Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 27 of 295
Found at i:8112492 original size:39 final size:38
Alignment explanation
Indices: 8112417--8112507 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 38
8112407 CCATCTCCGA
* * *
8112417 CCAACCCAACACACCATGTAGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
* * * *
8112455 CCAACCCTACACACCAAGATGGGGATACAGTCAACCCAT
1 CCAACCCTACACACCAAG-TAGGGATAAAATCAACCCAC
*
8112494 CCAGCCCTACACAC
1 CCAACCCTACACAC
8112508 TAAAGGTACC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 16 0.36
39 28 0.64
ACGTcount: A:0.36, C:0.40, G:0.13, T:0.11
Consensus pattern (38 bp):
CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
Found at i:8120966 original size:38 final size:40
Alignment explanation
Indices: 8120924--8121015 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
8120914 CCATCTCTCA
* * *
8120924 CCAACCCAACACACC-A-TGTGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAT
* * *
8120962 CCAACCCTTCACACCAAGTATGGGGATATACTCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAT
*
8121002 CCAGCCCTACACAC
1 CCAACCCTACACAC
8121016 TAAAGGTACC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 13 0.30
39 1 0.02
40 30 0.68
ACGTcount: A:0.34, C:0.38, G:0.13, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAT
Found at i:8132663 original size:46 final size:46
Alignment explanation
Indices: 8132613--8132785 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
8132603 TGGTTGAGCA
* *
8132613 TCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
8132659 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
8132706 TCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
8132752 CCCGAGCTCATTGAGTTGAGTCCGATTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
8132786 GGGCGGGTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:8161095 original size:37 final size:37
Alignment explanation
Indices: 8161045--8161121 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
8161035 TACAACCCAC
8161045 TTCACAGGAGCTAAGTCTGAAGGACGTACATGAGCCA
1 TTCACAGGAGCTAAGTCTGAAGGACGTACATGAGCCA
8161082 TTCACAGGAGCTAAGTCTGAAGGACGTACATGAGCCA
1 TTCACAGGAGCTAAGTCTGAAGGACGTACATGAGCCA
8161119 TTC
1 TTC
8161122 TCAAACATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (37 bp):
TTCACAGGAGCTAAGTCTGAAGGACGTACATGAGCCA
Found at i:8162280 original size:119 final size:121
Alignment explanation
Indices: 8162063--8162283 Score: 295
Period size: 119 Copynumber: 1.8 Consensus size: 121
8162053 TTCATTTTTC
* * * **
8162063 TATCATTTAATTTACATTCTTAGGTTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGGAA
1 TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAG-TATTAGGAA
* *
8162128 CACCTCATACCCATGACATTACTATGTTTATTCTCATGCTATTACCATGCCAATGTA
65 AACCTCATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
* **
8162185 TATCATTTAATTTGCATTCCTAAGTTA-ATATCATACATTCCGTGTTAAATTGAG-ATTAGGAAA
1 TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAGTATTAGGAAA
* *
8162248 ACCTCATACCCATTACATTTCTAT-TCTCATTCTCAT
66 ACCTCATACCCATGACATTACTATGT-TCATTCTCAT
8162284 TGTTATTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
118 1 0.01
119 39 0.45
121 22 0.26
122 24 0.28
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (121 bp):
TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAGTATTAGGAAA
ACCTCATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
Found at i:8165059 original size:18 final size:18
Alignment explanation
Indices: 8165038--8165081 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
8165028 GAAGCCGATT
8165038 GATCCATCTCAGAAGCCA
1 GATCCATCTCAGAAGCCA
8165056 GATCCATCTCAGAAGCCA
1 GATCCATCTCAGAAGCCA
*
8165074 GATTCATC
1 GATCCATC
8165082 ATCAAGACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (18 bp):
GATCCATCTCAGAAGCCA
Found at i:8180141 original size:3 final size:3
Alignment explanation
Indices: 8180133--8180161 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8180123 AGAAGAGAAG
8180133 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8180162 TTTTGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:8181492 original size:43 final size:43
Alignment explanation
Indices: 8181432--8181522 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
8181422 CTTTGAGTTC
* *
8181432 ATTA-CAAGATTTCCTTGATTAAGTAAATG-TATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCT-TTATATCTTTT
* *
8181474 ATTACCAAGATTTACTTGATTAAGAAAATGCTTTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCTTTATATCTTTT
8181517 ATTACC
1 ATTACC
8181523 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCTTTATATCTTTT
Found at i:8187539 original size:16 final size:16
Alignment explanation
Indices: 8187520--8187574 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
8187510 GTTTGGTTTA
*
8187520 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
**
8187536 CTGTAATTAAATAGAG
1 CTGTAATGGAATAGAG
8187552 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
8187568 CTGTAAT
1 CTGTAAT
8187575 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:8193182 original size:19 final size:18
Alignment explanation
Indices: 8193158--8193194 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8193148 CCCAAAATCT
8193158 TGAATATGATTAAATAAAA
1 TGAATAT-ATTAAATAAAA
*
8193177 TGAATATTTTAAATAAAA
1 TGAATATATTAAATAAAA
8193195 ACAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (18 bp):
TGAATATATTAAATAAAA
Found at i:8198635 original size:20 final size:19
Alignment explanation
Indices: 8198596--8198635 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
8198586 AAATAGTGAG
*
8198596 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
8198615 AATTCTATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
8198635 A
1 A
8198636 CAATTCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:8199245 original size:24 final size:24
Alignment explanation
Indices: 8199213--8199262 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
8199203 TTGATGGAAG
8199213 CTGTAGGTCTTTTTTAGAGACCTT
1 CTGTAGGTCTTTTTTAGAGACCTT
8199237 CTGTAGGTCTTTTTTAGAGACCTT
1 CTGTAGGTCTTTTTTAGAGACCTT
8199261 CT
1 CT
8199263 CCCACACAAT
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:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (24 bp):
CTGTAGGTCTTTTTTAGAGACCTT
Found at i:8200717 original size:33 final size:33
Alignment explanation
Indices: 8200680--8200746 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
8200670 TAAGATGATT
8200680 ATATAAA-AAAATAAAAAATTATAAAATAAAATA
1 ATATAAATAAAATAAAAAATTA-AAAATAAAATA
*** *
8200713 ATATAAATATTTTAAAAAATTAAAAATAATATA
1 ATATAAATAAAATAAAAAATTAAAAATAAAATA
8200746 A
1 A
8200747 ACGAACCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (33 bp):
ATATAAATAAAATAAAAAATTAAAAATAAAATA
Found at i:8204624 original size:19 final size:19
Alignment explanation
Indices: 8204562--8204625 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
8204552 TAAAATATAA
* *
8204562 ATTTTGGAAATTTTATAAGT
1 ATTTT-GAAATTTTAAAAAT
8204582 ATTTTGAAA-TTTAAAAATT
1 ATTTTGAAATTTTAAAAA-T
8204601 ATTTTGAAAATTTTAAAAAT
1 ATTTTG-AAATTTTAAAAAT
8204621 -TTTTG
1 ATTTTG
8204626 TCGAGAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.15
19 16 0.41
20 9 0.23
21 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAAAT
Found at i:8205659 original size:3 final size:3
Alignment explanation
Indices: 8205651--8205679 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8205641 ACATGTTGGG
8205651 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8205680 TAAAGCTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8214531 original size:38 final size:38
Alignment explanation
Indices: 8214480--8214558 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
8214470 ATCCAGCGAA
*
8214480 ATCAGAATCAGAATACCCTATGACCTCTGAAAGATTTG
1 ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
*
8214518 ATCAGAATCAGAATACCCTATGACCTTTAAAAGATTTG
1 ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
8214556 ATC
1 ATC
8214559 TCTTATAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (38 bp):
ATCAGAATCAGAATACCCTATGACCTCTAAAAGATTTG
Found at i:8221952 original size:18 final size:18
Alignment explanation
Indices: 8221929--8221969 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8221919 TAATCCTAAT
8221929 TAATAAATAAAAT-TGAAA
1 TAATAAA-AAAATATGAAA
8221947 TAATAAAAAAATATGAAA
1 TAATAAAAAAATATGAAA
*
8221965 CAATA
1 TAATA
8221970 GCAGCTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
TAATAAAAAAATATGAAA
Found at i:8225799 original size:22 final size:19
Alignment explanation
Indices: 8225774--8225817 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
8225764 TAAATAGAAT
8225774 TATCTCGAGACTATTTAAACAA
1 TATCTCGAGAC-A-TTAAA-AA
8225796 TATCTCGAGACATTAAAAA
1 TATCTCGAGACATTAAAAA
8225815 TAT
1 TAT
8225818 AACTAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 5 0.23
21 1 0.05
22 11 0.50
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (19 bp):
TATCTCGAGACATTAAAAA
Found at i:8227094 original size:15 final size:15
Alignment explanation
Indices: 8227076--8227107 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8227066 TATATAAAAC
8227076 AAATTTAAAAAATAT
1 AAATTTAAAAAATAT
8227091 AAATTTAAAAAATAT
1 AAATTTAAAAAATAT
8227106 AA
1 AA
8227108 TACATCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTTAAAAAATAT
Found at i:8227343 original size:21 final size:22
Alignment explanation
Indices: 8227304--8227351 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
8227294 AATATAATAG
*
8227304 CAAAATGACAACAAAACAACAT
1 CAAAATGACAACAAAACAACAA
*
8227326 CAAAATGGCAAC-AAACAACAA
1 CAAAATGACAACAAAACAACAA
8227347 CAAAA
1 CAAAA
8227352 CAACAGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.65, C:0.23, G:0.06, T:0.06
Consensus pattern (22 bp):
CAAAATGACAACAAAACAACAA
Found at i:8228275 original size:40 final size:40
Alignment explanation
Indices: 8228209--8228357 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
8228199 CGTTTGGATA
* * *
8228209 AAAAACGCTGCAATAGATCGAGCATTAGCGCTGCTTTTTG
1 AAAAACGCCGCTATAGATCGACCATTAGCGCTGCTTTTTG
** * *
8228249 AAAAACGTTGCTATAGGTCGACCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGACCATTAGCGCTGCTTTTTG
* * * *
8228289 AAAAACGCCGCTATAGATTGAGCATTAGTAGC-GCTTTTTA
1 AAAAACGCCGCTATAGATCGACCATTAG-CGCTGCTTTTTG
* *
8228329 AAAAACGCCGCTATAGGTCGACCTTTAGC
1 AAAAACGCCGCTATAGATCGACCATTAGC
8228358 AGCGCTGTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 89 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGACCATTAGCGCTGCTTTTTG
Found at i:8228326 original size:80 final size:80
Alignment explanation
Indices: 8228209--8228357 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
8228199 CGTTTGGATA
* * * **
8228209 AAAAACGCTGCAATAGATCGAGCATTAGCGCTGCTTTTTGAAAAACGTTGCTATAGGTCGACCAT
1 AAAAACGCCGCAATAGATCGAGCATTAGAGCTGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
8228274 TAGCGGTGCTTTTTG
66 TAGCGGTGCTTTTTG
* * *
8228289 AAAAACGCCGCTATAGATTGAGCATTAGTAGC-GCTTTTTAAAAAACGCCGCTATAGGTCGACCT
1 AAAAACGCCGCAATAGATCGAGCATTAG-AGCTGCTTTTTAAAAAACGCCGCTATAGGTCGACCA
8228353 TTAGC
65 TTAGC
8228358 AGCGCTGTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 58 0.97
81 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (80 bp):
AAAAACGCCGCAATAGATCGAGCATTAGAGCTGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
TAGCGGTGCTTTTTG
Found at i:8231786 original size:7 final size:7
Alignment explanation
Indices: 8231770--8231944 Score: 90
Period size: 7 Copynumber: 24.6 Consensus size: 7
8231760 TCATTATAGC
8231770 TTAGGGT
1 TTAGGGT
*
8231777 TTATGGT
1 TTAGGGT
8231784 TTAGGGT
1 TTAGGGT
* * *
8231791 ATATGAT
1 TTAGGGT
8231798 TTAGGGT
1 TTAGGGT
*
8231805 TTAAGGT
1 TTAGGGT
8231812 TTAGGAGT
1 TTAGG-GT
*
8231820 TACTA--TT
1 T--TAGGGT
* *
8231827 TTAAGGC
1 TTAGGGT
* *
8231834 TTATGGA
1 TTAGGGT
8231841 TTATGGGT
1 TTA-GGGT
*
8231849 TTAGGGA
1 TTAGGGT
*
8231856 TTATGGT
1 TTAGGGT
*
8231863 TTATGGT
1 TTAGGGT
8231870 TTAAGGG-
1 TT-AGGGT
8231877 TTAGGGT
1 TTAGGGT
*
8231884 TTAAGGT
1 TTAGGGT
8231891 TTATGGG-
1 TTA-GGGT
8231898 TTAGGGGT
1 TTA-GGGT
8231906 TTAGGGT
1 TTAGGGT
8231913 TTAAGGG-
1 TT-AGGGT
* *
8231920 ATAAGGT
1 TTAGGGT
8231927 TTAGGGT
1 TTAGGGT
*
8231934 TTAAGGT
1 TTAGGGT
8231941 TTAG
1 TTAG
8231945 ATTAATTAGT
Statistics
Matches: 126, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.02
6 7 0.06
7 95 0.75
8 20 0.16
10 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:8231787 original size:14 final size:14
Alignment explanation
Indices: 8231770--8231944 Score: 115
Period size: 14 Copynumber: 12.3 Consensus size: 14
8231760 TCATTATAGC
8231770 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
* *
8231784 TTAGGGTATATGAT
1 TTAGGGTTTATGGT
*
8231798 TTAGGGTTTAAGGT
1 TTAGGGTTTATGGT
8231812 TTAGGAGTTACTAT--T
1 TTAGG-GTT--TATGGT
* * *
8231827 TTAAGGCTTATGGA
1 TTAGGGTTTATGGT
* *
8231841 TTATGGGTTTAGGGA
1 TTA-GGGTTTATGGT
*
8231856 TTATGGTTTATGGT
1 TTAGGGTTTATGGT
*
8231870 TTAAGGG-TTAGGGT
1 TT-AGGGTTTATGGT
* *
8231884 TTAAGGTTTATGGG
1 TTAGGGTTTATGGT
*
8231898 TTAGGGGTTTAGGGT
1 TTA-GGGTTTATGGT
* *
8231913 TTAAGGG-ATAAGGT
1 TT-AGGGTTTATGGT
*
8231927 TTAGGGTTTAAGGT
1 TTAGGGTTTATGGT
8231941 TTAG
1 TTAG
8231945 ATTAATTAGT
Statistics
Matches: 124, Mismatches: 26, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
12 3 0.02
13 7 0.06
14 76 0.61
15 35 0.28
16 1 0.01
17 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:8232236 original size:20 final size:20
Alignment explanation
Indices: 8232186--8232238 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
8232176 AGATAGGGGC
* * *
8232186 ACATGCCCGTATGGCTTGGG
1 ACATGCCCGTGTGGCCTGGA
*
8232206 ACACGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
8232226 ACATGCCCGTGTG
1 ACATGCCCGTGTG
8232239 CTGCAGTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.30, G:0.34, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:8233154 original size:52 final size:52
Alignment explanation
Indices: 8233037--8233181 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 52
8233027 CACATATCAT
* ** * *
8233037 ACCGATGCCATATCCCAAATATGGTCTTATACGGAA-TCACAT-TATCACATTAC
1 ACCGATGCCATAGCCTGACTATGGTCTTATACGGAAGT---ATGAATCACATTAC
* **
8233090 ACCGATGCCATAGCCT-AGCTATGGTCTTATACGGGAGTATGAATCACATTGT
1 ACCGATGCCATAGCCTGA-CTATGGTCTTATACGGAAGTATGAATCACATTAC
*
8233142 ACCGATGCCATAGCCTGACTATGGTCTTATATGGAAGTAT
1 ACCGATGCCATAGCCTGACTATGGTCTTATACGGAAGTAT
8233182 ATATATCACA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
51 2 0.03
52 45 0.57
53 31 0.39
54 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (52 bp):
ACCGATGCCATAGCCTGACTATGGTCTTATACGGAAGTATGAATCACATTAC
Found at i:8235013 original size:131 final size:131
Alignment explanation
Indices: 8234756--8235001 Score: 431
Period size: 131 Copynumber: 1.9 Consensus size: 131
8234746 AATTTAGAGA
*
8234756 ACATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
* *
8234821 GATAGGGCACGATTCCCTGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 AATAGAGCACGATTCCCTGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
8234886 G
131 G
* *
8234887 ACATGAGTGAAATTCCAAAGGAATATTTGATTGTTTTGAACAAACGGGAAATCGCAACCAAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
*
8234952 AATAGAGCACGATTCCC-GAATTGCCAAACATCGAGTATTGCCTTCGTTTT
66 AATAGAGCACGATTCCCTGAATTGCCAAACATCGAGTATTACCTTCGTTTT
8235002 AGTAAATTTT
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 32 0.29
131 77 0.71
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (131 bp):
ACATGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCAAGCAC
AATAGAGCACGATTCCCTGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
G
Found at i:8235264 original size:28 final size:27
Alignment explanation
Indices: 8235229--8235284 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
8235219 ACGATCATGC
* *
8235229 ATGAG-AAATAATTGATATAATAATACA
1 ATGAGAAAATAA-TAATATAACAATACA
8235256 ATGACGAAAATAATAATATAACAATACA
1 ATGA-GAAAATAATAATATAACAATACA
8235284 A
1 A
8235285 CACCACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 15 0.60
29 6 0.24
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (27 bp):
ATGAGAAAATAATAATATAACAATACA
Found at i:8245100 original size:23 final size:21
Alignment explanation
Indices: 8245048--8245143 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
8245038 CCTGATCAGT
** * *
8245048 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
8245069 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8245090 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8245111 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8245132 AAATACGACACA
1 --ATACGACACA
8245144 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:8245108 original size:42 final size:43
Alignment explanation
Indices: 8245048--8245153 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
8245038 CCTGATCAGT
*
8245048 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
8245090 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
8245134 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
8245154 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:8245395 original size:15 final size:15
Alignment explanation
Indices: 8245370--8245427 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
8245360 TCATATATAT
8245370 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
8245386 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
8245401 AATAATTTCAATCAA
1 TATAAATTCAATCAA
8245416 TATAAATTCAAT
1 TATAAATTCAAT
8245428 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:8247148 original size:46 final size:46
Alignment explanation
Indices: 8247081--8247254 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
8247071 TTTGGGCATT
*
8247081 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
* * *
8247127 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTTA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TC
* * * *
8247174 CGAACTTGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAAGGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
** *
8247220 CGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8247255 GTGGGCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 58 0.54
47 27 0.25
48 6 0.06
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
Found at i:8247234 original size:93 final size:93
Alignment explanation
Indices: 8247075--8247247 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
8247065 GGGATATTTG
* * * * *
8247075 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAG
8247140 TTGAGTCCGAGTTCGTTAGATGTAACTA
66 TTGAGTCCGAGTTCGTTAGATGTAACTA
* **
8247168 GGCATCCGAACTTGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAAGGCCCGAGTTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAG
8247233 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
8247248 CTTATGGGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTTAGATGTAACTA
Found at i:8250997 original size:15 final size:15
Alignment explanation
Indices: 8250975--8251045 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
8250965 GTATCTTGGG
*
8250975 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
8250990 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
8251005 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
8251020 TTT-TTCTA-TCTTGAA
1 TTTCTT-TATTC-TGGA
8251035 TTTCTTTATTC
1 TTTCTTTATTC
8251046 GATTTTCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.13
15 34 0.74
16 6 0.13
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:8251011 original size:30 final size:30
Alignment explanation
Indices: 8250966--8251043 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
8250956 CATAGTATCG
**
8250966 TATCTTGGGTTTCTTTATCCTGGATCTTTT-
1 TATCTTGAATTTCTTTATCCTGGAT-TTTTC
* * *
8250996 TAT-TCTGGATTTCTTTATTCTGGGTTTTTC
1 TATCT-TGAATTTCTTTATCCTGGATTTTTC
8251026 TATCTTGAATTTCTTTAT
1 TATCTTGAATTTCTTTAT
8251044 TCGATTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.12
30 35 0.85
31 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.59
Consensus pattern (30 bp):
TATCTTGAATTTCTTTATCCTGGATTTTTC
Found at i:8258671 original size:61 final size:62
Alignment explanation
Indices: 8258520--8258671 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 62
8258510 GCGAACTGTG
* * *
8258520 TTGATATGGGC-AAGGCCCAATATATCTC-GA-CTTGTTATAGGGCTACGGCCCAGATCGATA
1 TTGATATGGGCTAAGGCCCAAT-TAACTCTGATATTGTTATAGGGCTACGGCCCAGATCAATA
* * * * * *
8258580 CTGATATGGGAT-AGGCCC-AGTATACTCTGATATTG-TA-AGGGGCTATGGCCTAGATTAATA
1 TTGATATGGGCTAAGGCCCAATTA-ACTCTGATATTGTTATA-GGGCTACGGCCCAGATCAATA
8258640 TTGATATGGGCTAAGGCCCAATTAACTCTGAT
1 TTGATATGGGCTAAGGCCCAATTAACTCTGAT
8258672 TTCTGATTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
58 2 0.03
59 5 0.07
60 46 0.63
61 17 0.23
62 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (62 bp):
TTGATATGGGCTAAGGCCCAATTAACTCTGATATTGTTATAGGGCTACGGCCCAGATCAATA
Found at i:8259850 original size:18 final size:18
Alignment explanation
Indices: 8259827--8260001 Score: 66
Period size: 18 Copynumber: 9.3 Consensus size: 18
8259817 GAACAATTAT
*
8259827 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
8259845 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
* * *
8259863 ATATTCAATAATAACCAG
1 TTATTCAGTAATAATCAG
*
8259881 TTATTCAGTATCGATCAATTGATCCG
1 TTATTCAGTA---AT--A---ATCAG
* * * *
8259907 TTATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
8259925 TTATTCAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * *
8259942 ATATTCAGTAACAATTAAG
1 TTATTCAGTAATAA-TCAG
* * *
8259961 TTATTTAGTAACAGTCA-
1 TTATTCAGTAATAATCAG
* *
8259978 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAATAATCAG
8259997 TTATT
1 TTATT
8260002 TTATACCTTT
Statistics
Matches: 114, Mismatches: 31, Indels: 24
0.67 0.18 0.14
Matches are distributed among these distances:
17 16 0.14
18 65 0.57
19 16 0.14
21 3 0.03
23 2 0.02
26 12 0.11
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:8260234 original size:45 final size:45
Alignment explanation
Indices: 8260175--8260323 Score: 246
Period size: 45 Copynumber: 3.3 Consensus size: 45
8260165 AACAGTAACA
* * *
8260175 GTAACAGT-ATAGTAACAATATCCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
8260219 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
8260264 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
8260309 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
8260324 GCGGTAACAG
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 7 0.07
45 91 0.93
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:8261871 original size:20 final size:21
Alignment explanation
Indices: 8261836--8261875 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8261826 CTGCTCTCTG
*
8261836 TTTCGTTTCATTTTGTTTCTA
1 TTTCCTTTCATTTTGTTTCTA
8261857 TTTCCTTTC-TTTTGTTTCT
1 TTTCCTTTCATTTTGTTTCT
8261876 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTCCTTTCATTTTGTTTCTA
Found at i:8265156 original size:131 final size:131
Alignment explanation
Indices: 8264899--8265144 Score: 413
Period size: 131 Copynumber: 1.9 Consensus size: 131
8264889 AATTTAGAGA
* * *
8264899 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACAGGAAATCGCAACCCAGCAC
1 ACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
*
8264964 GATAGGGCACGATTCTCCGAATTGCCAAACATCGAGTATTAACTTCGTTTTGAAGAGTTTTTAAA
66 GATAGAGCACGATTCTCCGAATTGCCAAACATCGAGTATTAACTTCGTTTTGAAGAGTTTTTAAA
8265029 G
131 G
* *
8265030 ACATGAGTAAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
**
8265095 GATAGAGCACGATTC-CCGAATTGCCAAACATCGAGTATTGCCTTCGTTTT
66 GATAGAGCACGATTCTCCGAATTGCCAAACATCGAGTATTAACTTCGTTTT
8265145 AGTGAATTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
130 33 0.31
131 74 0.69
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
ACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
GATAGAGCACGATTCTCCGAATTGCCAAACATCGAGTATTAACTTCGTTTTGAAGAGTTTTTAAA
G
Found at i:8265839 original size:29 final size:28
Alignment explanation
Indices: 8265771--8265840 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
8265761 ATAATAGCGT
8265771 ATGTAAAAAAAACATTACAAATTTTAAAA
1 ATGT-AAAAAAACATTACAAATTTTAAAA
*
8265800 ATG-AAATAAAATCATTA-AAATAATTTATAA
1 ATGTAAA-AAAA-CATTACAAAT--TTTAAAA
8265830 ATGTAAAAAAA
1 ATGTAAAAAAA
8265841 AAAGGTAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.09
28 8 0.23
29 8 0.23
30 13 0.37
31 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (28 bp):
ATGTAAAAAAACATTACAAATTTTAAAA
Found at i:8272441 original size:52 final size:52
Alignment explanation
Indices: 8272373--8272474 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
8272363 GAATCACATT
* *
8272373 ATCACATTACACCGATGCCATAGCCTAGCTATGGTCTTATACAGG-AGTATGA
1 ATCACATTACACCGATGCCATAGCCCAGCTATAGTCTTATA-AGGAAGTATGA
** *
8272425 ATCACATTGTACCGATGCCATAGCCCGGCTATAGTCTTATAAGGAAGTAT
1 ATCACATTACACCGATGCCATAGCCCAGCTATAGTCTTATAAGGAAGTAT
8272475 ATATATCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.07
52 41 0.93
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (52 bp):
ATCACATTACACCGATGCCATAGCCCAGCTATAGTCTTATAAGGAAGTATGA
Found at i:8277407 original size:13 final size:14
Alignment explanation
Indices: 8277389--8277423 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8277379 ATTGCTCATT
8277389 TATTTAAA-CATAA
1 TATTTAAATCATAA
8277402 TATTTAAATCATAA
1 TATTTAAATCATAA
8277416 -ATTTAAAT
1 TATTTAAAT
8277424 TCATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTTAAATCATAA
Found at i:8277427 original size:14 final size:13
Alignment explanation
Indices: 8277390--8277433 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
8277380 TTGCTCATTT
8277390 ATTTAAA-CATAA
1 ATTTAAATCATAA
8277402 TATTTAAATCATAA
1 -ATTTAAATCATAA
*
8277416 ATTTAAATTCATTA
1 ATTTAAA-TCATAA
8277430 ATTT
1 ATTT
8277434 TTATATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAATCATAA
Found at i:8277706 original size:42 final size:43
Alignment explanation
Indices: 8277590--8277929 Score: 297
Period size: 42 Copynumber: 8.1 Consensus size: 43
8277580 AAATATTTTT
* **
8277590 TAAAGGT-TATGTTCTTTAGTGGCGTTTGTGGGAAAAAAGCCGC
1 TAAAGGTCT-TGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * ** * *
8277633 TAAAGG-CCTGTTTTACAGTGGTTTTTTTGGGAAAAGCGTCGC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * *
8277675 TAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCAC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * * **
8277717 TAAAGGTCATATTCTATAGCT-GTGTTTGTGGG-AGAGCACCAT
1 TAAAGGTCTTGTTCTATAG-TGGCGTTTGTGGGAAAAGCGCCGC
* *
8277759 TAAAGGTCATGTTC--TA-TGGCGTTTGTGGGAAAAGCG-TGC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * ** *
8277798 TAAAAGTCTTGTTCTATTGCAGCTTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* *
8277841 TAAAAGTCTTGTTCTATAGTGGCCTTTGT-GGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* *
8277883 TAAAGGTCTTGTTCTATAGTGGCGTTTGT-GAAAAAGGTGCCGC
1 TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAA-GCGCCGC
8277926 TAAA
1 TAAA
8277930 AGTCATTTTT
Statistics
Matches: 238, Mismatches: 48, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
38 1 0.00
39 22 0.09
40 6 0.03
41 1 0.00
42 146 0.61
43 62 0.26
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
Found at i:8277887 original size:124 final size:124
Alignment explanation
Indices: 8277660--8277899 Score: 297
Period size: 124 Copynumber: 1.9 Consensus size: 124
8277650 GTGGTTTTTT
* * *
8277660 TGGGAAAAGCGTCGCTAAAGGTTTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCACTAAAGGTC
1 TGGGAAAAGCGTCGCTAAAAGTTTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCACTAAAAGTC
* * *
8277725 ATATTCTATAGCTGTGTTTGTGGGAGAGCACCATTAAAGGTCATGTTCTATGGCGTTTG
66 ATATTCTATAGCTGTGTTTGTGGAAAAGCACCACTAAAGGTCATGTTCTATGGCGTTTG
* * * *
8277784 TGGGAAAAGCGT-GCTAAAAGTCTTGTTCTATTGCAGCTTTTGTGGGAAAAGCGCCGCTAAAAGT
1 TGGGAAAAGCGTCGCTAAAAGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCACTAAAAGT
* * * * *
8277848 CTTGTTCTATAG-TG-GCCTTTGTGGAAAAGCGCCGCTAAAGGTCTTGTTCTAT
65 CATATTCTATAGCTGTG--TTTGTGGAAAAGCACCACTAAAGGTCATGTTCTAT
8277900 AGTGGCGTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
122 1 0.01
123 10 0.10
124 87 0.89
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (124 bp):
TGGGAAAAGCGTCGCTAAAAGTTTGTTCTATAGCAGCGTTTGTGGGAAAAGCACCACTAAAAGTC
ATATTCTATAGCTGTGTTTGTGGAAAAGCACCACTAAAGGTCATGTTCTATGGCGTTTG
Found at i:8277925 original size:85 final size:85
Alignment explanation
Indices: 8277664--8277933 Score: 221
Period size: 85 Copynumber: 3.2 Consensus size: 85
8277654 TTTTTTTGGG
* * * * * * * * *
8277664 AAAAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCACTAAAGGTCATA
1 AAAAGCGCCGCTAAAAGTCTTGTTCTATAGTGGCCTTTGTGGGAAAAGC-GCGCTAAAAGTCTTG
* *
8277728 TTCTATAGCTGTGTTTGTGG-
65 TTCTATAGCAGCGTTTGTGGA
* * * ** * * * *
8277748 GAGAGCACCATTAAAGGTCATGTTC--TA-TGGCGTTTGTGGGAAAAGCGTGCTAAAAGTCTTGT
1 AAAAGCGCCGCTAAAAGTCTTGTTCTATAGTGGCCTTTGTGGGAAAAGCGCGCTAAAAGTCTTGT
* * *
8277810 TCTATTGCAGCTTTTGTGGG
66 TCTATAGCAGCGTTTGTGGA
*
8277830 AAAAGCGCCGCTAAAAGTCTTGTTCTATAGTGGCCTTTGT-GGAAAAGCGCCGCTAAAGGTCTTG
1 AAAAGCGCCGCTAAAAGTCTTGTTCTATAGTGGCCTTTGTGGGAAAAGCG-CGCTAAAAGTCTTG
**
8277894 TTCTATAGTGGCGTTTGT-GA
65 TTCTATAGCAGCGTTTGTGGA
*
8277914 AAAAGGTGCCGCTAAAAGTC
1 AAAA-GCGCCGCTAAAAGTC
8277934 ATTTTTATAG
Statistics
Matches: 145, Mismatches: 34, Indels: 13
0.76 0.18 0.07
Matches are distributed among these distances:
81 25 0.17
82 36 0.25
83 2 0.01
84 28 0.19
85 54 0.37
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAAGTCTTGTTCTATAGTGGCCTTTGTGGGAAAAGCGCGCTAAAAGTCTTGT
TCTATAGCAGCGTTTGTGGA
Found at i:8278411 original size:23 final size:23
Alignment explanation
Indices: 8278369--8278444 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
8278359 AGATAAGTAT
* *
8278369 TAAA-TCAGGAGCACCAAAGTGC
1 TAAATTCAAGAGCACCGAAGTGC
8278391 TAAATTCAAGAGCACCGAAGTGC
1 TAAATTCAAGAGCACCGAAGTGC
* *
8278414 -AAGTTTCAAGAGCACTAGAA-TGC
1 TAA-ATTCAAGAGCAC-CGAAGTGC
8278437 TAAATTCA
1 TAAATTCA
8278445 TGAACGCGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.13
23 34 0.76
24 5 0.11
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
TAAATTCAAGAGCACCGAAGTGC
Found at i:8282215 original size:20 final size:20
Alignment explanation
Indices: 8282190--8282264 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
8282180 GAATTTTATA
8282190 GAATCAAAGTTACATAAATT
1 GAATCAAAGTTACATAAATT
* * *
8282210 GAATCAAATTATTACTTTTTAATTATA
1 GAATCAAA--GTTAC---ATAA--ATT
8282237 GAATCAAAGTTACATAAATT
1 GAATCAAAGTTACATAAATT
8282257 GAATCAAA
1 GAATCAAA
8282265 TTTTTACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 18 0.43
22 7 0.17
25 7 0.17
27 10 0.24
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (20 bp):
GAATCAAAGTTACATAAATT
Found at i:8283182 original size:5 final size:5
Alignment explanation
Indices: 8283172--8283200 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8283162 TAATATTTTT
8283172 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
8283201 TTATGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:8286707 original size:22 final size:22
Alignment explanation
Indices: 8286679--8286725 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
8286669 GCCCAAGGTA
*
8286679 GAAAAAAGAAGAAAAGAAAATGAG
1 GAAAAAAG-A-AAAAGAAAAAGAG
*
8286703 GAAAAATGAAAAAGAAAAAGAG
1 GAAAAAAGAAAAAGAAAAAGAG
8286725 G
1 G
8286726 TACAAACAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (22 bp):
GAAAAAAGAAAAAGAAAAAGAG
Found at i:8291204 original size:38 final size:37
Alignment explanation
Indices: 8291160--8291270 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 37
8291150 TAATTATGTA
8291160 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
8291197 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
8291234 AA-AT-TATAATTTATATTATTAAATTATTATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
8291271 AAAAATAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.13
36 9 0.15
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:8291259 original size:25 final size:26
Alignment explanation
Indices: 8291211--8291259 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
8291201 ATATAGATAT
* **
8291211 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
8291237 TTATAATTTA-TATTATTAAATTA
1 TTATAATTTATTATTATTAAATTA
8291260 TTATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:8291270 original size:20 final size:20
Alignment explanation
Indices: 8291218--8291271 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
8291208 TATTTATTAT
*
8291218 TTATTATTATT-CTATTAAA
1 TTATTATTATTATTATTAAA
*
8291237 TTATAATT-TATATTATTAAA
1 TTATTATTAT-TATTATTAAA
8291257 TTATTATTATTATTA
1 TTATTATTATTATTA
8291272 AAAATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 8 0.28
20 19 0.66
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATTATTATTATTAAA
Found at i:8291530 original size:3 final size:3
Alignment explanation
Indices: 8291517--8291559 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
8291507 AATAAGATAT
* *
8291517 TTA TAA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8291560 AAAGTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8291584 original size:13 final size:14
Alignment explanation
Indices: 8291566--8291603 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8291556 TTATAAAGTT
8291566 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
8291579 AATAAAAGAAATGA
1 AATAAAATAAAAGA
8291593 AATAAAATAAA
1 AATAAAATAAA
8291604 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:8292714 original size:45 final size:45
Alignment explanation
Indices: 8292663--8292766 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
8292653 CGACTACTGT
*
8292663 TACTGTTACCGTTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
8292708 TACTGTTATCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
8292753 TACTGTTACTGTTA
1 TACTGTTACCGTTA
8292767 TTGCTAATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:8292763 original size:51 final size:50
Alignment explanation
Indices: 8292648--8292767 Score: 135
Period size: 45 Copynumber: 2.5 Consensus size: 50
8292638 CAGGCACTTA
* * *
8292648 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACTGATTCGACACTTTG
1 TGTGTCGA-TACTGTTACTGTTATCGTTACTGTTACAGATTCGACACTTTG
8292699 TGTGTCGA-A----TACTGTTATCGTTACTGTTACAGATTC-AGCACTTTG
1 TGTGTCGATACTGTTACTGTTATCGTTACTGTTACAGATTCGA-CACTTTG
*
8292744 TGTGTTGAATACTGTTACTGTTAT
1 TGTGTCG-ATACTGTTACTGTTAT
8292768 TGCTAATGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
44 1 0.02
45 38 0.66
46 1 0.02
47 1 0.02
49 1 0.02
51 16 0.28
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTGTCGATACTGTTACTGTTATCGTTACTGTTACAGATTCGACACTTTG
Found at i:8300889 original size:27 final size:27
Alignment explanation
Indices: 8300858--8300919 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
8300848 TTCCTACTGA
*
8300858 CATACAACATATTAAACCCACCTAATG
1 CATACAACATATTAAACCCACCGAATG
*
8300885 CATACAACTTATTAAACCCACCGAATG
1 CATACAACATATTAAACCCACCGAATG
8300912 CAT-CAACA
1 CATACAACA
8300920 ACTTTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.21
Consensus pattern (27 bp):
CATACAACATATTAAACCCACCGAATG
Found at i:8303711 original size:3 final size:3
Alignment explanation
Indices: 8303705--8303977 Score: 118
Period size: 3 Copynumber: 89.7 Consensus size: 3
8303695 TGTCTAATAA
* * * *
8303705 TAT TAT TTT TAT TTT TAT TTT TAT T-T TTT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
8303751 TAT TAAT GTAT TAT TAT TACT AAT TAT TAT TAT TGC TAA TAT TGT TAT
1 TAT T-AT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
8303799 TAT TAT TAA TAT TAGT GTAT GTTT TAT TAT ACAT GTAT GTA- TAT ATAT
1 TAT TAT TAT TAT TA-T -TAT -TAT TAT TAT -TAT -TAT -TAT TAT -TAT
* * * *
8303847 TTT TA- TAT ATAG TAT TAT T-T TAAT TAC T-T TAT T-T TAA TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
8303890 TAT TA- TAT TA- TAT T-T GCT TTT TGCAT T-T CAA CAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT
*
8303933 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
8303978 GTGTATATTT
Statistics
Matches: 206, Mismatches: 41, Indels: 46
0.70 0.14 0.16
Matches are distributed among these distances:
2 19 0.09
3 154 0.75
4 28 0.14
5 5 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8304107 original size:21 final size:21
Alignment explanation
Indices: 8304083--8304149 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
8304073 TATTTCAATA
8304083 TTATTATTAT-TATTATATGTT
1 TTATTATTATATATTATATG-T
* *
8304104 TTATTA-TATATGTATATATCT
1 TTATTATTATATAT-TATATGT
*
8304125 TTAATA-TATATATGTATATGT
1 TTATTATTATATAT-TATATGT
8304146 TTAT
1 TTAT
8304150 GTAGTATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.08
21 29 0.78
22 5 0.14
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (21 bp):
TTATTATTATATATTATATGT
Found at i:8304135 original size:160 final size:163
Alignment explanation
Indices: 8303773--8304143 Score: 408
Period size: 164 Copynumber: 2.3 Consensus size: 163
8303763 ATTATTACTA
** * * * * *
8303773 ATTATTATTATTGCTAATATTGTTATTATTATTA-ATATTAGTGTATGTTTTATTATACATGTAT
1 ATTATTATTATTATTATTATTATTATTATTAATATATATTAGTGTAT-ATTTATTATACACGTAT
* * * *
8303837 GTATATATATTTTTATATATAGTATTATTTTAATTACTTTATTTTAATATTATTATTATATTATA
65 ATATATATATGTATATATATAGCATTATTTTAATTACTTTATTTTAATATTATTATTATATTATA
8303902 TTTGCTTTTTGCATTTCAACATTATTATCATCATT
130 TTTGCTTTTTGCATTTCAACATTATTAT-ATCATT
* *
8303937 ATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTATTATATACGTATA
1 ATTATTATTATTATTATTATTATTATTATTAATATATATTAGTGTATATTTATTATACACGTATA
* *
8304002 TGTATATATGTATATATATAGCAGTGT-TTTTTATTACTTTATTTT-A-A-TATT-TT-TATTAT
66 TATATATATGTATATATATAGCA-T-TATTTTAATTACTTTATTTTAATATTATTATTATATTAT
* *
8304061 ATTTGCTTTTTGTATTTCAATATTATTAT-T-ATT
129 ATTTGCTTTTTGCATTTCAACATTATTATATCATT
*
8304094 ATTA-TATGTTTTATTATATATGTATATATCT-TTAATATATA-TA-TGTATAT
1 ATTATTAT-TATTATTAT-TAT-TAT-TAT-TATTAATATATATTAGTGTATAT
8304144 GTTTATGTAG
Statistics
Matches: 182, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
156 3 0.02
157 15 0.08
158 11 0.06
159 5 0.03
160 45 0.25
161 3 0.02
162 4 0.02
163 1 0.01
164 64 0.35
165 30 0.16
166 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (163 bp):
ATTATTATTATTATTATTATTATTATTATTAATATATATTAGTGTATATTTATTATACACGTATA
TATATATATGTATATATATAGCATTATTTTAATTACTTTATTTTAATATTATTATTATATTATAT
TTGCTTTTTGCATTTCAACATTATTATATCATT
Found at i:8304208 original size:20 final size:19
Alignment explanation
Indices: 8304194--8304236 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
8304184 ATTATTTCTA
8304194 ATATTTATATATTATGTAT
1 ATATTTATATATTATGTAT
8304213 ATATTATATATATTATGTAT
1 ATATT-TATATATTATGTAT
8304233 ATAT
1 ATAT
8304237 ATTTTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATATTTATATATTATGTAT
Found at i:8304215 original size:11 final size:11
Alignment explanation
Indices: 8304199--8304236 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
8304189 TTCTAATATT
8304199 TATATATTATG
1 TATATATTATG
8304210 TATATATTA--
1 TATATATTATG
8304219 TATATATTATG
1 TATATATTATG
8304230 TATATAT
1 TATATAT
8304237 ATTTTTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:8304308 original size:25 final size:24
Alignment explanation
Indices: 8304249--8304308 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
8304239 TTTTAACATT
*
8304249 ATTTTTTATATATAATATGTATAT
1 ATTTTTTATATATAATATGTATAC
* * *
8304273 ATATTTAATATCATATTAT-TCATAC
1 ATTTTTTATAT-ATAATATGT-ATAC
8304298 ATTTTTTATAT
1 ATTTTTTATAT
8304309 TATCCCATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTTATATATAATATGTATAC
Found at i:8308358 original size:22 final size:22
Alignment explanation
Indices: 8308333--8308388 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
8308323 ATTCATGACT
*
8308333 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
8308355 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
8308377 ATTCATTCATTC
1 A-ACATTCATTC
8308389 ATTGCATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:8308374 original size:4 final size:4
Alignment explanation
Indices: 8308367--8308391 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8308357 CATTCATTTG
8308367 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
8308392 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:8316754 original size:74 final size:72
Alignment explanation
Indices: 8316634--8316919 Score: 317
Period size: 74 Copynumber: 3.7 Consensus size: 72
8316624 ATTCTGATGT
* * *
8316634 TTTTCAATTTATGTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAGACG
1 TTTTCAATTT-TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
8316699 TTGAGGTA
65 TTGAGGTA
8316707 TTTTCAATTTCTGACTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTT-TG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
8316771 CGCTGAGGTAA
63 CGTTGAGGT-A
*
8316782 TTTT-AATTTTCGTTTTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAG
1 TTTTCAATTTT-G--TTTC-A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
8316846 CCTCAGGACACGTTGAGGTA
53 CCTCAGGACACGTTGAGGTA
8316866 TTTTCAATTTTTGTTCGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAA-TTTTGTT--TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
8316920 TCTCGGGCCA
Statistics
Matches: 184, Mismatches: 10, Indels: 37
0.80 0.04 0.16
Matches are distributed among these distances:
73 13 0.07
74 93 0.51
75 9 0.05
79 1 0.01
80 1 0.01
83 2 0.01
84 5 0.03
85 56 0.30
86 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
TGAGGTA
Found at i:8317081 original size:80 final size:82
Alignment explanation
Indices: 8316988--8317212 Score: 283
Period size: 80 Copynumber: 2.7 Consensus size: 82
8316978 TATGTGTTTC
* *
8316988 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTCCAA
8317053 TTTCAGTTTTCCAA-A-
66 TTTCAGTTTTCCAATAT
* *
8317068 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTCCAA
* *
8317133 TTTCTGTTTTTCAATTTATGTT
66 TTTCAGTTTTCCAA--TA---T
* * * * *
8317155 CCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGGTCATACGCTGAGGT
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
8317213 GAGTTGAGCC
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
80 73 0.57
83 1 0.01
88 53 0.42
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (82 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTCCAA
TTTCAGTTTTCCAATAT
Found at i:8318677 original size:3 final size:3
Alignment explanation
Indices: 8318653--8318759 Score: 76
Period size: 3 Copynumber: 35.7 Consensus size: 3
8318643 TGTCTAATAC
* *
8318653 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * *
8318698 TCT TAAT GTAT TAT TAT TACT AAT TAT TTT TAT TGC AAG TAT TAT TAT
1 TAT T-AT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8318746 TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TA
8318760 GTGTATGTTT
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
2 6 0.08
3 68 0.85
4 5 0.06
5 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8319032 original size:21 final size:23
Alignment explanation
Indices: 8319006--8319072 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
8318996 ATTATTATTA
8319006 TTATTAT-TAT-TAGTATATGTT
1 TTATTATATATATAGTATATGTT
* *
8319027 TTATTATATATGTA-TATAT-CT
1 TTATTATATATATAGTATATGTT
*
8319048 TTAATATATATATATGTATATGTT
1 TTATTATATATATA-GTATATGTT
8319072 T
1 T
8319073 ATGTAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 20 0.54
22 8 0.22
23 7 0.19
24 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58
Consensus pattern (23 bp):
TTATTATATATATAGTATATGTT
Found at i:8319042 original size:127 final size:129
Alignment explanation
Indices: 8318724--8319045 Score: 413
Period size: 131 Copynumber: 2.5 Consensus size: 129
8318714 TTACTAATTA
* * * *
8318724 TTTT-TATTGCAAGTATTATTATTATTATTAATATTAGTGTATGTTTTATTATACATGTATGTAT
1 TTTTGTATTTCAAGTATTATTATTATTATTATTATTAGTGTATGTTTTATTATATATGTATATAT
* * * *
8318788 ATATATTTTTATATATAGTATTATTTTAATTACTTTATTTTAATATTATTATATTATATTTGCT
66 ATATATGTATATATATAGCATTATTTTAATTAATTTATTTTAATATTATTATATTATATTTGCT
* * * * *
8318852 TTTTGCATTTCAACATTATTATCATTATTATTATATATTAGTGTAT-ATTTATTATATACGTATA
1 TTTTGTATTTC-A-AGTATTATTATTATTATTAT-TATTAGTGTATGTTTTATTATATATGTATA
* *
8318916 TGTATATATGTATATATATAGCAGTGT-TTTTTATTAATTTATTTTAATATT-TT-TATTATATT
63 TATATATATGTATATATATAGCA-T-TATTTTAATTAATTTATTTTAATATTATTATATTATATT
8318978 TGCT
126 TGCT
*
8318982 TTTTGTATTTCAA-TATTATTATTATTATTATTATTAGTATATGTTTTATTATATATGTATATAT
1 TTTTGTATTTCAAGTATTATTATTATTATTATTATTAGTGTATGTTTTATTATATATGTATATAT
8319046 CTTTAATATA
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
126 10 0.06
127 35 0.21
128 5 0.03
129 5 0.03
130 24 0.14
131 52 0.31
132 34 0.20
133 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (129 bp):
TTTTGTATTTCAAGTATTATTATTATTATTATTATTAGTGTATGTTTTATTATATATGTATATAT
ATATATGTATATATATAGCATTATTTTAATTAATTTATTTTAATATTATTATATTATATTTGCT
Found at i:8319067 original size:23 final size:22
Alignment explanation
Indices: 8319018--8319073 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
8319008 ATTATTATTA
* *
8319018 GTATATGTTTTATTATATATGT
1 GTATATGTTTAATTATATATAT
* *
8319040 ATATATCTTTAATATATATATAT
1 GTATATGTTTAAT-TATATATAT
8319063 GTATATGTTTA
1 GTATATGTTTA
8319074 TGTAGTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
GTATATGTTTAATTATATATAT
Found at i:8319493 original size:14 final size:14
Alignment explanation
Indices: 8319454--8319487 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8319444 ATCATTATTA
*
8319454 ACATATATATATGT
1 ACATATATTTATGT
*
8319468 ATATATATTTATGT
1 ACATATATTTATGT
8319482 ACATAT
1 ACATAT
8319488 TGTTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
ACATATATTTATGT
Found at i:8322051 original size:30 final size:30
Alignment explanation
Indices: 8322017--8322075 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
8322007 TATTTTACTA
*
8322017 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTCAAAGGCATTTG
*
8322047 TTAATTTTGTTATTATTTCAGAGGCATTT
1 TTAATTTTGTTATTATTTCAAAGGCATTT
8322076 ACTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTCAAAGGCATTTG
Found at i:8326848 original size:11 final size:11
Alignment explanation
Indices: 8326832--8326862 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8326822 AAGTATGGGT
8326832 AGGTATGGGAA
1 AGGTATGGGAA
*
8326843 AGGTATGGGCA
1 AGGTATGGGAA
8326854 AGGTATGGG
1 AGGTATGGG
8326863 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:8330968 original size:36 final size:36
Alignment explanation
Indices: 8330916--8331002 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
8330906 CCCAACTACT
*
8330916 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
8330952 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
8330988 GTATACGTGAATAGT
1 GTATACGTGAATAGT
8331003 GCCGTAAACG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:8331003 original size:18 final size:18
Alignment explanation
Indices: 8330916--8331008 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
8330906 CCCAACTACT
* * *
8330916 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
8330934 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
8330952 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCC
8330970 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
8330988 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
8331006 GTA
1 GTA
8331009 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:8331569 original size:11 final size:11
Alignment explanation
Indices: 8331553--8331583 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8331543 AAGTATGGGT
8331553 AGGTATGGGAA
1 AGGTATGGGAA
*
8331564 AGGTATGGGCA
1 AGGTATGGGAA
8331575 AGGTATGGG
1 AGGTATGGG
8331584 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:8332184 original size:2 final size:2
Alignment explanation
Indices: 8332177--8332203 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8332167 ACATGCATAA
8332177 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
8332204 AAACCTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8335866 original size:17 final size:17
Alignment explanation
Indices: 8335840--8335878 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8335830 TTTTTCTTGG
8335840 ATTTTAAT-TTTT-TAA
1 ATTTTAATATTTTATAA
*
8335855 TTTTTAATATTTTATAA
1 ATTTTAATATTTTATAA
8335872 ATTTTAA
1 ATTTTAA
8335879 ATTATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 4 0.20
17 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTAATATTTTATAA
Found at i:8338704 original size:17 final size:17
Alignment explanation
Indices: 8338681--8338736 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
8338671 AACAGACTAA
8338681 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
* *
8338698 TTAACTGCTAACTATTG
1 CTAACTGCTAACTGTTG
8338715 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
8338732 CTAAC
1 CTAAC
8338737 AACCACAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (17 bp):
CTAACTGCTAACTGTTG
Found at i:8340577 original size:24 final size:24
Alignment explanation
Indices: 8340550--8340601 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8340540 TTAGTAAGTC
*
8340550 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8340574 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8340598 AAAT
1 AAAT
8340602 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8342548 original size:24 final size:24
Alignment explanation
Indices: 8342521--8342572 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8342511 TTAGTAAGTC
*
8342521 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
8342545 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
8342569 AAAT
1 AAAT
8342573 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:8345631 original size:17 final size:17
Alignment explanation
Indices: 8345604--8345659 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
8345594 AATAGACTAA
8345604 CTAACTGCTAACTGTTG
1 CTAACTGCTAACTGTTG
* *
8345621 TTAACTACTAACTGTTG
1 CTAACTGCTAACTGTTG
*
8345638 CTAACTGCTAATTGTTG
1 CTAACTGCTAACTGTTG
8345655 CTAAC
1 CTAAC
8345660 AACCATAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
CTAACTGCTAACTGTTG
Found at i:8358448 original size:29 final size:29
Alignment explanation
Indices: 8358392--8358463 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
8358382 CGGCCTTTTT
*
8358392 TATTAAAATAACCCCTTAATTTTAATTAAA
1 TATTAAAATGACCCCTT-ATTTTAATTAAA
8358422 TATTAAAATGACCCACTT-TTTTAATTAAA
1 TATTAAAATGACCC-CTTATTTTAATTAAA
* *
8358451 CACTAAAATGACC
1 TATTAAAATGACC
8358464 TGAAATCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.58
30 13 0.34
31 3 0.08
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (29 bp):
TATTAAAATGACCCCTTATTTTAATTAAA
Found at i:8358756 original size:4 final size:4
Alignment explanation
Indices: 8358747--8358777 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
8358737 TTTTGTCTTT
8358747 TTTA TTTA TTTA TTTA TTTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TT
8358778 ATTATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:8358767 original size:13 final size:13
Alignment explanation
Indices: 8358747--8358783 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
8358737 TTTTGTCTTT
8358747 TTTA-TTTATTTA
1 TTTATTTTATTTA
8358759 TTTATTTTATTTA
1 TTTATTTTATTTA
8358772 TTTATTATTATT
1 TTTATT-TTATT
8358784 AACTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:8358816 original size:22 final size:22
Alignment explanation
Indices: 8358791--8358864 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 22
8358781 ATTAACTTTA
8358791 AAATTTTTGAAATATATA-TTTG
1 AAATTTTT-AAATATATATTTTG
*
8358813 AAATATTTTATTAATATATATTTTTT
1 AAAT-TTTTA--AATATATA-TTTTG
8358839 AAA-TTTTAAATATATATTTTG
1 AAATTTTTAAATATATATTTTG
8358860 AAATT
1 AAATT
8358865 ACTTTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 7 0.16
22 14 0.32
23 4 0.09
24 13 0.30
26 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
AAATTTTTAAATATATATTTTG
Found at i:8358871 original size:26 final size:25
Alignment explanation
Indices: 8358793--8358874 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 25
8358783 TAACTTTAAA
8358793 ATTTTTGAAATATATA-TTTGAAA-T
1 ATTTTT-AAATATATATTTTGAAATT
* **
8358817 ATTTTATTAATATATATTTTTTAA--
1 ATTTT-TAAATATATATTTTGAAATT
8358841 A-TTTTAAATATATATTTTGAAATT
1 ATTTTTAAATATATATTTTGAAATT
8358865 ACTTTTTAAA
1 A-TTTTTAAA
8358875 ATTTTAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
22 15 0.33
23 3 0.07
24 15 0.33
25 6 0.13
26 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTTAAATATATATTTTGAAATT
Found at i:8358878 original size:21 final size:23
Alignment explanation
Indices: 8358852--8358908 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
8358842 TTTTAAATAT
*
8358852 ATATTTTGAA-ATTACTTTTTAA
1 ATATTTTAAATATTACTTTTTAA
*
8358874 A-ATTTTAAATATTATTTTTTAA
1 ATATTTTAAATATTACTTTTTAA
8358896 ATA-TTTAAATATT
1 ATATTTTAAATATT
8358909 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.23
22 23 0.74
23 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTTAAATATTACTTTTTAA
Found at i:8359235 original size:11 final size:10
Alignment explanation
Indices: 8359212--8359258 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
8359202 CATCTTTCAC
*
8359212 TTTTTTTTTA
1 TTTTTTATTA
8359222 TTTATTTATTA
1 TTT-TTTATTA
8359233 TTTTTT-TTA
1 TTTTTTATTA
8359242 GTTTTTTATTA
1 -TTTTTTATTA
8359253 TCTTTT
1 T-TTTT
8359259 GTCTTTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 3 0.09
10 13 0.41
11 16 0.50
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:8359238 original size:20 final size:20
Alignment explanation
Indices: 8359213--8359258 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
8359203 ATCTTTCACT
8359213 TTTTTTTTA-TTTATTTATTA
1 TTTTTTTTAGTTT-TTTATTA
8359233 TTTTTTTTAGTTTTTTATTA
1 TTTTTTTTAGTTTTTTATTA
8359253 TCTTTT
1 T-TTTT
8359259 GTCTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTTTTAGTTTTTTATTA
Found at i:8359422 original size:12 final size:13
Alignment explanation
Indices: 8359389--8359422 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
8359379 TATTTTTTAA
8359389 ATTTTAAA-TATT
1 ATTTTAAATTATT
8359401 ATTTTAAATTATT
1 ATTTTAAATTATT
8359414 -TTTTAAATT
1 ATTTTAAATT
8359423 TTGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:8359735 original size:30 final size:31
Alignment explanation
Indices: 8359699--8359761 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
8359689 AAAAAATCAA
* * *
8359699 TTATTTTGATAATAAATTAAATT-TTTTATG
1 TTATTTTGATAAAAAAATAAATTATTTAATG
*
8359729 TTATTTTTATAAAAAAATAAATTATTTAATG
1 TTATTTTGATAAAAAAATAAATTATTTAATG
8359760 TT
1 TT
8359762 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (31 bp):
TTATTTTGATAAAAAAATAAATTATTTAATG
Found at i:8359775 original size:18 final size:19
Alignment explanation
Indices: 8359760--8359797 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8359750 TTATTTAATG
8359760 TTTAAAAAA-AATTTAAAA
1 TTTAAAAAATAATTTAAAA
8359778 TTTAAAAAATAATTTAAAA
1 TTTAAAAAATAATTTAAAA
8359797 T
1 T
8359798 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAAAAAATAATTTAAAA
Found at i:8359793 original size:12 final size:13
Alignment explanation
Indices: 8359776--8359809 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
8359766 AAAAATTTAA
8359776 AATTTAAAA-AAT
1 AATTTAAAATAAT
8359788 AATTTAAAATAAT
1 AATTTAAAATAAT
8359801 -ATTTAAAAT
1 AATTTAAAAT
8359810 TTACAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTTAAAATAAT
Found at i:8359807 original size:31 final size:30
Alignment explanation
Indices: 8359760--8359819 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
8359750 TTATTTAATG
8359760 TTTAAAAAAAATTTAAAATTTAAAAAATAA
1 TTTAAAAAAAATTTAAAATTTAAAAAATAA
* *
8359790 TTTAAAATAATATTTAAAATTTACAAAATA
1 TTTAAAA-AAAATTTAAAATTTAAAAAATA
8359820 TATATTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTAAAAAAAATTTAAAATTTAAAAAATAA
Found at i:8359891 original size:22 final size:21
Alignment explanation
Indices: 8359861--8359998 Score: 60
Period size: 22 Copynumber: 6.6 Consensus size: 21
8359851 AAATTTTTTA
*
8359861 AAATTAATAAGAAAAAATAATT
1 AAATAAATAA-AAAAAATAATT
*
8359883 AAATAAATAAACAAAAT-A--
1 AAATAAATAAAAAAAATAATT
*
8359901 AAATAAGA-AAAAAATATAA--
1 AAATAA-ATAAAAAAAATAATT
*
8359920 AACTTAAA-AAAAGAAAATAATTT
1 AA-ATAAATAAAA-AAAATAA-TT
* *
8359943 AAAGAAAAAGAAAAAAGATAA-T
1 AAATAAATA-AAAAAA-ATAATT
* *
8359965 AAAAAAACTAAAAAAAATAAAT
1 AAATAAA-TAAAAAAAATAATT
*
8359987 AAGTAAA-AAAAA
1 AAATAAATAAAAA
8359999 GAGTGAAAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
18 13 0.14
19 9 0.10
20 15 0.16
21 10 0.11
22 31 0.34
23 7 0.08
24 7 0.08
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAATT
Found at i:8359919 original size:18 final size:18
Alignment explanation
Indices: 8359866--8359921 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
8359856 TTTTAAAATT
*
8359866 AATAAG-AAAAAATAATTA
1 AATAAGAAAAAAAT-ATAA
8359884 AATAA-ATAAACAAA-ATAA
1 AATAAGA-AAA-AAATATAA
8359902 AATAAGAAAAAAATATAA
1 AATAAGAAAAAAATATAA
8359920 AA
1 AA
8359922 CTTAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 3 0.09
18 22 0.69
19 4 0.12
20 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AATAAGAAAAAAATATAA
Found at i:8359969 original size:13 final size:12
Alignment explanation
Indices: 8359860--8359998 Score: 61
Period size: 12 Copynumber: 11.4 Consensus size: 12
8359850 TAAATTTTTT
*
8359860 AAAATTAATAAGA
1 AAAAATAATAA-A
*
8359873 AAAAATAATTAA
1 AAAAATAATAAA
*
8359885 ATAAATAA-ACAA
1 AAAAATAATA-AA
* *
8359897 AATAA-AATAAG
1 AAAAATAATAAA
*
8359908 AAAAA-AATATA
1 AAAAATAATAAA
** *
8359919 AAACTTAAAAAA
1 AAAAATAATAAA
*
8359931 AGAAAATAATTTAA
1 A-AAAATAA-TAAA
* *
8359945 AGAAA-AAGAAA
1 AAAAATAATAAA
*
8359956 AAAGATAATAAA
1 AAAAATAATAAA
* *
8359968 AAAACTAAAAAA
1 AAAAATAATAAA
8359980 AATAAATAAGTAAA
1 AA-AAATAA-TAAA
8359994 AAAAA
1 AAAAA
8359999 GAGTGAAAGA
Statistics
Matches: 89, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
11 19 0.21
12 37 0.42
13 25 0.28
14 8 0.09
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (12 bp):
AAAAATAATAAA
Found at i:8360349 original size:21 final size:22
Alignment explanation
Indices: 8360312--8360366 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
8360302 GAAAGTTTAA
8360312 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTTAAAAAAGT
8360334 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
8360356 AAT-TTCAAAAT
1 AATATTTAAAAT
8360367 ATATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:8360390 original size:22 final size:21
Alignment explanation
Indices: 8360356--8360428 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 21
8360346 TTAAAAAAGT
*
8360356 AATTTCAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
8360377 AATTTAAAAAATATATATTAATAA
1 AATTT-AAAAATATATATT--TAA
**
8360401 AATATTTCAAATATATATTTCAA
1 AAT-TTAAAAATATATATTT-AA
8360424 AATTT
1 AATTT
8360429 TTAAAGTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.11
22 15 0.34
23 5 0.11
24 17 0.39
25 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:8362744 original size:20 final size:20
Alignment explanation
Indices: 8362715--8362753 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8362705 GACGACTATA
*
8362715 AAATAGAAGAAATAAACTTC
1 AAATAAAAGAAATAAACTTC
8362735 AAATAAAAGAAATAAACTT
1 AAATAAAAGAAATAAACTT
8362754 TTATATGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAAAAGAAATAAACTTC
Found at i:8363409 original size:18 final size:16
Alignment explanation
Indices: 8363378--8363424 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
8363368 GTCATCTCAA
* *
8363378 TAAATAATTTAAAATT
1 TAAAAAATTAAAAATT
8363394 TATAAAATATTAAAAATT
1 TA-AAAA-ATTAAAAATT
8363412 TAAAAAATTAAAA
1 TAAAAAATTAAAA
8363425 TTCAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 7 0.26
18 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAAATTAAAAATT
Found at i:8363414 original size:8 final size:8
Alignment explanation
Indices: 8363378--8363424 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
8363368 GTCATCTCAA
8363378 TAAATAATT
1 TAAA-AATT
8363387 T-AAAATT
1 TAAAAATT
8363394 TATAAAATAT
1 TA-AAAAT-T
8363404 TAAAAATT
1 TAAAAATT
*
8363412 TAAAAAAT
1 TAAAAATT
8363420 TAAAA
1 TAAAA
8363425 TTCAAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 15 0.44
9 11 0.32
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAAATT
Found at i:8367100 original size:72 final size:72
Alignment explanation
Indices: 8367005--8367243 Score: 374
Period size: 72 Copynumber: 3.3 Consensus size: 72
8366995 AAATGCTAAA
* *
8367005 CTAGTTTTATCAATAGTTATTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
8367070 GTGTAAT
66 GTGTAAT
* *
8367077 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
8367142 GTGTAAT
66 GTGTAAT
* *
8367149 CTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
8367214 ACT-AAAT
66 -GTGTAAT
*
8367221 -TAGTTTTACCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
8367244 ATATGATTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
71 21 0.14
72 132 0.86
73 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:8385932 original size:33 final size:31
Alignment explanation
Indices: 8385865--8385928 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
8385855 TTAAGTATTG
*
8385865 TTATCCCACATCTTTTATATATTGGATTTTT
1 TTATCCCACATCTTTTATATATTAGATTTTT
8385896 TTATCCCACATCTTTTATATATTAGATTTTT
1 TTATCCCACATCTTTTATATATTAGATTTTT
8385927 TT
1 TT
8385929 TTATTTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (31 bp):
TTATCCCACATCTTTTATATATTAGATTTTT
Found at i:8398817 original size:5 final size:5
Alignment explanation
Indices: 8398807--8398858 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
8398797 AGGTAACCTG
* *
8398807 CTGTT CTGTT CTGTC CTGTT CT-TCT GCTGTT CTGTT CTGTT CTGTC CTGTT
1 CTGTT CTGTT CTGTT CTGTT CTGT-T -CTGTT CTGTT CTGTT CTGTT CTGTT
8398858 C
1 C
8398859 CTTTCATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 1 0.03
5 35 0.88
6 3 0.08
7 1 0.03
ACGTcount: A:0.00, C:0.27, G:0.19, T:0.54
Consensus pattern (5 bp):
CTGTT
Found at i:8400080 original size:3 final size:3
Alignment explanation
Indices: 8400074--8400106 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8400064 AAAAAAAAAA
8400074 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8400107 GATAACTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8401860 original size:42 final size:42
Alignment explanation
Indices: 8401813--8401896 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
8401803 AATCCTAATT
**
8401813 GGGAAAATAATTCTCTTATTCTAAGAAACTACTAAAACATAA
1 GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
* * *
8401855 GGGAAAATAGTTCTCTTAAACTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
8401897 AATAAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCTCTTAAACTAAGAAACTACTAAAACATAA
Found at i:8401947 original size:19 final size:18
Alignment explanation
Indices: 8401925--8401964 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
8401915 TGAATAAAAC
8401925 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
8401944 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
8401962 TTA
1 TTA
8401965 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:8404922 original size:33 final size:33
Alignment explanation
Indices: 8404880--8405003 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
8404870 TTTCTTCTTG
*
8404880 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
8404913 ACATTCCAGCTCCTGTCCAGTAACTAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
8404946 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
8404979 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
8405004 TGAAACAGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.30, C:0.41, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:8417087 original size:33 final size:33
Alignment explanation
Indices: 8417025--8417092 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
8417015 ATGTCCAAAC
* * * * *
8417025 AATAACAATAAAATAGTAGTAACATAATAAGAA
1 AATAACAATAAAACAGTAGGAAAACAATAAAAA
*
8417058 AATAACATTAAAACAGTAGGAAAACAATAAAAA
1 AATAACAATAAAACAGTAGGAAAACAATAAAAA
8417091 AA
1 AA
8417093 ATAATAGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (33 bp):
AATAACAATAAAACAGTAGGAAAACAATAAAAA
Found at i:8419571 original size:43 final size:43
Alignment explanation
Indices: 8419504--8419742 Score: 270
Period size: 42 Copynumber: 5.6 Consensus size: 43
8419494 GGTTTATGAA
* * * *
8419504 AAACGCCGCTATAGAACATAACCTTTAGAGGCTCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
8419547 AAACTCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* **
8419589 AAACGTCGCTAAAGAACATGACCTTTAGCGGTACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
8419632 AAACGCCGCTATAGAACA-GACCTTTAGCGACGCTTTTGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* ** * ** *
8419674 AAATGCCATTATA-AA-ATAGACCTTTAGTTGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCCAC
8419716 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
8419743 AAAAATTATT
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 95 0.59
43 62 0.38
44 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:8419614 original size:85 final size:85
Alignment explanation
Indices: 8419504--8419742 Score: 281
Period size: 85 Copynumber: 2.8 Consensus size: 85
8419494 GGTTTATGAA
* *
8419504 AAACGCCGCTATAGAACATAACCTTTAGAGGCTCTTTTCCCACAAACTCCGCTAAAGAACATGAC
1 AAACGCCGCTATAGAACATGACCTTTAGAGGCTCTTTTCCCACAAACGCCGCTAAAGAACATGAC
*
8419569 CTTTAGCGGCGC-TTTCTCAC
66 CTTTAGCGACGCTTTTC-CAC
* * * *
8419589 AAACGTCGCTAAAGAACATGACCTTTAGCGG-TACTTTTCCCACAAACGCCGCTATAGAACA-GA
1 AAACGCCGCTATAGAACATGACCTTTAGAGGCT-CTTTTCCCACAAACGCCGCTAAAGAACATGA
8419652 CCTTTAGCGACGCTTTTGCCAC
65 CCTTTAGCGACGCTTTT-CCAC
* ** ** * *
8419674 AAATGCCATTATA-AA-ATAGACCTTTAGTTGCGCTTTTCTCACAAACGCCGCTAAAGAACATGA
1 AAACGCCGCTATAGAACAT-GACCTTTAGAGGCTCTTTTCCCACAAACGCCGCTAAAGAACATGA
8419737 CCTTTA
65 CCTTTA
8419743 AAAAATTATT
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
83 2 0.02
84 53 0.40
85 75 0.57
86 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGAACATGACCTTTAGAGGCTCTTTTCCCACAAACGCCGCTAAAGAACATGAC
CTTTAGCGACGCTTTTCCAC
Found at i:8423581 original size:21 final size:21
Alignment explanation
Indices: 8423556--8423596 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8423546 CCCTATCCCC
*
8423556 TAAACCCTAAATCATAAAACA
1 TAAACCCGAAATCATAAAACA
*
8423577 TAAACCCGAAATCATTAAAC
1 TAAACCCGAAATCATAAAAC
8423597 CCTAGCCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACCCGAAATCATAAAACA
Found at i:8423635 original size:14 final size:15
Alignment explanation
Indices: 8423620--8423672 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
8423610 CCTTGACACC
8423620 TAAACCTTAAATCC-
1 TAAACCTTAAATCCA
8423634 T-AACTCTTAAA-CCA
1 TAAAC-CTTAAATCCA
*
8423648 TAAACCAT-AATCCA
1 TAAACCTTAAATCCA
8423662 TAAACCTTAAA
1 TAAACCTTAAA
8423673 ATAGTAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.22
14 20 0.62
15 5 0.16
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAACCTTAAATCCA
Found at i:8423644 original size:21 final size:21
Alignment explanation
Indices: 8423620--8423672 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
8423610 CCTTGACACC
*
8423620 TAAACCTTAAATCC-TAA-CTCT
1 TAAACCTTAAA-CCATAATC-CA
*
8423641 TAAACCATAAACCATAATCCA
1 TAAACCTTAAACCATAATCCA
8423662 TAAACCTTAAA
1 TAAACCTTAAA
8423673 ATAGTAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCTTAAACCATAATCCA
Found at i:8424228 original size:38 final size:39
Alignment explanation
Indices: 8424160--8424246 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 39
8424150 TAGAAAGCAC
*
8424160 CGCTAATGCTCGATCTATAGCGGAGTTTTTCAAGAAGCG-
1 CGCTAATGCTCGATC-ATAGCGGAGTTTTTCAAAAAGCGT
8424199 CTGCTAATGCTCGATC-TAGCGGCA-TTTTTCAAAAAGCGT
1 C-GCTAATGCTCGATCATAGCGG-AGTTTTTCAAAAAGCGT
8424238 CGCTAATGC
1 CGCTAATGC
8424247 CACTAAAGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
38 27 0.61
39 3 0.07
40 14 0.32
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (39 bp):
CGCTAATGCTCGATCATAGCGGAGTTTTTCAAAAAGCGT
Done.