Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 45 of 318
Found at i:12589762 original size:41 final size:41
Alignment explanation
Indices: 12589705--12589786 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
12589695 ATGAAATTTT
*
12589705 GCTATTAGTTTTATATTATACTTAAGCTTTGGATTTAGTTC
1 GCTATTAGTTTTATATTATACTTAAGCTTTGAATTTAGTTC
12589746 GCTATTAGTTTTATATTATACTTAAGCTTTGAATTTAGTTC
1 GCTATTAGTTTTATATTATACTTAAGCTTTGAATTTAGTTC
12589787 TTATTCTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (41 bp):
GCTATTAGTTTTATATTATACTTAAGCTTTGAATTTAGTTC
Found at i:12591463 original size:3 final size:3
Alignment explanation
Indices: 12591455--12591558 Score: 63
Period size: 3 Copynumber: 35.3 Consensus size: 3
12591445 TTTTATTAAT
* * *
12591455 TTA TTA TTA TTA TTA TT- TTCA ATC TTA TTA TTA TT- GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * **
12591499 TCA TTA TTA TTA -TA TTA CTA AAA TTAA TTA TT- TCA ACA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
*
12591543 TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
12591559 ACTTGATATA
Statistics
Matches: 76, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
2 6 0.08
3 66 0.87
4 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:12591524 original size:20 final size:20
Alignment explanation
Indices: 12591481--12591530 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
12591471 TTTCAATCTT
* * **
12591481 ATTATTATTGTATTATTATC
1 ATTATTATTATATTACTAAA
12591501 ATTATTATTATATTACTAAA
1 ATTATTATTATATTACTAAA
12591521 ATTAATTATT
1 ATT-ATTATT
12591531 TCAACATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATATTACTAAA
Found at i:12591760 original size:26 final size:25
Alignment explanation
Indices: 12591730--12591841 Score: 82
Period size: 26 Copynumber: 4.4 Consensus size: 25
12591720 TTTTACGCAG
12591730 TATTTTAAATTGTTTTATATAATGTT
1 TATTTTAAATT-TTTTATATAATGTT
* * *
12591756 TATTTTAAATTTTTTTATTTTAT-AT
1 TATTTTAAA-TTTTTTATATAATGTT
* * * * * *
12591781 CATTTCAAATTATTTCATATATTATC
1 TATTTTAAATT-TTTTATATAATGTT
* *
12591807 TATTTTAAGTTTTTATATATATTGTT
1 TATTTTAAATTTTT-TATATAATGTT
12591833 TATTTTAAA
1 TATTTTAAA
12591842 CTTATATATT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
24 2 0.03
25 18 0.28
26 42 0.66
27 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTTTAAATTTTTTATATAATGTT
Found at i:12591849 original size:26 final size:26
Alignment explanation
Indices: 12591797--12591850 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
12591787 AAATTATTTC
** *
12591797 ATATATTATCTATTTTAAGTTTTTAT
1 ATATATTATCTATTTTAAACTTATAT
* *
12591823 ATATATTGTTTATTTTAAACTTATAT
1 ATATATTATCTATTTTAAACTTATAT
12591849 AT
1 AT
12591851 TATCTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATATTATCTATTTTAAACTTATAT
Found at i:12591979 original size:22 final size:22
Alignment explanation
Indices: 12591933--12591972 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12591923 CACATTATAT
12591933 TTTTTGAATTCATTTGTTATCA
1 TTTTTGAATTCATTTGTTATCA
12591955 TTTTTGAATT-ATTT-TTAT
1 TTTTTGAATTCATTTGTTAT
12591973 TCTATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTTTGAATTCATTTGTTATCA
Found at i:12598317 original size:46 final size:46
Alignment explanation
Indices: 12598267--12598395 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
12598257 TGGTTGAGCA
* *
12598267 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
12598313 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
12598359 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12598396 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:12600112 original size:6 final size:6
Alignment explanation
Indices: 12600101--12600168 Score: 66
Period size: 6 Copynumber: 10.8 Consensus size: 6
12600091 TAAGACCTTA
* *
12600101 AAAAAT AAAAAT AAAAAT AAAAATT AAAAA- ATAAAAG AAAAAT AAATATAA
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT A-AAAAT AAAAAT AAA-A-AT
*
12600152 AAAAAT CAAAAT AAAAA
1 AAAAAT AAAAAT AAAAA
12600169 AGAATAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 1 0.02
6 38 0.73
7 9 0.17
8 4 0.08
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:12600131 original size:26 final size:25
Alignment explanation
Indices: 12600098--12600168 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
12600088 CATTAAGACC
12600098 TTAAAAAATAAAAATAAAAATAAAAA
1 TTAAAAAAT-AAAATAAAAATAAAAA
* *
12600124 TTAAAAAATAAAAGAAAAATAAATA
1 TTAAAAAATAAAATAAAAATAAAAA
*
12600149 TAAAAAAATCAAAATAAAAA
1 TTAAAAAAT-AAAATAAAAA
12600169 AGAATAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 22 0.55
26 18 0.45
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.18
Consensus pattern (25 bp):
TTAAAAAATAAAATAAAAATAAAAA
Found at i:12600147 original size:15 final size:14
Alignment explanation
Indices: 12600103--12600182 Score: 58
Period size: 14 Copynumber: 5.6 Consensus size: 14
12600093 AGACCTTAAA
*
12600103 AAAT-AAAAATAA-
1 AAATAAAAAAAAAT
*
12600115 AAATAAAAATTAAA-
1 AAATAAAAA-AAAAT
12600129 AAATAAAAGAAAAAT
1 AAATAAAA-AAAAAT
*
12600144 AAATATAAAAAAAT
1 AAATAAAAAAAAAT
*
12600158 CAAAATAAAAAAGAAT
1 --AAATAAAAAAAAAT
*
12600174 AAAGAAAAA
1 AAATAAAAA
12600183 GGAGAGACCA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.07
13 4 0.07
14 27 0.49
15 8 0.15
16 12 0.22
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATAAAAAAAAAT
Found at i:12600163 original size:31 final size:29
Alignment explanation
Indices: 12600102--12600176 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 29
12600092 AAGACCTTAA
12600102 AAAATAAAAATAAAAATAAAAATTAAAAAAT
1 AAAA-AAAAATAAAAATAAAAA-TAAAAAAT
*
12600133 AAAAGAAAAATAAATATAAAAA-AATCAAAAT
1 AAAA-AAAAATAAAAATAAAAATAA--AAAAT
*
12600164 AAAAAAGAATAAA
1 AAAAAAAAATAAA
12600177 GAAAAAGGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.05
30 8 0.21
31 29 0.74
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (29 bp):
AAAAAAAAATAAAAATAAAAATAAAAAAT
Found at i:12601657 original size:44 final size:46
Alignment explanation
Indices: 12601609--12601705 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
12601599 AGCCACCAGC
**
12601609 CTTATCTCTC-TGAGGTAGCAA-GAGAGCAGGTTGAAAATTGTAG-T
1 CTTATCTCTCTTGAGGTAGCAAGGA-AGCAGACTGAAAATTGTAGAT
* **
12601653 CTTAT-TTTCTTGAGGTAGCAAGGAAGCAGACTGAGGATTGTAGAT
1 CTTATCTCTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTGTAGAT
12601698 CTTATCTC
1 CTTATCTC
12601706 CCTAAGGAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
43 3 0.07
44 31 0.72
45 8 0.19
46 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (46 bp):
CTTATCTCTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTGTAGAT
Found at i:12601705 original size:177 final size:177
Alignment explanation
Indices: 12601409--12602205 Score: 977
Period size: 177 Copynumber: 4.5 Consensus size: 177
12601399 ATGTCCCAGA
* * * *
12601409 GGGAGCAGGTTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGTAGGTTGAAAATTGTA
1 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
* * *
12601474 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGACGATT-ATAGATTTTATCTCCCTAAGTAG
66 GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGA-AGATCTTATCTCCCTAAGTAG
* ** * *
12601538 TAGTGGAACAGATCGAAGATGGTGAATTTTATCTTCCCGATGTAGCAG
130 TAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCCGAGGTAGCAG
*
12601586 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATTGTA
1 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
* * * *
12601651 GTCTTATTTTCTTGAGGTAGCAAGGAAGCAGACTGAGGATTGTAGATCTTATCTCCCTAAGGAGT
66 GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGT
* *
12601716 AGTGGAGCAGATCGAAGATGGCAAATCATATCTTCCCGATGTAGCAG
131 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCCGAGGTAGCAG
* * * *
12601763 GGAAGTAGATTTTAGCCACTAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
1 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
* * * *
12601828 GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTTTATCACCTTAAGCAGT
66 GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGT
** * *
12601893 AGCAGAGTAGATCGAAGATGGCAAATCTTATCTTCCCGAGGTAGCAA
131 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCCGAGGTAGCAG
* * **
12601940 GGGAGCAGCTTTTAGCCACCAGCCTTATCTCTCTGGGGTAGCAAGAGAGCATATTGAAGATTGTA
1 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
* * * ** * * * *
12602005 GTCTTATCTTCCTAAGGTAGCAAGAAAATAGACTGAAGATTGAAGATCTCATCTCCTTGAGTAGC
66 GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGT
* * * * ** *
12602070 AATGGGGCAGTTCGAAAATGGTGAATCTTATCTTCTCG-GGATAGCAG
131 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCCGAGG-TAGCAG
** ** * * * * * * * *
12602117 GGGATTAGATTTTAGCCATTAGTCTTATTTCCCTAAGGTAGCAAGAAAGTAGGCTGGAGATTGTA
1 GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
* *
12602182 GTCTCATTTTCTTGAGGTAGCAAG
66 GTCTTATCTTCTTGAGGTAGCAAG
12602206 AGAGAAAACG
Statistics
Matches: 536, Mismatches: 82, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
176 2 0.00
177 534 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (177 bp):
GGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTA
GTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGT
AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCCGAGGTAGCAG
Found at i:12601834 original size:44 final size:44
Alignment explanation
Indices: 12601786--12601869 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
12601776 AGCCACTAAC
**
12601786 CTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTCT-TGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
12601830 CTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTG
1 CTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTG
12601870 AAGATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
44 31 0.86
45 5 0.14
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (44 bp):
CTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
Found at i:12603913 original size:3 final size:3
Alignment explanation
Indices: 12603898--12604024 Score: 52
Period size: 3 Copynumber: 43.3 Consensus size: 3
12603888 TTTTATTAAT
* * * * **
12603898 TTA TTA TTG TTA TTA TT- TTCA ATC TTA TTA TT- GTA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
** * **
12603942 TTA TTA TTA -TA TTA TTA AAA TTAA TTA TT- TCA ACA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* *
12603986 TTA CTA TTA -TA TTA TTA -TA TT- TGA TATA TTGA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA T
12604025 CATTTGTGTT
Statistics
Matches: 89, Mismatches: 24, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
2 11 0.12
3 69 0.78
4 9 0.10
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:12603913 original size:20 final size:20
Alignment explanation
Indices: 12603885--12603959 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 20
12603875 TTGTTACTTA
*
12603885 TGTTTTTATTAATTTATTAT
1 TGTTATTATTAATTTATTAT
12603905 TGTTATTATTTTCAATCTTATTAT
1 TGTTATTA--TT-AAT-TTATTAT
12603929 TG-TATTATTACCA-TTATTAT
1 TGTTATTATTA--ATTTATTAT
*
12603949 T-ATATTATTAA
1 TGTTATTATTAA
12603960 AATTAATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
18 1 0.02
20 24 0.51
21 2 0.04
22 3 0.06
23 8 0.17
24 9 0.19
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (20 bp):
TGTTATTATTAATTTATTAT
Found at i:12603964 original size:14 final size:14
Alignment explanation
Indices: 12603947--12604002 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
12603937 TACCATTATT
12603947 ATTATATTATTAAA
1 ATTATATTATTAAA
*
12603961 ATTA-ATTATTTCAAC
1 ATTATATTA-TT-AAA
**
12603976 ATTATTATTATTACT
1 ATTA-TATTATTAAA
12603991 ATTATATTATTA
1 ATTATATTATTA
12604003 TATTTGATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.11
14 14 0.40
15 11 0.31
16 2 0.06
17 4 0.11
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATATTATTAAA
Found at i:12603964 original size:20 final size:20
Alignment explanation
Indices: 12603922--12604002 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
12603912 ATTTTCAATC
* **
12603922 TTATTATTGTATTATTACCA
1 TTATTATTATATTATTAAAA
12603942 TTATTATTATATTATTAAAA
1 TTATTATTATATTATTAAAA
* **
12603962 TTAATTATTTCAACATTATTATTA
1 TT-ATTA-TT--ATATTATTAAAA
*
12603986 TTACTATTATATTATTA
1 TTATTATTATATTATTA
12604003 TATTTGATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 27 0.55
21 4 0.08
22 4 0.08
23 3 0.06
24 11 0.22
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (20 bp):
TTATTATTATATTATTAAAA
Found at i:12604219 original size:15 final size:15
Alignment explanation
Indices: 12604175--12604222 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
12604165 TTTTACACAG
12604175 TATTTTAAATTGTTT
1 TATTTTAAATTGTTT
*
12604190 TA-TAT-AA-TG-TT
1 TATTTTAAATTGTTT
12604201 TATTTTAAATTGTTT
1 TATTTTAAATTGTTT
12604216 TATTTTA
1 TATTTTA
12604223 TATCATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 4 0.15
14 4 0.15
15 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATTTTAAATTGTTT
Found at i:12608466 original size:99 final size:100
Alignment explanation
Indices: 12608291--12608535 Score: 323
Period size: 99 Copynumber: 2.5 Consensus size: 100
12608281 TAGCCAAAGC
* * * * * ** *
12608291 TATCTGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
12608356 TAGCCTGCACTTAGTACTACACACATGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACATGATCACAAT
* *
12608389 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTA
* *
12608454 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACATGATCACAAT
* * * *
12608490 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
12608536 TCACAATAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 39 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
TAGCCTGCACTTAGTACTACACACATGATCACAAT
Found at i:12608471 original size:50 final size:49
Alignment explanation
Indices: 12608291--12608528 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
12608281 TAGCCAAAGC
* * * * * *
12608291 TATCTGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
12608340 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
12608389 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
12608439 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
12608490 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
12608529 TGCGACCTCA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 86 0.52
50 43 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:12615647 original size:42 final size:42
Alignment explanation
Indices: 12615588--12615674 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
12615578 CAGGATCTAT
12615588 AAGATAAAATTTTCAAATCATCTTATCTAATCTCCTTAAAGC
1 AAGATAAAATTTTCAAATCATCTTATCTAATCTCCTTAAAGC
12615630 AAGATAAAATTTTCAAATCATCTTATCTAATCTCCTTAAAGC
1 AAGATAAAATTTTCAAATCATCTTATCTAATCTCCTTAAAGC
12615672 AAG
1 AAG
12615675 TTATCCGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.34
Consensus pattern (42 bp):
AAGATAAAATTTTCAAATCATCTTATCTAATCTCCTTAAAGC
Found at i:12618642 original size:42 final size:42
Alignment explanation
Indices: 12618542--12618662 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
12618532 AACAAGTACA
* * * *
12618542 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAGTACAATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGAAAT-CAATATCG
**
12618585 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGAAATCA-ATATCG
* *
12618627 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATC
1 ATGCCGATGTCCCAGACAGGGTCTTACACG-AAATC
12618663 TCAATTGAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGAAATCAATATCG
Found at i:12619889 original size:162 final size:162
Alignment explanation
Indices: 12619622--12619947 Score: 616
Period size: 162 Copynumber: 2.0 Consensus size: 162
12619612 TAACTCGAAT
*
12619622 TTGTGGTCCCAAAACAACTGTTCCGACCTCACTGGAATTGGGTTGTTACAACTCTCACCCATTAA
1 TTGTGGTCCCAAAACAACTGTTCCGACCTCACTGGAATTGGGCTGTTACAACTCTCACCCATTAA
*
12619687 AATTTTCGTCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTGCTTCCTCATGGTATCTCA
66 AATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTGCTTCCTCATGGTATCTCA
12619752 GGCTCCTAGGTAGCTTCCTTTAATCCTTTCTG
131 GGCTCCTAGGTAGCTTCCTTTAATCCTTTCTG
* *
12619784 TTGTGGTCCCAAAACAACTGTTCCGATCTCACTGGAATTGGGCTGTTACAACTCTCCCCCATTAA
1 TTGTGGTCCCAAAACAACTGTTCCGACCTCACTGGAATTGGGCTGTTACAACTCTCACCCATTAA
12619849 AATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTGCTTCCTCATGGTATCTCA
66 AATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTGCTTCCTCATGGTATCTCA
12619914 GGCTCCTAGGTAGCTTCCTTTAATCCTTTCTG
131 GGCTCCTAGGTAGCTTCCTTTAATCCTTTCTG
12619946 TT
1 TT
12619948 TCCAGAGGAC
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 160 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (162 bp):
TTGTGGTCCCAAAACAACTGTTCCGACCTCACTGGAATTGGGCTGTTACAACTCTCACCCATTAA
AATTTTCATCCTCGAAAATTCTTACCAGAGAAGAGGTTAGGGTATTGCTTCCTCATGGTATCTCA
GGCTCCTAGGTAGCTTCCTTTAATCCTTTCTG
Found at i:12623837 original size:11 final size:11
Alignment explanation
Indices: 12623821--12623845 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12623811 ACTTAGAGGA
12623821 TTTTTTAAAAT
1 TTTTTTAAAAT
12623832 TTTTTTAAAAT
1 TTTTTTAAAAT
12623843 TTT
1 TTT
12623846 CCAAGATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:12632078 original size:43 final size:43
Alignment explanation
Indices: 12631989--12632104 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
12631979 TGCGATTACA
* * * * *
12631989 TGTAAGACCATGCCTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTACTCAGATTATG
12632032 TGTAAGACCATGTCTAGGACATTGGCATCGTTACTCA-ATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TACTCAGATTAT-G
* * *
12632075 TGTAAGACCCTGTCTAGGATAGTGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
12632105 ATATGTGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 58 0.92
44 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTACTCAGATTATG
Found at i:12642882 original size:2 final size:2
Alignment explanation
Indices: 12642836--12642864 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12642826 CTATAGCCGA
12642836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12642865 ACATGCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12643234 original size:2 final size:2
Alignment explanation
Indices: 12643227--12643258 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12643217 TTAAAGACAC
12643227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12643259 GCTTACTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12644898 original size:68 final size:70
Alignment explanation
Indices: 12644826--12645023 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
12644816 ACACCCTGTA
* * * *
12644826 GTAGCTAGGTCACATATGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATACGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
12644888 ATAAAT
65 ATAAAT
* * *
12644894 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATACGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
12644959 ATAAAT
65 ATAAAT
* * * *
12644965 GTAGCTAGGTCGCATGCGTGATTCTAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATACGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
12645024 AGACAAATCG
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 3 0.03
70 1 0.01
71 92 0.78
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATACGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:12644948 original size:71 final size:71
Alignment explanation
Indices: 12644860--12645023 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
12644850 GAGATGTATC
12644860 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
12644925 AGGACA
66 AGGACA
*
12644931 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCTAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
12644996 AGGACA
66 AGGACA
12645002 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
12645024 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:12662122 original size:2 final size:2
Alignment explanation
Indices: 12662075--12662110 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12662065 ATTCGGCTAA
*
12662075 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12662111 GTATCCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12663928 original size:28 final size:29
Alignment explanation
Indices: 12663896--12663994 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
12663886 ATAATAAGCC
*
12663896 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
12663924 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
12663952 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
12663981 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12663995 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:12665625 original size:41 final size:41
Alignment explanation
Indices: 12665546--12665663 Score: 98
Period size: 41 Copynumber: 2.9 Consensus size: 41
12665536 GCTTGTATTT
* * ** * ** *
12665546 TACACCGGCACAAGGCCTGCTAAACTCAAGGCTTGATTTTA
1 TACACCAGCACAAAGCCTGCTAGGCTCAAAGCCCGATTTAA
12665587 TACATCC-GCA-ATAAGCCTGCTAGGCAT-AAAGCCCGATTTAA
1 TACA-CCAGCACA-AAGCCTGCTAGGC-TCAAAGCCCGATTTAA
* *
12665628 TTCACCAGCACAAGGCCTGCTAGGCTCAAAGCCCGA
1 TACACCAGCACAAAGCCTGCTAGGCTCAAAGCCCGA
12665664 ATATCACTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
40 4 0.06
41 54 0.87
42 4 0.06
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (41 bp):
TACACCAGCACAAAGCCTGCTAGGCTCAAAGCCCGATTTAA
Found at i:12668638 original size:12 final size:12
Alignment explanation
Indices: 12668621--12668645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12668611 CACACGCCCA
12668621 ATTTACAAGGCC
1 ATTTACAAGGCC
12668633 ATTTACAAGGCC
1 ATTTACAAGGCC
12668645 A
1 A
12668646 AAATGCTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATTTACAAGGCC
Found at i:12683194 original size:55 final size:55
Alignment explanation
Indices: 12683129--12683260 Score: 185
Period size: 55 Copynumber: 2.4 Consensus size: 55
12683119 GCCCTTAGCT
*
12683129 CGTATGCAACACTGACTTTAAAACACAGCCATGACACACG-CTCGTGTGGCCTACC
1 CGTATACAACACTGACTTTAAAACACAGCCATGACACACGCCT-GTGTGGCCTACC
* * * *
12683184 CGTATACAACACTGACTTTAAAACACGGCCATGACACATGCCTGTGTGGCTTGCC
1 CGTATACAACACTGACTTTAAAACACAGCCATGACACACGCCTGTGTGGCCTACC
* *
12683239 CGTGTACAACACTAACTTTAAA
1 CGTATACAACACTGACTTTAAA
12683261 TATTAAGTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 67 0.97
56 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (55 bp):
CGTATACAACACTGACTTTAAAACACAGCCATGACACACGCCTGTGTGGCCTACC
Found at i:12690506 original size:29 final size:29
Alignment explanation
Indices: 12690473--12690574 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
12690463 TGACGAGATC
12690473 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
12690502 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
12690531 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
12690560 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
12690575 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:12698365 original size:29 final size:29
Alignment explanation
Indices: 12698331--12698408 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
12698321 GTGACGAGAT
* *
12698331 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
12698360 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
12698389 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
12698409 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:12705706 original size:46 final size:46
Alignment explanation
Indices: 12705638--12705774 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
12705628 TATATATACA
* * * *
12705638 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
12705684 CATCTCATACACATTTCGCATTAGTCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
12705730 TAACTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
12705775 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:12705805 original size:47 final size:47
Alignment explanation
Indices: 12705748--12705939 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
12705738 ACACATTTCG
* * * * **
12705748 CATTAGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
12705795 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
12705842 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12705889 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12705936 CATT
1 CATT
12705940 AAAATCCTAA
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:12705891 original size:23 final size:23
Alignment explanation
Indices: 12705864--12705938 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
12705854 GGCCTTATCG
12705864 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
12705887 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
12705909 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
12705934 CACAT
1 CACAT
12705939 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:12707079 original size:2 final size:2
Alignment explanation
Indices: 12707072--12707098 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12707062 TTAACCGTTA
12707072 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12707099 CAGCCTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12711044 original size:49 final size:49
Alignment explanation
Indices: 12710917--12711270 Score: 596
Period size: 49 Copynumber: 7.4 Consensus size: 49
12710907 CCCTTCGGGA
* *
12710917 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12710964 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12711011 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12711060 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12711109 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12711158 CTTATCAC--ATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12711204 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12711253 CTTATCACATATATATAC
1 CTTATCACATATATATAC
12711271 CTCATACAAA
Statistics
Matches: 290, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
46 37 0.13
47 56 0.19
48 9 0.03
49 188 0.65
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12711133 original size:98 final size:97
Alignment explanation
Indices: 12710917--12711267 Score: 613
Period size: 95 Copynumber: 3.7 Consensus size: 97
12710907 CCCTTCGGGA
* * * *
12710917 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12710980 AC-CTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTCACATTCATCACATCGGCCATTAGGC
*
12711011 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12711076 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACAC-TTCACATTCATCACATCGGCCATTAGGC
12711109 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
12711172 ACACTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTCACATTCATCACATCGGCCATTAGGC
12711204 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
12711268 TACCTCATAC
Statistics
Matches: 248, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
94 10 0.04
95 92 0.37
96 55 0.22
97 1 0.00
98 90 0.36
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (97 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACACTTCACATTCATCACATCGGCCATTAGGC
Found at i:12711261 original size:193 final size:192
Alignment explanation
Indices: 12710917--12711267 Score: 632
Period size: 193 Copynumber: 1.8 Consensus size: 192
12710907 CCCTTCGGGA
* * *
12710917 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC
1 CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
*
12710982 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
12711047 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
12711109 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
12711174 A-CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
64 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
12711238 CATCGGCCATTAGGCCTTATCACATATATA
129 CATCGGCCATTAGGCCTTATCACATATATA
12711268 TACCTCATAC
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
192 10 0.07
193 93 0.61
194 49 0.32
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (192 bp):
CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12714071 original size:40 final size:40
Alignment explanation
Indices: 12714039--12714470 Score: 641
Period size: 40 Copynumber: 10.8 Consensus size: 40
12714029 CCAGCATGAT
* * * *
12714039 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
12714079 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
12714119 TGCTCTTCGGAACTTAGCCCGGATACTTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
12714159 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
12714199 TGCTCTTCGGAACTTAGCCCGGATACGTCACCT-GCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA-CTAGCACGAA
12714239 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
12714279 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
12714319 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
12714359 TGCTCTTTGGGACTTAGCCCGGATACATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
12714399 TGCTCTTTGGGACTTATCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
12714439 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
12714471 CTCAATTCTC
Statistics
Matches: 354, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 350 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:12716024 original size:46 final size:46
Alignment explanation
Indices: 12715956--12716092 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
12715946 TATATATACA
* * * *
12715956 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
12716002 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
12716048 TAACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
12716093 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:12716126 original size:47 final size:47
Alignment explanation
Indices: 12716066--12716304 Score: 388
Period size: 47 Copynumber: 5.1 Consensus size: 47
12716056 ACACATTTCG
* * * **
12716066 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
12716113 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
12716160 CATTGGCCATTTGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12716207 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12716254 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
12716301 CATT
1 CATT
12716305 AAAATCCTAA
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 182 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:12719583 original size:42 final size:42
Alignment explanation
Indices: 12719523--12719606 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
12719513 AAGACCGAAA
* *
12719523 ATATCGTATCCACGAGGACTACAAGTACTAGTAATTACTATC
1 ATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATC
*
12719565 ATATCGTATCCATAAGGACTAAAAGTACTAGTAATTACTATC
1 ATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATC
12719607 TTTTTATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (42 bp):
ATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATC
Found at i:12728290 original size:5 final size:5
Alignment explanation
Indices: 12728198--12728286 Score: 115
Period size: 5 Copynumber: 17.8 Consensus size: 5
12728188 CATACTAGAA
* * * * *
12728198 CATAT CTTAT CATAT CACAA CGTAT CATAT CATAA CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* *
12728248 CATAT CATAT CATAT CATAT CATAT CATAA CATAA CATA
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
12728287 ACATGTCCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:12733715 original size:16 final size:17
Alignment explanation
Indices: 12733694--12733734 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
12733684 TTATATTATA
12733694 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
12733710 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
12733727 TAATTATA
1 T-ATTATA
12733735 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:12733740 original size:16 final size:16
Alignment explanation
Indices: 12733703--12733780 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
12733693 ATATTATAAA
12733703 ATTATTTT-ATTATAAGT
1 ATTATTTTAATTAT-A-T
12733720 ATTATTTTAATTATAT
1 ATTATTTTAATTATAT
*
12733736 ATTATTATTACTTATTATGT
1 ATTATT-TTA---ATTATAT
** *
12733756 ATTATTTTTCTTAAAT
1 ATTATTTTAATTATAT
12733772 ATTATTTTA
1 ATTATTTTA
12733781 CATCTCTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 19 0.38
17 12 0.24
18 5 0.10
19 2 0.04
20 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTATTTTAATTATAT
Found at i:12733752 original size:20 final size:18
Alignment explanation
Indices: 12733703--12733761 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
12733693 ATATTATAAA
*
12733703 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
12733720 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
*
12733739 ATTATTACTTATTATGTATT
1 ATTATT--TTATTATATATT
12733759 ATT
1 ATT
12733762 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 8 0.22
20 12 0.33
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:12733758 original size:36 final size:34
Alignment explanation
Indices: 12733699--12733781 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
12733689 TTATATATTA
12733699 TAAA-ATTATTTTA-TTATAAGTATTATTTTAAT
1 TAAATATTATTTTACTTATAAGTATTATTTTAAT
* * **
12733731 TATATATTATTATTACTTATTATGTATTATTTTTCT
1 TAAATATTATT-TTACTTA-TAAGTATTATTTTAAT
12733767 TAAATATTATTTTAC
1 TAAATATTATTTTAC
12733782 ATCTCTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 6 0.14
34 3 0.07
35 7 0.17
36 23 0.55
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (34 bp):
TAAATATTATTTTACTTATAAGTATTATTTTAAT
Found at i:12733760 original size:10 final size:9
Alignment explanation
Indices: 12733703--12733761 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
12733693 ATATTATAAA
12733703 ATTATT-TT
1 ATTATTATT
* *
12733711 ATTATAAGT
1 ATTATTATT
12733720 ATTATT-TT
1 ATTATTATT
12733728 AATTATATATT
1 -ATTAT-TATT
12733739 ATTATTACTT
1 ATTATTA-TT
12733749 ATTATGTATT
1 ATTAT-TATT
12733759 ATT
1 ATT
12733762 TTTCTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 18 0.44
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:12733777 original size:3 final size:3
Alignment explanation
Indices: 12733703--12733761 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
12733693 ATATTATAAA
* *
12733703 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
12733749 ATT ATGT ATT ATT
1 ATT AT-T ATT ATT
12733762 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12734006 original size:20 final size:19
Alignment explanation
Indices: 12733973--12734010 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
12733963 TGTATCGCAA
12733973 ATTATATTATTTATGTTTAT
1 ATTATATTATTTAT-TTTAT
12733993 ATTATA-TATATTATTTTA
1 ATTATATTAT-TTATTTTA
12734011 AAAATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTATATTATTTATTTTAT
Found at i:12739160 original size:40 final size:40
Alignment explanation
Indices: 12739115--12739281 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
12739105 CGGAATATAA
12739115 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
12739155 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** *
12739195 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
12739235 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
12739274 CCGGATAT
1 CCGGATAT
12739282 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12746302 original size:40 final size:40
Alignment explanation
Indices: 12746257--12746421 Score: 167
Period size: 39 Copynumber: 4.2 Consensus size: 40
12746247 CGGAATATAA
12746257 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
12746297 CCGGATAGAATAACTCGCACGAATGCCTTCGGGT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
12746336 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
12746375 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
12746414 CCGGATAT
1 CCGGATAT
12746422 CATTCAATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 12 0.12
39 52 0.50
40 40 0.38
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12755679 original size:119 final size:119
Alignment explanation
Indices: 12755463--12756054 Score: 970
Period size: 119 Copynumber: 5.0 Consensus size: 119
12755453 AATTGAAGAC
** ** *
12755463 AGCAGATCTAGA-CTTCAGACATTTATGTTGAAGCAGATCCACGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* *
12755527 TACAAGAAACAAGTCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGAT
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* *
12755582 AGCAAATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
12755647 ACAAGAAACAAATCGAGGACATAGCAAATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
*
12755701 AGCAGATCTAACCTTCATATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
12755766 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* *
12755820 AGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTATTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* *
12755885 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAC
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
**
12755939 AATAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * * *
12756004 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
12756055 CAGACTCAAG
Statistics
Matches: 447, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
118 1 0.00
119 446 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
Found at i:12757767 original size:3 final size:3
Alignment explanation
Indices: 12757745--12757803 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
12757735 ATATTATAAA
* *
12757745 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
12757791 ATT ATGT ATT ATT
1 ATT AT-T ATT ATT
12757804 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12757782 original size:16 final size:17
Alignment explanation
Indices: 12757736--12757805 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 17
12757726 TTATATTATA
*
12757736 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
12757752 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
12757769 TAATTAT-A-TATTATTAT
1 T-ATTATAAGTATTATT-T
*
12757786 TACTTATTATGTATTATTT
1 TA-TTA-TAAGTATTATTT
12757805 T
1 T
12757806 TCTTAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
16 16 0.36
17 14 0.31
18 6 0.13
19 2 0.04
20 7 0.16
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:12757794 original size:20 final size:18
Alignment explanation
Indices: 12757745--12757803 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
12757735 ATATTATAAA
*
12757745 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
12757762 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
*
12757781 ATTATTACTTATTATGTATT
1 ATTATT--TTATTATATATT
12757801 ATT
1 ATT
12757804 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 8 0.22
20 12 0.33
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:12757802 original size:10 final size:9
Alignment explanation
Indices: 12757745--12757803 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
12757735 ATATTATAAA
12757745 ATTATT-TT
1 ATTATTATT
* *
12757753 ATTATAAGT
1 ATTATTATT
12757762 ATTATT-TT
1 ATTATTATT
12757770 AATTATATATT
1 -ATTAT-TATT
12757781 ATTATTACTT
1 ATTATTA-TT
12757791 ATTATGTATT
1 ATTAT-TATT
12757801 ATT
1 ATT
12757804 TTTCTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 18 0.44
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:12757816 original size:36 final size:33
Alignment explanation
Indices: 12757741--12757822 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 33
12757731 TTATATATTA
12757741 TAAA-ATTATTTTATTATAAGTATTATTTTAAT
1 TAAATATTATTTTATTATAAGTATTATTTTAAT
* * **
12757773 TATATATTATTATTACTTATTATGTATTATTTTTCT
1 TAAATATTATT-TTA-TTA-TAAGTATTATTTTAAT
*
12757809 TAAATATTCTTTTA
1 TAAATATTATTTTA
12757823 CATCTCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.08
33 6 0.15
34 3 0.08
35 6 0.15
36 22 0.55
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (33 bp):
TAAATATTATTTTATTATAAGTATTATTTTAAT
Found at i:12761232 original size:13 final size:13
Alignment explanation
Indices: 12761214--12761241 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12761204 CCTAGGGCTT
12761214 TGGGATATGTGGA
1 TGGGATATGTGGA
12761227 TGGGATATGTGGA
1 TGGGATATGTGGA
12761240 TG
1 TG
12761242 AGGTAACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (13 bp):
TGGGATATGTGGA
Found at i:12772961 original size:48 final size:48
Alignment explanation
Indices: 12772900--12773516 Score: 801
Period size: 48 Copynumber: 12.5 Consensus size: 48
12772890 ATATATGTGT
* *
12772900 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
*
12772948 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* *
12772996 GTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATGC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
*
12773044 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATGC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* *
12773092 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATGC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
12773140 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATGA-
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTAT-AC
*
12773188 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTAATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT-ATAC
* * * * * * * * * *
12773237 GTATGAGATATGTATGCGTGGTAAAGCCGAATG-GCTAGTGTGAAAT-ATG-TATGAGATATGTA
1 G--TG-G-TA---AAGC--CG-AATGGCTAGTGTG-AAATATG-TATGA-GATAT--G-TA--TA
12773299 TGC
48 --C
12773302 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
12773350 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
12773398 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* * *
12773446 GTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
*
12773494 GTGGTAAAGTCGAATGGCTAGTG
1 GTGGTAAAGCCGAATGGCTAGTG
12773517 ATTCGGCTAG
Statistics
Matches: 509, Mismatches: 34, Indels: 52
0.86 0.06 0.09
Matches are distributed among these distances:
48 439 0.86
49 3 0.01
50 2 0.00
51 2 0.00
52 3 0.01
53 3 0.01
54 3 0.01
55 15 0.03
56 5 0.01
58 5 0.01
59 15 0.03
60 3 0.01
61 4 0.01
62 2 0.00
63 4 0.01
65 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
Found at i:12773237 original size:18 final size:18
Alignment explanation
Indices: 12773214--12773250 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12773204 GCTAGTGTGA
12773214 AATATGTATGAGATATGT
1 AATATGTATGAGATATGT
12773232 AATATGTATGAGATATGT
1 AATATGTATGAGATATGT
12773250 A
1 A
12773251 TGCGTGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (18 bp):
AATATGTATGAGATATGT
Found at i:12773264 original size:114 final size:114
Alignment explanation
Indices: 12773118--12773346 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
12773108 GCTAGTGTGA
12773118 AATATGTATGAGATACGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATACGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
12773183 TATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
66 TATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
*
12773232 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATACGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
12773297 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
66 TATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
12773346 A
1 A
12773347 TACGTGGTAA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (114 bp):
AATATGTATGAGATACGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
TATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
Found at i:12773272 original size:66 final size:66
Alignment explanation
Indices: 12773166--12773298 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
12773156 GCTAGTGTGA
12773166 AATATGTATGAGATATGTATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
12773231 T
66 T
*
12773232 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
12773297 T
66 T
12773298 A
1 A
12773299 TGCGTGGTAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.32
Consensus pattern (66 bp):
AATATGTATGAGATATGTATGAGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
T
Found at i:12773384 original size:210 final size:210
Alignment explanation
Indices: 12773022--12773442 Score: 808
Period size: 210 Copynumber: 2.0 Consensus size: 210
12773012 GCTAGTGTGA
12773022 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
12773087 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATGCGTGGTAAAGCCG
66 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCG
12773152 AATGGCTAGTGTGAAATATGTATGAGATATGTATGA-GTGGTAAAGCCGAATGGCTAGTGTGAAA
131 AATGGCTAGTGTGAAATATGTATGAGATATGTAT-ACGTGGTAAAGCCGAATGGCTAGTGTGAAA
12773216 TATGTATGAGATATGT
195 TATGTATGAGATATGT
12773232 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
12773297 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCG
66 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCG
12773362 AATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
131 AATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
12773427 ATGTATGAGATATGT
196 ATGTATGAGATATGT
12773442 A
1 A
12773443 TACGTGGTAA
Statistics
Matches: 208, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
209 1 0.00
210 207 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (210 bp):
AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCG
AATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
ATGTATGAGATATGT
Found at i:12773431 original size:258 final size:258
Alignment explanation
Indices: 12772974--12773495 Score: 949
Period size: 258 Copynumber: 2.0 Consensus size: 258
12772964 GCTAGTGTGA
* *
12772974 AATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
12773039 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATGCGTGGTAAAGCCG
66 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCG
*
12773104 AATGGCTAGTGTGAAATATGTATGAGATACGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAAT
131 AATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
12773169 ATGTATGAGATATGTATGA-GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
196 ATGTATGAGATATGTAT-ACGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGT
*
12773232 AATATGTATGAGATATGTATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 AATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
12773297 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCG
66 TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCG
*
12773362 AATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
131 AATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
12773427 ATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGT
196 ATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGT
12773490 -ATATGT
1 AATATGT
12773496 GGTAAAGTCG
Statistics
Matches: 255, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
257 7 0.03
258 248 0.97
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (258 bp):
AATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
TATGCGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCCG
AATGGCTAGTGTGAAATATGTATGAGATACGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
ATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGT
Found at i:12773770 original size:37 final size:36
Alignment explanation
Indices: 12773686--12773824 Score: 251
Period size: 37 Copynumber: 3.8 Consensus size: 36
12773676 GGAAATATAT
12773686 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
12773722 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TG
12773759 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
*
12773796 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
12773825 GGACTGTTCG
Statistics
Matches: 100, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
36 34 0.34
37 64 0.64
38 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:12775039 original size:119 final size:119
Alignment explanation
Indices: 12774828--12775419 Score: 954
Period size: 119 Copynumber: 5.0 Consensus size: 119
12774818 ATGAAGACAA
** ** *
12774828 CAGATCTAGA-CTTCAGACATTTATGTTGAAGCAGATCCAAAATGATTTGGTATTCTTGTGTTTA
1 CAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
* * *
12774892 CAAGAAACAAGTCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAGATAG
65 CAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
*
12774947 CAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
12775012 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
66 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
*
12775066 TAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
12775131 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
66 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
*
12775185 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
* * *
12775250 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATACAA
66 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
* *
12775304 CAGATCTAACCTTTAGATTTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
* * * * * *
12775369 AAGGAACAAATCGAGGATATTGCAG-TTATGACTCTCAAATGTTCTTAAATA
66 AAGAAACAAATCGAGGACATAGCAGATT-TGACTCTCAGACGTTCTCAAATA
12775420 GACTCAAGAT
Statistics
Matches: 447, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 3 0.01
119 444 0.99
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
Found at i:12777140 original size:3 final size:3
Alignment explanation
Indices: 12777118--12777176 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
12777108 ATATTATAAA
* *
12777118 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
12777164 ATT ATGT ATT ATT
1 ATT AT-T ATT ATT
12777177 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12777155 original size:16 final size:17
Alignment explanation
Indices: 12777109--12777178 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 17
12777099 TTATATTATA
*
12777109 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
12777125 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
12777142 TAATTAT-A-TATTATTAT
1 T-ATTATAAGTATTATT-T
*
12777159 TACTTATTATGTATTATTT
1 TA-TTA-TAAGTATTATTT
12777178 T
1 T
12777179 TCTTAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
16 16 0.36
17 14 0.31
18 6 0.13
19 2 0.04
20 7 0.16
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:12777167 original size:20 final size:18
Alignment explanation
Indices: 12777118--12777176 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
12777108 ATATTATAAA
*
12777118 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
12777135 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
*
12777154 ATTATTACTTATTATGTATT
1 ATTATT--TTATTATATATT
12777174 ATT
1 ATT
12777177 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 8 0.22
20 12 0.33
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:12777175 original size:10 final size:9
Alignment explanation
Indices: 12777118--12777176 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
12777108 ATATTATAAA
12777118 ATTATT-TT
1 ATTATTATT
* *
12777126 ATTATAAGT
1 ATTATTATT
12777135 ATTATT-TT
1 ATTATTATT
12777143 AATTATATATT
1 -ATTAT-TATT
12777154 ATTATTACTT
1 ATTATTA-TT
12777164 ATTATGTATT
1 ATTAT-TATT
12777174 ATT
1 ATT
12777177 TTTCTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 18 0.44
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:12777189 original size:36 final size:33
Alignment explanation
Indices: 12777114--12777195 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 33
12777104 TTATATATTA
12777114 TAAA-ATTATTTTATTATAAGTATTATTTTAAT
1 TAAATATTATTTTATTATAAGTATTATTTTAAT
* * **
12777146 TATATATTATTATTACTTATTATGTATTATTTTTCT
1 TAAATATTATT-TTA-TTA-TAAGTATTATTTTAAT
*
12777182 TAAATATTACTTTA
1 TAAATATTATTTTA
12777196 CATCTCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.08
33 6 0.15
34 3 0.08
35 6 0.15
36 22 0.55
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (33 bp):
TAAATATTATTTTATTATAAGTATTATTTTAAT
Found at i:12777302 original size:44 final size:42
Alignment explanation
Indices: 12777227--12777321 Score: 97
Period size: 44 Copynumber: 2.2 Consensus size: 42
12777217 TATTTTCACA
*
12777227 TATATTATATTTATTAATTATATATATTGTTTTATATGTTAC-TT
1 TATATTATATCTATTAATTATATATATTG-TTTATA--TTACATT
* * *
12777271 TATATTATATCTATTATTTTTCT-TATATGTTTATATTACATT
1 TATATTATATCTATTAATTATATATAT-TGTTTATATTACATT
12777313 T-TATTATAT
1 TATATTATAT
12777322 AATCTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
41 12 0.27
42 3 0.07
43 9 0.20
44 21 0.47
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (42 bp):
TATATTATATCTATTAATTATATATATTGTTTATATTACATT
Found at i:12781212 original size:47 final size:48
Alignment explanation
Indices: 12781056--12781263 Score: 169
Period size: 48 Copynumber: 4.4 Consensus size: 48
12781046 AAAAGTTGCT
* * *
12781056 AATACGTTGTGGATGAACCACTAGTCGTGCAGATAAACTGAC-GACTAA
1 AATACATTGTGGATGAACTACTAGTCGAGCAGATAAACTG-CTGACTAA
* * * * * * * *
12781104 AA-ATATTGCTGGATGAACCATCCA-TGGGTGCAGATAAA-AGTTG-CT-T
1 AATACATTG-TGGATGAACTA-CTAGT-CGAGCAGATAAACTGCTGACTAA
* *
12781150 AATACATTGTGGATGAACTACTAGTCGAGCAGAT-GACTGTTGACTAA
1 AATACATTGTGGATGAACTACTAGTCGAGCAGATAAACTGCTGACTAA
* * * *
12781197 AATACGTTGTAGATGAACCACTAGTCGAGTAGATAAACTGCTGACTAA
1 AATACATTGTGGATGAACTACTAGTCGAGCAGATAAACTGCTGACTAA
*
12781245 AATACATTGTGGATAAACT
1 AATACATTGTGGATGAACT
12781264 GCCAACTACT
Statistics
Matches: 125, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
44 1 0.01
45 13 0.10
46 15 0.12
47 41 0.33
48 42 0.34
49 13 0.10
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (48 bp):
AATACATTGTGGATGAACTACTAGTCGAGCAGATAAACTGCTGACTAA
Found at i:12781212 original size:93 final size:93
Alignment explanation
Indices: 12781042--12781216 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 93
12781032 CTGTCTATTA
* *
12781042 AGATAAAAGTTGCTAATACGTTGTGGATGAACCACTAGTCGTGCAGATAAACTGACGACTAAAAA
1 AGATAAAAGTTGCTAATACATTGTGGATGAACCACTAGTCGAGCAGATAAACTGACGACTAAAAA
*
12781107 TATTGCTGGATGAACCATCCATGGGTGC
66 TATTGCTAGATGAACCATCCATGGGTGC
* * **
12781135 AGATAAAAGTTGCTTAATACATTGTGGATGAACTACTAGTCGAGCAGAT-GACTGTTGACT-AAA
1 AGATAAAAGTTGC-TAATACATTGTGGATGAACCACTAGTCGAGCAGATAAACTGACGACTAAAA
12781198 ATACGTTG-TAGATGAACCA
65 ATA--TTGCTAGATGAACCA
12781217 CTAGTCGAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 6 0.08
93 31 0.43
94 35 0.49
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (93 bp):
AGATAAAAGTTGCTAATACATTGTGGATGAACCACTAGTCGAGCAGATAAACTGACGACTAAAAA
TATTGCTAGATGAACCATCCATGGGTGC
Found at i:12782132 original size:26 final size:26
Alignment explanation
Indices: 12782103--12782210 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
12782093 TGGTACAAAT
12782103 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
12782129 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12782155 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12782181 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12782207 TGAT
1 TGAT
12782211 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12783851 original size:27 final size:27
Alignment explanation
Indices: 12783819--12783949 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 27
12783809 AGGAAGCATC
*
12783819 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
12783846 CTGGTGGCTCTGCCAC-ATGTATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
12783873 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
12783900 CTGGTGGCTCTGCCA-AATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
12783927 CTGGTGGCTTTGCCACAA-TATCT
1 CTGGTGGCTATGCCACAATTATCT
12783950 ATATCTAGTG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.10
27 78 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:12783901 original size:54 final size:54
Alignment explanation
Indices: 12783819--12783949 Score: 210
Period size: 54 Copynumber: 2.4 Consensus size: 54
12783809 AGGAAGCATC
* * *
12783819 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATGTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
*
12783873 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
*
12783927 CTGGTGGCTTTGCCACAA-TATCT
1 CTGGTGGCTATGCCACAATTATCT
12783950 ATATCTAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 5 0.07
54 66 0.93
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAAATATATCTGTT
Found at i:12786526 original size:32 final size:32
Alignment explanation
Indices: 12786480--12786546 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
12786470 ATCACAATTG
*
12786480 AACAGCAATTTAGAATTTTGGTATTTCGAATC
1 AACAACAATTTAGAATTTTGGTATTTCGAATC
12786512 AACAACAATTTAGAATTTTGGTATTTCGAATC
1 AACAACAATTTAGAATTTTGGTATTTCGAATC
12786544 AAC
1 AAC
12786547 TCATCACCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (32 bp):
AACAACAATTTAGAATTTTGGTATTTCGAATC
Found at i:12786988 original size:48 final size:47
Alignment explanation
Indices: 12786877--12786990 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 47
12786867 TCTTAATATG
* * *
12786877 TTATGGATGAACCAATGGTCGAGCAGATAATTGACGATAAAAGTACA
1 TTATGGATAAACCATTGGTCGAGCAGATAACTGACGATAAAAGTACA
* * *
12786924 TTGTGGATAAACCATTGGTCGAGTAGATAAACT-ATCGACTAAAA-TACT
1 TTATGGATAAACCATTGGTCGAGCAGAT-AACTGA-CGA-TAAAAGTACA
12786972 TTATGGATAAACCATTGGT
1 TTATGGATAAACCATTGGT
12786991 GAAGCAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 25 0.44
48 27 0.47
49 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (47 bp):
TTATGGATAAACCATTGGTCGAGCAGATAACTGACGATAAAAGTACA
Found at i:12796342 original size:22 final size:22
Alignment explanation
Indices: 12796295--12796336 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12796285 GTGGTAGAAA
*
12796295 TCTGCATCTGTATCTGATATGT
1 TCTGCATCTATATCTGATATGT
12796317 TCTGCATCTATATCTGATAT
1 TCTGCATCTATATCTGATAT
12796337 TCTCTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (22 bp):
TCTGCATCTATATCTGATATGT
Found at i:12796550 original size:21 final size:21
Alignment explanation
Indices: 12796526--12796572 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12796516 TTTCTTCTTA
12796526 TTTAATGT-TTTA-TTTAGACCT
1 TTTAATGTGTTTAGTTTAGA--T
12796547 TTT-ATGTGTTTAGTTTAGAT
1 TTTAATGTGTTTAGTTTAGAT
12796567 TTTAAT
1 TTTAAT
12796573 TTATAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (21 bp):
TTTAATGTGTTTAGTTTAGAT
Found at i:12801105 original size:19 final size:19
Alignment explanation
Indices: 12801069--12801107 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12801059 TTTTCATCAT
* *
12801069 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
12801088 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
12801107 A
1 A
12801108 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:12801611 original size:55 final size:56
Alignment explanation
Indices: 12801546--12801659 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 56
12801536 AGCATGGCTG
* *
12801546 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* ** *
12801602 CCAGA-ACAGATATATGTGGTAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
12801657 CCA
1 CCA
12801660 AGACGCTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:12801628 original size:27 final size:28
Alignment explanation
Indices: 12801571--12801659 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 28
12801561 GTGACAGAGT
* *
12801571 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
12801600 CACCAGAACAGATA-TATGTGGTAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
**
12801627 CACCAGAACAGATAATT-TGTGGCATAGC
1 CACCAGAACAGAT-ATTATGTGGCAGGGC
12801655 CACCA
1 CACCA
12801660 AGACGCTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
27 23 0.44
28 21 0.40
29 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:12801813 original size:28 final size:28
Alignment explanation
Indices: 12801766--12801858 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
12801756 GAATTAACCC
* *
12801766 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
12801794 TAGGGGTATAATGGTAATTTTGCAGACA
1 TAGGGGTATAATGGTAATTTTGCATACA
12801822 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
12801850 TAGGGGTAT
1 TAGGGGTAT
12801859 TCTAGTACAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:12811973 original size:80 final size:80
Alignment explanation
Indices: 12811873--12812073 Score: 314
Period size: 80 Copynumber: 2.5 Consensus size: 80
12811863 GATTTAGCCG
*
12811873 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
1 GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
12811938 TCGGGACTTAGCCCA
66 TCGGGACTTAGCCCA
* * *
12811953 GATATGGTC-GCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGCC
1 GATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCC
*
12812017 TTCGGGACTTAGCCCG
65 TTCGGGACTTAGCCCA
* * *
12812033 GATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
12812074 TTATCATCCG
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 106 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
TCGGGACTTAGCCCA
Found at i:12812068 original size:40 final size:40
Alignment explanation
Indices: 12811857--12812061 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
12811847 ACCCAAGTAT
* * *
12811857 CTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
12811896 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
12811936 CTTCGGGACTTAGCCCAGATATGGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
12811976 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
12812016 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
12812056 CTTCGG
1 CTTCGG
12812062 ATCTTAGTCC
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
39 11 0.07
40 135 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:12818768 original size:40 final size:40
Alignment explanation
Indices: 12818687--12818904 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
12818677 CAACCAAGTA
* * *
12818687 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
12818726 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
12818766 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
12818806 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
12818846 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
12818886 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
12818905 TTATCATCGA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:12826760 original size:40 final size:40
Alignment explanation
Indices: 12826705--12826858 Score: 265
Period size: 40 Copynumber: 3.9 Consensus size: 40
12826695 TATTAATTGA
12826705 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
12826745 TAACTCGCACAAATGCCTACGGGACTTAGCCCGGATATAG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
12826785 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
* *
12826825 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
12826859 TTATCATCCG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 1 0.01
40 108 0.99
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
Found at i:12833508 original size:20 final size:20
Alignment explanation
Indices: 12833480--12833526 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
12833470 TTTAGCAATC
*
12833480 TTTTATTTTTATTTTAATAT
1 TTTTATTTTTAATTTAATAT
*
12833500 TTTTGTTTTTAATTTAATAT
1 TTTTATTTTTAATTTAATAT
*
12833520 TTATATT
1 TTTTATT
12833527 CTAATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTAATTTAATAT
Found at i:12836923 original size:23 final size:22
Alignment explanation
Indices: 12836888--12836940 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
12836878 CCCAAATGAT
12836888 TTCTTTTAGTTTTATATTTTATA
1 TTCTTTTAGTTTT-TATTTTATA
** * *
12836911 TTCTTTTTTTTTTTGTTTTATT
1 TTCTTTTAGTTTTTATTTTATA
12836933 TTGCTTTT
1 TT-CTTTT
12836941 GCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (22 bp):
TTCTTTTAGTTTTTATTTTATA
Found at i:12836945 original size:29 final size:30
Alignment explanation
Indices: 12836921--12836975 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
12836911 TTCTTTTTTT
12836921 TTTTGTT-TTATT-TTGCTTTTGC-TTTTGC
1 TTTTGTTCTTATTCTTG-TTTTGCTTTTTGC
12836949 TTTTGTTCTTATTCTTGTTTTG-TTTTT
1 TTTTGTTCTTATTCTTGTTTTGCTTTTT
12836976 ATTATGCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.29
29 14 0.58
30 3 0.12
ACGTcount: A:0.04, C:0.09, G:0.13, T:0.75
Consensus pattern (30 bp):
TTTTGTTCTTATTCTTGTTTTGCTTTTTGC
Found at i:12839841 original size:2 final size:2
Alignment explanation
Indices: 12839834--12839874 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
12839824 ATAGCAATCT
12839834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12839875 TCCCGTACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12851118 original size:24 final size:24
Alignment explanation
Indices: 12851086--12851148 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
12851076 AATCTCAAAT
12851086 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
12851110 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
12851134 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
12851149 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:12852949 original size:2 final size:2
Alignment explanation
Indices: 12852942--12852979 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12852932 AATAAGTTAT
12852942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12852980 AGCAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12856612 original size:37 final size:37
Alignment explanation
Indices: 12856564--12856637 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
12856554 GCACTTGCCT
*
12856564 TAGTTGGATTTTTAATTGGTTTCATGGACATCAACTA
1 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
12856601 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
1 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
12856638 CCCAATCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (37 bp):
TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
Found at i:12861506 original size:25 final size:27
Alignment explanation
Indices: 12861477--12861551 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
12861467 ATTATTTGTT
12861477 TTATTTTAATTTACTTTTA-TATAA-TA
1 TTATTTTAATTTA-TTTTATTATAAGTA
* *
12861503 -TATTATAAAATTATTTTATTATAAGTA
1 TTATT-TTAATTTATTTTATTATAAGTA
*
12861530 TTATTTTAATTATATATTATTA
1 TTATTTTAATT-TATTTTATTA
12861552 CTACTTATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
25 9 0.23
26 11 0.28
27 6 0.15
28 13 0.33
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTATTTTAATTTATTTTATTATAAGTA
Found at i:12861549 original size:16 final size:17
Alignment explanation
Indices: 12861503--12861589 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
12861493 TTATATAATA
*
12861503 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
12861519 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
12861536 TAATTAT-A-TATTATTAC
1 T-ATTATAAGTATTATT-T
*
12861553 TACTTATCATGTATTATTT
1 TA-TTAT-AAGTATTATTT
*
12861572 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
12861588 TA
1 TA
12861590 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 26 0.46
17 16 0.29
18 6 0.11
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:12861656 original size:44 final size:42
Alignment explanation
Indices: 12861599--12861680 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 42
12861589 ACATCTCTTT
* *
12861599 TATATATTATTATATTTTCAC-ATATATTATATTTATTAATTA
1 TATATATTATTATATGTT-ACTATATATTATATCTATTAATTA
*
12861641 TATATATTATTTTATATGTTACTTTATATTATATCTATTA
1 TATATATTA--TTATATGTTACTATATATTATATCTATTA
12861681 TTTTTCTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 9 0.26
43 2 0.06
44 23 0.68
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (42 bp):
TATATATTATTATATGTTACTATATATTATATCTATTAATTA
Found at i:12861732 original size:24 final size:22
Alignment explanation
Indices: 12861564--12861762 Score: 56
Period size: 22 Copynumber: 8.9 Consensus size: 22
12861554 ACTTATCATG
*
12861564 TATTATTTTTCTTAAATA-TTA
1 TATTATTTTTCTTATATATTTA
* ** * * *
12861585 TTTTACATCTCTTTTATATAT-
1 TATTATTTTTCTTATATATTTA
**
12861606 TATTATATTTTCACATATA-TTA
1 TATTAT-TTTTCTTATATATTTA
* **
12861628 TATT-TATTAATTATATATATTA
1 TATTATTTTTCTTATATAT-TTA
* *
12861650 TTTTATATGTTACTT-TATATTATA
1 TATTAT-T-TTTCTTATATATT-TA
*
12861674 TCTATTATTTTTCTTATATGTTTA
1 --TATTATTTTTCTTATATATTTA
*
12861698 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
* *
12861722 TATTATGTTTTATT-TTTATATTA
1 TATTAT-TTTTCTTATATAT-TTA
12861745 T-TTATTGTTT-TTATATAT
1 TATTATT-TTTCTTATATAT
12861763 ATGTATATCA
Statistics
Matches: 126, Mismatches: 33, Indels: 37
0.64 0.17 0.19
Matches are distributed among these distances:
20 7 0.06
21 21 0.17
22 38 0.30
23 16 0.13
24 26 0.21
25 13 0.10
26 5 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:12861745 original size:18 final size:19
Alignment explanation
Indices: 12861722--12861766 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
12861712 ATATAATCTT
12861722 TATTATGTT-TTATTTTTA
1 TATTATGTTATTATTTTTA
*
12861740 TATTAT-TTATTGTTTTTA
1 TATTATGTTATTATTTTTA
12861758 TATATATGT
1 TAT-TATGT
12861767 ATATCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 3 0.13
20 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (19 bp):
TATTATGTTATTATTTTTA
Found at i:12872830 original size:4 final size:4
Alignment explanation
Indices: 12872814--12872847 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
12872804 TTGAATTTAA
12872814 AAAT AAA- AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
12872848 AATGGAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:12875511 original size:26 final size:28
Alignment explanation
Indices: 12875481--12875556 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
12875471 ATTATTTGTT
12875481 TTATTTTAATTTTACTTTTA-TATAA-TA
1 TTATTTTAATTTTA-TTTTATTATAAGTA
* **
12875508 -TATTATAAAATTATTTTATTATAAGTA
1 TTATTTTAATTTTATTTTATTATAAGTA
* *
12875535 TTATTTTAATTATATATTATTA
1 TTATTTTAATTTTATTTTATTA
12875557 CTACTTATCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 5 0.13
26 15 0.39
27 2 0.05
28 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
TTATTTTAATTTTATTTTATTATAAGTA
Found at i:12875554 original size:16 final size:17
Alignment explanation
Indices: 12875508--12875594 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
12875498 TTATATAATA
*
12875508 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
12875524 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
12875541 TAATTAT-A-TATTATTAC
1 T-ATTATAAGTATTATT-T
*
12875558 TACTTATCATGTATTATTT
1 TA-TTAT-AAGTATTATTT
*
12875577 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
12875593 TA
1 TA
12875595 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 26 0.46
17 16 0.29
18 6 0.11
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:12875704 original size:35 final size:36
Alignment explanation
Indices: 12875641--12875708 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
12875631 TATTTATTAA
12875641 TTATATATATATATATATATTATTTTATATGTTACT
1 TTATATATATATATATATATTATTTTATATGTTACT
* *
12875677 TTATAT-TATATCTAT-TATTTTTCTTATATGTT
1 TTATATATATATATATATATTATT-TTATATGTT
12875709 TATATTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 6 0.21
35 17 0.59
36 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (36 bp):
TTATATATATATATATATATTATTTTATATGTTACT
Found at i:12875745 original size:24 final size:22
Alignment explanation
Indices: 12875689--12875777 Score: 56
Period size: 24 Copynumber: 3.9 Consensus size: 22
12875679 ATATTATATC
*
12875689 TATTATTTTTCTTATATGTTTA
1 TATTATTTTTCTTATATATTTA
*
12875711 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
* * *
12875735 TATTATGTTTTATTTTTATATTATT
1 TATTAT-TTTT-CTTATATATT-TA
*
12875760 TATTGTTTTT-TTATATAT
1 TATTATTTTTCTTATATAT
12875778 ATGTATATCA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
22 12 0.23
23 12 0.23
24 17 0.32
25 12 0.23
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:12875758 original size:18 final size:20
Alignment explanation
Indices: 12875735--12875783 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12875725 ATATAATCTT
12875735 TATTATGT-TT-TATTTTTA
1 TATTATGTATTGTATTTTTA
* *
12875753 TATTATTTATTGTTTTTTTA
1 TATTATGTATTGTATTTTTA
12875773 TATATATGTAT
1 TAT-TATGTAT
12875784 ATCATGTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 10 0.40
21 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTATGTATTGTATTTTTA
Found at i:12886307 original size:79 final size:80
Alignment explanation
Indices: 12886164--12886371 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
12886154 ACCTTTGGAG
* * ** * * * *
12886164 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
12886228 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
12886243 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
12886305 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
12886322 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
12886372 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:12886316 original size:40 final size:40
Alignment explanation
Indices: 12886264--12886371 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
12886254 TATCACGATT
** *
12886264 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
12886304 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
12886344 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
12886372 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:12896341 original size:40 final size:40
Alignment explanation
Indices: 12896286--12896453 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
12896276 TGAATGATAC
* *
12896286 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
12896326 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
12896366 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
12896406 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
12896446 CC-GGCTAA
1 CCGGGCTAA
12896454 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:12902713 original size:123 final size:123
Alignment explanation
Indices: 12902494--12902832 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
12902484 GAATTATGTG
*
12902494 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
12902559 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
12902617 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
12902682 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
12902740 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
12902805 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
12902833 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:12902856 original size:40 final size:40
Alignment explanation
Indices: 12902801--12903044 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
12902791 TGAATGATAC
* * * * **
12902801 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
12902841 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
12902881 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
12902921 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
12902961 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
12903001 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
12903041 CCGG
1 CCGG
12903045 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:12904447 original size:40 final size:40
Alignment explanation
Indices: 12904403--12904583 Score: 281
Period size: 40 Copynumber: 4.5 Consensus size: 40
12904393 ACACCGGCAA
*
12904403 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
12904443 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
12904483 CGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
* * * *
12904523 CGGACTAAGTTCTGAGGAGCATTGGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
* *
12904563 CGGGCTAGGTCCCGAAGAGCA
1 CGGGCTAAGTTCCGAAGAGCA
12904584 ATCATGCTGG
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
Done.