Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 242 of 325
Found at i:75889820 original size:21 final size:22
Alignment explanation
Indices: 75889776--75889823 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
75889766 TTTAAAAATT
75889776 ATTTTAAAAAGAAATTTCGAAA
1 ATTTTAAAAAGAAATTTCGAAA
*
75889798 ATTTTAAAAAGAAATTT-GGAA
1 ATTTTAAAAAGAAATTTCGAAA
75889819 ATTTT
1 ATTTT
75889824 CTGGTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
ATTTTAAAAAGAAATTTCGAAA
Found at i:75891108 original size:4 final size:4
Alignment explanation
Indices: 75891099--75891128 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
75891089 TATTTAGGTG
75891099 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
75891129 GAAAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:75894138 original size:44 final size:44
Alignment explanation
Indices: 75894048--75894139 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
75894038 CTGATGTAAC
* * * *
75894048 AGTAGCAGTACGACACACATGGTGCCTCATCGACTCGAATTTGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCGAAGTCGA
**
75894092 AGTAACAGTACGACACTTATAGTGCCTCATCGACTC-AAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCGAA-GTCGA
75894136 AGTA
1 AGTA
75894140 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCGAAGTCGA
Found at i:75895230 original size:4 final size:4
Alignment explanation
Indices: 75895221--75895268 Score: 60
Period size: 4 Copynumber: 11.5 Consensus size: 4
75895211 CCTAATTTCC
* *
75895221 CTTT CTTT CTTT CTTTT CTTT CTTTT CTTT CTTT CCTT CTTT CCTT CT
1 CTTT CTTT CTTT C-TTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CT
75895269 CTGTTTTCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 30 0.79
5 8 0.21
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:75895238 original size:9 final size:9
Alignment explanation
Indices: 75895221--75895254 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
75895211 CCTAATTTCC
75895221 CTTTC-TTT
1 CTTTCTTTT
75895229 CTTTCTTTT
1 CTTTCTTTT
75895238 CTTTCTTTT
1 CTTTCTTTT
75895247 CTTTCTTT
1 CTTTCTTT
75895255 CCTTCTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.20
9 20 0.80
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:75895240 original size:13 final size:13
Alignment explanation
Indices: 75895222--75895262 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
75895212 CTAATTTCCC
75895222 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
75895235 TTTCTTTCTTT-T
1 TTTCTTTCTTTCT
*
75895247 CTTTCTTTCCTTCT
1 -TTTCTTTCTTTCT
75895261 TT
1 TT
75895263 CCTTCTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:75900714 original size:61 final size:60
Alignment explanation
Indices: 75900602--75900727 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 60
75900592 ATATATAAAG
* * * * * ** * *
75900602 TTTTAGAGTTAGGACTAGATTGACAAATTTTGTAAATGTTAGGGGGCAAATTTTTTGAAT
1 TTTTAGAATTAGAACTAAAATGACAAATTTTATAAACATTAGAGGGCAAATTTGTTGAAT
75900662 CTTTTAGAATTAGAACTAAAATGACAAATTTTATAAACATT-GAGGGCTAAATTTGTTGAAT
1 -TTTTAGAATTAGAACTAAAATGACAAATTTTATAAACATTAGAGGGC-AAATTTGTTGAAT
75900723 TTTTA
1 TTTTA
75900728 ATATTTAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
60 10 0.18
61 45 0.82
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAAATGACAAATTTTATAAACATTAGAGGGCAAATTTGTTGAAT
Found at i:75901309 original size:24 final size:24
Alignment explanation
Indices: 75901275--75901320 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
75901265 AAATGATAAT
*
75901275 TGTTAAGTTCATAAAGTTAAGTGC
1 TGTTAAATTCATAAAGTTAAGTGC
75901299 TGTTAAATTCATAAAGTTAAGT
1 TGTTAAATTCATAAAGTTAAGT
75901321 TTTGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (24 bp):
TGTTAAATTCATAAAGTTAAGTGC
Found at i:75901326 original size:24 final size:24
Alignment explanation
Indices: 75901274--75901326 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
75901264 CAAATGATAA
*
75901274 TTGTTAAGTTCATAAAGTTAAGTG
1 TTGTTAAATTCATAAAGTTAAGTG
* *
75901298 CTGTTAAATTCATAAAGTTAAGTT
1 TTGTTAAATTCATAAAGTTAAGTG
75901322 TTGTT
1 TTGTT
75901327 GTTTCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (24 bp):
TTGTTAAATTCATAAAGTTAAGTG
Found at i:75901584 original size:14 final size:13
Alignment explanation
Indices: 75901564--75901601 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
75901554 ATCAAATTTG
75901564 TAAATATTTTTAT
1 TAAATATTTTTAT
75901577 TAAAATATTTTTAT
1 T-AAATATTTTTAT
75901591 TAAATATTTTT
1 TAAATATTTTT
75901602 GGAGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:75904807 original size:31 final size:32
Alignment explanation
Indices: 75904772--75904844 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
75904762 GTTTAGGTTA
*
75904772 GGACTAAAATTTCA-AAATTTGAAAAGTATAG
1 GGACTAAAATTTCACAAAGTTGAAAAGTATAG
* *
75904803 GGACTAAAA-TTGACCAAGTTGAAAAGTATAG
1 GGACTAAAATTTCACAAAGTTGAAAAGTATAG
* *
75904834 AGACTATAATT
1 GGACTAAAATT
75904845 GTTCAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (32 bp):
GGACTAAAATTTCACAAAGTTGAAAAGTATAG
Found at i:75906498 original size:23 final size:22
Alignment explanation
Indices: 75906455--75906498 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
75906445 CAAGCTATCA
*
75906455 AAATATAATATTTATATTTAAC
1 AAATATAATATTTATAATTAAC
* *
75906477 AAATATGAATTTTTGTAATTAA
1 AAATAT-AATATTTATAATTAA
75906499 AATAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
AAATATAATATTTATAATTAAC
Found at i:75907945 original size:20 final size:20
Alignment explanation
Indices: 75907902--75907945 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
75907892 AAAATTCTAT
* * *
75907902 TTTTTATTGTTTTCTTGTTG
1 TTTTTACTGTTTTCTTGCTA
*
75907922 TTTTTACTGTTTTGTTGCTA
1 TTTTTACTGTTTTCTTGCTA
75907942 TTTT
1 TTTT
75907946 CTAGTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.73
Consensus pattern (20 bp):
TTTTTACTGTTTTCTTGCTA
Found at i:75907989 original size:22 final size:22
Alignment explanation
Indices: 75907964--75908006 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
75907954 TTTCACTATT
75907964 TTGCTACCATTTTACTATTATG
1 TTGCTACCATTTTACTATTATG
* *
75907986 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTTACTATTAT
75908007 TGTTTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTTACTATTATG
Found at i:75908208 original size:15 final size:16
Alignment explanation
Indices: 75908190--75908219 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75908180 ATTATATTTT
75908190 TAAAAAAA-TAATATA
1 TAAAAAAATTAATATA
75908205 TAAAAAAATTAATAT
1 TAAAAAAATTAATAT
75908220 GATCGGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAAAATTAATATA
Found at i:75914180 original size:21 final size:21
Alignment explanation
Indices: 75914153--75914206 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
75914143 ACTGCTGTTT
*
75914153 TTAATCTCACCGTTATAGT-A
1 TTAATCTCACCGTTACAGTAA
*
75914173 TCTAATCTTACCGTTACAGTAA
1 T-TAATCTCACCGTTACAGTAA
75914195 TTAATCTCACCG
1 TTAATCTCACCG
75914207 CCATCGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (21 bp):
TTAATCTCACCGTTACAGTAA
Found at i:75920085 original size:121 final size:121
Alignment explanation
Indices: 75919868--75920114 Score: 413
Period size: 121 Copynumber: 2.0 Consensus size: 121
75919858 TGATTATAAC
* *
75919868 TAATATACTTTGTATTATTGTCCTCAAATGATTTTTGCACACAAAGCAAAATGGAAGCAAATGTG
1 TAATATACTTTGTATTATTATCCTCAAATGATTTTTGCACACAAAGAAAAATGGAAGCAAATGTG
* * *
75919933 GCTTATTGGTTGTCTAATGTTTAACTGATACTAAGAGGTATTACATGGTCAGATCG
66 GCTCATTGGTCGTCTAATGTTTAACTAATACTAAGAGGTATTACATGGTCAGATCG
75919989 TAATATACTTTGTATTATTATCCTCAAATGATTTTTGCACACAAAGAAAAATGGAAGCAAATGTG
1 TAATATACTTTGTATTATTATCCTCAAATGATTTTTGCACACAAAGAAAAATGGAAGCAAATGTG
* * **
75920054 GCTCATTGGTCGTCTAATGTTTAACTAATACTAAGCGGTATTACGTGGTTGGATCG
66 GCTCATTGGTCGTCTAATGTTTAACTAATACTAAGAGGTATTACATGGTCAGATCG
75920110 TAATA
1 TAATA
75920115 GGAAAAGACA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (121 bp):
TAATATACTTTGTATTATTATCCTCAAATGATTTTTGCACACAAAGAAAAATGGAAGCAAATGTG
GCTCATTGGTCGTCTAATGTTTAACTAATACTAAGAGGTATTACATGGTCAGATCG
Found at i:75922652 original size:24 final size:24
Alignment explanation
Indices: 75922621--75922670 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
75922611 CGAAAATGGA
75922621 AAAAAAAATTATTCGGTTATAGTG
1 AAAAAAAATTATTCGGTTATAGTG
75922645 AAAAAAAATTATTCGGTTATAGTG
1 AAAAAAAATTATTCGGTTATAGTG
75922669 AA
1 AA
75922671 CATGTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (24 bp):
AAAAAAAATTATTCGGTTATAGTG
Found at i:75922780 original size:26 final size:26
Alignment explanation
Indices: 75922706--75922780 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
75922696 GAATTTCTCG
* **
75922706 AAATTTTACTAGGGGTAAAATCATCA
1 AAATTTTACTAGAGGTAAAATTGTCA
* *
75922732 AAATTTTA-TAAAGGGTAAGATTGTCA
1 AAATTTTACTAGA-GGTAAAATTGTCA
75922758 AAATTTTACTAGAGGTAAAATTG
1 AAATTTTACTAGAGGTAAAATTG
75922781 GGGTGAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.05
26 35 0.88
27 3 0.08
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGAGGTAAAATTGTCA
Found at i:75932193 original size:16 final size:16
Alignment explanation
Indices: 75932174--75932204 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
75932164 GGAAATCCTT
75932174 TATAATTGAAACATAC
1 TATAATTGAAACATAC
75932190 TATAATTGAAACATA
1 TATAATTGAAACATA
75932205 AGCACAGTAT
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:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
TATAATTGAAACATAC
Found at i:75932883 original size:55 final size:56
Alignment explanation
Indices: 75932806--75932942 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 56
75932796 AAATAGAGGA
** * *
75932806 AGAGAAGAGAAGAGAACAAGAAGGTA-AAAAAGAAAGAAAAAGAGACTAG-CAGAAT
1 AGAGAAGAGAAGAGAAGGAGAAGG-AGAAAAAGAAAAAAAAAGAGAATAGACAGAAT
*** *
75932861 AGAGAAGAGAAGAGAAGGAGAAGGAGAAGGGGAAAAAAAAAGAGAATAGTAGAGAAT
1 AGAGAAGAGAAGAGAAGGAGAAGGAGAAAAAGAAAAAAAAAGAGAATAG-ACAGAAT
*
75932918 ATAGAAGAGAA-AGAAAGGAGAAGGA
1 AGAGAAGAGAAGAG-AAGGAGAAGGA
75932943 AAGGAGAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
54 1 0.01
55 40 0.58
56 2 0.03
57 26 0.38
ACGTcount: A:0.60, C:0.02, G:0.33, T:0.05
Consensus pattern (56 bp):
AGAGAAGAGAAGAGAAGGAGAAGGAGAAAAAGAAAAAAAAAGAGAATAGACAGAAT
Found at i:75936796 original size:27 final size:27
Alignment explanation
Indices: 75936766--75936836 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
75936756 TAGTACAGCT
*
75936766 TATGACATGGGTACCACTAGTGCCACC
1 TATGACATGGGCACCACTAGTGCCACC
* *
75936793 TATGACATGGGCACTACTGGTGCCACC
1 TATGACATGGGCACCACTAGTGCCACC
* * *
75936820 TACGATATTGGCACCAC
1 TATGACATGGGCACCAC
75936837 CAAACATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (27 bp):
TATGACATGGGCACCACTAGTGCCACC
Found at i:75938253 original size:15 final size:15
Alignment explanation
Indices: 75938233--75938262 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
75938223 CTTTCACCAG
75938233 TGACCATACAAAGCA
1 TGACCATACAAAGCA
75938248 TGACCATACAAAGCA
1 TGACCATACAAAGCA
75938263 AAATAACCTT
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:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
TGACCATACAAAGCA
Found at i:75943559 original size:17 final size:17
Alignment explanation
Indices: 75943537--75943789 Score: 107
Period size: 17 Copynumber: 14.9 Consensus size: 17
75943527 CCACACATTG
*
75943537 ACACAACTCGTATATAA
1 ACACAACTCGCATATAA
* *
75943554 ACACAATTCACATATAA
1 ACACAACTCGCATATAA
* ***
75943571 ACATAGA-TCTTTTATAA
1 ACACA-ACTCGCATATAA
* *
75943588 ACACAACTAGTATATAA
1 ACACAACTCGCATATAA
* * *
75943605 AAAAAACTCGCATATAT
1 ACACAACTCGCATATAA
* ***
75943622 ATAGTGCTCGCATATAA
1 ACACAACTCGCATATAA
*
75943639 ACA-AATCTCGTATATAA
1 ACACAA-CTCGCATATAA
* *
75943656 ACACAGCTTGCATATAA
1 ACACAACTCGCATATAA
*
75943673 ACACCACTCGCATATAA
1 ACACAACTCGCATATAA
* * * *
75943690 ATATACCTCGCGTAATAA
1 ACACAACTCGCAT-ATAA
* *
75943708 A-ACCACCCGCATATAA
1 ACACAACTCGCATATAA
* * * * *
75943724 ATATAGCTCACATCTAA
1 ACACAACTCGCATATAA
* * *
75943741 ACAAAACTTGCTTATAA
1 ACACAACTCGCATATAA
** *
75943758 ACACGGCTCACATATAA
1 ACACAACTCGCATATAA
* *
75943775 ACACAGCTCGTATAT
1 ACACAACTCGCATAT
75943790 TGTCATAGGT
Statistics
Matches: 167, Mismatches: 63, Indels: 12
0.69 0.26 0.05
Matches are distributed among these distances:
16 6 0.04
17 154 0.92
18 7 0.04
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (17 bp):
ACACAACTCGCATATAA
Found at i:75946120 original size:14 final size:15
Alignment explanation
Indices: 75946096--75946125 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
75946086 GGATATTAAA
75946096 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
75946111 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
75946125 A
1 A
75946126 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:75956023 original size:26 final size:26
Alignment explanation
Indices: 75955985--75956054 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
75955975 ACACGCTAGG
*
75955985 AAATGGAAACCTTTGTGGCATATCTA
1 AAATGGAAGCCTTTGTGGCATATCTA
* * * *
75956011 AAATGGAAGCCTTTATGGCATGTTTG
1 AAATGGAAGCCTTTGTGGCATATCTA
75956037 AAATGGAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGG
75956055 TTTTTTGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCATATCTA
Found at i:75959806 original size:30 final size:30
Alignment explanation
Indices: 75959770--75959839 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
75959760 GTTGTCCCAA
*
75959770 CCCTTTTCATAGC-CGGATAGCCAAAGTTAT
1 CCCTTTTCATAGCTC-GATAGCCAAAGCTAT
* *
75959800 CCCTTTTCACAGCTCGATAGTCAAAGCTAT
1 CCCTTTTCATAGCTCGATAGCCAAAGCTAT
*
75959830 CCCTTCTCAT
1 CCCTTTTCAT
75959840 TATTTGATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (30 bp):
CCCTTTTCATAGCTCGATAGCCAAAGCTAT
Found at i:75959896 original size:29 final size:29
Alignment explanation
Indices: 75959828--75960017 Score: 122
Period size: 30 Copynumber: 6.4 Consensus size: 29
75959818 AGTCAAAGCT
* *
75959828 ATCCCTTCTCATTATTTGATGGTCATCACC
1 ATCCCTTTTCATT-GTTGATGGTCATCACC
** *
75959858 ATTACATTTCATTGTTGATGGTCATCACC
1 ATCCCTTTTCATTGTTGATGGTCATCACC
* *
75959887 ATCCCTTTTCATAAT-TTGATAGTCGA--AGCT
1 ATCCCTTTTCAT--TGTTGATGGTC-ATCA-CC
* * * *
75959917 ATCCCTTTTCAAAAT-TTGATAGCCGA--AGCT
1 ATCCCTTTTC--ATTGTTGATGGTC-ATCA-CC
*
75959947 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTGTT-GATGGTCATCACC
**
75959977 ATCCCTTTTCATTGTTGATGGTTGTCACC
1 ATCCCTTTTCATTGTTGATGGTCATCACC
75960006 ATCCCTTTTCAT
1 ATCCCTTTTCAT
75960018 AATTTGATAG
Statistics
Matches: 132, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.02
29 51 0.39
30 75 0.57
31 3 0.02
32 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATTGTTGATGGTCATCACC
Found at i:75959921 original size:30 final size:30
Alignment explanation
Indices: 75959887--75960078 Score: 169
Period size: 30 Copynumber: 6.4 Consensus size: 30
75959877 GGTCATCACC
75959887 ATCCCTTTTCATAATTTGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* *
75959917 ATCCCTTTTCAAAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
** * * * *
75959947 ATCCCTTTTCATTGTTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCT
* * * *
75959977 ATCCCTTTTCAT--TGTTGATGGTTGTCA-CC
1 ATCCCTTTTCATAAT-TTGATAGTCG-AAGCT
*
75960006 ATCCCTTTTCATAATTTGATAG-CCAAGACT
1 ATCCCTTTTCATAATTTGATAGTCGAAG-CT
* *
75960036 ATCCCTTTTCATTATTTTGATAGCCGAAGCT
1 ATCCCTTTTCA-TAATTTGATAGTCGAAGCT
75960067 ATCCCTTTTCAT
1 ATCCCTTTTCAT
75960079 CAGCCAATGA
Statistics
Matches: 135, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 25 0.19
30 79 0.59
31 25 0.19
32 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCT
Found at i:75959957 original size:89 final size:89
Alignment explanation
Indices: 75959864--75960048 Score: 252
Period size: 89 Copynumber: 2.1 Consensus size: 89
75959854 CACCATTACA
*
75959864 TTTCATTGTT-GATGGTCATCACCATCCCTTTTCATAAT-TTGATAGTCG-AAGCTATCCCTTTT
1 TTTCATTGTTCGATGGTCATCACCATCCCTTTTCAT--TGTTGATAGTCGTAA-CCATCCCTTTT
75959926 CAAAATTTGATAGCCGAAG-CTATCCCT
63 CAAAATTTGATAGCC-AAGACTATCCCT
* * * * *
75959953 TTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTTGTCACCATCCCTTTTCAT
1 TTTCATTGTTCGATGGTCATCACCATCCCTTTTCATTGTTGATAGTCGTAACCATCCCTTTTCAA
75960018 AATTTGATAGCCAAGACTATCCCT
66 AATTTGATAGCCAAGACTATCCCT
75960042 TTTCATT
1 TTTCATT
75960049 ATTTTGATAG
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
88 4 0.05
89 57 0.66
90 25 0.29
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (89 bp):
TTTCATTGTTCGATGGTCATCACCATCCCTTTTCATTGTTGATAGTCGTAACCATCCCTTTTCAA
AATTTGATAGCCAAGACTATCCCT
Found at i:75959987 original size:119 final size:120
Alignment explanation
Indices: 75959823--75960078 Score: 381
Period size: 119 Copynumber: 2.1 Consensus size: 120
75959813 TCGATAGTCA
* * *
75959823 AAGCTATCCCTTCTCATTATTTGATGGTCATCACCATTACATTTCATTGTTGATGGTCATCACCA
1 AAGCTATCCCTTTTCATTATTCGATGGTCATCACCATCACATTTCATTGTTGATGGTCATCACCA
*
75959888 TCCCTTTTCATAATTTGATAGTCGAAG-CTATCCCTTTTCA-AAATTTGATAGCCG
66 TCCCTTTTCATAATTTGATAG-CCAAGACTATCCCTTTTCATAAATTTGATAGCCG
* * * * **
75959942 AAGCTATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTTGTCACCA
1 AAGCTATCCCTTTTCATTATTCGATGGTCATCACCATCACATTTCATTGTTGATGGTCATCACCA
* *
75960007 TCCCTTTTCATAATTTGATAGCCAAGACTATCCCTTTTCATTATTTTGATAGCCG
66 TCCCTTTTCATAATTTGATAGCCAAGACTATCCCTTTTCATAAATTTGATAGCCG
75960062 AAGCTATCCCTTTTCAT
1 AAGCTATCCCTTTTCAT
75960079 CAGCCAATGA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
118 4 0.03
119 90 0.73
120 29 0.24
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.40
Consensus pattern (120 bp):
AAGCTATCCCTTTTCATTATTCGATGGTCATCACCATCACATTTCATTGTTGATGGTCATCACCA
TCCCTTTTCATAATTTGATAGCCAAGACTATCCCTTTTCATAAATTTGATAGCCG
Found at i:75963528 original size:32 final size:32
Alignment explanation
Indices: 75963492--75963559 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
75963482 ACCCATTTCA
75963492 ACATTTATTTCAAAAATCATACCAAAATATAT
1 ACATTTATTTCAAAAATCATACCAAAATATAT
75963524 ACATTTATTTCAAAAATCATACCAAAATATAT
1 ACATTTATTTCAAAAATCATACCAAAATATAT
75963556 ACAT
1 ACAT
75963560 ACCTATTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (32 bp):
ACATTTATTTCAAAAATCATACCAAAATATAT
Found at i:75966547 original size:23 final size:22
Alignment explanation
Indices: 75966521--75966566 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
75966511 GGGATAATGT
75966521 CGAAGCACATAACAAGACAACAC
1 CGAAGCACATAAC-AGACAACAC
** *
75966544 CGAAGTGCATAACGGACAACAC
1 CGAAGCACATAACAGACAACAC
75966566 C
1 C
75966567 AAAATACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.46, C:0.30, G:0.17, T:0.07
Consensus pattern (22 bp):
CGAAGCACATAACAGACAACAC
Found at i:75971619 original size:63 final size:63
Alignment explanation
Indices: 75971520--75971642 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 63
75971510 GGCACTCTGT
* * *
75971520 GCAATCTCACAATATAAAAAATGTATAATTCACTTAATTTATCTAGCGAGTAATCAGATCGTA
1 GCAATCTCACAATATAAAAAATATATAATTCACTTAACTTATCAAGCGAGTAATCAGATCGTA
75971583 GCAATCTCACAATATAAAAAATATATAATTCACTTAACTTATCAAGCGAGTAATCAGATC
1 GCAATCTCACAATATAAAAAATATATAATTCACTTAACTTATCAAGCGAGTAATCAGATC
75971643 ATACCCGAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (63 bp):
GCAATCTCACAATATAAAAAATATATAATTCACTTAACTTATCAAGCGAGTAATCAGATCGTA
Found at i:75973875 original size:46 final size:46
Alignment explanation
Indices: 75973811--75973977 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 46
75973801 TCTTGTAGCT
* *
75973811 GATGCATGTCCCAGACATGTCTTACACTGGCAT-ACATCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGC-TCTCATCTCGAGGCC
* * * *
75973857 GATGCATGTCGCAAACATGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAGGCC
* *
75973903 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCC
*
75973951 GATGCATGTCCCAGA-ATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
75973978 AGCACACAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 11 0.11
46 44 0.42
47 23 0.22
48 25 0.24
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAGGCC
Found at i:75973922 original size:93 final size:92
Alignment explanation
Indices: 75973811--75973980 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
75973801 TCTTGTAGCT
* * *
75973811 GATGCATGTCCCAGACAT-GTCTTACACTGGCAT-ACAT-CTCGAGGCCGATGCATGTCGCAAAC
1 GATGCATGTCCCAAACATGGTCTTACACTGGC-TCACATAAT-GAGGCCGATGCATGTCCCAAA-
75973873 ATGTCTTACACTAGCTCTCATCTCAATGCC
63 ATGTCTTACACTAGCTCTCATCTCAATGCC
* * *
75973903 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAAT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTCACATAATGAGGCCGATGCATGTCCCAAAAT
75973968 GTCTTACACTAGC
65 GTCTTACACTAGC
75973981 ACACAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
92 4 0.06
93 29 0.43
94 34 0.50
95 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCTCACATAATGAGGCCGATGCATGTCCCAAAATG
TCTTACACTAGCTCTCATCTCAATGCC
Found at i:75992657 original size:12 final size:12
Alignment explanation
Indices: 75992640--75992690 Score: 79
Period size: 12 Copynumber: 4.3 Consensus size: 12
75992630 TCCTCAACAA
75992640 ATAAGATCAACC
1 ATAAGATCAACC
75992652 ATAAGATCAACC
1 ATAAGATCAACC
75992664 AT-A-ATCAAGCC
1 ATAAGATCAA-CC
75992675 ATAAGATCAACC
1 ATAAGATCAACC
75992687 ATAA
1 ATAA
75992691 TCAAGCCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 21 0.58
13 5 0.14
ACGTcount: A:0.51, C:0.24, G:0.08, T:0.18
Consensus pattern (12 bp):
ATAAGATCAACC
Found at i:75992677 original size:23 final size:23
Alignment explanation
Indices: 75992645--75992700 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
75992635 AACAAATAAG
75992645 ATCAA-CCATAAGATCAACCATA
1 ATCAAGCCATAAGATCAACCATA
75992667 ATCAAGCCATAAGATCAACCATA
1 ATCAAGCCATAAGATCAACCATA
75992690 ATCAAGCCATA
1 ATCAAGCCATA
75992701 TCACATGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.48, C:0.27, G:0.07, T:0.18
Consensus pattern (23 bp):
ATCAAGCCATAAGATCAACCATA
Found at i:75992703 original size:10 final size:10
Alignment explanation
Indices: 75992645--75992700 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 10
75992635 AACAAATAAG
75992645 ATCAACCATAA
1 ATCAACCAT-A
75992656 GATCAACCATA
1 -ATCAACCATA
75992667 ATCAAGCCATAA
1 ATCAA-CCAT-A
75992679 GATCAACCATA
1 -ATCAACCATA
75992690 ATCAAGCCATA
1 ATCAA-CCATA
75992701 TCACATGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.25
11 11 0.28
12 14 0.35
13 5 0.12
ACGTcount: A:0.48, C:0.27, G:0.07, T:0.18
Consensus pattern (10 bp):
ATCAACCATA
Found at i:75993349 original size:43 final size:44
Alignment explanation
Indices: 75993240--75993386 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 44
75993230 TGCTAGTGTT
* * *
75993240 CCAAACGTGGTCTTACATGT-AATCAAATATCGATTCCACTGTC
1 CCAAACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTC
* *
75993283 CCAAACAGGGTCTTACACG-AAATCAAATAT-GATGGCGA-TGTC
1 CCAAACATGGTCTTACACGTAAATCAAATATCGAT-GCCACTGTC
* * * *
75993325 CTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATC
1 CCAAACATGGTCTTACACGTAAATC-AAATATCGATGCC-ACTGTC
75993369 CCAAATC-TGGTCTTACAC
1 CCAAA-CATGGTCTTACAC
75993387 AAATTCACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
42 23 0.28
43 37 0.45
44 22 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
CCAAACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTC
Found at i:75995132 original size:14 final size:13
Alignment explanation
Indices: 75995110--75995140 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
75995100 AATATTATCT
75995110 AATAAATAAAATA
1 AATAAATAAAATA
75995123 AATAATATAAAATA
1 AATAA-ATAAAATA
75995137 AATA
1 AATA
75995141 TCTAATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAATAAAATA
Found at i:76001560 original size:29 final size:29
Alignment explanation
Indices: 76001527--76001585 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
76001517 ATGTAAAAAG
*
76001527 ATAGAGAGAACAGAAACCTTAAGTGATAA
1 ATAGAGAGAAAAGAAACCTTAAGTGATAA
*
76001556 ATAGAGAGAAAAGAGACCTTAAGTGATAA
1 ATAGAGAGAAAAGAAACCTTAAGTGATAA
76001585 A
1 A
76001586 AGTCTACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.08, G:0.22, T:0.17
Consensus pattern (29 bp):
ATAGAGAGAAAAGAAACCTTAAGTGATAA
Found at i:76003885 original size:43 final size:43
Alignment explanation
Indices: 76003824--76003912 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
76003814 AAATACGGAC
*
76003824 TTAGATTGTGGAAAGAACAAGGTTTGGGAATAGTTGACTCGTT
1 TTAGATCGTGGAAAGAACAAGGTTTGGGAATAGTTGACTCGTT
76003867 TTAGATCGTGGAAAGAACAAGGTTTGGGAATAGTTGACTCGTT
1 TTAGATCGTGGAAAGAACAAGGTTTGGGAATAGTTGACTCGTT
76003910 TTA
1 TTA
76003913 CCATTTTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.33
Consensus pattern (43 bp):
TTAGATCGTGGAAAGAACAAGGTTTGGGAATAGTTGACTCGTT
Found at i:76006560 original size:47 final size:46
Alignment explanation
Indices: 76006499--76006665 Score: 144
Period size: 47 Copynumber: 3.6 Consensus size: 46
76006489 CACAACCCTT
*
76006499 GGCCAATGCGTGTCCAAGACACGTCTTACACTGGCTATCTCTGTCGA
1 GGCCAATGCATGTCCAAGACACGTCTTACACTGGCTATCTCT-TCGA
* * * * * * * *
76006546 GGTCAATGCATGTCCTAGACATGTATTACTCTAGCACAACTCTT--A
1 GGCCAATGCATGTCCAAGACACGTCTTACACTGGC-TATCTCTTCGA
* * *
76006591 -GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTATCGA
1 GGCCAATGCATGTCCAAGACACGTCTTACACTGGCTATCTCT-TCGA
* *
76006637 GGCCGATGCATGTCCCAA-ACATGTCTTAC
1 GGCCAATGCATGT-CCAAGACACGTCTTAC
76006666 TCTGCCACTT
Statistics
Matches: 92, Mismatches: 22, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
43 5 0.05
44 27 0.29
45 1 0.01
46 1 0.01
47 50 0.54
48 8 0.09
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GGCCAATGCATGTCCAAGACACGTCTTACACTGGCTATCTCTTCGA
Found at i:76006599 original size:91 final size:91
Alignment explanation
Indices: 76006460--76006668 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
76006450 ATGCTTGCTG
* * * *
76006460 ATGCATATCCTAGACATGTCTTTCACTAGCACAACCCTTGGCCAATGCGTGTCCAAGACACGTCT
1 ATGCATGTCCTAGACATGTCTTACTCTAGCACAACCCTTAGCCAATGCGTGTCCAAGACACGTCT
* *
76006525 TACACTGGCTATCTCTGTCGAGGTCA
66 TACACTGGCTATCTCTATCGAGGCCA
* * * *
76006551 ATGCATGTCCTAGACATGTATTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCT
1 ATGCATGTCCTAGACATGTCTTACTCTAGCACAACCCTTAGCCAATGCGTGTCCAAGACACGTCT
*
76006616 TACACTGGCTATCTCTATCGAGGCCG
66 TACACTGGCTATCTCTATCGAGGCCA
* *
76006642 ATGCATGTCCCAAACATGTCTTACTCT
1 ATGCATGTCCTAGACATGTCTTACTCT
76006669 GCCACTTATC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 104 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (91 bp):
ATGCATGTCCTAGACATGTCTTACTCTAGCACAACCCTTAGCCAATGCGTGTCCAAGACACGTCT
TACACTGGCTATCTCTATCGAGGCCA
Found at i:76012845 original size:19 final size:19
Alignment explanation
Indices: 76012821--76012858 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
76012811 CGCTAGGATA
*
76012821 GGGTTCGTGGTGCTACCTG
1 GGGTTCATGGTGCTACCTG
76012840 GGGTTCATGGTGCTACCTG
1 GGGTTCATGGTGCTACCTG
76012859 ACTTAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.21, G:0.39, T:0.32
Consensus pattern (19 bp):
GGGTTCATGGTGCTACCTG
Found at i:76014213 original size:47 final size:45
Alignment explanation
Indices: 76014058--76014415 Score: 273
Period size: 47 Copynumber: 7.7 Consensus size: 45
76014048 GATAAATTGT
* * * *
76014058 CGATGCCATGTCTCAGACATGGACTTACACTGGCTATCATATATGCATGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTAT--AGGC
* * * *
76014108 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTATAGGC
* *
76014152 CAATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATCAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTAT--AGGC
* * * *
76014199 CGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCT-TA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTATAGGC
* * * *
76014243 CGATGCGTGTCCCAGACACGTCTTACACTAGCTATCTCTGTAGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCTC--TATAGGC
* * *
76014290 CGATGCATGTCCCAAACATGTCTTACTCTGGCACTCATCTCTAT--GA
1 CGATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTATAGGC
*
76014336 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTC-T-AT-AGGC
* *
76014384 CGAAGCATGTTCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
76014416 GCACAAATCA
Statistics
Matches: 251, Mismatches: 37, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
43 13 0.05
44 63 0.25
45 5 0.02
46 22 0.09
47 86 0.34
48 36 0.14
49 17 0.07
50 9 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTATAGGC
Found at i:76014221 original size:91 final size:90
Alignment explanation
Indices: 76014058--76014412 Score: 376
Period size: 91 Copynumber: 3.8 Consensus size: 90
76014048 GATAAATTGT
* * * * * * *
76014058 CGATGCCATGTCTCAGACATGGACTTACACTGGCTATCATATATGCATGCTGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATC-TCTAT-AAGGCCGATGCATGTCCCAG
76014123 ACATGTCTTACACTAGCACAACTCTTAGC
62 ACATGTCTTACACTAGCACAACTCTTAGC
*
76014152 CAATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATCAAGGCCGATGCATGTCCCAGACA
1 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTAT-AAGGCCGATGCATGTCCCAGACA
*
76014217 TGTCTTACTCTAGCACAACTCTTAGC
65 TGTCTTACACTAGCACAACTCTTAGC
* * * *
76014243 CGATGCGTGTCCCAGACACGTCTTACACTAGCTATCTCTGTAGAGGCCGATGCATGTCCCAAACA
1 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATA-AGGCCGATGCATGTCCCAGACA
* * * *
76014308 TGTCTTACTCTGGCAC-TCATCTCTATGA
65 TGTCTTACACTAGCACAAC-TCT-TA-GC
* * *
76014336 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-ATAATGTGGCCGAAGCATGTTCCA
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCTCTATAA---GGCCGATGCATGTCCCA
76014398 GACATGTCTTACACT
61 GACATGTCTTACACT
76014413 GGCGCACAAA
Statistics
Matches: 226, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
90 2 0.01
91 126 0.56
92 20 0.09
93 22 0.10
94 44 0.19
95 12 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (90 bp):
CGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATAAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACAACTCTTAGC
Found at i:76017174 original size:19 final size:19
Alignment explanation
Indices: 76017152--76017214 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
76017142 AGAGAAATAT
76017152 TAATTTTAATAGTAAATGG
1 TAATTTTAATAGTAAATGG
* * **
76017171 TAATTATGAGAGAG-AAATAT
1 TAATT-TTA-ATAGTAAATGG
*
76017191 TAATTTTAGTAGTAAATGG
1 TAATTTTAATAGTAAATGG
76017210 TAATT
1 TAATT
76017215 ATATCCTACT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 11 0.34
21 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (19 bp):
TAATTTTAATAGTAAATGG
Found at i:76017192 original size:39 final size:39
Alignment explanation
Indices: 76017139--76017216 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
76017129 TGAATTTTGA
76017139 GAGAGAGAAATATTAATTTTAATAGTAAATGGTAATTAT
1 GAGAGAGAAATATTAATTTTAATAGTAAATGGTAATTAT
*
76017178 GAGAGAGAAATATTAATTTTAGTAGTAAATGGTAATTAT
1 GAGAGAGAAATATTAATTTTAATAGTAAATGGTAATTAT
76017217 ATCCTACTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (39 bp):
GAGAGAGAAATATTAATTTTAATAGTAAATGGTAATTAT
Found at i:76017693 original size:22 final size:23
Alignment explanation
Indices: 76017663--76017708 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
76017653 ATATGTATCA
*
76017663 TAATATATATAAAGATTTTAAAT
1 TAATATATATAAACATTTTAAAT
*
76017686 TAAT-TATATAATCATTTTAAAT
1 TAATATATATAAACATTTTAAAT
76017708 T
1 T
76017709 TATTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATATATATAAACATTTTAAAT
Found at i:76027153 original size:20 final size:19
Alignment explanation
Indices: 76027124--76027161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
76027114 CATGGATGTA
76027124 TTATGCTAGAAAATAGAAAT
1 TTATGCTAGAAAAT-GAAAT
*
76027144 TTATGGTAGAAAATGAAA
1 TTATGCTAGAAAATGAAA
76027162 GATTATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (19 bp):
TTATGCTAGAAAATGAAAT
Found at i:76027167 original size:20 final size:20
Alignment explanation
Indices: 76027123--76027167 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
76027113 TCATGGATGT
76027123 ATTATGCTAGAAAATAGAAA
1 ATTATGCTAGAAAATAGAAA
* *
76027143 TTTATGGTAGAAAAT-GAAA
1 ATTATGCTAGAAAATAGAAA
76027162 GATTAT
1 -ATTAT
76027168 TGATAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (20 bp):
ATTATGCTAGAAAATAGAAA
Found at i:76028984 original size:53 final size:52
Alignment explanation
Indices: 76028897--76029068 Score: 161
Period size: 52 Copynumber: 3.2 Consensus size: 52
76028887 CATGGTCTTA
* * * * *
76028897 CACAGATCACATAACATACAGATGCCATATCCCAGATATGGTCTTATACGGAAT
1 CACATATCACAT--CATACCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAT
76028951 CACATTATCACATCATACCGAAGCCATAGCCCAGCTATGGTCTTATACGGGAACT
1 CACA-TATCACATCATACCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAA-T
* ** * * * *
76029006 C-GA-ATCACATTGTACC-AATTCCATAGCCCAGCTATGGCCTTATACAGAAG
1 CACATATCACATCATACCGAA-GCCATAGCCCAGCTATGGTCTTATACGGAAT
76029056 CACATATCACATC
1 CACATATCACATC
76029069 TTTTCCGTCA
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
50 1 0.01
51 6 0.06
52 42 0.43
53 31 0.32
54 9 0.09
55 9 0.09
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (52 bp):
CACATATCACATCATACCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAT
Found at i:76034206 original size:20 final size:20
Alignment explanation
Indices: 76034181--76034220 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
76034171 TAATTTTAGG
76034181 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
76034201 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
76034221 TACAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:76034977 original size:17 final size:18
Alignment explanation
Indices: 76034946--76034979 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
76034936 TTTTCCTCAT
76034946 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
76034964 TTTAATTT-TGCAATTT
1 TTTAATTTCTGCAATTT
76034980 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:76040400 original size:43 final size:43
Alignment explanation
Indices: 76040334--76040453 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
76040324 TATATTAGTG
* * *
76040334 GCGCTTTCCCTACAAACGTCGCTAAAGAACATGACCTTTAGCA
1 GCGCTTTCCCCACAAATGCCGCTAAAGAACATGACCTTTAGCA
*
76040377 GCGCTTTCCCCACAAATGCCGCTAAAGAACATGACCTTTAGCG
1 GCGCTTTCCCCACAAATGCCGCTAAAGAACATGACCTTTAGCA
* * *
76040420 GCACTTT-CCCAAAAATGCCGCTAAAAAACATGAC
1 GCGCTTTCCCCACAAATGCCGCTAAAGAACATGAC
76040454 TAAAGAACCT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 25 0.36
43 45 0.64
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
GCGCTTTCCCCACAAATGCCGCTAAAGAACATGACCTTTAGCA
Found at i:76041197 original size:23 final size:23
Alignment explanation
Indices: 76041160--76041827 Score: 385
Period size: 23 Copynumber: 29.2 Consensus size: 23
76041150 TTTGCAGTAC
* *
76041160 TTAAAAACTTTAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* *
76041183 TTAAACACTCCAATTTGCAGCACA-
1 TTAAACACTTCAATTTACA--ACAT
*
76041207 TT-AACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTACAACA-T
*
76041230 TT-AACACTTCAATTTACAGCACT
1 TTAAACACTTCAATTTACAACA-T
*
76041253 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* * * *
76041275 TTATACTCCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAAC-AT
* * * *
76041297 TAAAACA-TCTCAATTTCCATCAA
1 TTAAACACT-TCAATTTACAACAT
* ** ** *
76041320 CTAAACACTTCAATTTGTAGTAC
1 TTAAACACTTCAATTTACAACAT
76041343 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
76041366 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* ** *
76041389 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAACA-T
*
76041413 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* * *
76041435 TTAAACACTTTAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
*
76041459 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* * *
76041481 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAAC-AT
* * *
76041503 TAAAACA-TCTCAATTTCCAACAA
1 TTAAACACT-TCAATTTACAACAT
* * **
76041526 CTAAACCCTTCAATTTGTAGTAC-T
1 TTAAACACTTCAA-TT-TACAACAT
* *
76041550 TAAAACACTTCAATTTAAAACAT
1 TTAAACACTTCAATTTACAACAT
* *
76041573 TTAAGCACTTCAATTTATAACAT
1 TTAAACACTTCAATTTACAACAT
*
76041596 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
76041619 TT-AACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAACAT
* * *
76041641 TTTAACA-TTCCAATTTGCAGCACT
1 TTAAACACTT-CAATTTACAACA-T
*
76041665 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
76041687 TTAAACACTTCAATTTGCTGTAC-T
1 TTAAACACTTCAATTTAC--AACAT
*
76041711 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* * *
76041733 TTATACACCTCAA-TTACAATGA-
1 TTAAACACTTCAATTTACAA-CAT
* * * *
76041755 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTACAACAT
* ** *
76041778 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTACAACAT
*
76041801 TTAAACACTTCAATTTACAATAT
1 TTAAACACTTCAATTTACAACAT
76041824 TTAA
1 TTAA
76041828 TGTAACGCCC
Statistics
Matches: 504, Mismatches: 99, Indels: 84
0.73 0.14 0.12
Matches are distributed among these distances:
21 5 0.01
22 89 0.18
23 373 0.74
24 30 0.06
25 7 0.01
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAACAT
Found at i:76041478 original size:115 final size:114
Alignment explanation
Indices: 76041138--76041702 Score: 424
Period size: 115 Copynumber: 4.9 Consensus size: 114
76041128 TTTCAGCAAC
* * * * * * * *
76041138 TAAACAATTCAATTTGCAGTACTTAAAAACTTTAATTTACAACA-TTTAAACACTCCAATTTGCA
1 TAAACACTTCAATTTACAGCA-TTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCA
* * * *
76041202 GCACATT-AACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCACTT
64 GCACTTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAACA-TT
* * * * * * ** *
76041254 T-AACA-TCTCAATTAACAACATTTATACTCCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTC
1 TAAACACT-TCAATTTACAGCA-TTAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATTTG
* ** * *
76041314 CATCAAC--TAAACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATT
62 CAGC-ACTTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAACATT
* * *
76041367 TAAACACTTCAATTTACAACATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTACAG
1 TAAACACTTCAATTTACAGCATT-AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAG
* * *
76041432 CA-TTTAAACACTTTAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
65 CACTTTAAACACTTCAATTTACAGCA-TTTAACACT-TCAATTTACAACATT
* * * * * * * *
76041482 TATACACCTCAA-TTACAGCGATAAAACA-TCTCAATTTCCAACAAC-TAAACCCTTCAATTTGT
1 TAAACACTTCAATTTACAGC-ATTAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATTTGC
* * * * *
76041544 AGTACTTAAAACACTTCAATTTAAAACATTTAAGCACTTCAATTTATAACATT
63 AGCACTTTAAACACTTCAATTTACAGCATTTAA-CACTTCAATTTACAACATT
* *
76041597 TAAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCATTTTAACA-TTCCAATTTGCAG
1 TAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAGCACTTTAACACTT-CAATTTGCAG
76041661 CACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATTT
65 CACTTTAAACACTTCAATTTACAGCATTT-AACACTTCAATTT
76041703 GCTGTACTTT
Statistics
Matches: 355, Mismatches: 69, Indels: 52
0.75 0.14 0.11
Matches are distributed among these distances:
113 8 0.02
114 159 0.45
115 177 0.50
116 11 0.03
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (114 bp):
TAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGC
ACTTTAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAACATT
Found at i:76041499 original size:206 final size:206
Alignment explanation
Indices: 76041160--76041701 Score: 822
Period size: 206 Copynumber: 2.6 Consensus size: 206
76041150 TTTGCAGTAC
* * * *
76041160 TTAAAAACTTTAATTTACAACATTTAAACACTCCAATTTGCAGCACATTAACACTTCAATTTGCA
1 TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCA
* * *
76041225 ACACTTTAACACTTCAATTTACAGCACTTTAACATCTCAATTAACAACATTTATACTCCTCAATT
66 GCA-TTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
*
76041290 ACAGCGATAAAACATCTCAATTTCCATCAACTAAACACTTCAATTTGTAGTACTT-AAACACTTC
130 ACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTCAATTTGTAGTACTTAAAACACTTC
*
76041354 AATTTACAACAT
195 AATTTAAAACAT
* * *
76041366 TTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTACA
1 TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCA
*
76041431 GCATTTAAACACTTTAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
66 GCATTT-AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
*
76041496 ACAGCGATAAAACATCTCAATTTCCAACAACTAAACCCTTCAATTTGTAGTACTTAAAACACTTC
130 ACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTCAATTTGTAGTACTTAAAACACTTC
76041561 AATTTAAAACAT
195 AATTTAAAACAT
* * *
76041573 TTAAGCACTTCAATTTATAACATTTAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTGCA
1 TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCA
* * * *
76041637 GCATTTTAACA-TTCCAATTTGCAGCACTTTAACA-CTTCAATTTACAGCATTTAAACACTTCAA
66 GCA-TTTAACACTT-CAATTTGCAGCACTTTAACATC-TCAATTAACAACATTTATACACCTCAA
76041700 TT
128 TT
76041702 TGCTGTACTT
Statistics
Matches: 306, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
205 6 0.02
206 237 0.77
207 63 0.21
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (206 bp):
TTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCA
GCATTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
CAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTCAATTTGTAGTACTTAAAACACTTCA
ATTTAAAACAT
Found at i:76042198 original size:26 final size:26
Alignment explanation
Indices: 76042161--76042244 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
76042151 TGATACAAAT
* *
76042161 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76042187 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76042213 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76042239 TGATAA
1 TGATAA
76042245 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:76043913 original size:28 final size:26
Alignment explanation
Indices: 76043844--76043930 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
76043834 TGGAGGAAGC
* *
76043844 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
76043871 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
76043898 GTATCTGGTGACTCTGTCACATTAT-T
1 GT-TCTGGTGGCTCTGCCACATTATCT
76043924 GTTCTGG
1 GTTCTGG
76043931 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 5 0.09
26 3 0.06
27 31 0.57
28 15 0.28
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:76047883 original size:26 final size:26
Alignment explanation
Indices: 76047847--76047956 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
76047837 TGATACAAAT
76047847 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
76047873 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
76047899 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
76047925 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
76047951 TGATAA
1 TGATAA
76047957 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:76049635 original size:28 final size:26
Alignment explanation
Indices: 76049570--76049653 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
76049560 GGAAGCGTTT
* *
76049570 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
76049597 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* * *
76049625 TGGTGACTCTGTCACATTATTTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
76049651 TGG
1 TGG
76049654 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.10
27 30 0.60
28 15 0.30
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:76050586 original size:23 final size:23
Alignment explanation
Indices: 76050560--76050753 Score: 189
Period size: 23 Copynumber: 8.5 Consensus size: 23
76050550 TTGGGGTGCT
*
76050560 ACATTTAAGCACTTCAATTTACA
1 ACATTTAAACACTTCAATTTACA
*
76050583 ACATTTAAACATTTCAATTTACA
1 ACATTTAAACACTTCAATTTACA
* *
76050606 ACACTTT-AGCA-TCTCAATTAACA
1 ACA-TTTAAACACT-TCAATTTACA
* *
76050629 ACATTTATACACCTCAA-TTACA
1 ACATTTAAACACTTCAATTTACA
* * *
76050651 ACAATAAAACA-TCTCAATTTCCA
1 ACATTTAAACACT-TCAATTTACA
* ** *
76050674 GCAACTAAACACTTCAATTTGCA
1 ACATTTAAACACTTCAATTTACA
*
76050697 ATATTTAAACACTTCAATTTACA
1 ACATTTAAACACTTCAATTTACA
*
76050720 GCATTTAAACACTTCAATTTACA
1 ACATTTAAACACTTCAATTTACA
*
76050743 GCATTTAAACA
1 ACATTTAAACA
76050754 GCAGTAACCA
Statistics
Matches: 140, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
22 20 0.14
23 116 0.83
24 4 0.03
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (23 bp):
ACATTTAAACACTTCAATTTACA
Found at i:76054936 original size:3 final size:3
Alignment explanation
Indices: 76054930--76054982 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
76054920 TTTTTCTCTT
76054930 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
76054978 TTA TT
1 TTA TT
76054983 TACTAAAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:76055381 original size:43 final size:43
Alignment explanation
Indices: 76055319--76055419 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
76055309 TAGGATTTTG
* *
76055319 TATTTAAGGGTTTAAGGGTTT-AGTGTCTATA-GTTTAGTGTTTTAT
1 TATTT-AGGATTT-AGGGTTTAAG-GTCTA-AGGTTTAGAGTTTTAT
*
76055364 TATTTAGGATTTAGGGTTTAAGGTTTAAGGTTTAGAGTTTTAT
1 TATTTAGGATTTAGGGTTTAAGGTCTAAGGTTTAGAGTTTTAT
* *
76055407 GATTTATGATTTA
1 TATTTAGGATTTA
76055420 TGATTTATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 35 0.71
44 8 0.16
45 5 0.10
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (43 bp):
TATTTAGGATTTAGGGTTTAAGGTCTAAGGTTTAGAGTTTTAT
Found at i:76055440 original size:14 final size:14
Alignment explanation
Indices: 76055402--76055432 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76055392 GGTTTAGAGT
76055402 TTTATGATTTATGA
1 TTTATGATTTATGA
76055416 TTTATGATTTATGA
1 TTTATGATTTATGA
76055430 TTT
1 TTT
76055433 TGTATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTATGATTTATGA
Found at i:76055942 original size:40 final size:40
Alignment explanation
Indices: 76055860--76056012 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
76055850 TTGCGGCATC
*
76055860 TTTTAGAAAGCGCCAG-TAATGCTCGATTCTATAGCGGCGTT
1 TTTTAAAAAGCGCC-GCTAATGCTCGA-TCTATAGCGGCGTT
* *
76055901 TTTTAAAAAGCGCCGCTAATGCTAGATCTATAGCGGTGTT
1 TTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTT
* * *
76055941 TTTTAAAAAGTGCCGCTAATACTCGATCTAAAGCGGCGTT
1 TTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTT
** *
76055981 TTTTAAAAAATGCTGCTAATGCTCGATCTATA
1 TTTTAAAAAGCGCCGCTAATGCTCGATCTATA
76056013 ACGACCTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
40 77 0.78
41 22 0.22
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
TTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTT
Found at i:76060858 original size:43 final size:43
Alignment explanation
Indices: 76060792--76060877 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
76060782 AAATTGTACA
* *
76060792 ATGCCAATGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATCTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
*
76060835 ATGCCACTCTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAATCTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
76060878 GAATCACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 36 0.95
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATCTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:76070551 original size:15 final size:16
Alignment explanation
Indices: 76070533--76070562 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
76070523 AAAAGTAATA
76070533 AAGAAAT-AATAAAAT
1 AAGAAATAAATAAAAT
76070548 AAGAAATAAATAAAA
1 AAGAAATAAATAAAA
76070563 ATATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AAGAAATAAATAAAAT
Found at i:76070575 original size:35 final size:34
Alignment explanation
Indices: 76070536--76070617 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
76070526 AGTAATAAAG
*
76070536 AAATAATAAAATAAGAAATAAATAA-AAATATTAAT
1 AAATAATAAAATAAGAAAT-AATAAGAAA-ATGAAT
* * *
76070571 AAATAATACTAATAAGGAATAATAAGGAAATGAAT
1 AAATAATA-AAATAAGAAATAATAAGAAAATGAAT
76070606 AAATAAATAAAA
1 AAAT-AATAAAA
76070618 ATGGAGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 24 0.62
36 15 0.38
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (34 bp):
AAATAATAAAATAAGAAATAATAAGAAAATGAAT
Found at i:76073337 original size:17 final size:17
Alignment explanation
Indices: 76073312--76073348 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
76073302 ATGGTCAGTG
*
76073312 TAAATGACAACTCTAGA
1 TAAACGACAACTCTAGA
76073329 TAAACGACAACTCTAGA
1 TAAACGACAACTCTAGA
76073346 TAA
1 TAA
76073349 TATTAGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.22
Consensus pattern (17 bp):
TAAACGACAACTCTAGA
Found at i:76094428 original size:21 final size:21
Alignment explanation
Indices: 76094402--76094521 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
76094392 ATGTTTTACT
*
76094402 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTTAGCTCTTACGAGC
* *
76094423 TTCTGTTCATCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * *
76094444 TTCTGTTCATCTCTTACGAGT
1 TTCTGTTTAGCTCTTACGAGC
* *
76094465 TTTTGTTTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
76094486 TTCTGTTTAACACTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
* *
76094507 TTCAGTTCAGCTCTT
1 TTCTGTTTAGCTCTT
76094522 GTTAGCTTCT
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:76094507 original size:42 final size:42
Alignment explanation
Indices: 76094418--76094534 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
76094408 TTAGCTCTTT
* * * * * *
76094418 CGAGCTTCTGTTCATCTCTTACGAGCTTCTGTTCATCTCTTA
1 CGAGTTTCAGTTCAGCTCTTATGAGCTTCTGTTCAACACTTA
** * *
76094460 CGAGTTTTTGTTTAGCTCTTATGAGCTTCTGTTTAACACTTA
1 CGAGTTTCAGTTCAGCTCTTATGAGCTTCTGTTCAACACTTA
* * *
76094502 TGAGTTTCAGTTCAGCTCTTGTTAGCTTCTGTT
1 CGAGTTTCAGTTCAGCTCTTATGAGCTTCTGTT
76094535 GGCATATTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (42 bp):
CGAGTTTCAGTTCAGCTCTTATGAGCTTCTGTTCAACACTTA
Found at i:76104620 original size:20 final size:19
Alignment explanation
Indices: 76104567--76104620 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
76104557 AATTCTTTAC
*
76104567 AAAAAATTAAATAAAATCA
1 AAAAAAATAAATAAAATCA
* *
76104586 AAATAAAATATATAAAATTA
1 AAA-AAAATAAATAAAATCA
*
76104606 TAAAAAATCAAATAA
1 AAAAAAAT-AAATAA
76104621 CTTTAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAATAAAATCA
Found at i:76107158 original size:22 final size:21
Alignment explanation
Indices: 76107133--76107173 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
76107123 CTGCAAAGAA
*
76107133 ACAAACAAACACAACAGCAAGG
1 ACAAACAAAAACAA-AGCAAGG
*
76107155 ACAAGCAAAAACAAAGCAA
1 ACAAACAAAAACAAAGCAA
76107174 AAAAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.63, C:0.24, G:0.12, T:0.00
Consensus pattern (21 bp):
ACAAACAAAAACAAAGCAAGG
Found at i:76107182 original size:16 final size:18
Alignment explanation
Indices: 76107161--76107197 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
76107151 AAGGACAAGC
76107161 AAAAACA-AAGCAAA-AA
1 AAAAACAGAAGCAAAGAA
*
76107177 AAAAACAGCAGCAAAGAA
1 AAAAACAGAAGCAAAGAA
76107195 AAA
1 AAA
76107198 GAACGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.76, C:0.14, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAACAGAAGCAAAGAA
Found at i:76109648 original size:132 final size:132
Alignment explanation
Indices: 76109409--76110063 Score: 588
Period size: 132 Copynumber: 4.9 Consensus size: 132
76109399 TAAGTATTCA
* * * * * *
76109409 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCCCGGAATAGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAG-TTCGATGTTTGGCAATT-CGGGAATCGTGCCCTAT
* * *
76109473 CGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC-GT
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCAGT
*
76109537 GCCT
129 GTCT
* * * *
76109541 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGCGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATC
* * * *
76109606 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTTGAAATTTCACTCAG-G
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCAGTG
76109670 TCT
130 TCT
* * * * * * * *
76109673 TCTAAAAATCCTTTAAAACGAAGGCAATA-CTCGGTGTTTGACAATTTGGGGATCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATC
** * ** * ** *
76109737 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAATAATCGAACGTTCCTTTAAGTTTTCATTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCA-GT
* *
76109802 TTTT
129 GTCT
** * * ** * *
76109806 TTTAAGAAAACCCTTTAAAACAAATGTGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTAT
1 TTT-A-AAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
** * * ** * *
76109871 CGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTTAGAATTTCACTCA-T
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCAGT
76109935 GT-T
129 GTCT
* * *
76109938 TTCTAAAAACTCTTGAAAACGGAA-G-AAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCT
1 TT-TAAAAATTCTTTAAAAC-GAAGGCAAA-GTTCGATGTTTGGCAATTC-GGGAATCGTGCCCT
** * * * **
76110001 ATCGTGCTGGGTTGCAATCCCCCGTTTGTTCAAAATAATCGAATGTCTCTTCGAAATTTCACT
62 ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACT
76110064 TGTATTTTCT
Statistics
Matches: 422, Mismatches: 88, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
130 1 0.00
131 97 0.23
132 218 0.52
133 11 0.03
134 1 0.00
135 94 0.22
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCAGTGT
CT
Found at i:76111620 original size:19 final size:19
Alignment explanation
Indices: 76111596--76111645 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
76111586 CTCCTTTTCC
76111596 TTTGCATT-CATCACATGCA
1 TTTGCATTGCATCACAT-CA
**
76111615 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCACATCA
76111634 TTTGCATTGCAT
1 TTTGCATTGCAT
76111646 TGCATCGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (19 bp):
TTTGCATTGCATCACATCA
Found at i:76111624 original size:24 final size:24
Alignment explanation
Indices: 76111597--76111657 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
76111587 TCCTTTTCCT
76111597 TTGCATT-CATCACATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
76111621 TTGCATTGCATCATTTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
*
76111645 TTGCATCGCATCA
1 TTGCATTGCATCA
76111658 TTTGCATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 24 0.73
25 9 0.27
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:76111658 original size:24 final size:24
Alignment explanation
Indices: 76111611--76111665 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 24
76111601 ATTCATCACA
*
76111611 TGCATTTGCATTGCATTGCATCATT
1 TGCA-TTGCATTGCATCGCATCATT
76111636 TGCATTGCATTGCATCGCATCATT
1 TGCATTGCATTGCATCGCATCATT
76111660 TGCATT
1 TGCATT
76111666 AAATTTCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (24 bp):
TGCATTGCATTGCATCGCATCATT
Found at i:76111665 original size:19 final size:19
Alignment explanation
Indices: 76111613--76111651 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
76111603 TCATCACATG
76111613 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
76111632 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
76111651 C
1 C
76111652 GCATCATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:76114238 original size:15 final size:14
Alignment explanation
Indices: 76114218--76114295 Score: 86
Period size: 15 Copynumber: 5.3 Consensus size: 14
76114208 GATCTTCAAA
76114218 AAAAAGAAGAAGAAG
1 AAAAAGAAGAA-AAG
*
76114233 AAAAAGAATAAAAG
1 AAAAAGAAGAAAAG
*
76114247 -AAAAGAAAAGAAAG
1 AAAAAGAAGA-AAAG
76114261 AAATAAAGAAGAAAAAG
1 -AA-AAAGAAG-AAAAG
76114278 AAAAAGAAGAAAAG
1 AAAAAGAAGAAAAG
76114292 AAAA
1 AAAA
76114296 GAAAAGGAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
13 8 0.15
14 16 0.29
15 17 0.31
16 3 0.05
17 10 0.18
18 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAAGAAGAAAAG
Found at i:76114252 original size:5 final size:5
Alignment explanation
Indices: 76114224--76114301 Score: 65
Period size: 5 Copynumber: 15.6 Consensus size: 5
76114214 CAAAAAAAAG
* *
76114224 AAGAA GAAGAA AA-AG AATAA AAGAA AAGAA AAG-A AAGAA ATA-AA GAAGAAA
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A-AGAA -AAG-AA
*
76114275 AAGAA AA-AG AAGAA AAGAA AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
76114302 GAGAGGCCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
4 10 0.17
5 38 0.63
6 10 0.17
7 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:76114270 original size:8 final size:8
Alignment explanation
Indices: 76114216--76114300 Score: 62
Period size: 9 Copynumber: 9.5 Consensus size: 8
76114206 GAGATCTTCA
76114216 AAAAAAAG
1 AAAAAAAG
*
76114224 AAGAAGAAG
1 AA-AAAAAG
*
76114233 AAAAAGAATA
1 AAAAA-AA-G
76114243 AAAGAAAAG
1 AAA-AAAAG
76114252 AAAAGAAAG
1 AAAA-AAAG
*
76114261 AAATAAAG
1 AAAAAAAG
76114269 AAGAAAAAG
1 AA-AAAAAG
76114278 AAAAAGAAG
1 AAAAA-AAG
76114287 AAAAGAAAAG
1 -AAA-AAAAG
76114297 AAAA
1 AAAA
76114301 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
8 15 0.24
9 32 0.52
10 11 0.18
11 4 0.06
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:76115592 original size:44 final size:44
Alignment explanation
Indices: 76115536--76116523 Score: 1384
Period size: 44 Copynumber: 22.4 Consensus size: 44
76115526 AGCAGATAAT
* *
76115536 AGATTTGGCGTCTCTGTAACGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
76115580 AGATTTGGCGTCTCTGTAGTGGCGAAGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * ** * *
76115624 AGATTTGACGTCTCTTTAGCGGTAGAGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * *
76115668 AGATTTGGCGTCTCTGTAGTGGCAGAAAGTAGATCGAATATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76115712 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76115756 AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* ** * * *
76115800 AGATTTGGCATCTCTGTATTAGGCGGGGAGTAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTA-GCGGCGGAGAGCAGATCGAAGATAGC
* * *
76115845 AGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAATATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76115889 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * **
76115933 AGATTTGGCATCTCTATAGCGGCAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
76115977 AGATTTAGCGTCTTTGTAGCGGCGAAGAGCAGATCGAAG-TAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * * * *
76116020 AGATTTGGCATCACTATATCAAGCGGGGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAGC
76116065 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
76116109 AGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
76116153 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
76116197 AGCTTTGGCTTCTCTGTAGCGGCGGAGAACAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * * *
76116241 AGATTTGGCATCTCTGTATCAGGTGGGGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAGC
76116286 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76116330 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
76116374 AGATTTGGCGTCTTTGTAACGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76116418 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76116462 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATTGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76116506 AGATTTGGCATCTCTGTA
1 AGATTTGGCGTCTCTGTA
76116524 TTGGCAGGGG
Statistics
Matches: 835, Mismatches: 105, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
43 18 0.02
44 725 0.87
45 92 0.11
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
Found at i:76116377 original size:441 final size:441
Alignment explanation
Indices: 76115536--76116523 Score: 1566
Period size: 441 Copynumber: 2.2 Consensus size: 441
76115526 AGCAGATAAT
*
76115536 AGATTTGGCGTCTCTGTAACGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGT-
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTA-TC
* * * * * *
76115600 GGCGAAGAGCAAATCGAAGATAACAGATTTGACGTCTCTTTAGCGGTAGAGAGTAGATCGAAGAT
65 GGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* * * *
76115665 AGTAGATTTGGCGTCTCTGTAGTGGCAGAAAGTAGATCGAATATAGCAGATTTGGCGTCTCTGTA
130 AGCAGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
*
76115730 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAG
195 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAACAGATCGAAG
* * *
76115795 ATAGCAGATTTGGCATCTCTGTATTAGGCGGGGAGTAGATCGAAGATAACAGATTTGGCGTCTCC
260 ATAGCAGATTTGGCATCTCTGTATCAGGCGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCC
*
76115860 GTAGCGGCGGAGAGCAGATCGAATATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
325 GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
76115925 AAGATAACAGATTTGGCATCTCTATAGCGGCAAAGAGCAGATCGAAGATAGC
390 AAGATAACAGATTTGGCATCTCTATAACGGCAAAGAGCAGATCGAAGATAGC
* * * * *
76115977 AGATTTAGCGTCTTTGTAGCGGCGAAGAGCAGATCGAAG-TAGCAGATTTGGCATCACTATATCA
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATC-
* * *
76116041 AGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
65 GGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
*
76116106 AGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
130 AGCAGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
* * *
76116171 GCGGCGGAGAGCAGATCGAAGATAGCAGCTTTGGCTTCTCTGTAGCGGCGGAGAACAGATCGAAG
195 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAACAGATCGAAG
* * *
76116236 ATAGTAGATTTGGCATCTCTGTATCAGGTGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCT
260 ATAGCAGATTTGGCATCTCTGTATCAGGCGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCC
*
76116301 GTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
325 GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * **
76116366 AAGATAACAGATTTGGCGTCTTTGTAACGGCGGAGAGCAGATCGAAGATAGC
390 AAGATAACAGATTTGGCATCTCTATAACGGCAAAGAGCAGATCGAAGATAGC
*
76116418 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCG
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCG
* * *
76116483 GCGGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
76116524 TTGGCAGGGG
Statistics
Matches: 495, Mismatches: 49, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
439 1 0.00
440 19 0.04
441 455 0.92
442 20 0.04
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (441 bp):
AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCG
GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATA
GCAGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAACAGATCGAAGA
TAGCAGATTTGGCATCTCTGTATCAGGCGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCCG
TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
AGATAACAGATTTGGCATCTCTATAACGGCAAAGAGCAGATCGAAGATAGC
Found at i:76119714 original size:131 final size:131
Alignment explanation
Indices: 76119476--76120132 Score: 570
Period size: 131 Copynumber: 5.0 Consensus size: 131
76119466 TAAGTATTCA
* * * * * *
76119476 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCCCAGAATAGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAG-TTCGATGTTTGGCAATTCGC-GAATCGTGCCCTAT
* * *
76119540 CGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCGTG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTG
*
76119605 CCT
129 TCT
* * * *
76119608 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGAATCGCGCCCTAACG
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGCGAATCGTGCCCTATCG
* * * *
76119673 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTTGAAATTTCACTCAG-GT
66 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTC-GTGT
76119737 CT
130 CT
* * * * * * * * *
76119739 TCTAAAAATCCTTTAAAACGAAGGCAATA-CTCGGTGTTTGACAATTTGGGGATCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTCGATGTTTGGCAATTCGCGAATCGTGCCCTATC
** * ** * ** *
76119803 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAATAATCGAACGTTCCTTTAAGTTTTCATTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTC--GT
* *
76119868 TTTT
128 GTCT
** * * ** * *
76119872 TTTAAGAAAACCCTTTAAAACAAATGTGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTAT
1 TTT-A-AAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGCGAATCGTGCCCTAT
** * * ** * * *
76119937 CGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTTAGAATTTCACTCATG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTG
76120002 T-T
129 TCT
* * * *
76120004 TTCTAAAAACTCTTGAAAACGGAA-G-AAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCT
1 TT-TAAAAATTCTTTAAAAC-GAAGGCAAA-GTTCGATGTTTGGCAATTC-GCGAATCGTGCCCT
** * * * **
76120067 ATCGTGCTGGGTTGCAATCCCCCGTTTGTTCAAAATAATCGAATGTCTCTTCGAAATTTCACTCG
62 ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCG
76120132 T
127 T
76120133 ATTTTCTAAG
Statistics
Matches: 421, Mismatches: 92, Indels: 24
0.78 0.17 0.04
Matches are distributed among these distances:
130 1 0.00
131 204 0.48
132 113 0.27
133 9 0.02
134 1 0.00
135 93 0.22
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGCGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTGTC
T
Found at i:76121688 original size:19 final size:19
Alignment explanation
Indices: 76121664--76121710 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
76121654 CTTCTTTTCC
76121664 TTTGCATT-CATCACATGCA
1 TTTGCATTGCATCACAT-CA
**
76121683 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCACATCA
76121702 TTTGCATTG
1 TTTGCATTG
76121711 TATTGCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCACATCA
Found at i:76121692 original size:24 final size:24
Alignment explanation
Indices: 76121665--76121725 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
76121655 TTCTTTTCCT
76121665 TTGCATT-CATCACATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
** *
76121689 TTGCATTGCATCATTTGCATTGTA
1 TTGCATTGCATCACATGCATTGCA
*
76121713 TTGCATCGCATCA
1 TTGCATTGCATCA
76121726 TTTGCATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:76121715 original size:19 final size:19
Alignment explanation
Indices: 76121681--76121719 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
76121671 TCATCACATG
76121681 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
*
76121700 CATTTGCATTGTATTGCAT
1 CATTTGCATTGCATTGCAT
76121719 C
1 C
76121720 GCATCATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:76121726 original size:24 final size:24
Alignment explanation
Indices: 76121679--76121733 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
76121669 ATTCATCACA
*
76121679 TGCATTTGCATTGCATTGCATCATT
1 TGCA-TTGCATTGCATCGCATCATT
*
76121704 TGCATTGTATTGCATCGCATCATT
1 TGCATTGCATTGCATCGCATCATT
76121728 TGCATT
1 TGCATT
76121734 AAATTTCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (24 bp):
TGCATTGCATTGCATCGCATCATT
Found at i:76124304 original size:15 final size:14
Alignment explanation
Indices: 76124279--76124361 Score: 96
Period size: 15 Copynumber: 5.6 Consensus size: 14
76124269 TGAGATCTTC
*
76124279 AAAAAAAAAAGAAG
1 AAAAGAAAAAGAAG
76124293 AAGAAGAAAAAGAAG
1 AA-AAGAAAAAGAAG
*
76124308 AAAAG-AAAAGAAA
1 AAAAGAAAAAGAAG
76124321 AGAAAGAAATAAAGAAG
1 A-AAAG-AA-AAAGAAG
76124338 AAAAAGAAAAAGAAG
1 -AAAAGAAAAAGAAG
76124353 AAAAGAAAA
1 AAAAGAAAA
76124362 GAAAAGGAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
13 8 0.13
14 18 0.30
15 20 0.33
16 3 0.05
17 10 0.17
18 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (14 bp):
AAAAGAAAAAGAAG
Found at i:76124305 original size:9 final size:9
Alignment explanation
Indices: 76124281--76124366 Score: 70
Period size: 9 Copynumber: 9.4 Consensus size: 9
76124271 AGATCTTCAA
*
76124281 AAAAAAAAG
1 AAAAAGAAG
*
76124290 AAGAAGAAG
1 AAAAAGAAG
76124299 AAAAAGAAG
1 AAAAAGAAG
*
76124308 -AAAAGAAA
1 AAAAAGAAG
76124316 AGAAAAGAAAG
1 A-AAAAG-AAG
*
76124327 AAATA-AAG
1 AAAAAGAAG
76124335 AAGAAA-AAG
1 AA-AAAGAAG
76124344 AAAAAGAAG
1 AAAAAGAAG
*
76124353 AAAAGAAAAG
1 AAAA-AGAAG
76124363 AAAA
1 AAAA
76124367 GGAGAGGCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
8 15 0.24
9 29 0.46
10 16 0.25
11 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:76124315 original size:5 final size:5
Alignment explanation
Indices: 76124290--76124367 Score: 74
Period size: 5 Copynumber: 15.6 Consensus size: 5
76124280 AAAAAAAAAG
*
76124290 AAGAA GAAGAA AA-AG AAGAA AAGAA AAGAA AAG-A AAGAA ATA-AA GAAGAAA
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A-AGAA -AAG-AA
*
76124341 AAGAA AA-AG AAGAA AAGAA AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
76124368 GAGAGGCCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
4 10 0.16
5 39 0.64
6 10 0.16
7 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (5 bp):
AAGAA
Found at i:76125658 original size:44 final size:44
Alignment explanation
Indices: 76125602--76126590 Score: 1438
Period size: 44 Copynumber: 22.4 Consensus size: 44
76125592 AGCAGATAAT
* * *
76125602 AGATTTGACGTCTCTGTAACGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * *
76125646 AGATTTGGCGTCTCTATAGTGGCGAAGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
76125690 AGATTTGACGTCTCTTTAGCGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
76125734 AGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAATATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
76125778 AGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76125822 AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * *
76125866 AGATTTGGCATCTCTGTATCAGGCGGGGAGGAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAGC
* *
76125911 AGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
76125955 AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
76125999 AGATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * *
76126043 AGATTTAGCGTCTTTGTAACGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * * *
76126087 AGATTTGGCATCTCTATATCAAGCGGGGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAGC
76126132 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
76126176 AGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
76126220 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* *
76126264 AGCTTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * * * * *
76126308 AGATTTGGCATCTCTGTATCAGGTGGGGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAGC
76126353 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76126397 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
* * *
76126441 AGATTTGGCGTCTTTGTAACAGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76126485 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76126529 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATTGAAGATAGC
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
*
76126573 AGATTTGGCATCTCTGTA
1 AGATTTGGCGTCTCTGTA
76126591 TTGGCAGGGG
Statistics
Matches: 849, Mismatches: 93, Indels: 6
0.90 0.10 0.01
Matches are distributed among these distances:
44 737 0.87
45 112 0.13
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGC
Found at i:76126628 original size:221 final size:221
Alignment explanation
Indices: 76125602--76126590 Score: 1534
Period size: 221 Copynumber: 4.5 Consensus size: 221
76125592 AGCAGATAAT
* * * *
76125602 AGATTTGACGTCTCTGTAACGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGT-
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA-TC
** * * * *
76125666 -GGCGAAGAGCAAATCGAAGATAACAGATTTGACGTCTCTTTAGCGGCAGAGAGCAGATCGAAGA
65 AGGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
* * * *
76125730 TAGCAGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAATATAGCAGATTTGGCGTCTCTGT
130 TAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
* *
76125795 AGCGACGGAGAGCAGATCGAAGATAAC
195 AGCGGCGGAGAGCAGATCGAAGATAGC
* *
76125822 AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
* *
76125887 GGCGGGGAGGAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGAT
66 GGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
* * * * *
76125952 AACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATA
131 AGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
*
76126017 GCGGCGAAGAGCAGATCGAAGATAGC
196 GCGGCGGAGAGCAGATCGAAGATAGC
* * * *
76126043 AGATTTAGCGTCTTTGTAACGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCA
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
*
76126108 AGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
66 GGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
76126173 AGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
131 AGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
76126238 GCGGCGGAGAGCAGATCGAAGATAGC
196 GCGGCGGAGAGCAGATCGAAGATAGC
* * *
76126264 AGCTTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
* *
76126329 GGTGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
66 GGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
* *
76126394 AGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTTTGTA
131 AGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
* *
76126459 ACAGCGGAGAGCAGATCGAAGATAGC
196 GCGGCGGAGAGCAGATCGAAGATAGC
* *
76126485 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGC-
1 AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
* * * *
76126549 GGCGGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTA
66 GGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
76126591 TTGGCAGGGG
Statistics
Matches: 701, Mismatches: 66, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
219 1 0.00
220 92 0.13
221 608 0.87
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (221 bp):
AGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATCA
GGCGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
AGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
GCGGCGGAGAGCAGATCGAAGATAGC
Found at i:76126628 original size:265 final size:263
Alignment explanation
Indices: 76125602--76126611 Score: 1421
Period size: 265 Copynumber: 3.8 Consensus size: 263
76125592 AGCAGATAAT
* * * * * *
76125602 AGATTTGACGTCTCTGTAACGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGTG
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
* * * *
76125667 GCGAAGAGCAAATCGAAGATAACAGATTTGACGTCTCTTTAGCGGC-AGAGAGCAGATCGAAGAT
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGA-AGAGCAGATCGAAGAT
* * * * *
76125731 AGCAGATTTGGCGTCTCTGTAGTGGCAGAAAGCAGATCGAATATAGCAGATTTGGCGTCTCTGTA
130 AGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* *
76125796 GCGAC-GGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
195 TCGGCAGG-G-GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
76125860 GATAGC
258 GATAGC
* * * * *
76125866 AGATTTGGCATCTCTGTATCAGGCGGGGAGGAGATCGAAGATAACAGATTTGGCGTCTCCGTAGC
1 AGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGC
* *
76125931 GGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
65 GGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT
* * * * * * *
76125996 AACAGATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTAGCGTCTTTGTA
130 AGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * * * * * * *
76126061 ACGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCAAGCGGGGAGCAGATCGAA
195 TCGGC-AGGGGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGC-GGCGGAGAGCAGATCGAA
*
76126126 GATAAC
258 GATAGC
*
76126132 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCG
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
* *
76126197 GCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATA
* *
76126262 GCAGCTTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
131 GCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
** * *
76126327 CAGGTGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
196 C-GGCAGGG-GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAG
76126392 ATAGC
259 ATAGC
* * *
76126397 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTTTGTAACA
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
*
76126462 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATA
*
76126527 GCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTAT
131 GCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
* **
76126592 TGGCAGGGGTGGATCGAAGA
196 CGGCAGGGGCAGATCGAAGA
76126612 CATAGTTGAT
Statistics
Matches: 657, Mismatches: 82, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
263 9 0.01
264 22 0.03
265 553 0.84
266 72 0.11
267 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (263 bp):
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATA
GCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
CGGCAGGGGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
AGC
Found at i:76129785 original size:132 final size:131
Alignment explanation
Indices: 76129546--76130203 Score: 572
Period size: 132 Copynumber: 5.0 Consensus size: 131
76129536 TAAGTATTCA
* * * * * * *
76129546 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTTGATATTTGGCAATTCCCGGAATAGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAG-TTCGATGTTTGGCAATT-CGGGAATCGTGCCCTAT
* * *
76129610 CGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCGTG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTG
*
76129675 CCT
129 TCT
* * *
76129678 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATC
* * * *
76129743 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTTGAAATTTCACTCAG-G
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTC-GTG
76129807 TCT
129 TCT
* * * * * * * *
76129810 TCTAAAAATCCTTTAAAACGAAGGCAATA-CTCGGTGTTTGACAATTTGGGGATCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATC
** * ** * ** *
76129874 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAATAATCGAACGTTCCTTTAAGTTTTCATTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTC--GT
* *
76129939 TTTT
128 GTCT
** * * * * *
76129943 TTTAAGAAAACCCTTTAAAACAAATGCGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTAT
1 TTT-A-AAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
** * * ** * * *
76130008 CGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTTAGAATTTCACTCATG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTG
76130073 T-T
129 TCT
* * *
76130075 TTCTAAAAACTCTTGAAAACGGAA-G-AAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCT
1 TT-TAAAAATTCTTTAAAAC-GAAGGCAAA-GTTCGATGTTTGGCAATTC-GGGAATCGTGCCCT
* ** * * * * **
76130138 ATCGTGCTGGGTTGTAATCCCCCGTTTGTTCAAAATAATGGAATGTCTCTTCGAAATTTCACTCG
62 ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCG
76130203 T
127 T
76130204 ATTTTCTAAG
Statistics
Matches: 424, Mismatches: 89, Indels: 26
0.79 0.17 0.05
Matches are distributed among these distances:
130 1 0.00
131 97 0.23
132 220 0.52
133 11 0.03
134 1 0.00
135 94 0.22
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTGTC
T
Found at i:76134689 original size:6 final size:5
Alignment explanation
Indices: 76134668--76134702 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
76134658 CCAATTTGTG
76134668 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
76134703 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:76134689 original size:11 final size:11
Alignment explanation
Indices: 76134668--76134702 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
76134658 CCAATTTGTG
76134668 AAAATAAAAT-
1 AAAATAAAATA
76134678 AAAATAAAAATA
1 AAAAT-AAAATA
76134690 AAAATAAAATA
1 AAAATAAAATA
76134701 AA
1 AA
76134703 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:76136136 original size:43 final size:43
Alignment explanation
Indices: 76136053--76136136 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
76136043 GAGATATGTG
* *
76136053 GCATCTGAGCTCATTGAGAGGTCCAAGTTCATTATAGATGTAA
1 GCATCCGAGCTCATTGAGAGGTCCAAGTTCATTAGAGATGTAA
* * *
76136096 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTAGGGATGT
1 GCATCCGAGCTCATTGAGAGGTCCAAGTTCATTAGAGATGT
76136137 GTTACATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTCCAAGTTCATTAGAGATGTAA
Found at i:76143254 original size:35 final size:35
Alignment explanation
Indices: 76143208--76143298 Score: 164
Period size: 35 Copynumber: 2.6 Consensus size: 35
76143198 TAACTAGTTT
*
76143208 ATACCATACCTACATTTCACAGCTCAGTATGGATA
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
*
76143243 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
76143278 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
76143299 CTTTGCCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATA
Found at i:76150712 original size:75 final size:73
Alignment explanation
Indices: 76150624--76150795 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
76150614 GGTTTTCCTC
*** * * **
76150624 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
76150688 TCAGTATGG
65 TCAGTATGG
*
76150697 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
76150762 CTCAGTATGG
64 CTCAGTATGG
76150772 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
76150796 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:76150793 original size:35 final size:35
Alignment explanation
Indices: 76150629--76150795 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
76150619 TCCTCATTGA
*** *
76150629 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
76150664 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
76150704 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
76150739 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
76150774 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
76150796 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:76155754 original size:25 final size:26
Alignment explanation
Indices: 76155719--76155823 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
76155709 ATGAAATTCC
76155719 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
76155743 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76155769 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
76155794 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76155820 ATCA
1 ATCA
76155824 ATTTGATCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 5 0.07
25 38 0.50
26 33 0.43
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76155783 original size:51 final size:50
Alignment explanation
Indices: 76155719--76155823 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 50
76155709 ATGAAATTCC
76155719 ATCATGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
76155769 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATG-AACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
76155820 ATCA
1 ATCA
76155824 ATTTGATCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 6 0.11
51 48 0.89
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (50 bp):
ATCATGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:76162818 original size:24 final size:25
Alignment explanation
Indices: 76162756--76162852 Score: 173
Period size: 24 Copynumber: 4.0 Consensus size: 25
76162746 TGAAATGCCC
76162756 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
76162781 ATCAT-GAA-ATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
76162804 ATCATGGAA-ATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
76162828 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
76162853 CATTTGTATC
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
23 20 0.29
24 30 0.43
25 20 0.29
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:76165828 original size:25 final size:26
Alignment explanation
Indices: 76165785--76165890 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
76165775 TAAAATTTCC
76165785 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76165811 ATCATGGAA-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76165836 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
76165861 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76165887 ATCA
1 ATCA
76165891 ATTTGATCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 48 0.63
26 28 0.37
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76165847 original size:51 final size:51
Alignment explanation
Indices: 76165785--76165890 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
76165775 TAAAATTTCC
*
76165785 ATCATGGAACATTTACCTAACCCATTATCATGGAA-ATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
76165836 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
76165887 ATCA
1 ATCA
76165891 ATTTGATCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 14 0.26
51 39 0.74
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:76172869 original size:26 final size:26
Alignment explanation
Indices: 76172839--76172946 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
76172829 TAAAATTTCC
*
76172839 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76172865 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76172891 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
76172917 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76172943 ATCA
1 ATCA
76172947 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76174829 original size:21 final size:21
Alignment explanation
Indices: 76174805--76174872 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 21
76174795 TGCCTAAAAT
*
76174805 GACACACAAGGTGCTTGATAC
1 GACACACAAGGTGCCTGATAC
* *
76174826 GACACACGAGGTACCTGATATAC
1 GACACACAAGGTGCCTG--ATAC
* *
76174849 GACACATAAAGTGCCTGAT-C
1 GACACACAAGGTGCCTGATAC
76174869 GACA
1 GACA
76174873 AAGCCGATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 5 0.13
21 16 0.42
23 17 0.45
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (21 bp):
GACACACAAGGTGCCTGATAC
Found at i:76174896 original size:30 final size:30
Alignment explanation
Indices: 76174860--76174919 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
76174850 ACACATAAAG
76174860 TGCCTGATC-GACAAAGCCGATAAATCCCGT
1 TGCCTGATCTG-CAAAGCCGATAAATCCCGT
*
76174890 TGCCTGATCTGCAAAGCTGATAAATCCCGT
1 TGCCTGATCTGCAAAGCCGATAAATCCCGT
76174920 ACTCTTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (30 bp):
TGCCTGATCTGCAAAGCCGATAAATCCCGT
Found at i:76175157 original size:20 final size:20
Alignment explanation
Indices: 76175134--76175194 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
76175124 ACCTTATAGT
76175134 TTTACTACCATACATATAAA
1 TTTACTACCATACATATAAA
* *
76175154 TTTA--A--ATACCTTATAAT
1 TTTACTACCATA-CATATAAA
76175171 TTTACTACCATACATATAAA
1 TTTACTACCATACATATAAA
76175191 TTTA
1 TTTA
76175195 AATGTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 3 0.09
17 10 0.31
18 1 0.03
19 1 0.03
20 14 0.44
21 3 0.09
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTACTACCATACATATAAA
Found at i:76175174 original size:37 final size:37
Alignment explanation
Indices: 76175123--76175197 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
76175113 TATTGATACT
*
76175123 TACCTTATAGTTTTACTACCATACATATAAATTTAAA
1 TACCTTATAATTTTACTACCATACATATAAATTTAAA
76175160 TACCTTATAATTTTACTACCATACATATAAATTTAAA
1 TACCTTATAATTTTACTACCATACATATAAATTTAAA
76175197 T
1 T
76175198 GTAACATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (37 bp):
TACCTTATAATTTTACTACCATACATATAAATTTAAA
Found at i:76175183 original size:21 final size:21
Alignment explanation
Indices: 76175123--76175183 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 21
76175113 TATTGATACT
*
76175123 TACCTTATAGTTTTACTACCA
1 TACCTTATAATTTTACTACCA
* *
76175144 TA-CATATAAATTTA--A--A
1 TACCTTATAATTTTACTACCA
76175160 TACCTTATAATTTTACTACCA
1 TACCTTATAATTTTACTACCA
76175181 TAC
1 TAC
76175184 ATATAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 3 0.10
17 10 0.33
18 1 0.03
19 1 0.03
20 9 0.30
21 6 0.20
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (21 bp):
TACCTTATAATTTTACTACCA
Found at i:76175192 original size:21 final size:21
Alignment explanation
Indices: 76175133--76175193 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
76175123 TACCTTATAG
76175133 TTTTACTACCATACATATAAA
1 TTTTACTACCATACATATAAA
* *
76175154 TTTAAATACC-T---TAT-AA
1 TTTTACTACCATACATATAAA
76175170 TTTTACTACCATACATATAAA
1 TTTTACTACCATACATATAAA
76175191 TTT
1 TTT
76175194 AAATGTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
20 4 0.13
21 13 0.42
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTACTACCATACATATAAA
Found at i:76175413 original size:17 final size:18
Alignment explanation
Indices: 76175379--76175414 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
76175369 TGAATTTCTA
76175379 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
76175397 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
76175414 T
1 T
76175415 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:76176182 original size:3 final size:3
Alignment explanation
Indices: 76176169--76176226 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
76176159 AATTTATTCC
* *
76176169 ATA AT- ATA ATA ATA AAA ATA ATA AT- ATAA ACA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA
*
76176214 ATT ATA ATA ATA A
1 ATA ATA ATA ATA A
76176227 ATATCTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.82
4 4 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.