Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 382 of 438
Found at i:119102604 original size:58 final size:58
Alignment explanation
Indices: 119102511--119102643 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
119102501 ATACTCGATT
* * *
119102511 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTT-CGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCG-GC
* * * * * *
119102569 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCGGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCGGC
*
119102627 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
119102644 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.90
59 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCGGC
Found at i:119107069 original size:64 final size:64
Alignment explanation
Indices: 119106988--119107170 Score: 199
Period size: 67 Copynumber: 2.8 Consensus size: 64
119106978 AGACATTATG
* *
119106988 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
119107052 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
119107117 AA
63 AA
* * * * *
119107119 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
119107171 TCGAACTATA
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 17 0.18
67 32 0.33
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:119112165 original size:53 final size:54
Alignment explanation
Indices: 119112080--119112273 Score: 207
Period size: 55 Copynumber: 3.6 Consensus size: 54
119112070 TACGTGGTAT
* * * * *
119112080 CCTTTTGAAACTTACCATTGCCATGTCATGGCATGGTTTTACATAGTATCCTTG
1 CCTTATGAAACTTAACAATGCCATGCCTTGGCATGGTTTTACATAGTATCCTTG
* *
119112134 CCTTATG-AACTCAACAATGCCATGCCTTGGCATGGTTTTACATAGGA-CCTTTG
1 CCTTATGAAACTTAACAATGCCATGCCTTGGCATGGTTTTACATAGTATCC-TTG
* * * *
119112187 CCTTATAGAAACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTTG
1 CCTTAT-GAAACTTAACAATGCCATGCCTTGGCATGGTTTTACATAG-TATCCTTG
*
119112242 CCTTA-GAAACCTTACCAATTGCCATGCCTTGG
1 CCTTATGAAA-CTTAACAA-TGCCATGCCTTGG
119112274 TCTTACATGG
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 47 0.40
54 15 0.13
55 51 0.44
56 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
CCTTATGAAACTTAACAATGCCATGCCTTGGCATGGTTTTACATAGTATCCTTG
Found at i:119113501 original size:13 final size:13
Alignment explanation
Indices: 119113483--119113507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119113473 CTTAGGGTTG
119113483 TTTTTCCTCTCTT
1 TTTTTCCTCTCTT
119113496 TTTTTCCTCTCT
1 TTTTTCCTCTCT
119113508 AGCCGAAACT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTCCTCTCTT
Found at i:119120928 original size:20 final size:20
Alignment explanation
Indices: 119120903--119120940 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
119120893 GTTTATTCGC
*
119120903 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
119120923 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
119120941 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:119123792 original size:20 final size:20
Alignment explanation
Indices: 119123767--119123804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
119123757 GTTTATTCGC
*
119123767 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
119123787 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
119123805 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:119124342 original size:13 final size:13
Alignment explanation
Indices: 119124324--119124348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119124314 CTTAGGGTTG
119124324 TTTTTCCTCTCTT
1 TTTTTCCTCTCTT
119124337 TTTTTCCTCTCT
1 TTTTTCCTCTCT
119124349 AGCCGAAACT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTCCTCTCTT
Found at i:119131773 original size:20 final size:20
Alignment explanation
Indices: 119131748--119131785 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
119131738 GTTTATTCGC
*
119131748 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
119131768 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
119131786 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:119137529 original size:21 final size:21
Alignment explanation
Indices: 119137505--119137642 Score: 159
Period size: 21 Copynumber: 6.6 Consensus size: 21
119137495 GTGTTTTACT
* *
119137505 TTCTATTTATCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
*
119137526 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTTAGCTCTTACGAGC
*
119137547 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTTAGCTCTTACGAGC
* *
119137568 TTCTGTTCAGCTTTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * * *
119137589 TTCTATTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
*
119137610 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
*
119137631 TTCTATTTAGCT
1 TTCTGTTTAGCT
119137643 TTTGAGCTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:119138535 original size:30 final size:30
Alignment explanation
Indices: 119138465--119138524 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
119138455 GCATGTGCCT
119138465 CAGCCGTGTGTGACACACGGCCAAGTGGCA
1 CAGCCGTGTGTGACACACGGCCAAGTGGCA
*
119138495 CAGCCGTGTGTGACACATGGCCAAGTGGCA
1 CAGCCGTGTGTGACACACGGCCAAGTGGCA
119138525 TGACCGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.15
Consensus pattern (30 bp):
CAGCCGTGTGTGACACACGGCCAAGTGGCA
Found at i:119150637 original size:40 final size:40
Alignment explanation
Indices: 119150552--119150702 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
119150542 AATTGAATGA
* * *
119150552 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
119150592 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
119150633 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
119150672 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
119150703 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:119150716 original size:40 final size:40
Alignment explanation
Indices: 119150588--119150718 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
119150578 TATGCTGGAA
* * *
119150588 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
119150628 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
119150668 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
119150708 ATTATATCCGG
1 ATTATATCCGG
119150719 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:119158645 original size:40 final size:40
Alignment explanation
Indices: 119158560--119158710 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
119158550 AATTGAATGA
* * *
119158560 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
119158600 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
119158641 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
119158680 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
119158711 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:119158724 original size:40 final size:40
Alignment explanation
Indices: 119158596--119158726 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
119158586 TATGCTGGAA
* * *
119158596 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
119158636 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
119158676 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
119158716 ATTATATCCGG
1 ATTATATCCGG
119158727 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:119162891 original size:27 final size:27
Alignment explanation
Indices: 119162861--119162918 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
119162851 TCGGTCATTT
* *
119162861 TACACTACAAGGGTATTTCGATAATTG
1 TACACTACAAAGGTATTTCAATAATTG
** *
119162888 TACACTGGAAAGGTATTTCAATAATTT
1 TACACTACAAAGGTATTTCAATAATTG
119162915 TACA
1 TACA
119162919 AATCGGGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
TACACTACAAAGGTATTTCAATAATTG
Found at i:119163145 original size:27 final size:27
Alignment explanation
Indices: 119162870--119163157 Score: 321
Period size: 27 Copynumber: 10.7 Consensus size: 27
119162860 TTACACTACA
* * *
119162870 AGGGTATTTCGATAATTGTAC-ACTGG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
119162896 AAAGGTATTTCAATAATTTTACAAATCG
1 -AGGGTATTTCGATAATTTTACAAATCG
* * * *
119162924 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
119162951 ATGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
119162978 AGGGTATCTCGATAGTTCTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
119163005 AGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
119163032 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
119163059 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
119163086 AGGGTGTTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
119163113 AGGGTACTTCGATAATTTTACAAACTGG
1 AGGGTATTTCGATAATTTTACAAA-TCG
*
119163141 A-GGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
119163158 CTCTTGATTA
Statistics
Matches: 220, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.00
27 214 0.97
28 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:119163522 original size:28 final size:28
Alignment explanation
Indices: 119163474--119163561 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
119163464 TGGCCCCTTT
* *
119163474 AGGCCCAATCTCGTTCA-ATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
119163501 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
119163529 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
119163557 AGGCC
1 AGGCC
119163562 GAACTACTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 15 0.26
28 43 0.74
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:119177005 original size:16 final size:16
Alignment explanation
Indices: 119176984--119177014 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
119176974 GCATTTCAAA
119176984 AGTGTTGCAAAAACAT
1 AGTGTTGCAAAAACAT
119177000 AGTGTTGCAAAAACA
1 AGTGTTGCAAAAACA
119177015 GTTATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (16 bp):
AGTGTTGCAAAAACAT
Found at i:119177607 original size:20 final size:20
Alignment explanation
Indices: 119177581--119177652 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
119177571 TAGCGACTTG
* *
119177581 AAGCCATCAGTAGCGGCACA
1 AAGCCATCAATAGTGGCACA
*
119177601 AATCCATCAATAGTGGCACA
1 AAGCCATCAATAGTGGCACA
* *
119177621 AAGCCATGACTAGTGGCACA
1 AAGCCATCAATAGTGGCACA
*
119177641 AAGCCATAAATA
1 AAGCCATCAATA
119177653 TCGCAGCAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.15
Consensus pattern (20 bp):
AAGCCATCAATAGTGGCACA
Found at i:119177925 original size:27 final size:27
Alignment explanation
Indices: 119177873--119177926 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
119177863 ATCTTAGCAC
* *
119177873 AAATCAGTCATTTACCCTCGATGGGTA
1 AAATCAGTCATTTACCCTAGAGGGGTA
*
119177900 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCA-TTTACCCTAGAGGGGTA
119177927 TTTTGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGGGGTA
Found at i:119181538 original size:24 final size:24
Alignment explanation
Indices: 119181510--119181582 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
119181500 CACCATTTCA
119181510 AGCATGTATTAAATTTTCCATTAT
1 AGCATGTATTAAATTTTCCATTAT
* * *
119181534 AGC----ATTGAA-GTACCATT-T
1 AGCATGTATTAAATTTTCCATTAT
119181552 CAAGCATGTATTAAATTTTCCATTAT
1 --AGCATGTATTAAATTTTCCATTAT
119181578 AGCAT
1 AGCAT
119181583 TGAAGTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 16
0.61 0.11 0.28
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 8 0.23
24 13 0.37
25 6 0.17
26 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (24 bp):
AGCATGTATTAAATTTTCCATTAT
Found at i:119181564 original size:44 final size:44
Alignment explanation
Indices: 119181501--119181589 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
119181491 ACCCTTTTTC
119181501 ACCATTTCAAGCATGTATTAAATTTTCCATTATAGCATTGAAGT
1 ACCATTTCAAGCATGTATTAAATTTTCCATTATAGCATTGAAGT
119181545 ACCATTTCAAGCATGTATTAAATTTTCCATTATAGCATTGAAGT
1 ACCATTTCAAGCATGTATTAAATTTTCCATTATAGCATTGAAGT
119181589 A
1 A
119181590 ATACATTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (44 bp):
ACCATTTCAAGCATGTATTAAATTTTCCATTATAGCATTGAAGT
Found at i:119181574 original size:25 final size:25
Alignment explanation
Indices: 119181502--119181575 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 25
119181492 CCCTTTTTCA
119181502 CCATTTCAAGCATGTATTAAATTTT
1 CCATTTCAAGCATGTATTAAATTTT
* * *
119181527 CCA-TT-ATAGC----ATTGAA-GTA
1 CCATTTCA-AGCATGTATTAAATTTT
119181546 CCATTTCAAGCATGTATTAAATTTT
1 CCATTTCAAGCATGTATTAAATTTT
119181571 CCATT
1 CCATT
119181576 ATAGCATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 16
0.61 0.11 0.28
Matches are distributed among these distances:
19 4 0.11
20 10 0.29
21 1 0.03
23 1 0.03
24 10 0.29
25 9 0.26
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (25 bp):
CCATTTCAAGCATGTATTAAATTTT
Found at i:119185866 original size:13 final size:13
Alignment explanation
Indices: 119185848--119185875 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
119185838 ACAAAATTGG
119185848 AAAGATGATAAAT
1 AAAGATGATAAAT
119185861 AAAGATGATAAAT
1 AAAGATGATAAAT
119185874 AA
1 AA
119185876 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:119186005 original size:37 final size:37
Alignment explanation
Indices: 119185955--119186031 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
119185945 GAATGGAAGA
119185955 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
1 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
119185992 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
1 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
119186029 AAG
1 AAG
119186032 TCTCATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.23
Consensus pattern (37 bp):
AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
Found at i:119187048 original size:24 final size:24
Alignment explanation
Indices: 119187021--119187077 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
119187011 CTATCCGAAG
*
119187021 CTTCCTGATATGGTTCTTTGTGAA
1 CTTCCTGATATGATTCTTTGTGAA
*
119187045 CTTCTTGATATGATTCTTTGTGAA
1 CTTCCTGATATGATTCTTTGTGAA
119187069 CTTCCTGAT
1 CTTCCTGAT
119187078 TGCAGCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (24 bp):
CTTCCTGATATGATTCTTTGTGAA
Found at i:119187984 original size:23 final size:23
Alignment explanation
Indices: 119187958--119188002 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
119187948 TTATATCCAT
* *
119187958 ACCAAAATCATGCCAAATCATAA
1 ACCAAAATCATACCAAAACATAA
119187981 ACCAAAATCATACCAAAACATA
1 ACCAAAATCATACCAAAACATA
119188003 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.16
Consensus pattern (23 bp):
ACCAAAATCATACCAAAACATAA
Found at i:119187997 original size:11 final size:11
Alignment explanation
Indices: 119187955--119188002 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
119187945 TGCTTATATC
119187955 CATACCAAAAT
1 CATACCAAAAT
*
119187966 CATGCC-AAAT
1 CATACCAAAAT
119187976 CATAAACCAAAAT
1 CAT--ACCAAAAT
119187989 CATACCAAAA-
1 CATACCAAAAT
119187999 CATA
1 CATA
119188003 TTTTTCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 11 0.34
11 12 0.38
12 2 0.06
13 7 0.22
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (11 bp):
CATACCAAAAT
Found at i:119190321 original size:27 final size:27
Alignment explanation
Indices: 119190290--119190676 Score: 497
Period size: 27 Copynumber: 14.4 Consensus size: 27
119190280 CCTAAAAGTA
* *
119190290 GTAAAATGACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
119190317 ATAAAATGACCATAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
119190344 GTAAAATGACCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
119190371 GTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
119190398 GTAAAATGATCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
119190425 GTAAAATGACTGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
119190452 GTAAAATGACCGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *** *
119190479 GTAAAATAATTATAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
119190506 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
119190533 GTAAAATGACCGTAATGCCCCTGTGGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
119190560 GTAAAATGACAGTAATGCCCCTATGGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
119190587 GTAAAATGATCGTAAT-ACCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
119190613 GTAAAATGACTGTAATGCCCCTATAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
119190640 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATGCCCCTGTAGG
119190667 GTAAAATGAC
1 GTAAAATGAC
119190677 GATTATGCCC
Statistics
Matches: 312, Mismatches: 47, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.07
27 291 0.93
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:119190855 original size:26 final size:26
Alignment explanation
Indices: 119190817--119190902 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
119190807 GGAAGTACTA
* *
119190817 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
* *
119190844 TACT-GTGGCTATGCCATAATTACTGA
1 TACTGGTGGCTATGCCA-CATTACTGT
*
119190870 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
*
119190897 TTCTGG
1 TACTGG
119190903 CAACTATGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 19 0.40
27 29 0.60
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:119200056 original size:50 final size:50
Alignment explanation
Indices: 119199928--119200278 Score: 400
Period size: 50 Copynumber: 7.0 Consensus size: 50
119199918 TAAGATGGTT
119199928 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * *
119199978 TTAAGGTCGCATGTGTAGTACTAAGTGCAGACTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * *
119200029 TTAGGTCACGTTTTTAGTACTAAGTGCATGCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * * *
119200079 TTAGGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * *
119200130 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
119200180 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
119200230 TT-GGTCGCATGTGTAGTACTAAGTGCAAGATACTATGTGTATCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
119200279 CTTCGGTTAC
Statistics
Matches: 248, Mismatches: 49, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
49 40 0.16
50 124 0.50
51 83 0.33
52 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:119200062 original size:101 final size:100
Alignment explanation
Indices: 119199928--119200278 Score: 418
Period size: 101 Copynumber: 3.5 Consensus size: 100
119199918 TAAGATGGTT
119199928 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAAGGTCGCATGTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-AGGTCGCATGTG
* * *
119199993 TAGTACTAAGTGCAGACTACTACGTGTATCAGATGG
65 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
119200029 TTAGGTCACGTTTTTAGTACTAAGTGCATGCTACTACGTGTACCAGATAGTTAGGCCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
* * * * *
119200094 AGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
66 AGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * * * *
119200130 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAGATGGTTAGGTCACGTGTG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTG
* *
119200194 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG
65 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
119200230 TT-GGTCGCATGTGTAGTACTAAGTGCAAGATACTATGTGTATCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
119200279 CTTCGGTTAC
Statistics
Matches: 211, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
99 39 0.18
100 41 0.19
101 130 0.62
102 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:119200202 original size:151 final size:149
Alignment explanation
Indices: 119199938--119200275 Score: 453
Period size: 151 Copynumber: 2.2 Consensus size: 149
119199928 TTAGGTCACG
* * * * *
119199938 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAAGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTTAA-GTCACATGTGTAGTACTAAG
* * *
119200003 TGCAGACTACTACGTGTATCAGATGGTTAGGTCACGTTTTTAGTACTAAGTGCATGCTACTACGT
65 TGCAGACTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
119200068 GTACCAGATAGTTAGGCCGCA
130 GTACCAGATAGTT-GGCCGCA
* *
119200089 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA-TCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-AACTT-AAGTCACATGTGTAGTACTAA
* * *
119200153 GTGCAGGCTATTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
64 GTGCAGACTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
* * *
119200218 TGTACCGGATTGTTGGTCGCA
129 TGTACCAGATAGTTGGCCGCA
* * * *
119200239 TGTGTAGTACTAAGTGCAAGATACTATGTGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
119200276 TAGCTTCGGT
Statistics
Matches: 164, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
150 38 0.23
151 121 0.74
152 3 0.02
153 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (149 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTTAAGTCACATGTGTAGTACTAAGT
GCAGACTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
TACCAGATAGTTGGCCGCA
Found at i:119204928 original size:70 final size:71
Alignment explanation
Indices: 119204777--119204939 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
119204767 GAGATGTATC
119204777 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
119204842 AGGACA
66 AGGACA
119204848 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
119204912 CGGACA
66 AGGACA
119204918 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
119204940 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:119211932 original size:71 final size:71
Alignment explanation
Indices: 119211844--119212007 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
119211834 GAGATGTATC
119211844 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
119211909 AGGACA
66 AGGACA
*
119211915 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
119211980 AGGACA
66 AGGACA
119211986 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
119212008 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:119219499 original size:71 final size:71
Alignment explanation
Indices: 119219411--119219574 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
119219401 GAGATGTATC
119219411 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
119219476 AGGACA
66 AGGACA
*
119219482 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
119219547 CGGACA
66 AGGACA
119219553 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
119219575 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:119222796 original size:28 final size:28
Alignment explanation
Indices: 119222729--119222829 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
119222719 ATAGTGAATC
* *
119222729 CGCACACTTAGTGCTATATACATCCAGCT
1 CGCACACTTAGTGCTATATA-ATCAAACT
119222758 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
119222786 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
119222816 CGCACACTTAGTGC
1 CGCACACTTAGTGC
119222830 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 25 0.39
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:119227223 original size:18 final size:18
Alignment explanation
Indices: 119227202--119227252 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
119227192 ACAATTCTTT
119227202 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* *
119227220 TCTCTTCATCTATTTCTTC
1 TCTCTTCTTCT-TTTCTCC
119227239 T-TCTTCTTCTTTTC
1 TCTCTTCTTCTTTTC
119227253 CTCTATAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.62
19 7 0.24
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:119228345 original size:26 final size:25
Alignment explanation
Indices: 119228316--119228372 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
119228306 TTTACTAAAG
*
119228316 TACCCTGAGTATG-AAAATTACCATTA
1 TACCCT-AG-ATGCAAAATGACCATTA
*
119228342 TACCCCTAGGTGCAAAATGACCATTA
1 TA-CCCTAGATGCAAAATGACCATTA
119228368 TACCC
1 TACCC
119228373 CTAGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (25 bp):
TACCCTAGATGCAAAATGACCATTA
Found at i:119228520 original size:28 final size:28
Alignment explanation
Indices: 119228480--119228595 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
119228470 GGAGGAAGCG
119228480 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
119228508 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
119228536 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * **
119228564 ATCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
119228590 TTCTGG
1 TTCTGG
119228596 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 67 0.85
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:119230962 original size:27 final size:27
Alignment explanation
Indices: 119230924--119231008 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
119230914 TCGCAATTCA
*
119230924 TCTCACAGCTTGCCACTTGTGGAGACT
1 TCTCGCAGCTTGCCACTTGTGGAGACT
119230951 TCTCGCAGCTTGCCACTTGTGGAGACT
1 TCTCGCAGCTTGCCACTTGTGGAGACT
* * *
119230978 TCTCGCAG-TTCACCACTAGTGGAGACA
1 TCTCGCAGCTT-GCCACTTGTGGAGACT
119231005 TCTC
1 TCTC
119231009 ACACTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (27 bp):
TCTCGCAGCTTGCCACTTGTGGAGACT
Found at i:119236003 original size:21 final size:21
Alignment explanation
Indices: 119235974--119236018 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
119235964 TAAACATAAT
*
119235974 AAATATACTTTTATA-GAGAA
1 AAATATACTTTTACATGAGAA
119235994 AAATAATACTTTTACATGAGAA
1 AAAT-ATACTTTTACATGAGAA
119236016 AAA
1 AAA
119236019 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (21 bp):
AAATATACTTTTACATGAGAA
Found at i:119240567 original size:10 final size:10
Alignment explanation
Indices: 119240552--119240576 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
119240542 CTCATGCATA
119240552 ACTTGTTTTG
1 ACTTGTTTTG
119240562 ACTTGTTTTG
1 ACTTGTTTTG
119240572 ACTTG
1 ACTTG
119240577 GAGACTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (10 bp):
ACTTGTTTTG
Found at i:119241366 original size:23 final size:24
Alignment explanation
Indices: 119241337--119241399 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
119241327 TAATTTTTAA
119241337 AAATTTTAAAAATTCAAAAA-AATT
1 AAATTTTAAAAATT-AAAAATAATT
* *
119241361 -ATTTTTAGAAATTAAAAATAATT
1 AAATTTTAAAAATTAAAAATAATT
119241384 AAAATTTTAAAAATTA
1 -AAATTTTAAAAATTA
119241400 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 5 0.16
23 15 0.47
25 12 0.38
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTTTAAAAATTAAAAATAATT
Found at i:119241404 original size:12 final size:12
Alignment explanation
Indices: 119241387--119241421 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
119241377 AATAATTAAA
119241387 ATTTTAAAAATT
1 ATTTTAAAAATT
119241399 ATTTTAAAAA-T
1 ATTTTAAAAATT
119241410 -TTTTAAAAATT
1 ATTTTAAAAATT
119241421 A
1 A
119241422 ATTAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:119247975 original size:24 final size:25
Alignment explanation
Indices: 119247954--119248000 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
119247944 TGATCTTTCG
*
119247954 CCTTCCATCTT-CTTTAACCTTTAA
1 CCTTCCATCTTCCTTAAACCTTTAA
*
119247978 CCTTTCATCTTCCTTAAACCTTT
1 CCTTCCATCTTCCTTAAACCTTT
119248001 TATCTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (25 bp):
CCTTCCATCTTCCTTAAACCTTTAA
Found at i:119247997 original size:18 final size:18
Alignment explanation
Indices: 119247971--119248005 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
119247961 TCTTCTTTAA
*
119247971 CCTTTAACCTTTCATCTT
1 CCTTAAACCTTTCATCTT
*
119247989 CCTTAAACCTTTTATCT
1 CCTTAAACCTTTCATCT
119248006 CTTTGTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
CCTTAAACCTTTCATCTT
Found at i:119248536 original size:42 final size:42
Alignment explanation
Indices: 119248477--119248561 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
119248467 TACAATAAAG
*
119248477 CCATTGTCGACATTCCAAACAATCTCTTTACGCATCTTATCT
1 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
119248519 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
1 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
119248561 C
1 C
119248562 ATACTCTCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.34
Consensus pattern (42 bp):
CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
Found at i:119255871 original size:28 final size:26
Alignment explanation
Indices: 119255796--119255872 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 26
119255786 TCCAAAAATA
*
119255796 GCCACAGAGGCTTTCCTTTCAGAGTCTT
1 GCCACA-AGGC-TTCCTTTAAGAGTCTT
*
119255824 GCCACAAAGGCGTCCTTTTAACGAAGT-TT
1 GCCAC-AAGGCTTCC-TTTAA-G-AGTCTT
119255853 GCCACAAGGCATTCCTTTAA
1 GCCACAAGGC-TTCCTTTAA
119255873 TAGAGATGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
27 3 0.07
28 23 0.56
29 12 0.29
30 3 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (26 bp):
GCCACAAGGCTTCCTTTAAGAGTCTT
Found at i:119256056 original size:29 final size:30
Alignment explanation
Indices: 119255853--119256063 Score: 127
Period size: 29 Copynumber: 7.3 Consensus size: 30
119255843 AACGAAGTTT
* * *
119255853 GCCAC-AAGGCATTCCTTTAA-TAGAGATG
1 GCCACAAAGACATTCATTTAACTAGAGATA
* *
119255881 GCCACAAA-AGCA-TCTTTTTGAC-AGAGATA
1 GCCACAAAGA-CATTC-ATTTAACTAGAGATA
* * *
119255910 GCTACAAAGACA-TCATTTTAA-TAAAGATG
1 GCCACAAAGACATTCA-TTTAACTAGAGATA
* ** * * * *
119255939 GCCCCAAAGGGATTTATTTAACTAAAAAAA
1 GCCACAAAGACATTCATTTAACTAGAGATA
*
119255969 TCCACAAAGACATTCATTTAAC-AGAGATA
1 GCCACAAAGACATTCATTTAACTAGAGATA
* * *
119255998 ACCACAAAGACATTCGTTTAA-TAGATATA
1 GCCACAAAGACATTCATTTAACTAGAGATA
* *
119256027 GCCATAAAGGCATTCATTTAACTA-AGATA
1 GCCACAAAGACATTCATTTAACTAGAGATA
*
119256056 GCCGCAAA
1 GCCACAAA
119256064 TGCAACCTTT
Statistics
Matches: 137, Mismatches: 35, Indels: 21
0.71 0.18 0.11
Matches are distributed among these distances:
28 7 0.05
29 103 0.75
30 27 0.20
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (30 bp):
GCCACAAAGACATTCATTTAACTAGAGATA
Found at i:119256129 original size:29 final size:29
Alignment explanation
Indices: 119256096--119256155 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
119256086 CCATAAAGGT
119256096 TTTCTTATAACAGAGATCGACACAAAAGC
1 TTTCTTATAACAGAGATCGACACAAAAGC
*
119256125 TTTCTTATAACAGAGATCGACACAAAGGC
1 TTTCTTATAACAGAGATCGACACAAAAGC
119256154 TT
1 TT
119256156 CCGTTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTCTTATAACAGAGATCGACACAAAAGC
Found at i:119256179 original size:26 final size:26
Alignment explanation
Indices: 119256145--119256227 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
119256135 CAGAGATCGA
*
119256145 CACAAAGGCTTCCGTTCAAATATAGC
1 CACAAAGGCTTCCATTCAAATATAGC
* * *
119256171 TACAAAGGCGTCCATTCAAAGATAGC
1 CACAAAGGCTTCCATTCAAATATAGC
* * * *
119256197 CACAAAGGTTTCCTTTTAGATATAGC
1 CACAAAGGCTTCCATTCAAATATAGC
119256223 CACAA
1 CACAA
119256228 CAGCATTTAG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (26 bp):
CACAAAGGCTTCCATTCAAATATAGC
Found at i:119258346 original size:35 final size:35
Alignment explanation
Indices: 119258298--119258366 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
119258288 GTCCTTTGAG
*
119258298 GCAACACCATGACAACGA-TTATTAGGTTCTATAGA
1 GCAACACCATGACAA-GAGTTAGTAGGTTCTATAGA
* * *
119258333 GCAACATCGTGACAATAGTTAGTAGGTTCTATAG
1 GCAACACCATGACAAGAGTTAGTAGGTTCTATAG
119258367 GGTGACACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (35 bp):
GCAACACCATGACAAGAGTTAGTAGGTTCTATAGA
Found at i:119259546 original size:29 final size:30
Alignment explanation
Indices: 119259492--119259548 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
119259482 AAAATGGGAC
* *
119259492 TTTTTTCCAAGCCCATATTTTGGGTCTATA
1 TTTTTTCCAAGCCCATATATTAGGTCTATA
119259522 TTTTTTCCCAA-CCCATA-ATTAGGTCTA
1 TTTTTT-CCAAGCCCATATATTAGGTCTA
119259549 CACATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.33
30 12 0.50
31 4 0.17
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTTTTCCAAGCCCATATATTAGGTCTATA
Found at i:119259707 original size:2 final size:2
Alignment explanation
Indices: 119259700--119259726 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
119259690 ACTCATGTAC
119259700 AT 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 AT A
119259727 AATAGATGCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119260842 original size:75 final size:75
Alignment explanation
Indices: 119260715--119260854 Score: 181
Period size: 75 Copynumber: 1.9 Consensus size: 75
119260705 CAGTATTGAA
* ** *
119260715 TGTGAGTCCAACTCTAGTTGGATAAACCAACAATATTCGCAGCCAATGCTAGTCGGATATACTGA
1 TGTGAGTCCAACTCTAGTTGGATAAACCAACAATATTCGCACCCAACACTAGTCGGATAAACTGA
119260780 CGATAATGAT
66 CGATAATGAT
* * ** * * *
119260790 TGTGAGTCCAGCTCTAGTTGGATGAACCAACGGTGTTTGCACCCAGCACTAGTCGGATAAACTGA
1 TGTGAGTCCAACTCTAGTTGGATAAACCAACAATATTCGCACCCAACACTAGTCGGATAAACTGA
119260855 GGATTGTGTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 54 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (75 bp):
TGTGAGTCCAACTCTAGTTGGATAAACCAACAATATTCGCACCCAACACTAGTCGGATAAACTGA
CGATAATGAT
Found at i:119261376 original size:15 final size:15
Alignment explanation
Indices: 119261356--119261385 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
119261346 ATCAACATAT
119261356 AGAATTTGAGCTAAA
1 AGAATTTGAGCTAAA
*
119261371 AGAATTTGTGCTAAA
1 AGAATTTGAGCTAAA
119261386 TTCCTACTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
AGAATTTGAGCTAAA
Found at i:119264130 original size:3 final size:3
Alignment explanation
Indices: 119264124--119264246 Score: 237
Period size: 3 Copynumber: 40.7 Consensus size: 3
119264114 GAAAACTGTT
119264124 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
119264172 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
119264220 TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA T-TA TT
119264247 TTAAGTATTC
Statistics
Matches: 119, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 116 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:119264373 original size:24 final size:25
Alignment explanation
Indices: 119264346--119264393 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
119264336 TATTTATATA
119264346 AAATTGCTTTATAATAT-TCATTTC
1 AAATTGCTTTATAATATATCATTTC
* *
119264370 AAATTGTTTTATTATATATCATTT
1 AAATTGCTTTATAATATATCATTT
119264394 TAAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
AAATTGCTTTATAATATATCATTTC
Found at i:119264404 original size:25 final size:24
Alignment explanation
Indices: 119264353--119264407 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
119264343 ATAAAATTGC
*
119264353 TTTATAATATTCATTTCAAATTGT
1 TTTATAATATTCATTTCAAATTAT
* * *
119264377 TTTATTATATATCATTTTAAGTTAT
1 TTTATAATAT-TCATTTCAAATTAT
119264402 TTTATA
1 TTTATA
119264408 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTATAATATTCATTTCAAATTAT
Found at i:119264466 original size:26 final size:25
Alignment explanation
Indices: 119264390--119264566 Score: 83
Period size: 26 Copynumber: 7.3 Consensus size: 25
119264380 ATTATATATC
**
119264390 ATTTTAAGTTATTTT-ATATT-TTT
1 ATTTTAAACTATTTTCATATTATTT
* *
119264413 ATTTTAAGTCT-TTTTGC--ATTAGTT
1 ATTTTAA-ACTATTTT-CATATTATTT
*
119264437 ATTTTAAACTGTTTTACATATTATTT
1 ATTTTAAACTATTTT-CATATTATTT
*
119264463 ATTTTAAA-TATTTTTATACGTTATTT
1 ATTTTAAACTATTTTCATA--TTATTT
* **
119264489 ATTTTAAACCATTTT-ATATGTAAACT
1 ATTTTAAACTATTTTCATAT-T-ATTT
* *
119264515 ATTTTAAATTTTTTTC--A-T-TTT
1 ATTTTAAACTATTTTCATATTATTT
*
119264536 ATTATAAACT-TTTT-ATCATTATTT
1 ATTTTAAACTATTTTCAT-ATTATTT
119264560 ATTTTAA
1 ATTTTAA
119264567 GATTTTATAT
Statistics
Matches: 117, Mismatches: 19, Indels: 35
0.68 0.11 0.20
Matches are distributed among these distances:
20 4 0.03
21 9 0.08
22 1 0.01
23 18 0.15
24 28 0.24
25 7 0.06
26 45 0.38
27 5 0.04
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATTTTAAACTATTTTCATATTATTT
Found at i:119264543 original size:21 final size:22
Alignment explanation
Indices: 119264514--119264555 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
119264504 ATATGTAAAC
* *
119264514 TATTTTAAA-TTTTTTTCATTT
1 TATTATAAACTTTTTATCATTT
119264535 TATTATAAACTTTTTATCATT
1 TATTATAAACTTTTTATCATT
119264556 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATAAACTTTTTATCATTT
Found at i:119264561 original size:21 final size:20
Alignment explanation
Indices: 119264514--119264561 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
119264504 ATATGTAAAC
*
119264514 TATTT-TAAATTTTTTTCAT
1 TATTTATAAATTTTTATCAT
*
119264533 TTTATTATAAACTTTTTATCAT
1 TAT-TTATAAA-TTTTTATCAT
119264555 TATTTAT
1 TATTTAT
119264562 TTTAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 2 0.09
21 8 0.35
22 11 0.48
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTATAAATTTTTATCAT
Found at i:119264671 original size:25 final size:26
Alignment explanation
Indices: 119264643--119264693 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
119264633 TTTATAGGTC
*
119264643 ATTTTAAATTG-TTTATAAATTATTT
1 ATTTTAAATTGCTCTATAAATTATTT
* *
119264668 ATTTTAAGTTGCTCTATATATTATTT
1 ATTTTAAATTGCTCTATAAATTATTT
119264694 TATTGTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
ATTTTAAATTGCTCTATAAATTATTT
Found at i:119264766 original size:26 final size:24
Alignment explanation
Indices: 119264714--119264779 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 24
119264704 TATATTAATG
*
119264714 ATTTTAAACTGTTTTATACTATTT
1 ATTTTAAACTGTTTTATACTATCT
* *
119264738 ATTTTAAATTGCTTCTTATAGTATCT
1 ATTTTAAACTG-TT-TTATACTATCT
119264764 ATTTTAAACTTGTTTT
1 ATTTTAAAC-TGTTTT
119264780 TCTATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.29
25 4 0.11
26 19 0.54
27 2 0.06
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTTAAACTGTTTTATACTATCT
Found at i:119264792 original size:26 final size:24
Alignment explanation
Indices: 119264680--119264843 Score: 81
Period size: 24 Copynumber: 6.6 Consensus size: 24
119264670 TTTAAGTTGC
119264680 TCTATATATTATTTT--ATTGTTT
1 TCTATATATTATTTTAAATTGTTT
* * *
119264702 TGTATATTAATGATTTTAAACTGTTT
1 TCTATA-T-ATTATTTTAAATTGTTT
* *
119264728 TATACTAT-TTATTTTAAATTG-CT
1 TCTA-TATATTATTTTAAATTGTTT
119264751 TCTTATAGTATCTATTTTAAACTTGTTTT
1 TC-TATA-TAT-TATTTTAAA-TTG-TTT
*
119264780 TCTATATATTATTCATTTGAAATTGTCT
1 TCTATATATTA-T--TTT-AAATTGTTT
* *
119264808 TAT-TAT-TTATCTTAAATTGTTT
1 TCTATATATTATTTTAAATTGTTT
*
119264830 TGTAGTAT-TTATTT
1 TCTA-TATATTATTT
119264844 CATTTTTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
22 15 0.14
23 7 0.06
24 29 0.27
25 2 0.02
26 24 0.22
27 12 0.11
28 8 0.07
29 9 0.08
30 3 0.03
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (24 bp):
TCTATATATTATTTTAAATTGTTT
Found at i:119264813 original size:22 final size:22
Alignment explanation
Indices: 119264786--119264827 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
119264776 TTTTTCTATA
119264786 TATTATTCAT-TTGAAATTGTCT
1 TATTATTCATCTT-AAATTGTCT
*
119264808 TATTATTTATCTTAAATTGT
1 TATTATTCATCTTAAATTGT
119264828 TTTGTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTATTCATCTTAAATTGTCT
Found at i:119267218 original size:16 final size:17
Alignment explanation
Indices: 119267197--119267234 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
119267187 GTTTCTTATG
* *
119267197 ATATAAACTACATAAT-
1 ATATAAAATAAATAATA
119267213 ATATAAAATAAATAATA
1 ATATAAAATAAATAATA
119267230 ATATA
1 ATATA
119267235 TTAAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAAAATAAATAATA
Found at i:119267241 original size:21 final size:21
Alignment explanation
Indices: 119267199--119267240 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
119267189 TTCTTATGAT
119267199 ATAAACTACATAATATATAAA
1 ATAAACTACATAATATATAAA
119267220 ATAAA-TA-ATAATATATTAAA
1 ATAAACTACATAATATA-TAAA
119267240 A
1 A
119267241 ACTTGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAACTACATAATATATAAA
Found at i:119274133 original size:17 final size:18
Alignment explanation
Indices: 119274108--119274146 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
119274098 CAATATTTTA
119274108 AAAATTAAATAATTTCTT
1 AAAATTAAATAATTTCTT
* *
119274126 AAAA-TAAATATTTTTTT
1 AAAATTAAATAATTTCTT
119274143 AAAA
1 AAAA
119274147 ATCATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTAAATAATTTCTT
Found at i:119275550 original size:15 final size:15
Alignment explanation
Indices: 119275530--119275580 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
119275520 CCAAAGTATG
119275530 TTATGTATATTACTA
1 TTATGTATATTACTA
* *
119275545 TTATGTAT-GTA-TG
1 TTATGTATATTACTA
*
119275558 CTATGTATATTACTA
1 TTATGTATATTACTA
*
119275573 TGATGTAT
1 TTATGTAT
119275581 GTCTATTATG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (15 bp):
TTATGTATATTACTA
Found at i:119275563 original size:28 final size:28
Alignment explanation
Indices: 119275525--119275582 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
119275515 CTTTACCAAA
* *
119275525 GTATGTTATGTATATTACTATTATGTAT
1 GTATGCTATGTATATTACTATGATGTAT
119275553 GTATGCTATGTATATTACTATGATGTAT
1 GTATGCTATGTATATTACTATGATGTAT
119275581 GT
1 GT
119275583 CTATTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (28 bp):
GTATGCTATGTATATTACTATGATGTAT
Found at i:119275590 original size:28 final size:28
Alignment explanation
Indices: 119275525--119275626 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 28
119275515 CTTTACCAAA
* *
119275525 GTATGTTATGTATATTACTATTATGTAT
1 GTATATTATGTATATTACTATGATGTAT
**
119275553 GTATGCTATGTATATTACTATGATGTAT
1 GTATATTATGTATATTACTATGATGTAT
* * *
119275581 GTCTATTATGTTTAATGTATGTAT-AT-TAT
1 GTATATTATGTAT-AT-TA-CTATGATGTAT
*
119275610 GTATGTTATGTATATTA
1 GTATATTATGTATATTA
119275627 TTGTTATGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 15 0.25
30 4 0.07
31 3 0.05
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (28 bp):
GTATATTATGTATATTACTATGATGTAT
Found at i:119275610 original size:9 final size:9
Alignment explanation
Indices: 119275525--119275627 Score: 66
Period size: 9 Copynumber: 11.0 Consensus size: 9
119275515 CTTTACCAAA
*
119275525 GTATGTTAT
1 GTATATTAT
119275534 GTATATTA-
1 GTATATTAT
*
119275542 CTATTATGTAT
1 GTA-TAT-TAT
**
119275553 GTATGCTAT
1 GTATATTAT
119275562 GTATATTA-
1 GTATATTAT
*
119275570 CTATGATGTAT
1 GTAT-AT-TAT
*
119275581 GTCTATTAT
1 GTATATTAT
*
119275590 GTTTAATGTAT
1 GTAT-AT-TAT
119275601 GTATATTAT
1 GTATATTAT
*
119275610 GTATGTTAT
1 GTATATTAT
119275619 GTATATTAT
1 GTATATTAT
119275628 TGTTATGTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
8 5 0.07
9 46 0.64
10 11 0.15
11 10 0.14
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (9 bp):
GTATATTAT
Found at i:119275679 original size:77 final size:75
Alignment explanation
Indices: 119275586--119275733 Score: 233
Period size: 77 Copynumber: 1.9 Consensus size: 75
119275576 TGTATGTCTA
* * *
119275586 TTATGTTTAATGTATGTATATTATGTATGTTATGTATATTATTGTTATGTATGAGACTGTTATGT
1 TTATGCTTAATGTATGTAAATTATGTATGTTATGTATATTACTGTTATGTAT-AGA-TGTTATGT
119275651 GGTATATTACTG
64 GGTATATTACTG
* *
119275663 TTATGCTTCATGTATGTAAATTATGTATGTTATGTATATTACTGTTATGTATATATGTTATGTGG
1 TTATGCTTAATGTATGTAAATTATGTATGTTATGTATATTACTGTTATGTATAGATGTTATGTGG
119275728 TATATT
66 TATATT
119275734 TGTAACATCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 16 0.24
76 2 0.03
77 48 0.73
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (75 bp):
TTATGCTTAATGTATGTAAATTATGTATGTTATGTATATTACTGTTATGTATAGATGTTATGTGG
TATATTACTG
Found at i:119278446 original size:29 final size:29
Alignment explanation
Indices: 119278405--119278504 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
119278395 GCAATATTAC
* *
119278405 TGTTT-ATGTATGTACATTATATATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
*
119278433 TGTTTAACGTATGTATATTATGTATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
* *
119278462 TGTTTAATGTATGGATACTATGTATGTTA
1 TGTTTAATGTATGTATATTATGTATGTTA
*
119278491 TATTTAATGTATGT
1 TGTTTAATGTATGT
119278505 TATGTTTAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 5 0.08
29 58 0.92
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (29 bp):
TGTTTAATGTATGTATATTATGTATGTTA
Found at i:119278473 original size:16 final size:16
Alignment explanation
Indices: 119278426--119278512 Score: 78
Period size: 16 Copynumber: 5.8 Consensus size: 16
119278416 GTACATTATA
*
119278426 TATGTTATGTTTAACG
1 TATGTTATGTTTAATG
*
119278442 TATG-TAT-ATT-ATG
1 TATGTTATGTTTAATG
119278455 TATGTTATGTTTAATG
1 TATGTTATGTTTAATG
* **
119278471 TATG-GAT-ACT-ATG
1 TATGTTATGTTTAATG
*
119278484 TATGTTATATTTAATG
1 TATGTTATGTTTAATG
119278500 TATGTTATGTTTA
1 TATGTTATGTTTA
119278513 GCACTGTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 13 0.24
14 8 0.15
15 8 0.15
16 26 0.47
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (16 bp):
TATGTTATGTTTAATG
Found at i:119288779 original size:67 final size:67
Alignment explanation
Indices: 119288700--119288875 Score: 280
Period size: 67 Copynumber: 2.6 Consensus size: 67
119288690 ACAGATATAT
* * *
119288700 ATATATGTGGCGAAGCCACCAGATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
119288765 AG
66 AG
* *
119288767 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTACCAGATATTGTGGCGAAGTCAACAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
119288832 AG
66 AG
* * *
119288834 TTATATATGGCGAGGCCACCAGATTGCAGTGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
119288876 ACGCTTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 100 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCAACAGAAC
AG
Found at i:119288786 original size:27 final size:26
Alignment explanation
Indices: 119288738--119288789 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
119288728 GCGAGGCTGC
*
119288738 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
119288764 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
119288790 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:119296191 original size:2 final size:2
Alignment explanation
Indices: 119296184--119296217 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
119296174 ACCAGAACAG
119296184 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
119296218 GTGGCGAAGC
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:119296298 original size:27 final size:26
Alignment explanation
Indices: 119296250--119296301 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
119296240 GCGAGGCTGT
*
119296250 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
119296276 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
119296302 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:119296349 original size:66 final size:67
Alignment explanation
Indices: 119296212--119296386 Score: 316
Period size: 66 Copynumber: 2.6 Consensus size: 67
119296202 ATATATATAT
* *
119296212 ATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGTCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
119296277 AG
66 AG
*
119296279 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGG-TGCCAGATATTGTGACGAATTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
119296343 AG
66 AG
119296345 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
119296387 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
66 64 0.62
67 40 0.38
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:119302575 original size:21 final size:20
Alignment explanation
Indices: 119302496--119302581 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 20
119302486 TTTATTTCAT
119302496 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
119302516 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
119302541 -ACATAAAACAAATATTAAAA
1 TAAATAAAA-AAATATTAAAA
*
119302561 TAAATAAAAATAATACTAAAA
1 TAAATAAAAA-AATATTAAAA
119302582 CAATTCTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
20 9 0.17
21 26 0.48
22 2 0.04
23 8 0.15
24 3 0.06
25 4 0.07
26 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:119302660 original size:15 final size:16
Alignment explanation
Indices: 119302630--119302662 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
119302620 AAATGGTTAT
119302630 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
119302647 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
119302662 A
1 A
119302663 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:119304319 original size:16 final size:16
Alignment explanation
Indices: 119304297--119304344 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
119304287 TTTTTGAGTG
119304297 ACTAAAATAAAAATTA
1 ACTAAAATAAAAATTA
* **
119304313 CCTAAAATTTAAA-TA
1 ACTAAAATAAAAATTA
119304328 ACTAAAATAAAAATTA
1 ACTAAAATAAAAATTA
119304344 A
1 A
119304345 ATTACAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (16 bp):
ACTAAAATAAAAATTA
Found at i:119304341 original size:15 final size:15
Alignment explanation
Indices: 119304297--119304341 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
119304287 TTTTTGAGTG
119304297 ACTAAAATAAAAATTA
1 ACTAAAATAAAAA-TA
* **
119304313 CCTAAAATTTAAATA
1 ACTAAAATAAAAATA
119304328 ACTAAAATAAAAAT
1 ACTAAAATAAAAAT
119304342 TAAATTACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (15 bp):
ACTAAAATAAAAATA
Found at i:119304342 original size:21 final size:19
Alignment explanation
Indices: 119304315--119304354 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
119304305 AAAAATTACC
*
119304315 TAAAATTTAAATAACTAAAA
1 TAAAAATTAAATAAC-AAAA
*
119304335 TAAAAATTAAATTACAAAA
1 TAAAAATTAAATAACAAAA
119304354 T
1 T
119304355 TACAAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAATTAAATAACAAAA
Found at i:119309849 original size:15 final size:15
Alignment explanation
Indices: 119309829--119309858 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
119309819 ACATTTGAAA
119309829 AGGAAAAACAAACAT
1 AGGAAAAACAAACAT
119309844 AGGAAAAACAAACAT
1 AGGAAAAACAAACAT
119309859 CGGCTCTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (15 bp):
AGGAAAAACAAACAT
Found at i:119324619 original size:2 final size:2
Alignment explanation
Indices: 119324612--119324636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119324602 TATTCATAAA
119324612 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
119324637 ATTACCAAAG
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:119328467 original size:21 final size:20
Alignment explanation
Indices: 119328442--119328506 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
119328432 TAGCCTTCGG
119328442 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
119328463 GCTTCAG-TTAGC-CTTCGG
1 GCTTCCGTTTAGCACTTTGT
119328481 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
119328502 GCTTC
1 GCTTC
119328507 AGTTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 6 0.17
21 14 0.40
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:119328520 original size:39 final size:39
Alignment explanation
Indices: 119328424--119328512 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
119328414 GCTCTGATGA
119328424 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
119328463 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
119328502 GCTTCAGTTAG
1 GCTTCAGTTAG
119328513 ATTTCGGGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:119336390 original size:21 final size:20
Alignment explanation
Indices: 119336365--119336421 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
119336355 TAGCCTTCGG
119336365 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
119336386 GCTTCAG-TTAGC-CTTCGG
1 GCTTCCGTTTAGCACTTTGT
119336404 GCTTCCGTTTAGCACTTT
1 GCTTCCGTTTAGCACTTT
119336422 TATGCTTCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 8 0.28
21 6 0.21
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.40
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:119336393 original size:39 final size:39
Alignment explanation
Indices: 119336347--119336431 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
119336337 GCTCTGATGA
*
119336347 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
*
119336386 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
119336425 GCTTCAG
1 GCTTCAG
119336432 CTAGATTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
Found at i:119336429 original size:21 final size:21
Alignment explanation
Indices: 119336365--119336429 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
119336355 TAGCCTTCGG
*
119336365 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTTTGT
* * *
119336386 GCTTCAG-TTAGC-C-TTCGG
1 GCTTCCGTTTAGCACTTTTGT
*
119336404 GCTTCCGTTTAGCACTTTTAT
1 GCTTCCGTTTAGCACTTTTGT
119336425 GCTTC
1 GCTTC
119336430 AGCTAGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTTTGT
Found at i:119339937 original size:18 final size:18
Alignment explanation
Indices: 119339899--119339975 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
119339889 AGTCAGTCAA
** *
119339899 CAGTAATAATCGGTTAAT
1 CAGTAATAATCATTTATT
*
119339917 CAGTAATATTCATTTATT
1 CAGTAATAATCATTTATT
*
119339935 CAGT-ATCAGTCATTTATT
1 CAGTAAT-AATCATTTATT
* * *
119339953 CTGTAACAATCAATTATT
1 CAGTAATAATCATTTATT
119339971 CAGTA
1 CAGTA
119339976 GCAGACAGTC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 2 0.04
18 44 0.94
19 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (18 bp):
CAGTAATAATCATTTATT
Found at i:119340173 original size:54 final size:51
Alignment explanation
Indices: 119340109--119340226 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
119340099 CCGTAAGGAT
119340109 AACAGTAACAGTAACAG-TAGCGGTACACAAAGTACCTCATCGAAACAAATCCGA
1 AACAGTAACAGTAACAGTTA--GGT--ACAAAGTACCTCATCGAAACAAATCCGA
* * * * * *
119340163 AACAGTAACAGTCACAGTTAGGTACAGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAACAGTTAGGTACAAAGTACCTCATCGAAACAAATCCGA
*
119340214 AACAGTCACAGTA
1 AACAGTAACAGTA
119340227 GTCGACACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 34 0.62
53 3 0.05
54 16 0.29
55 2 0.04
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (51 bp):
AACAGTAACAGTAACAGTTAGGTACAAAGTACCTCATCGAAACAAATCCGA
Found at i:119340493 original size:3 final size:3
Alignment explanation
Indices: 119340485--119340544 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
119340475 ATTCAATACC
119340485 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
119340533 ATA ATA ATA ATA
1 ATA ATA ATA ATA
119340545 CTTACCATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:119340744 original size:4 final size:4
Alignment explanation
Indices: 119340735--119340765 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
119340725 CATTTTCTCC
119340735 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
119340766 CCCATGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:119341437 original size:17 final size:17
Alignment explanation
Indices: 119341417--119341469 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
119341407 AATTAGAAGA
119341417 AAATTTTATGACTTTAG
1 AAATTTTATGACTTTAG
*
119341434 AAATAATTTA--A-TTGA-
1 AAAT--TTTATGACTTTAG
119341449 AAATTTTATGACTTTAG
1 AAATTTTATGACTTTAG
119341466 AAAT
1 AAAT
119341470 AATTTAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 4 0.14
15 5 0.18
16 6 0.21
17 9 0.32
19 4 0.14
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (17 bp):
AAATTTTATGACTTTAG
Found at i:119341456 original size:32 final size:32
Alignment explanation
Indices: 119341415--119341479 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
119341405 TGAATTAGAA
119341415 GAAAATTTTATGACTTTAGAAATAATTTAATT
1 GAAAATTTTATGACTTTAGAAATAATTTAATT
119341447 GAAAATTTTATGACTTTAGAAATAATTTAATT
1 GAAAATTTTATGACTTTAGAAATAATTTAATT
119341479 G
1 G
119341480 GGTCAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (32 bp):
GAAAATTTTATGACTTTAGAAATAATTTAATT
Found at i:119345535 original size:26 final size:28
Alignment explanation
Indices: 119345499--119345551 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
119345489 TGTTTTTCAA
*
119345499 TTTTCAAAAAATA-AAAA-AAAATATTT
1 TTTTAAAAAAATAGAAAAGAAAATATTT
119345525 TTTTAAAAAAATAGAAAATGAAAATAT
1 TTTTAAAAAAATAGAAAA-GAAAATAT
119345552 GTGAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
29 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (28 bp):
TTTTAAAAAAATAGAAAAGAAAATATTT
Found at i:119345606 original size:49 final size:49
Alignment explanation
Indices: 119345505--119345612 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 49
119345495 TCAATTTTCA
* * *
119345505 AAAAATAAAAAAAAATATTTTTTTAAAAAAATAGAAAATGAAAATATGTG
1 AAAAATGAAAAAAAATATTTTATTAAAAAAATAGAAAA-GAAAAGATGTG
* *
119345555 AAAAATGAAAAAAAATATTTTGATTAAAAAATTCA-AAAA-AAAAGATTTG
1 AAAAATGAAAAAAAATATTTT-ATTAAAAAAAT-AGAAAAGAAAAGATGTG
119345604 AAAAATGAA
1 AAAAATGAA
119345613 GATGCGTGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 17 0.33
50 20 0.39
51 13 0.25
52 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (49 bp):
AAAAATGAAAAAAAATATTTTATTAAAAAAATAGAAAAGAAAAGATGTG
Found at i:119349912 original size:20 final size:21
Alignment explanation
Indices: 119349883--119349922 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
119349873 ATTGACTTAA
*
119349883 TTTAATATATATTT-TAATTG
1 TTTAAAATATATTTATAATTG
119349903 TTTAAAATATATTTATAATT
1 TTTAAAATATATTTATAATT
119349923 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAAAATATATTTATAATTG
Found at i:119353171 original size:35 final size:35
Alignment explanation
Indices: 119353085--119353369 Score: 394
Period size: 35 Copynumber: 8.2 Consensus size: 35
119353075 TTCAAATGAT
* *
119353085 TTTCACAACTCGGTATGGAAAATGCCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
** * *
119353120 -TTCTTAACTCAGTATGGATAATATCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
119353154 TTTCACAACTCGGTATGGATGATATCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* * *
119353189 TATCACAACTCAGTATGGTTAATACCATACCTAC-
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
119353223 TTTCACAACCCGGTATGGATGATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
119353258 TTTCACAACTCGGTATGGTTAATACCATACTTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
* *
119353293 TTTCACAACTCGGTATGGATGATATCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
*
119353328 TTTCACAACTCGGTATGGATGATACCATACCTACG
1 TTTCACAACTCGGTATGGATAATACCATACCTACG
119353363 TTTCACA
1 TTTCACA
119353370 CTTTGCCATA
Statistics
Matches: 219, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
34 57 0.26
35 162 0.74
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (35 bp):
TTTCACAACTCGGTATGGATAATACCATACCTACG
Found at i:119353267 original size:104 final size:104
Alignment explanation
Indices: 119353087--119353369 Score: 395
Period size: 104 Copynumber: 2.7 Consensus size: 104
119353077 CAAATGATTT
* * * ** * * *
119353087 TCACAACTCGGTATGGAAAATGCCATACCTACGTTCTTAACTCAGTATGGATAATATCATACCTA
1 TCACAACTCGGTATGGATAATACCATACCTACTTTCACAACTCGGTATGGATGATACCATACCTA
* *
119353152 CGTTTCACAACTCGGTATGGATGATATCATACCTACGTA
66 CGTTTCACAACTCGGTATGGATAATACCATACCTACGTA
* * *
119353191 TCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACCCGGTATGGATGATACCATACCTA
1 TCACAACTCGGTATGGATAATACCATACCTACTTTCACAACTCGGTATGGATGATACCATACCTA
* * *
119353256 CGTTTCACAACTCGGTATGGTTAATACCATACTTACGTT
66 CGTTTCACAACTCGGTATGGATAATACCATACCTACGTA
* *
119353295 TCACAACTCGGTATGGATGATATCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCT
1 TCACAACTCGGTATGGATAATACCATACCTAC-TTTCACAACTCGGTATGGATGATACCATACCT
119353360 ACGTTTCACA
65 ACGTTTCACA
119353370 CTTTGCCATA
Statistics
Matches: 157, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
104 116 0.74
105 41 0.26
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (104 bp):
TCACAACTCGGTATGGATAATACCATACCTACTTTCACAACTCGGTATGGATGATACCATACCTA
CGTTTCACAACTCGGTATGGATAATACCATACCTACGTA
Found at i:119353389 original size:139 final size:138
Alignment explanation
Indices: 119353109--119353369 Score: 378
Period size: 139 Copynumber: 1.9 Consensus size: 138
119353099 ATGGAAAATG
** *
119353109 CCATACCTACGTTCTTAACTCAGTATGGATAATATCATACCTACGTTTCACAACTCGGTATGGAT
1 CCATACCTACGTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGAT
* **
119353174 GATATCATACCTACGTATCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACCCGGTAT
66 GATATCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTACTTTCACAACCCGCCAT
* *
119353239 GGATGATA
131 AGATCATA
* * *
119353247 CCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACTTACGTTTCACAACTCGGTATGGA
1 CCATACCTACG-TTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGA
* * *
119353312 TGATATCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACA
65 TGATATCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTAC-TTTCACA
119353370 CTTTGCCATA
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
138 11 0.10
139 93 0.84
140 7 0.06
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (138 bp):
CCATACCTACGTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCGGTATGGAT
GATATCATACCTACGTATCACAACTCAGTATGGATAATACCATACCTACTTTCACAACCCGCCAT
AGATCATA
Found at i:119357949 original size:2 final size:2
Alignment explanation
Indices: 119357942--119357977 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
119357932 AGGAGAAGGA
119357942 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
119357978 GAATAACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119358329 original size:35 final size:35
Alignment explanation
Indices: 119358303--119358691 Score: 500
Period size: 35 Copynumber: 11.2 Consensus size: 35
119358293 CATGGCAAAG
*
119358303 TGTGAAACGTACGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * * *
119358338 TGTGAAATGTAGGTATGGTATTAACCATATCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
119358373 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
119358408 TGTGAAACGTAGGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
119358443 TGTGAAACGTAGGTATGGTATCATTCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
119358478 TG-GAAA-GTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
119358511 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * * *
119358546 TGTGAAACGTAGTTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
119358581 TGTGAAATGTAGGTATGGTATCATCCATACCGGGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
119358616 TATGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** * *
119358651 TAAG-AATGTAGGTATGGCAGT--TCTCATACCGAGT
1 TGTGAAACGTAGGTATGGTA-TCATC-CATACCGAGT
119358685 TGTGAAA
1 TGTGAAA
119358692 TGTAAATAAA
Statistics
Matches: 309, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
33 27 0.09
34 32 0.10
35 250 0.81
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:119358420 original size:70 final size:70
Alignment explanation
Indices: 119358303--119358691 Score: 583
Period size: 70 Copynumber: 5.6 Consensus size: 70
119358293 CATGGCAAAG
* *
119358303 TGTGAAACGTACGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATA-
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
119358367 TCGAGT
66 T-GAGT
119358373 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
*
119358438 CGAGT
66 TGAGT
*
119358443 TGTGAAACGTAGGTATGGTATCATTCATACCGAGTTG-GAAA-GTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
119358506 TGAGT
66 TGAGT
* *
119358511 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGTTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
119358576 TGAGT
66 TGAGT
* * * *
119358581 TGTGAAATGTAGGTATGGTATCATCCATACCGGGTTATGAAACGTAGGTATGGTATTATCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
119358646 TGAGT
66 TGAGT
** * *
119358651 TAAG-AATGTAGGTATGGCAGT--TCTCATACCGAGTTGTGAAA
1 TGTGAAACGTAGGTATGGTA-TCATC-CATACCGAGTTGTGAAA
119358692 TGTAAATAAA
Statistics
Matches: 295, Mismatches: 19, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
68 63 0.21
69 37 0.13
70 195 0.66
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATAC
TGAGT
Found at i:119358611 original size:173 final size:174
Alignment explanation
Indices: 119358306--119358667 Score: 503
Period size: 173 Copynumber: 2.1 Consensus size: 174
119358296 GGCAAAGTGT
* * * *
119358306 GAAACGTACGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTAACCATATCGA
1 GAAA-GTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATATCGA
* *
119358371 GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCAT
65 GTTGTGAAACGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCAT
* * *
119358436 ACCGAGTTGTGAAACGTAGGTATGGTATCATTCATACCGAGTT-G
130 ACCGAGTTATGAAACGTAGGTATGGTATCATCCATACCGAGTTAA
* * *
119358480 GAAAGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATA-CTGA
1 GAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATATC-GA
* * * * *
119358544 GTTGTGAAACGTAGTTATGGTATTAACCATACTGAGTTGTGAAATGTAGGTATGGTATCATCCAT
65 GTTGTGAAACGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCAT
* * *
119358609 ACCGGGTTATGAAACGTAGGTATGGTATTATCCATACTGAGTTAA
130 ACCGAGTTATGAAACGTAGGTATGGTATCATCCATACCGAGTTAA
*
119358654 GAATGTAGGTATGG
1 GAAAGTAGGTATGG
119358668 CAGTTCTCAT
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
172 1 0.01
173 147 0.89
174 17 0.10
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (174 bp):
GAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATATCGAG
TTGTGAAACGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATA
CCGAGTTATGAAACGTAGGTATGGTATCATCCATACCGAGTTAA
Found at i:119360112 original size:10 final size:10
Alignment explanation
Indices: 119360097--119360143 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
119360087 GCGACCTCTC
119360097 AAATTAAACT
1 AAATTAAACT
119360107 AAATTAAACT
1 AAATTAAACT
*
119360117 AAGATTAATCT
1 AA-ATTAAACT
119360128 -AATT-AACT
1 AAATTAAACT
119360136 AAGATTAA
1 AA-ATTAA
119360144 TTATAATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 4 0.13
10 16 0.52
11 8 0.26
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (10 bp):
AAATTAAACT
Found at i:119362815 original size:12 final size:12
Alignment explanation
Indices: 119362800--119362830 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
119362790 TTCTCTTTTA
119362800 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
119362812 TTTTTCTTTCTC
1 TTTTTCTTTCCC
119362824 TTTTTCT
1 TTTTTCT
119362831 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:119362931 original size:16 final size:16
Alignment explanation
Indices: 119362910--119362940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119362900 TTTATTATTT
119362910 TATTAACATAATATAA
1 TATTAACATAATATAA
*
119362926 TATTAATATAATATA
1 TATTAACATAATATA
119362941 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:119365756 original size:40 final size:40
Alignment explanation
Indices: 119365682--119365823 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
119365672 CCGCACCAAG
* * * * * *
119365682 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
119365722 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * * *
119365762 ACCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
119365802 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
119365824 GTAATTTTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:119374054 original size:14 final size:14
Alignment explanation
Indices: 119374037--119374065 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
119374027 TGCTCAACTA
119374037 TCCCTAAAAGCCTT
1 TCCCTAAAAGCCTT
119374051 TCCCTAAAAGCCTT
1 TCCCTAAAAGCCTT
119374065 T
1 T
119374066 GAAACCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.34, G:0.07, T:0.31
Consensus pattern (14 bp):
TCCCTAAAAGCCTT
Found at i:119383858 original size:26 final size:26
Alignment explanation
Indices: 119383829--119383935 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
119383819 TGGTACAAAT
119383829 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119383855 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119383881 TG---ATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119383904 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
119383930 TGATAA
1 TGATAA
119383936 GAATTTCATG
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.28
26 54 0.72
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:119383891 original size:49 final size:49
Alignment explanation
Indices: 119383837--119383933 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
119383827 ATTGATAATA
119383837 GGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATG
1 GGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATG
* *
119383886 GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCATGAT
1 GGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGAT
119383934 AAGAATTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (49 bp):
GGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATG
Found at i:119390026 original size:12 final size:12
Alignment explanation
Indices: 119390011--119390041 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
119390001 TTCTCTTTTA
119390011 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
119390023 TTTTTCTTTCTC
1 TTTTTCTTTCCC
119390035 TTTTTCT
1 TTTTTCT
119390042 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:119390142 original size:16 final size:16
Alignment explanation
Indices: 119390121--119390151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119390111 TTTATTATTT
119390121 TATTAACATAATATAA
1 TATTAACATAATATAA
*
119390137 TATTAATATAATATA
1 TATTAACATAATATA
119390152 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:119391925 original size:146 final size:147
Alignment explanation
Indices: 119391654--119391948 Score: 479
Period size: 146 Copynumber: 2.0 Consensus size: 147
119391644 TGATATAAAA
* *
119391654 TGCTATTTTGATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
*
119391719 GATCTAGTTGAATTGTGGCATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
119391784 AATCAT-AAACGCACCAC
131 AATCATGAAA-GCACCAC
119391801 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTA-GATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
* * * *
119391865 TATTTGGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTA-TCTGTGACTT
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACT-TGTGACTT
*
119391929 GAATCATGAAAGTACCAC
130 GAATCATGAAAGCACCAC
119391947 TG
1 TG
119391949 AGCTTTATTG
Statistics
Matches: 138, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
145 1 0.01
146 99 0.72
147 38 0.28
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (147 bp):
TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
AATCATGAAAGCACCAC
Done.