alignment explanation
Indices: 4167275--4167321 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4167265 GATATAAATT
*
4167275 TTTTATTTTTATAAATTTAGAA
1 TTTTATTTTTATAAATTTAAAA
* * *
4167297 TTTTATTTTTTTTATTTTAAAA
1 TTTTATTTTTATAAATTTAAAA
4167319 TTT
1 TTT
4167322 AAGTTCAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATTTTTATAAATTTAAAA
Done.