Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 63 of 325
Found at i:22640143 original size:13 final size:13
Alignment explanation
Indices: 22640125--22640151 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22640115 ATTACGAATT
22640125 AATGTTAAAATCA
1 AATGTTAAAATCA
22640138 AATGTTAAAATCA
1 AATGTTAAAATCA
22640151 A
1 A
22640152 GGGACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AATGTTAAAATCA
Found at i:22645835 original size:39 final size:39
Alignment explanation
Indices: 22645777--22646128 Score: 569
Period size: 39 Copynumber: 9.0 Consensus size: 39
22645767 AATTATATTA
* * *
22645777 CCAGCACAAAGCCTACGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
22645816 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
22645855 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
22645894 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
22645933 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
22645972 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
22646011 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATTCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * ** *
22646050 TCAACGTGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
22646089 CCAGCACGAAGCCTGTGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
22646128 C
1 C
22646129 TAGTGTCTTG
Statistics
Matches: 288, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 288 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:22648056 original size:31 final size:30
Alignment explanation
Indices: 22647967--22648070 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 30
22647957 ATATTTTTAT
22647967 TTTGGTACTTGAACTTGACACTTTTTAGTCCAA
1 TTTGGTACTTGAACTTGACA-TTTTT--TCCAA
** * *
22648000 TTTAATACTTGAACTTAACACTTTTTCCTAA
1 TTTGGTACTTGAACTTGACATTTTTTCC-AA
* * ***
22648031 TTTGGTACCTGAACTTGATATTTTTTTTTA
1 TTTGGTACTTGAACTTGACATTTTTTCCAA
22648061 TTTGGTACTT
1 TTTGGTACTT
22648071 CATCTTTTTT
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
30 13 0.23
31 22 0.39
32 4 0.07
33 17 0.30
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (30 bp):
TTTGGTACTTGAACTTGACATTTTTTCCAA
Found at i:22656038 original size:38 final size:38
Alignment explanation
Indices: 22655949--22656037 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
22655939 AAAATTTATA
* * * *
22655949 TTTAATACAATAAAATATTTATTATATTTATTTGTGTT
1 TTTAATATAATAAAACATATATTATATTTATTAGTGTT
22655987 TTTAATATAATAAAACATATATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAACATATATTATATTTAT--TAGTG-TT
22656028 TTTAATATAA
1 TTTAATATAA
22656038 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.64
40 4 0.09
41 12 0.27
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (38 bp):
TTTAATATAATAAAACATATATTATATTTATTAGTGTT
Found at i:22657464 original size:3 final size:3
Alignment explanation
Indices: 22657458--22657483 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22657448 TAATGATAAT
22657458 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
22657484 TCTATTTTAT
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:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:22659104 original size:12 final size:11
Alignment explanation
Indices: 22659085--22659128 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
22659075 CCATTGAATT
22659085 TTAATTTTTTA
1 TTAATTTTTTA
22659096 TTGAATTTTATTA
1 TT-AATTTT-TTA
*
22659109 TTAATTTTTAA
1 TTAATTTTTTA
*
22659120 TTAAATTTT
1 TTAATTTTT
22659129 AGAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 12 0.41
12 12 0.41
13 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:22666624 original size:22 final size:22
Alignment explanation
Indices: 22666599--22666640 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22666589 TTTTTATTTA
22666599 AAATTTATTTTT-TATTTTGATC
1 AAATTTATTTTTGT-TTTTGATC
*
22666621 AAATTTCTTTTTGTTTTTGA
1 AAATTTATTTTTGTTTTTGA
22666641 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
AAATTTATTTTTGTTTTTGATC
Found at i:22666725 original size:27 final size:29
Alignment explanation
Indices: 22666677--22666730 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
22666667 ATAAACAAAT
*
22666677 TAAAAAAATTATATTTACTAAATATTAAA
1 TAAAAAAATTATATCTACTAAATATTAAA
*
22666706 TAAAAATATTATA-CTA-TAAATATTA
1 TAAAAAAATTATATCTACTAAATATTA
22666731 TGAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 2 0.09
29 12 0.52
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAAAATTATATCTACTAAATATTAAA
Found at i:22670337 original size:6 final size:6
Alignment explanation
Indices: 22670328--22670358 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22670318 GTTCCTGGGC
22670328 GTGCAT GTGCAT GTGCAT GTGCAT GTGCAT G
1 GTGCAT GTGCAT GTGCAT GTGCAT GTGCAT G
22670359 CATGGAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (6 bp):
GTGCAT
Found at i:22675000 original size:28 final size:28
Alignment explanation
Indices: 22674942--22674997 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22674932 CGTAGTAATA
*
22674942 ATAATTTAATTCTATTATTAATTTTATT
1 ATAATTTAATTCTATTATTAATTCTATT
*
22674970 ATAATTTAAGTT-TATATATTTATTCTAT
1 ATAATTTAA-TTCTAT-TATTAATTCTAT
22674998 ATATCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
ATAATTTAATTCTATTATTAATTCTATT
Found at i:22675736 original size:22 final size:21
Alignment explanation
Indices: 22675711--22675758 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
22675701 ACATGTTTTT
22675711 TTTAATATATATTTTTTAATAA
1 TTTAA-ATATATTTTTTAATAA
*
22675733 TTT-ACTATATTTTTTAATAA
1 TTTAAATATATTTTTTAATAA
22675753 TTTAAA
1 TTTAAA
22675759 CTACCATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 18 0.78
21 2 0.09
22 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATTTTTTAATAA
Found at i:22675743 original size:20 final size:20
Alignment explanation
Indices: 22675718--22675756 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22675708 TTTTTTAATA
22675718 TATATTTTTTAATAATTTAC
1 TATATTTTTTAATAATTTAC
22675738 TATATTTTTTAATAATTTA
1 TATATTTTTTAATAATTTA
22675757 AACTACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTTTTAATAATTTAC
Found at i:22680386 original size:23 final size:23
Alignment explanation
Indices: 22680354--22680397 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22680344 CCTTTGGGCA
*
22680354 TACCGTTTTCCCA-TTGCCCATCG
1 TACCGGTTT-CCATTTGCCCATCG
22680377 TACCGGTTTCCATTTGCCCAT
1 TACCGGTTTCCATTTGCCCAT
22680398 ATCAGGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.14, C:0.36, G:0.14, T:0.36
Consensus pattern (23 bp):
TACCGGTTTCCATTTGCCCATCG
Found at i:22681268 original size:5 final size:5
Alignment explanation
Indices: 22681258--22681291 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
22681248 GGGGAATCCT
*
22681258 AAATG AAATG AAATG AAATG AAATG AAATA AAAT
1 AAATG AAATG AAATG AAATG AAATG AAATG AAAT
22681292 TATATCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:22682897 original size:20 final size:21
Alignment explanation
Indices: 22682872--22682911 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
22682862 TAATTTATTT
22682872 ATAATT-T-TTAATGATAATGC
1 ATAATTATATTAATGA-AATGC
22682892 ATAATTATATTAATGAAATG
1 ATAATTATATTAATGAAATG
22682912 TTTAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (21 bp):
ATAATTATATTAATGAAATGC
Found at i:22682921 original size:21 final size:22
Alignment explanation
Indices: 22682879--22682922 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
22682869 TTTATAATTT
*
22682879 TTAATGATAATGCATAATTATA
1 TTAATGATAATGCATAAATATA
**
22682901 TTAATGA-AATGTTTAAATATA
1 TTAATGATAATGCATAAATATA
22682922 T
1 T
22682923 CAAGCTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
TTAATGATAATGCATAAATATA
Found at i:22687574 original size:42 final size:42
Alignment explanation
Indices: 22687512--22687599 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
22687502 TTGATGCTCG
* * * *
22687512 CACACTAAGTGCCAAGACATAACCTAAGTTTTTATAATCTCA
1 CACACTAAATGCCAAAACATAACCAAAGTTATTATAATCTCA
* *
22687554 CACACTAAATGTCAAAACATAACCAAAGTTATTATAATCTCG
1 CACACTAAATGCCAAAACATAACCAAAGTTATTATAATCTCA
22687596 CACA
1 CACA
22687600 TTGAGTGCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (42 bp):
CACACTAAATGCCAAAACATAACCAAAGTTATTATAATCTCA
Found at i:22691687 original size:56 final size:56
Alignment explanation
Indices: 22691597--22691707 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
22691587 ACCATGGCAT
* *
22691597 CGATATATGTGTGCGAGTAAGACCATCTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCATCTTCAATACGTTGGCATCAATATGTGATTC
22691653 CGATATATGTGTGCGAGTAAGACCA-CGTTCAATACGTTGGCATCAATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCATC-TTCAATACGTTGGCATCAATATGTGATT
22691708 ACATGTAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
55 1 0.02
56 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCATCTTCAATACGTTGGCATCAATATGTGATTC
Found at i:22698731 original size:2 final size:2
Alignment explanation
Indices: 22698724--22698748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22698714 TACACGTATC
22698724 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
22698749 ATAAAATAGA
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:22700888 original size:4 final size:4
Alignment explanation
Indices: 22700879--22700910 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
22700869 TTTAGATCAC
22700879 AATA AAT- AA-A AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
22700911 AATAAGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 22 0.85
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:22700902 original size:18 final size:18
Alignment explanation
Indices: 22700879--22700915 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22700869 TTTAGATCAC
22700879 AATAAATAAA-AATAAATA
1 AATAAATAAATAA-AAATA
22700897 AATAAATAAATAAAAATA
1 AATAAATAAATAAAAATA
22700915 A
1 A
22700916 GGTTCGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAATAAATAAAAATA
Found at i:22704601 original size:12 final size:12
Alignment explanation
Indices: 22704580--22704609 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22704570 GGGCAACTTG
*
22704580 CAGTCAGTCAGT
1 CAGTCGGTCAGT
22704592 CAGTCGGTCAGT
1 CAGTCGGTCAGT
22704604 CAGTCG
1 CAGTCG
22704610 AGAGGAGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (12 bp):
CAGTCGGTCAGT
Found at i:22718040 original size:16 final size:17
Alignment explanation
Indices: 22718019--22718058 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
22718009 GTTCTTATAT
*
22718019 TTTTTTTGTTTTTTTA-
1 TTTTTTTGCTTTTTTAC
22718035 TTTTTTTGCTTTTTTAC
1 TTTTTTTGCTTTTTTAC
22718052 TTTTTTT
1 TTTTTTT
22718059 CTTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (17 bp):
TTTTTTTGCTTTTTTAC
Found at i:22718115 original size:38 final size:36
Alignment explanation
Indices: 22718073--22718148 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 36
22718063 TATTTTGTGT
* *
22718073 TTTTCTTAGATTTTTTTTCTTT-TTTATGTTTTATATTA
1 TTTTCTTA-ATTTATTTTCTTTATTTA--ATTTATATTA
*
22718111 TTTTCTTAATTTATTTTGTTTATTTAATTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
22718147 TT
1 TT
22718149 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 11 0.32
37 11 0.32
38 12 0.35
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (36 bp):
TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
Found at i:22718123 original size:18 final size:18
Alignment explanation
Indices: 22718102--22718153 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22718092 TTTTTTATGT
22718102 TTTATATTATTT-TCTTAA
1 TTTATATTATTTAT-TTAA
* *
22718120 TTTATTTTGTTTATTTAA
1 TTTATATTATTTATTTAA
*
22718138 TTTATATTATTAATTT
1 TTTATATTATTTATTT
22718154 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATATTATTTATTTAA
Found at i:22718562 original size:28 final size:29
Alignment explanation
Indices: 22718494--22718562 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
22718484 GTGACTATTA
22718494 ATAAAT-TTAAAT-TTAAATATAAATTTT
1 ATAAATATTAAATATTAAATATAAATTTT
* * * *
22718521 -TAAAAAATATATATTAAATAT-TATTTT
1 ATAAATATTAAATATTAAATATAAATTTT
22718548 ATAAATATTAAATAT
1 ATAAATATTAAATAT
22718563 ATTTTTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
26 4 0.12
27 9 0.28
28 19 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
ATAAATATTAAATATTAAATATAAATTTT
Found at i:22718758 original size:26 final size:27
Alignment explanation
Indices: 22718709--22718771 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
22718699 TTTTAAATAC
* * *
22718709 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
22718736 AATTTTTTAATA-ATATAATAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
22718762 AATATTTTAA
1 AATTTTTTAA
22718772 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:22718821 original size:34 final size:33
Alignment explanation
Indices: 22718773--22718850 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
22718763 ATATTTTAAA
* *
22718773 TATTTTTTTAAAATTTTGTCTTTTTCCTTTTTTT
1 TATTTTTTTAAAATTTTATCTTTTTCC-TTATTT
* * *
22718807 TATTTTTTTGAAATTTTATGTTTTTTCTTATTT
1 TATTTTTTTAAAATTTTATCTTTTTCCTTATTT
22718840 TATTTTGTTTA
1 TATTTT-TTTA
22718851 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (33 bp):
TATTTTTTTAAAATTTTATCTTTTTCCTTATTT
Found at i:22719397 original size:18 final size:18
Alignment explanation
Indices: 22719347--22719398 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22719337 TCATCGATTA
*
22719347 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
22719365 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
22719383 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
22719399 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:22719443 original size:12 final size:12
Alignment explanation
Indices: 22719428--22719477 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
22719418 TCTAAAAAAG
22719428 AGAAAAAATATA
1 AGAAAAAATATA
22719440 AGAAAAAA-AGTA
1 AGAAAAAATA-TA
*
22719452 A-AAAAAGTA-A
1 AGAAAAAATATA
*
22719462 AAAAAAAATATA
1 AGAAAAAATATA
22719474 AGAA
1 AGAA
22719478 CCTGACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.06
11 13 0.42
12 16 0.52
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (12 bp):
AGAAAAAATATA
Found at i:22719446 original size:20 final size:18
Alignment explanation
Indices: 22719402--22719445 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22719392 ATATAAAACT
* *
22719402 TAAAAAAGAAAAAAAATC
1 TAAAAAAGAGAAAAAATA
22719420 TAAAAAAGAGAAAAAATA
1 TAAAAAAGAGAAAAAATA
22719438 TAAGAAAA
1 TAA-AAAA
22719446 AAAGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (18 bp):
TAAAAAAGAGAAAAAATA
Found at i:22719457 original size:32 final size:33
Alignment explanation
Indices: 22719407--22719477 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
22719397 AAACTTAAAA
* *
22719407 AAGAAAAAAAATCTAAAAAAG--AGAAAAAATAT
1 AAGAAAAAAAAT-AAAAAAAGAAAAAAAAAATAT
*
22719439 AAGAAAAAAAGTAAAAAAAGTAAAAAAAAAATAT
1 AAGAAAAAAAATAAAAAAAG-AAAAAAAAAATAT
22719473 AAGAA
1 AAGAA
22719478 CCTGACAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 7 0.21
32 11 0.33
34 15 0.45
ACGTcount: A:0.77, C:0.01, G:0.10, T:0.11
Consensus pattern (33 bp):
AAGAAAAAAAATAAAAAAAGAAAAAAAAAATAT
Found at i:22726530 original size:14 final size:15
Alignment explanation
Indices: 22726511--22726543 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22726501 ATATAATATA
22726511 ATTAAAATTA-ATTT
1 ATTAAAATTAGATTT
*
22726525 ATTAAATTTAGATTT
1 ATTAAAATTAGATTT
22726540 ATTA
1 ATTA
22726544 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTAAAATTAGATTT
Found at i:22729229 original size:30 final size:30
Alignment explanation
Indices: 22729195--22729257 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
22729185 ATTCCTAAAA
22729195 ACTTAATAGATTTGTGCTGATGTAAAATTT
1 ACTTAATAGATTTGTGCTGATGTAAAATTT
22729225 ACTTAATAGATTTGTGCTGATGTAAAATTT
1 ACTTAATAGATTTGTGCTGATGTAAAATTT
22729255 ACT
1 ACT
22729258 ACGTAGCGCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (30 bp):
ACTTAATAGATTTGTGCTGATGTAAAATTT
Found at i:22731740 original size:2 final size:2
Alignment explanation
Indices: 22731733--22731760 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22731723 AGATTGACAA
22731733 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
22731761 TAGAAATGTA
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:22741379 original size:15 final size:17
Alignment explanation
Indices: 22741333--22741383 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
22741323 TATTTATAGG
22741333 ATTTATATATGATATATA
1 ATTTATATATG-TATATA
22741351 ATTTA-ATAATGTATA-A
1 ATTTATAT-ATGTATATA
22741367 ATTTATATA-GTAT-TA
1 ATTTATATATGTATATA
22741382 AT
1 AT
22741384 AAAATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 8 0.27
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATATATGTATATA
Found at i:22741391 original size:26 final size:25
Alignment explanation
Indices: 22741345--22741393 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
22741335 TTATATATGA
**
22741345 TATATAATTTAATAATGTATAAATT
1 TATATAATTTAATAAAATATAAATT
*
22741370 TATATAGTATTAATAAAATATAAA
1 TATATAAT-TTAATAAAATATAAA
22741394 GTATCGCCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TATATAATTTAATAAAATATAAATT
Found at i:22742276 original size:12 final size:12
Alignment explanation
Indices: 22742261--22742300 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
22742251 ACATAAACTA
22742261 TATATATATTTT
1 TATATATATTTT
22742273 TATAAATATATTTT
1 TAT--ATATATTTT
*
22742287 TATATATAGTTT
1 TATATATATTTT
22742299 TA
1 TA
22742301 AAAAATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TATATATATTTT
Found at i:22742281 original size:14 final size:14
Alignment explanation
Indices: 22742259--22742290 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22742249 TAACATAAAC
*
22742259 TATATATATATTTT
1 TATAAATATATTTT
22742273 TATAAATATATTTT
1 TATAAATATATTTT
22742287 TATA
1 TATA
22742291 TATAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAAATATATTTT
Found at i:22742347 original size:29 final size:27
Alignment explanation
Indices: 22742292--22742348 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
22742282 ATTTTTATAT
*
22742292 ATAGTTTTAAAAAATATTCAGTGTTTA
1 ATAGTTTTAAAAAATATTCAGTATTTA
*
22742319 ATAGTGTTTAAAAAATATTCATTAATTTA
1 ATAGT-TTTAAAAAATATTCAGT-ATTTA
22742348 A
1 A
22742349 CTTTCTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 16 0.62
29 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (27 bp):
ATAGTTTTAAAAAATATTCAGTATTTA
Found at i:22742619 original size:14 final size:13
Alignment explanation
Indices: 22742582--22742624 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
22742572 AATTGTTATC
22742582 TTTTTTTGTTGTT
1 TTTTTTTGTTGTT
*
22742595 TTATTGTTGTTGTT
1 TT-TTTTTGTTGTT
*
22742609 TTTTTTATGTTATT
1 TTTTTT-TGTTGTT
22742623 TT
1 TT
22742625 CTTATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (13 bp):
TTTTTTTGTTGTT
Found at i:22748588 original size:16 final size:17
Alignment explanation
Indices: 22748567--22748600 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22748557 ATTAAAAGAA
22748567 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
22748583 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
22748600 A
1 A
22748601 GAGAGAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:22749623 original size:16 final size:17
Alignment explanation
Indices: 22749592--22749625 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22749582 GTATTCTCTC
22749592 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
22749609 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
22749625 T
1 T
22749626 TTCTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:22753059 original size:31 final size:31
Alignment explanation
Indices: 22752990--22753069 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
22752980 TTGCTTTATG
* * * *
22752990 TAGTACTATTTGCTTTATGTAATAATGTCTA
1 TAGTACTGTTTGCTTTAGGAAATAATGACTA
22753021 TAGTACTGTTTGCTTTAGGAAATAATGACTA
1 TAGTACTGTTTGCTTTAGGAAATAATGACTA
* *
22753052 TAGTACTGTCTACTTTAG
1 TAGTACTGTTTGCTTTAG
22753070 TACTGTTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (31 bp):
TAGTACTGTTTGCTTTAGGAAATAATGACTA
Found at i:22756010 original size:44 final size:45
Alignment explanation
Indices: 22755946--22756043 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
22755936 ATGTGCCGAC
* * *
22755946 TACTGTTACTGTTACGGATTC-GACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCAG-CACTTTGTGTGTCGAATACTGT
*
22755991 TACTG-TACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGT
*
22756035 TACTATTAC
1 TACTGTTAC
22756044 TGCTACTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 37 0.80
45 9 0.20
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:22757309 original size:61 final size:60
Alignment explanation
Indices: 22757202--22757357 Score: 231
Period size: 61 Copynumber: 2.6 Consensus size: 60
22757192 ACAAAGTTGA
* ** * *
22757202 ATAGTTGGGTGACCAAAAAAGAAATTTACTAATACTTGGGTAACCATTTTGTAACTTTTT
1 ATAGTTGGGTGACCAAAAAAAAAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
* *
22757262 ATAGTTGGGTGACCAAAAAATTAAATTTACTAATAGATGAGTGACCATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAA-AAAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
*
22757323 ATAGTTGGGTGACCAAAAAAAAAATGTACTAATAG
1 ATAGTTGGGTGACCAAAAAAAAAATTTACTAATAG
22757358 TTGAATGTCT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 33 0.38
61 54 0.62
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (60 bp):
ATAGTTGGGTGACCAAAAAAAAAATTTACTAATAGATGAGTAACCATTTTGTAACTTTTC
Found at i:22757334 original size:29 final size:29
Alignment explanation
Indices: 22757231--22757337 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
22757221 AGAAATTTAC
* *
22757231 TAATACTTGGGTAACCATTTTGTAACTTT
1 TAATAGTTGGGTGACCATTTTGTAACTTT
* *** *
22757260 TTATAGTTGGGTGACCAAAAAAT-TAAATTT
1 TAATAGTTGGGTGACC--ATTTTGTAACTTT
* *
22757290 ACTAATAGATGAGTGACCATTTTGTAACTTT
1 --TAATAGTTGGGTGACCATTTTGTAACTTT
*
22757321 TCATAGTTGGGTGACCA
1 TAATAGTTGGGTGACCA
22757338 AAAAAAAAAT
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
29 27 0.48
30 8 0.14
31 8 0.14
32 13 0.23
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (29 bp):
TAATAGTTGGGTGACCATTTTGTAACTTT
Found at i:22758641 original size:21 final size:20
Alignment explanation
Indices: 22758613--22758658 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
22758603 TGTGGTGAAA
* *
22758613 ATTAATAAATTTTAATATAT
1 ATTAATAAATATAAATATAT
22758633 ATTATATAAATATAAATATAT
1 ATTA-ATAAATATAAATATAT
22758654 ATTAA
1 ATTAA
22758659 AATAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATAAATATAAATATAT
Found at i:22758671 original size:21 final size:20
Alignment explanation
Indices: 22758625--22758672 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
22758615 TAATAAATTT
*
22758625 TAATATATATTATATAAATA
1 TAATATATATTAAATAAATA
22758645 TAAATATATATTAAA-ATAATAA
1 T-AATATATATTAAATA-AAT-A
22758667 TAATAT
1 TAATAT
22758673 TAGATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATATATTAAATAAATA
Found at i:22763414 original size:20 final size:21
Alignment explanation
Indices: 22763384--22763431 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
22763374 CGTTAATCAT
22763384 ATTAA-TTTTTAATAATAAA-A
1 ATTAATTTTTTAATAA-AAATA
22763404 A-TAATTTTTTAATAAAAATA
1 ATTAATTTTTTAATAAAAATA
22763424 ATTAATTT
1 ATTAATTT
22763432 ATTATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAATTTTTTAATAAAAATA
Found at i:22763418 original size:17 final size:18
Alignment explanation
Indices: 22763386--22763426 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
22763376 TTAATCATAT
22763386 TAATTTTTAATAATAAAAA
1 TAATTTTT-ATAATAAAAA
22763405 TAATTTTT-TAATAAAAA
1 TAATTTTTATAATAAAAA
22763422 TAATT
1 TAATT
22763427 AATTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTTTTATAATAAAAA
Found at i:22764916 original size:36 final size:36
Alignment explanation
Indices: 22764876--22764957 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
22764866 TTTCAACCCC
22764876 TAACTTTTCTAC-TCTTTCAAATTTTACACTGAATTT
1 TAACTTTTCTACTTCTTTCAAA-TTTACACTGAATTT
* **
22764912 TAACTTTTCTACTTTTTTTTTTAATTTACACTGAATTT
1 TAACTTTTCTAC--TTCTTTCAAATTTACACTGAATTT
22764950 TAACTTTT
1 TAACTTTT
22764958 TTTTTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 12 0.30
38 22 0.55
39 6 0.15
ACGTcount: A:0.26, C:0.16, G:0.02, T:0.56
Consensus pattern (36 bp):
TAACTTTTCTACTTCTTTCAAATTTACACTGAATTT
Found at i:22765638 original size:12 final size:12
Alignment explanation
Indices: 22765623--22765647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22765613 AATATATGAA
22765623 AAAATATAATAT
1 AAAATATAATAT
22765635 AAAATATAATAT
1 AAAATATAATAT
22765647 A
1 A
22765648 TTTAAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:22770632 original size:3 final size:3
Alignment explanation
Indices: 22770620--22770649 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
22770610 ATATACACGA
22770620 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22770650 TTAGCTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:22772494 original size:31 final size:31
Alignment explanation
Indices: 22772458--22772521 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
22772448 CTAGCGAGGG
* *
22772458 ACCTACCACCTACGATCTAGGAGCCTCACAT
1 ACCTACCACCTACGATCCAAGAGCCTCACAT
22772489 ACCTACCACCTACGATCCAAGAGCCTCACAT
1 ACCTACCACCTACGATCCAAGAGCCTCACAT
22772520 AC
1 AC
22772522 TCAGTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.41, G:0.11, T:0.17
Consensus pattern (31 bp):
ACCTACCACCTACGATCCAAGAGCCTCACAT
Found at i:22776166 original size:10 final size:10
Alignment explanation
Indices: 22776146--22776174 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22776136 TTAATACTTT
22776146 TTTTTAA-AA
1 TTTTTAATAA
22776155 TTTTTAATAA
1 TTTTTAATAA
22776165 TTTTTAATAA
1 TTTTTAATAA
22776175 ACTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:22780397 original size:12 final size:12
Alignment explanation
Indices: 22780380--22780404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22780370 TTGGGTATTG
22780380 TGTGTATATATA
1 TGTGTATATATA
22780392 TGTGTATATATA
1 TGTGTATATATA
22780404 T
1 T
22780405 ATGACTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTGTATATATA
Found at i:22780401 original size:14 final size:14
Alignment explanation
Indices: 22780378--22780407 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22780368 GGTTGGGTAT
*
22780378 TGTGTGTATATATA
1 TGTGTATATATATA
22780392 TGTGTATATATATA
1 TGTGTATATATATA
22780406 TG
1 TG
22780408 ACTATTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TGTGTATATATATA
Found at i:22794178 original size:22 final size:20
Alignment explanation
Indices: 22794138--22794201 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
22794128 TTCAGATGTC
*
22794138 TTTAGTTATTTTATATCATA
1 TTTAATTATTTTATATCATA
22794158 TTTAATTATTTTTCATATCATA
1 TTTAATTA-TTTT-ATATCATA
*
22794180 TTATAA--ATTTTATGTCATA
1 TT-TAATTATTTTATATCATA
22794199 TTT
1 TTT
22794202 GATGCGATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 9 0.23
20 11 0.28
21 5 0.13
22 10 0.26
23 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTAATTATTTTATATCATA
Found at i:22798977 original size:39 final size:38
Alignment explanation
Indices: 22798910--22799044 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
22798900 ACCAATATGG
* *
22798910 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
22798949 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * * *
22798987 TACCTAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
22799028 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
22799045 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 18 0.24
39 37 0.50
40 4 0.05
41 15 0.20
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:22800616 original size:5 final size:5
Alignment explanation
Indices: 22800598--22800628 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
22800588 TTTCTTTTAT
22800598 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
22800629 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:22800668 original size:27 final size:26
Alignment explanation
Indices: 22800604--22800668 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 26
22800594 TTATATATAA
22800604 TAATAATATAATATAATATAATATACT
1 TAATAATA-AATATAATATAATATACT
* **
22800631 TAATTATTAAATA-AATATATATATTTT
1 TAA-TAATAAATATAATATA-ATATACT
22800658 TAATCAATAAA
1 TAAT-AATAAA
22800669 ATCTTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 7 0.23
27 20 0.65
28 4 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATAATAAATATAATATAATATACT
Found at i:22818783 original size:13 final size:12
Alignment explanation
Indices: 22818759--22818792 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
22818749 ATTATTTAAA
22818759 TTTTAAATTTAT
1 TTTTAAATTTAT
22818771 TTTTAAATCTTAT
1 TTTTAAAT-TTAT
22818784 TTTTAAATT
1 TTTTAAATT
22818793 ATTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAAATTTAT
Found at i:22819723 original size:19 final size:19
Alignment explanation
Indices: 22819673--22819725 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
22819663 ATGAAATATT
* *
22819673 TATTTAATTTAATTTTTAC
1 TATTTAATTTAATTTTAAA
*
22819692 TACTTAATGTTAATTTTAAA
1 TATTTAAT-TTAATTTTAAA
*
22819712 TATTTTATTTAATT
1 TATTTAATTTAATT
22819726 AAAAATGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTAATTTAATTTTAAA
Found at i:22824039 original size:2 final size:2
Alignment explanation
Indices: 22824032--22824065 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22824022 CAATCTACCA
22824032 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
22824066 GCAAGCTTAA
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:22829512 original size:6 final size:6
Alignment explanation
Indices: 22829501--22829526 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22829491 GACGAGTAAT
22829501 TCTGTC TCTGTC TCTGTC TCTGTC TC
1 TCTGTC TCTGTC TCTGTC TCTGTC TC
22829527 CACCGATACG
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:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGTC
Found at i:22841346 original size:16 final size:16
Alignment explanation
Indices: 22841325--22841387 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
22841315 ACTTTTCTAA
22841325 AAATAAATTACTAATT
1 AAATAAATTACTAATT
*
22841341 AAATAAATTAATAATTT
1 AAATAAATTACTAA-TT
*
22841358 AAACT--ATT-TTAATT
1 AAA-TAAATTACTAATT
22841372 AAATAAATTACTAATT
1 AAATAAATTACTAATT
22841388 TTTTATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.03
14 5 0.13
15 6 0.15
16 21 0.54
17 5 0.13
18 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAAATTACTAATT
Found at i:22841638 original size:38 final size:36
Alignment explanation
Indices: 22841574--22841644 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
22841564 TCAAGGATCA
* *
22841574 AATTTTAATAAATAAAAATAAATAAATTGACTTCTT
1 AATTTTAATAAATAAAAAAAAATAAATTCACTTCTT
*
22841610 AATTTTTATAAAATAAAAAAAAATTAAATTCACTT
1 AATTTTAAT-AAATAAAAAAAAA-TAAATTCACTT
22841645 AAAGCGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 8 0.27
37 12 0.40
38 10 0.33
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (36 bp):
AATTTTAATAAATAAAAAAAAATAAATTCACTTCTT
Found at i:22844282 original size:12 final size:12
Alignment explanation
Indices: 22844265--22844296 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22844255 GACGATGAAT
22844265 AGATTCTTCTCA
1 AGATTCTTCTCA
22844277 AGATTCTTCTCA
1 AGATTCTTCTCA
*
22844289 AGAATCTT
1 AGATTCTT
22844297 ATTCTTTGTA
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:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (12 bp):
AGATTCTTCTCA
Found at i:22850766 original size:27 final size:27
Alignment explanation
Indices: 22850724--22850779 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
22850714 GGTTCAATAA
22850724 ATAATTTTTTTCAATAATAGAATTTTC
1 ATAATTTTTTTCAATAATAGAATTTTC
* *
22850751 ATAATTTTTTTGAATAATATAATTTTC
1 ATAATTTTTTTCAATAATAGAATTTTC
22850778 AT
1 AT
22850780 TCATTTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (27 bp):
ATAATTTTTTTCAATAATAGAATTTTC
Found at i:22854464 original size:30 final size:30
Alignment explanation
Indices: 22854430--22854491 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
22854420 CAACTTAACA
*
22854430 AACAAATGT-TTCTTAAATAATAATAAAATT
1 AACAAATGTCTT-TAAAATAATAATAAAATT
22854460 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGTCTTTAAAATAATAATAAAATT
22854490 AA
1 AA
22854492 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (30 bp):
AACAAATGTCTTTAAAATAATAATAAAATT
Found at i:22854549 original size:22 final size:22
Alignment explanation
Indices: 22854524--22854566 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22854514 TATCCAAACA
22854524 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
22854546 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
22854567 AATGAGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:22855070 original size:12 final size:12
Alignment explanation
Indices: 22855053--22855111 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
22855043 AAGATTGTAA
22855053 TATTAAATATAT
1 TATTAAATATAT
22855065 TATTAAATA-ATT
1 TATTAAATATA-T
*
22855077 TATTATAT-TAAT
1 TATTAAATAT-AT
*
22855089 AATTAAATATAT
1 TATTAAATATAT
22855101 TATTAAATATA
1 TATTAAATATA
22855112 AATAATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 36 0.92
13 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTAAATATAT
Found at i:22855080 original size:24 final size:24
Alignment explanation
Indices: 22855053--22855124 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
22855043 AAGATTGTAA
*
22855053 TATTAAATATATTATTAAATA-ATT
1 TATTAAATATATAATTAAATATA-T
*
22855077 TATTATAT-TAATAATTAAATATAT
1 TATTAAATAT-ATAATTAAATATAT
22855101 TATTAAATATAAATAATTAAATAT
1 TATTAAATAT--ATAATTAAATAT
22855125 TATGTTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.02
24 25 0.61
25 2 0.05
26 13 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTAAATATATAATTAAATATAT
Found at i:22855091 original size:16 final size:16
Alignment explanation
Indices: 22855065--22855120 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
22855055 TTAAATATAT
* *
22855065 TATTAAATAATTTATTA
1 TATT-AATAATTAAATA
22855082 TATTAATAATTAAATA
1 TATTAATAATTAAATA
*
22855098 TATTATTAAATATAAATA
1 TATTAAT-AAT-TAAATA
22855116 -ATTAA
1 TATTAA
22855121 ATATTATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 16 0.48
17 11 0.33
18 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAATAATTAAATA
Found at i:22855121 original size:14 final size:13
Alignment explanation
Indices: 22855050--22855124 Score: 61
Period size: 12 Copynumber: 6.1 Consensus size: 13
22855040 AATAAGATTG
22855050 TAAT-ATTAAATA
1 TAATAATTAAATA
*
22855062 T-ATTATTAAATA
1 TAATAATTAAATA
* * *
22855074 -ATTTATTATAT-
1 TAATAATTAAATA
22855085 TAATAATTAAATA
1 TAATAATTAAATA
*
22855098 T-ATTATTAAATA
1 TAATAATTAAATA
22855110 TAAATAATTAAATA
1 T-AATAATTAAATA
22855124 T
1 T
22855125 TATGTTTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.04
12 36 0.72
13 1 0.02
14 11 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATAATTAAATA
Found at i:22858655 original size:4 final size:4
Alignment explanation
Indices: 22858646--22858678 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
22858636 CAAAAAAGGC
22858646 TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA T
22858679 TCAGATTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:22861717 original size:25 final size:25
Alignment explanation
Indices: 22861659--22861722 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
22861649 CAAGATAAAA
*
22861659 AAACACTTTAAATAAAAAATAATTTT
1 AAACAATTTAAA-AAAAAATAATTTT
22861685 AAACAATTTAAAAATAAAAT-ATTTT
1 AAACAATTTAAAAA-AAAATAATTTT
*
22861710 CAAA-AATTCAAAA
1 -AAACAATTTAAAA
22861723 CATGTGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (25 bp):
AAACAATTTAAAAAAAAATAATTTT
Found at i:22862663 original size:17 final size:17
Alignment explanation
Indices: 22862634--22862671 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22862624 TCGTTTATAT
*
22862634 TTTTAATAATTTTAGAA
1 TTTTAATAATTTTAAAA
22862651 TTTT-ATAATTTTTAAAA
1 TTTTAATAA-TTTTAAAA
22862668 TTTT
1 TTTT
22862672 TAAAGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTAATAATTTTAAAA
Found at i:22862680 original size:10 final size:9
Alignment explanation
Indices: 22862632--22862682 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
22862622 AATCGTTTAT
22862632 ATTTTTAATA
1 ATTTTTAA-A
*
22862642 A-TTTTAGA
1 ATTTTTAAA
*
22862650 A-TTTTATA
1 ATTTTTAAA
22862658 ATTTTTAAA
1 ATTTTTAAA
22862667 ATTTTTAAA
1 ATTTTTAAA
22862676 GATTTTT
1 -ATTTTT
22862683 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 9 0.25
9 20 0.56
10 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:22862714 original size:26 final size:25
Alignment explanation
Indices: 22862685--22862733 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
22862675 AGATTTTTTT
22862685 TAATTTTACAAAGTTTTTATTTTTCA
1 TAATTTTACAAA-TTTTTATTTTTCA
**
22862711 TAATTTTTGAAATTTTTATTTTT
1 TAATTTTACAAATTTTTATTTTT
22862734 ATTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (25 bp):
TAATTTTACAAATTTTTATTTTTCA
Found at i:22866602 original size:13 final size:13
Alignment explanation
Indices: 22866565--22866626 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
22866555 CTATTCATTG
22866565 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
22866578 CTGTAGAAAAGTA
1 CTTTTGAAAAGTA
* *
22866591 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
* *
22866604 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
*
22866617 CTTTAGAAAA
1 CTTTTGAAAA
22866627 ATTTAAGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:22893476 original size:5 final size:5
Alignment explanation
Indices: 22893466--22893490 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22893456 ACATAGAAAT
22893466 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
22893491 GATTAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:22905069 original size:26 final size:27
Alignment explanation
Indices: 22905031--22905083 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
22905021 ACTTCATGTC
22905031 AACAAATAA-TT-TAAAAATTATAAAAA
1 AACAAATAATTTATAAAAATT-TAAAAA
22905057 AACAAA-AATTTTATAAAAATTTAAAAA
1 AACAAATAA-TTTATAAAAATTTAAAAA
22905084 TAAAATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 2 0.08
26 6 0.25
27 8 0.33
28 8 0.33
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (27 bp):
AACAAATAATTTATAAAAATTTAAAAA
Found at i:22905082 original size:19 final size:18
Alignment explanation
Indices: 22905038--22905084 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
22905028 GTCAACAAAT
22905038 AATTTAAAAA-TTATAAA
1 AATTTAAAAATTTATAAA
***
22905055 AAAACAAAAATTTTATAAA
1 AATTTAAAAA-TTTATAAA
22905074 AATTTAAAAAT
1 AATTTAAAAAT
22905085 AAAATTAACA
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTTAAAAATTTATAAA
Found at i:22905653 original size:13 final size:13
Alignment explanation
Indices: 22905635--22905666 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22905625 AAGGTAGGAA
22905635 TCCACCGCAAGGT
1 TCCACCGCAAGGT
22905648 TCCACCGCAAGGT
1 TCCACCGCAAGGT
22905661 TCCACC
1 TCCACC
22905667 ACCACCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.44, G:0.19, T:0.16
Consensus pattern (13 bp):
TCCACCGCAAGGT
Found at i:22909443 original size:18 final size:19
Alignment explanation
Indices: 22909420--22909459 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22909410 AGTCTATGTA
22909420 TAAAA-TTATACATTAAAT
1 TAAAATTTATACATTAAAT
* *
22909438 TAAAATTTATCCCTTAAAT
1 TAAAATTTATACATTAAAT
22909457 TAA
1 TAA
22909460 TGATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATTTATACATTAAAT
Found at i:22916414 original size:11 final size:11
Alignment explanation
Indices: 22916398--22916423 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22916388 ACATAATAAT
22916398 AAAATAGGAAG
1 AAAATAGGAAG
22916409 AAAATAGGAAG
1 AAAATAGGAAG
22916420 AAAA
1 AAAA
22916424 CAACAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (11 bp):
AAAATAGGAAG
Found at i:22919792 original size:3 final size:3
Alignment explanation
Indices: 22919730--22919772 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
22919720 TTGGGCTTCA
* * *
22919730 CTT CTT CTT CTT CTT CTT CTT CCT CTT CGT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
22919773 ATCATCACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.58
Consensus pattern (3 bp):
CTT
Found at i:22924267 original size:29 final size:29
Alignment explanation
Indices: 22924228--22924301 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 29
22924218 GTGGAAAATG
22924228 TTTTTTAGAAAAAGAGTTCCTTTATAACA
1 TTTTTTAGAAAAAGAGTTCCTTTATAACA
*
22924257 TTTTTTGGAAAAAGAGTTCCTTTATAACA
1 TTTTTTAGAAAAAGAGTTCCTTTATAACA
22924286 TGATTTTTAGATAAAA
1 T--TTTTTAGA-AAAA
22924302 CTTATGTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 29 0.73
31 7 0.17
32 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (29 bp):
TTTTTTAGAAAAAGAGTTCCTTTATAACA
Found at i:22938872 original size:21 final size:21
Alignment explanation
Indices: 22938838--22938881 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22938828 AATTATTAAA
*
22938838 ATATTCTTATTTGTATTAATT
1 ATATTCTTACTTGTATTAATT
*
22938859 ATATTTTTACTTGTATTAATT
1 ATATTCTTACTTGTATTAATT
22938880 AT
1 AT
22938882 TTAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATTCTTACTTGTATTAATT
Found at i:22939006 original size:34 final size:33
Alignment explanation
Indices: 22938926--22939011 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 33
22938916 TTCTATTTAA
* * *
22938926 ATATTAAACTATTTAAATA--TTATTTATTATT
1 ATATTAAAATATTTAAATATTTTATGTATAATT
22938957 ATATTTAAAAT-TTTAAAATATTTTATGTATAATT
1 ATA-TTAAAATATTT-AAATATTTTATGTATAATT
*
22938991 ATATTAAATTATTTAAATATT
1 ATATTAAAATATTTAAATATT
22939012 ATTTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 6 0.13
32 11 0.24
33 13 0.28
34 16 0.35
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
ATATTAAAATATTTAAATATTTTATGTATAATT
Found at i:22939027 original size:25 final size:23
Alignment explanation
Indices: 22938935--22939029 Score: 67
Period size: 22 Copynumber: 4.2 Consensus size: 23
22938925 AATATTAAAC
*
22938935 TATTTAAATATTATTT-ATTATTA
1 TATTTAAA-ATTATTTAATTATTT
* *
22938958 TATTTAAAATT-TTAAAATATTT
1 TATTTAAAATTATTTAATTATTT
* *
22938980 TATGTATAATTATATTAA--A--T
1 TATTTAAAATTAT-TTAATTATTT
22939000 TATTTAAATATTATTTAAATTATTT
1 TATTTAAA-ATTATTT-AATTATTT
22939025 TATTT
1 TATTT
22939030 TTTATTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
20 9 0.16
21 9 0.16
22 18 0.33
23 10 0.18
24 3 0.05
25 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TATTTAAAATTATTTAATTATTT
Found at i:22939037 original size:6 final size:7
Alignment explanation
Indices: 22939022--22939047 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22939012 ATTTAAATTA
22939022 TTTTATT
1 TTTTATT
22939029 TTTTATT
1 TTTTATT
22939036 TTTTATT
1 TTTTATT
22939043 TTTTA
1 TTTTA
22939048 ACATCATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:22944662 original size:57 final size:57
Alignment explanation
Indices: 22944574--22944701 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 57
22944564 TTAACATGAG
22944574 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
1 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
* * *
22944631 CCTAAAGTTACCAAAATGGAAACAGGTCCTACCTAAATTGATTCTAAAGGACCCAAA
1 CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
22944688 CCTAAAGTCACCAA
1 CCTAAAGTCACCAA
22944702 GAAACCCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (57 bp):
CCTAAAGTCACCAAAATAGAAACAGGGCCTACCTAAATTGATTCTAAAGGACCCAAA
Found at i:22947797 original size:26 final size:26
Alignment explanation
Indices: 22947744--22947818 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
22947734 CTATATTTTC
*
22947744 AAATTAAACGATGA-TTAAATTAATA
1 AAATTAAACCATGATTTAAATTAATA
*
22947769 AAATTAAACCATGATTTGAATTAATA
1 AAATTAAACCATGATTTAAATTAATA
*
22947795 AAACTAAACCATGATTTAAATTAA
1 AAATTAAACCATGATTTAAATTAA
22947819 CACTTTGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 13 0.29
26 32 0.71
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTAAACCATGATTTAAATTAATA
Found at i:22957714 original size:2 final size:2
Alignment explanation
Indices: 22957703--22957731 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22957693 TCAAAGCAAC
22957703 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22957732 TTTTGGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:22977723 original size:22 final size:22
Alignment explanation
Indices: 22977695--22977738 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22977685 ACATTAAGAG
22977695 TAAAAAAACATACTAATACATT
1 TAAAAAAACATACTAATACATT
*
22977717 TAAAAAAACATATTAATACATT
1 TAAAAAAACATACTAATACATT
22977739 ATATACACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAAAACATACTAATACATT
Found at i:22981831 original size:19 final size:19
Alignment explanation
Indices: 22981807--22981843 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22981797 GTTAATATAA
22981807 ATTAATAAA-ATTACTTTTT
1 ATTAATAAATATTA-TTTTT
22981826 ATTAATAAATATTATTTT
1 ATTAATAAATATTATTTT
22981844 AGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATAAATATTATTTTT
Found at i:22984020 original size:29 final size:25
Alignment explanation
Indices: 22983929--22984047 Score: 84
Period size: 27 Copynumber: 4.7 Consensus size: 25
22983919 TTTTAAAATG
* *
22983929 ATTAAAAATTTAAAAAATTATAAAA
1 ATTAAAAAATTAATAAATTATAAAA
* * *
22983954 AATAAAATATT--T-AA-TATTAAA
1 ATTAAAAAATTAATAAATTATAAAA
*
22983975 ATTAAAAAATGTTATAAATGTTATAAAA
1 ATTAAAAAAT-TAATAAA--TTATAAAA
22984003 ATATAAAAAATCTAATAAATTATAAAA
1 AT-TAAAAAAT-TAATAAATTATAAAA
* *
22984030 TTTTATAAAATTAATAAA
1 -ATTAAAAAATTAATAAA
22984048 CATACTTAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
21 14 0.19
22 3 0.04
24 1 0.01
25 10 0.14
26 7 0.10
27 15 0.21
28 9 0.12
29 14 0.19
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (25 bp):
ATTAAAAAATTAATAAATTATAAAA
Found at i:22984455 original size:17 final size:17
Alignment explanation
Indices: 22984417--22984453 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22984407 TCAATTAAAT
*
22984417 AAAATATTAAAAACCTA
1 AAAATATTAAAAACATA
22984434 AAAATATTAAAAA-ATA
1 AAAATATTAAAAACATA
22984450 AAAA
1 AAAA
22984454 ATTTGGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATATTAAAAACATA
Found at i:22984615 original size:20 final size:19
Alignment explanation
Indices: 22984590--22984637 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
22984580 TTTTTTTTAT
*
22984590 AATTTTTATAAGTTTATATC
1 AATTTTTATAACTTTA-ATC
*
22984610 AATTTTAAT-ACTTTAATC
1 AATTTTTATAACTTTAATC
22984628 -ATTTTTATAA
1 AATTTTTATAA
22984638 TTGTGTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 5 0.21
20 8 0.33
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTTTATAACTTTAATC
Found at i:22984782 original size:18 final size:18
Alignment explanation
Indices: 22984742--22984813 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
22984732 ATTAGATTCC
22984742 TTATATTTTTAATAATAT
1 TTATATTTTTAATAATAT
* * *
22984760 CTATATTTTTTATAATTT
1 TTATATTTTTAATAATAT
* *
22984778 TTATAAATTTAAATCAAT-T
1 TTAT-ATTTTTAAT-AATAT
*
22984797 TTCGTATTTTTAATAAT
1 TT-ATATTTTTAATAAT
22984814 TAATAATTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
18 21 0.51
19 16 0.39
20 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (18 bp):
TTATATTTTTAATAATAT
Found at i:22992012 original size:29 final size:31
Alignment explanation
Indices: 22991965--22992025 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
22991955 TGGCCCAAGA
* *
22991965 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATACTCAAAAGTTGAAGGACTAATAGT
*
22991995 GTAAATA-TGAAAAGTTGAAGGACTAATAGT
1 GTAAATACTCAAAAGTTGAAGGACTAATAGT
22992025 G
1 G
22992026 CAACTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAAATACTCAAAAGTTGAAGGACTAATAGT
Found at i:22994219 original size:46 final size:46
Alignment explanation
Indices: 22994167--22994255 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
22994157 GAGTGTGCTC
22994167 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
22994213 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
22994256 TTGAAAGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (46 bp):
TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:22994239 original size:30 final size:30
Alignment explanation
Indices: 22994203--22994301 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
22994193 GTTGAAAGAT
22994203 ACCATGGCAATCTGATATGAAATGTGTAAG
1 ACCATGGCAATCTGATATGAAATGTGTAAG
* *
22994233 ACCATGG---T-TGA-AAGATACCATGGTTGAAAG
1 ACCATGGCAATCTGATATGA-A--AT-G-TGTAAG
22994263 ATACCATGGCAATCTGATATGAAATGTGTAAG
1 --ACCATGGCAATCTGATATGAAATGTGTAAG
22994295 ACCATGG
1 ACCATGG
22994302 TTGAAAGATA
Statistics
Matches: 53, Mismatches: 4, Indels: 24
0.65 0.05 0.30
Matches are distributed among these distances:
25 3 0.06
26 4 0.08
27 1 0.02
28 2 0.04
29 1 0.02
30 19 0.36
32 12 0.23
33 1 0.02
34 2 0.04
35 1 0.02
36 4 0.08
37 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
ACCATGGCAATCTGATATGAAATGTGTAAG
Found at i:22994254 original size:16 final size:16
Alignment explanation
Indices: 22994233--22994271 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22994223 AATGTGTAAG
22994233 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
22994249 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
22994265 ACCATGG
1 ACCATGG
22994272 CAATCTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:22994284 original size:62 final size:62
Alignment explanation
Indices: 22994187--22994317 Score: 262
Period size: 62 Copynumber: 2.1 Consensus size: 62
22994177 AATGTGTAAG
22994187 ACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
22994249 ACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
22994311 ACCATGG
1 ACCATGG
22994318 CAACGTGATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (62 bp):
ACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
Found at i:22994299 original size:46 final size:46
Alignment explanation
Indices: 22994249--22994595 Score: 493
Period size: 46 Copynumber: 7.5 Consensus size: 46
22994239 GTTGAAAGAT
**
22994249 ACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAA-CGTGATATGAAATGAATAAG
22994295 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
* ***
22994341 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
22994387 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
* *** *
22994433 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
22994479 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
* *
22994525 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAAT-AAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAA-TAAG
* * * *
22994571 ACTATAGTTGAAAGACACTATGGCA
1 ACCATGGTTGAAAGATACCATGGCA
22994596 TCATGTCAAA
Statistics
Matches: 272, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 4 0.01
46 268 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
Found at i:22994356 original size:108 final size:108
Alignment explanation
Indices: 22994167--22994363 Score: 360
Period size: 108 Copynumber: 1.8 Consensus size: 108
22994157 GAGTGTGCTC
**
22994167 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGTGTAA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGAATAA
22994232 GACCATGGTTGAAAGATACCATGGTTGAAAGATACCATGGCAA
66 GACCATGGTTGAAAGATACCATGGTTGAAAGATACCATGGCAA
22994275 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CGTGATATGAAATGAATA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGAATA
22994339 AGACCATGGTTGAAAGATACCATGG
65 AGACCATGGTTGAAAGATACCATGG
22994364 CAACATGACG
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 1 0.01
108 85 0.99
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (108 bp):
TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATGAATAA
GACCATGGTTGAAAGATACCATGGTTGAAAGATACCATGGCAA
Found at i:22994902 original size:16 final size:17
Alignment explanation
Indices: 22994881--22994913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22994871 ATGATGGAGC
22994881 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
22994897 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
22994914 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:22996468 original size:32 final size:32
Alignment explanation
Indices: 22996429--22996492 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22996419 GACAACATAT
*
22996429 CTTAGATAATCCTTCGGAGAACAAGCCATCTG
1 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
22996461 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
1 CTTAGATAATCCTCCGGAGAACAAGCCATCTG
22996493 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (32 bp):
CTTAGATAATCCTCCGGAGAACAAGCCATCTG
Found at i:22998007 original size:51 final size:51
Alignment explanation
Indices: 22997915--22998035 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
22997905 ATCACATTTA
* * *
22997915 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATTACTTG
1 TCACTTGTCACTGATCAGATAAATGTAACTAAAGCTACCACTTATCACTTG
* * *
22997966 TCACTTGTCACTGATCAGATAAATGTAACTGAGGCTGCCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAATGTAACTAAAGCTACCACTTATCACTTG
*
22998017 TCCCTTGTCACTGATCAGA
1 TCACTTGTCACTGATCAGA
22998036 AGTACTCAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAATGTAACTAAAGCTACCACTTATCACTTG
Found at i:23000101 original size:11 final size:12
Alignment explanation
Indices: 23000072--23000100 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23000062 CATTCTCTTT
23000072 TTTTTTATTGAA
1 TTTTTTATTGAA
23000084 TTTTTTATTGAA
1 TTTTTTATTGAA
23000096 TTTTT
1 TTTTT
23000101 AAATTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTTATTGAA
Found at i:23006876 original size:85 final size:85
Alignment explanation
Indices: 23006733--23006901 Score: 338
Period size: 85 Copynumber: 2.0 Consensus size: 85
23006723 GTTATTATTA
23006733 TTGTTACTTCACTCTTAGGTTGTCTCATGTAATGCTATTATTATACATGAATGGTTGTGTTCAAA
1 TTGTTACTTCACTCTTAGGTTGTCTCATGTAATGCTATTATTATACATGAATGGTTGTGTTCAAA
23006798 TTGAAATATCAACATTCAAG
66 TTGAAATATCAACATTCAAG
23006818 TTGTTACTTCACTCTTAGGTTGTCTCATGTAATGCTATTATTATACATGAATGGTTGTGTTCAAA
1 TTGTTACTTCACTCTTAGGTTGTCTCATGTAATGCTATTATTATACATGAATGGTTGTGTTCAAA
23006883 TTGAAATATCAACATTCAA
66 TTGAAATATCAACATTCAA
23006902 ATGCTTGGTG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (85 bp):
TTGTTACTTCACTCTTAGGTTGTCTCATGTAATGCTATTATTATACATGAATGGTTGTGTTCAAA
TTGAAATATCAACATTCAAG
Found at i:23006976 original size:25 final size:25
Alignment explanation
Indices: 23006948--23007023 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
23006938 TGAAAATGAA
23006948 TGCCTTTTGCTGTACCTTTGATGTT
1 TGCCTTTTGCTGTACCTTTGATGTT
23006973 TGCCTTTTGCTGTACCTTTGATGTT
1 TGCCTTTTGCTGTACCTTTGATGTT
23006998 TGCCTTTTGCTGTACCTTTGATGTT
1 TGCCTTTTGCTGTACCTTTGATGTT
23007023 T
1 T
23007024 ACTTGACAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (25 bp):
TGCCTTTTGCTGTACCTTTGATGTT
Found at i:23007160 original size:9 final size:9
Alignment explanation
Indices: 23007136--23007200 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
23007126 AAAGCATCAA
23007136 AGAGAAGAG
1 AGAGAAGAG
23007145 AGAAGAGAGAAG
1 AG-AGA-AG-AG
23007157 AGAGAA-A-
1 AGAGAAGAG
*
23007164 AGAGAAAAG
1 AGAGAAGAG
*
23007173 AGAAAAGAG
1 AGAGAAGAG
*
23007182 AGAAAAGAG
1 AGAGAAGAG
*
23007191 AGAAAAGAG
1 AGAGAAGAG
23007200 A
1 A
23007201 AAAGGGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
7 6 0.12
8 2 0.04
9 28 0.57
10 4 0.08
11 5 0.10
12 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (9 bp):
AGAGAAGAG
Found at i:23007166 original size:16 final size:16
Alignment explanation
Indices: 23007141--23007204 Score: 94
Period size: 16 Copynumber: 4.0 Consensus size: 16
23007131 ATCAAAGAGA
* *
23007141 AGAGAGAAGAGAGAAG
1 AGAGAAAAGAGAAAAG
23007157 AGAGAAAAGAGAAAAG
1 AGAGAAAAGAGAAAAG
23007173 AGA-AAAGAGAGAAAAG
1 AGAGAAA-AGAGAAAAG
23007189 AGAGAAAAGAGAAAAG
1 AGAGAAAAGAGAAAAG
23007205 GGTAAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.07
16 38 0.86
17 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AGAGAAAAGAGAAAAG
Found at i:23007202 original size:7 final size:7
Alignment explanation
Indices: 23007134--23007204 Score: 79
Period size: 7 Copynumber: 9.6 Consensus size: 7
23007124 CCAAAGCATC
23007134 AAAGAGA
1 AAAGAGA
*
23007141 AGAGAGA
1 AAAGAGA
*
23007148 AGAGAGA
1 AAAGAGA
*
23007155 AGAGAGA
1 AAAGAGA
23007162 AAAGAGA
1 AAAGAGA
23007169 AAAGAGAA
1 AAAGAG-A
23007177 AAGAGAGAA
1 AA-AGAG-A
23007186 AAGAGAGA
1 AA-AGAGA
23007194 AAAGAGA
1 AAAGAGA
23007201 AAAG
1 AAAG
23007205 GGTAAAAATG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
7 41 0.68
8 6 0.10
9 13 0.22
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:23017951 original size:15 final size:15
Alignment explanation
Indices: 23017931--23017963 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23017921 TAAAGAGTTT
23017931 TAAGTAGATTTTGAG
1 TAAGTAGATTTTGAG
23017946 TAAGTAGATTTTGAG
1 TAAGTAGATTTTGAG
23017961 TAA
1 TAA
23017964 TGGAGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (15 bp):
TAAGTAGATTTTGAG
Done.