Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 191 of 322
Found at i:62834568 original size:37 final size:37
Alignment explanation
Indices: 62834447--62834568 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
62834437 TATCAGAACT
* * * *
62834447 AGAATCAAAATGAAAATCAGAATTAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
* * *
62834484 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
* *
62834521 AGAAT-----T-AGAATCAGAATCAGTATTAAGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
62834552 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
62834569 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 26 0.38
32 1 0.01
36 1 0.01
37 40 0.59
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:62835100 original size:27 final size:27
Alignment explanation
Indices: 62835070--62835343 Score: 241
Period size: 27 Copynumber: 10.2 Consensus size: 27
62835060 AACACCCTAG
* *
62835070 GGGTAAAATGGTAATATTATAAATCAA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
62835097 GGGTAAAACT-GTAATTTTA-AAATCAA
1 GGGTAAAA-TGGTAATTTTATAAATCGA
* ** * *
62835123 AGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
62835150 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
62835177 GGGTAAAATGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
62835204 GGGTAAAATAGTAATTTTGA-AAATCAA
1 GGGTAAAATGGTAATTTT-ATAAATCGA
* *
62835231 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
62835258 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * ** *
62835285 TGGTGAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
** * *
62835312 GGG-AACTTTGGTAATTTTACAAGTCGA
1 GGGTAA-AATGGTAATTTTATAAATCGA
62835339 GGGTA
1 GGGTA
62835344 TTTTAGTAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.11
27 183 0.88
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCGA
Found at i:62835326 original size:81 final size:81
Alignment explanation
Indices: 62835070--62835343 Score: 318
Period size: 81 Copynumber: 3.4 Consensus size: 81
62835060 AACACCCTAG
* * * * *
62835070 GGGTAAAATGGTAATATTATAAATCAAGGGTAAAACTGTAATTTT-AAAATCAAAGGTAAAACAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTAAAACAG
*
62835134 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * * * * *
62835150 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTAAAACAG
* *
62835215 TAATTTTGAAAATCAA
66 TAATTTTGTAAATCGA
* * * *
62835231 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGATGGTGAAACAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTAAAACAG
62835296 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
** * *
62835312 GGG-AACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAA-AATGGTAATTTTATAAATCGAGGGTA
62835344 TTTTAGTAAT
Statistics
Matches: 159, Mismatches: 33, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
80 39 0.25
81 120 0.75
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:62835352 original size:27 final size:27
Alignment explanation
Indices: 62835294--62835355 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
62835284 ATGGTGAAAC
**
62835294 AGTAATTTTGTAAATCGAGGGAACTTT
1 AGTAATTTTACAAATCGAGGGAACTTT
* * * *
62835321 GGTAATTTTACAAGTCGAGGGTATTTT
1 AGTAATTTTACAAATCGAGGGAACTTT
62835348 AGTAATTT
1 AGTAATTT
62835356 GGTAAACTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (27 bp):
AGTAATTTTACAAATCGAGGGAACTTT
Found at i:62837498 original size:6 final size:6
Alignment explanation
Indices: 62837468--62837598 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
62837458 AAGAAACATT
* * *
62837468 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGGG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA--GA ATCAGA
* * * * *
62837517 ATCAGA AACAGA ATCAGA ATCAAA ATTAGGTG AT-AGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
62837566 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
62837599 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 7 0.07
6 77 0.80
7 7 0.07
8 5 0.05
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:62837518 original size:37 final size:37
Alignment explanation
Indices: 62837477--62837598 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
62837467 TATCAGAACT
* *
62837477 AGAATCAAAATGAGAATCAGAATCAGAATCAGGGGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
62837514 AGAATCAGAAA-CAGAATCAGAATCAAAATTAGGTGAT
1 AGAATCA-AAATCAGAATCAGAATCAGAATCAGGTGAC
* *
62837551 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
62837582 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
62837599 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
31 25 0.37
36 1 0.01
37 38 0.57
38 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:62837586 original size:31 final size:31
Alignment explanation
Indices: 62837519--62837598 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
62837509 GGGACAGAAT
* * *
62837519 CAGAAACAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
* * **
62837550 TAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
*
62837581 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
62837599 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAGGTAA
Found at i:62838161 original size:39 final size:39
Alignment explanation
Indices: 62838107--62838181 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
62838097 ACACCCAAGG
** * *
62838107 GGTAAAATGGTAATTTTATAAATTGAGGGTATAACGGTA
1 GGTAAAACAGTAATTTTATAAATCGAGGGTAGAACGGTA
*
62838146 GGTAAAACAGTAATTTTGTAAATCGAGGGTAGAACG
1 GGTAAAACAGTAATTTTATAAATCGAGGGTAGAACG
62838182 ATAATATTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (39 bp):
GGTAAAACAGTAATTTTATAAATCGAGGGTAGAACGGTA
Found at i:62838458 original size:27 final size:27
Alignment explanation
Indices: 62838146--62838445 Score: 356
Period size: 27 Copynumber: 11.1 Consensus size: 27
62838136 TATAACGGTA
*
62838146 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * * *
62838173 GGTAGAA-CGATAATATTGCAAATCGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
62838200 GGTAAAATAGTAATTTTGTAAATTGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
62838227 GGTACAATAGTAATTATGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
62838254 GGTAAAAT-GATAATTCTGTAAATTGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
62838281 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * * *
62838308 GATAAAACAATAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
62838335 GGTAAAATGGTAATTCTGTAAATTGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
62838362 GGTAAAATAGTAATTTT-TAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
62838388 GGTAAAA-CGATAATTTTGGAAATCGAG
1 GGTAAAATAG-TAATTTTGTAAATCGAG
*
62838415 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
62838442 GGTA
1 GGTA
62838446 CTTTGGTAAT
Statistics
Matches: 231, Mismatches: 35, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 24 0.10
27 203 0.88
28 3 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
GGTAAAATAGTAATTTTGTAAATCGAG
Found at i:62840626 original size:6 final size:6
Alignment explanation
Indices: 62840591--62840721 Score: 79
Period size: 6 Copynumber: 21.3 Consensus size: 6
62840581 AAGAAACATT
* * * *
62840591 ATCAGA A-CTAGA ATCAAA ATGAGT ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
62840640 ATCAGA AACAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
62840689 ATCAGT ATCAAGA AACAGA ATCAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT
62840722 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
5 3 0.03
6 77 0.84
7 10 0.11
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:62840641 original size:37 final size:37
Alignment explanation
Indices: 62840615--62840699 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
62840605 CAAAATGAGT
*
62840615 ATCAGAATCAGAATCAGGTGACAGAATCAGAAACAGA
1 ATCAGAATCAAAATCAGGTGACAGAATCAGAAACAGA
* * *
62840652 ATCAGAATCAAAATTAGGTGACAGAATTAGAATCAGA
1 ATCAGAATCAAAATCAGGTGACAGAATCAGAAACAGA
*
62840689 ATCAGTATCAA
1 ATCAGAATCAA
62840700 GAAACAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
ATCAGAATCAAAATCAGGTGACAGAATCAGAAACAGA
Found at i:62840888 original size:27 final size:26
Alignment explanation
Indices: 62840840--62840899 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
62840830 GCGAGGCTAC
* *
62840840 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
62840867 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
62840893 CAGATAT
1 CAGATAT
62840900 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:62841188 original size:27 final size:27
Alignment explanation
Indices: 62841158--62841510 Score: 406
Period size: 27 Copynumber: 13.1 Consensus size: 27
62841148 AACACCCAAG
* * *
62841158 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* **
62841185 GGGTATAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
62841212 AGGCAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
62841239 GGGTAATACT-GTAATTTTGTAAATCGA
1 GGGTAA-AATAGTAATTTTGTAAATCGA
62841266 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
62841293 GGGTAAAACAGTAATTTTTTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
62841320 GGGTAAAA-CGATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
62841347 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
62841374 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
62841401 AGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* **
62841428 TGGTAAAATAGTAATTTT-TAAATTAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
62841454 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
62841481 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
62841508 GGG
1 GGG
62841511 CACTTTGGTA
Statistics
Matches: 275, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 24 0.09
27 248 0.90
28 3 0.01
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:62842097 original size:12 final size:12
Alignment explanation
Indices: 62842080--62842104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62842070 TGCCAAGGGA
62842080 TTCGAACCAAAG
1 TTCGAACCAAAG
62842092 TTCGAACCAAAG
1 TTCGAACCAAAG
62842104 T
1 T
62842105 CGTCTCACAT
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:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTCGAACCAAAG
Found at i:62842306 original size:25 final size:25
Alignment explanation
Indices: 62842278--62842335 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
62842268 CTTCCTCTAA
62842278 GGCGCCACTTCCTTGTCCCCTAAGT
1 GGCGCCACTTCCTTGTCCCCTAAGT
*
62842303 GGCGTCACTTCCTTGTCCCCTAAGT
1 GGCGCCACTTCCTTGTCCCCTAAGT
62842328 GGCGCCAC
1 GGCGCCAC
62842336 CTTGCCACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.12, C:0.40, G:0.22, T:0.26
Consensus pattern (25 bp):
GGCGCCACTTCCTTGTCCCCTAAGT
Found at i:62843747 original size:6 final size:6
Alignment explanation
Indices: 62843717--62843835 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
62843707 AAGAAACATT
* * *
62843717 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
62843766 ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
62843817 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
62843836 GTGAAAGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:62843767 original size:13 final size:13
Alignment explanation
Indices: 62843749--62843796 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
62843739 GAATCAGAAT
62843749 CAGAATTAGATGA
1 CAGAATTAGATGA
*
62843762 CAGAATCAGA--A
1 CAGAATTAGATGA
*
62843773 TCAGAATTAGGTGA
1 -CAGAATTAGATGA
62843787 CAGAATTAGA
1 CAGAATTAGA
62843797 ATCAAAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 1 0.04
12 8 0.29
13 18 0.64
14 1 0.04
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (13 bp):
CAGAATTAGATGA
Found at i:62843771 original size:25 final size:25
Alignment explanation
Indices: 62843738--62843800 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
62843728 AATCAAAATG
62843738 AGAATCAGAATCAGAATTAGATGAC
1 AGAATCAGAATCAGAATTAGATGAC
*
62843763 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGATGAC
*
62843788 AGAATTAGAATCA
1 AGAATCAGAATCA
62843801 AAATCAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGATGAC
Found at i:62843798 original size:31 final size:31
Alignment explanation
Indices: 62843762--62843835 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
62843752 AATTAGATGA
* *
62843762 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAAT
* * *
62843793 TAGAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAAT
*
62843824 CAAAATCAGAAT
1 CAGAATCAGAAT
62843836 GTGAAAGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAAT
Found at i:62844002 original size:27 final size:26
Alignment explanation
Indices: 62843954--62844013 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
62843944 GCGAGGCTGC
*
62843954 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
62843981 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
62844007 CAGATAT
1 CAGATAT
62844014 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62844708 original size:27 final size:27
Alignment explanation
Indices: 62844345--62844695 Score: 431
Period size: 27 Copynumber: 13.0 Consensus size: 27
62844335 CTCTAGGAGC
* *
62844345 AAAATGGTAATTTTATAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * *
62844372 AAAATGGTAATTCTGTAAATCGAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * *
62844399 AAAACAGTAATACTT-TAAATCAAGGGT
1 AAAATAGTAAT-TTTGTAAATCGAGGGT
*
62844426 AAAACT-GTAATTCTGTAAATCGAGGGT
1 AAAA-TAGTAATTTTGTAAATCGAGGGT
62844453 AAAATAGTAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* *
62844480 AAAATAGTAATTTTGTAAATTGAGGGG
1 AAAATAGTAATTTTGTAAATCGAGGGT
* * * *
62844507 AAAACAGTAATTCTGTAAATCAAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
*
62844534 AAAA-CGATAATTTTGTAAATCGAGGGT
1 AAAATAG-TAATTTTGTAAATCGAGGGT
* *
62844561 AAAATAGTAATTCTGTAAATGGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
62844588 AAAATAGTAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
** * *
62844615 AAACGA-TAATTTTGTAAATTGAAGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
62844641 AAAATAGTAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
* *
62844668 AAATTTGTAATTTTGTAAATCGAGGGT
1 AAAATAGTAATTTTGTAAATCGAGGGT
62844695 A
1 A
62844696 CTTTGGTAAT
Statistics
Matches: 276, Mismatches: 41, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
26 25 0.09
27 249 0.90
28 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAATAGTAATTTTGTAAATCGAGGGT
Found at i:62844717 original size:27 final size:26
Alignment explanation
Indices: 62844647--62844734 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
62844637 AGGTAAAATA
**
62844647 GTAATTTTGTAAATCGAGGGTAAATTT
1 GTAATTTTACAAATCGAGGGT-AATTT
** *
62844674 GTAATTTTGTAAATCGAGGGTACTTT
1 GTAATTTTACAAATCGAGGGTAATTT
* *
62844700 GGTAATTTTACAAGTCGAGGGTATTTT
1 -GTAATTTTACAAATCGAGGGTAATTT
62844727 AGTAATTT
1 -GTAATTT
62844735 GGAAAACTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (26 bp):
GTAATTTTACAAATCGAGGGTAATTT
Found at i:62845475 original size:25 final size:25
Alignment explanation
Indices: 62845447--62845499 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
62845437 GCTTCCTCTA
*
62845447 TGGCGTCACTTCCTTGTCCCCTAAG
1 TGGCGTCAATTCCTTGTCCCCTAAG
62845472 TGGCGTCAATTCCTTGTCCCCTAAG
1 TGGCGTCAATTCCTTGTCCCCTAAG
62845497 TGG
1 TGG
62845500 TGCCACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.13, C:0.32, G:0.23, T:0.32
Consensus pattern (25 bp):
TGGCGTCAATTCCTTGTCCCCTAAG
Found at i:62857845 original size:35 final size:35
Alignment explanation
Indices: 62857803--62857894 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
62857793 ACCTATAGTT
* * **
62857803 CAAATTCAATATAACATCACATATGGCCGAATATG
1 CAAATTCAATATAACATCACATATGACCAAATACA
* * *
62857838 CACATTCAAGATAACTTCACATATGACCAAATACA
1 CAAATTCAATATAACATCACATATGACCAAATACA
62857873 CAAATTCAATATAA-ACTCACAT
1 CAAATTCAATATAACA-TCACAT
62857895 GTAATCGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (35 bp):
CAAATTCAATATAACATCACATATGACCAAATACA
Found at i:62866404 original size:21 final size:21
Alignment explanation
Indices: 62866378--62866417 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62866368 CTAAAAACGG
*
62866378 TAAGCTTTATTAAGCTGAACA
1 TAAGCTTTATCAAGCTGAACA
*
62866399 TAAGCTTTATCGAGCTGAA
1 TAAGCTTTATCAAGCTGAA
62866418 TTGGTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAGCTTTATCAAGCTGAACA
Found at i:62872910 original size:16 final size:16
Alignment explanation
Indices: 62872891--62872921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62872881 CTTCTTCACT
62872891 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
62872907 TACTTACTTACTTAA
1 TACTCACTTACTTAA
62872922 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:62872927 original size:20 final size:20
Alignment explanation
Indices: 62872888--62872927 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62872878 AAACTTCTTC
* *
62872888 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
62872908 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
62872928 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:62873242 original size:53 final size:54
Alignment explanation
Indices: 62873113--62873367 Score: 249
Period size: 55 Copynumber: 4.8 Consensus size: 54
62873103 ACACAGGTAC
* * * * *
62873113 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGCAA
* *
62873162 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGCAA
* * * * *
62873215 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GCAA
* * * *
62873270 CTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTA-GCAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGCAA
*
62873323 CCTTACCAATTGCCATGTCTT-AGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGTATCCTT
62873368 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 11 0.06
55 69 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGCAA
Found at i:62873304 original size:108 final size:110
Alignment explanation
Indices: 62873160--62873357 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
62873150 ATCCTTTTGA
* * *
62873160 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTGCCTTA-GCAACCTCACCAA
*
62873223 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
62873268 AACTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTAGCAACCTTACCAAT
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTGCCTTAGCAACCTCACCAAT
*
62873333 TGCCATGTCTTAGCATGGTCTTACA
66 TGCCATGCCTTAGCATGGTCTTACA
62873358 CGGTATCCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.60
109 7 0.09
110 23 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTGCCTTAGCAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:62880877 original size:55 final size:53
Alignment explanation
Indices: 62880690--62880881 Score: 180
Period size: 53 Copynumber: 3.7 Consensus size: 53
62880680 ACACGGGTAC
* ** * *
62880690 CTTACCATTGCCATGTCTTGTTATGGTCTTACATGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG-AA
* * *
62880739 CTTACCATTGCCATGTCTAGACATGGTCTTACATGGTAGCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATGAA
* * * * *
62880792 CTCACCAATTCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCC-TTGCCTTAT-G-AA
*
62880847 CTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG
62880882 ATTTCCTTGC
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 35 0.30
52 2 0.02
53 42 0.36
54 7 0.06
55 32 0.27
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATGAA
Found at i:62880917 original size:29 final size:29
Alignment explanation
Indices: 62880863--62880918 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
62880853 AATGCCATGT
* *
62880863 CTTGACATGGTCTTACATGATTTCCTTGC
1 CTTGACATGGTCTTACAAGATATCCTTGC
*
62880892 CTTGGCATGGTCTTACACAG-TATCCTT
1 CTTGACATGGTCTTACA-AGATATCCTT
62880919 AAACCCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (29 bp):
CTTGACATGGTCTTACAAGATATCCTTGC
Found at i:62882598 original size:42 final size:42
Alignment explanation
Indices: 62882539--62882667 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 42
62882529 TAGGGTTAGT
*
62882539 TGAGATTAAGTGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
* * * *
62882581 TGAGATTTCGTGTAAGACCATACCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATTGATA
* ** * * * * *
62882624 TCAGATCCCATGCAAAACCATATCTAGGATATGGCATTGGTA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
62882666 TG
1 TG
62882668 GTACTATGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
42 37 0.54
43 32 0.46
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:62884259 original size:27 final size:26
Alignment explanation
Indices: 62884218--62884390 Score: 152
Period size: 27 Copynumber: 6.4 Consensus size: 26
62884208 TGGATAAGTT
*
62884218 GTAGAATTACCGAAATACCCCTGTATG
1 GTAGAATTACTGAAATACCCCTGTA-G
62884245 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGT-AG
62884272 GTAGAATTA-TCGAAATACCCCTGTAG
1 GTAGAATTACT-GAAATACCCCTGTAG
***
62884298 GATAGAATTA-TCGAAATACTTTTGTAGG
1 G-TAGAATTACT-GAAATACCCCTGTA-G
* * * *
62884326 GTAGAAATACCGAAATACCACTATAGG
1 GTAGAATTACTGAAATACCCCTGTA-G
* * *
62884353 GTAGAATTACCGAGATACCCTTGTAG
1 GTAGAATTACTGAAATACCCCTGTAG
*
62884379 AGTAAAATTACT
1 -GTAGAATTACT
62884391 ATTTTTCCCC
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.04
27 115 0.93
28 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (26 bp):
GTAGAATTACTGAAATACCCCTGTAG
Found at i:62884356 original size:81 final size:81
Alignment explanation
Indices: 62884219--62884378 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
62884209 GGATAAGTTG
* * * * * *
62884219 TAGAATTACCGAAATACCCCTGTATGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTATCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTACCG
62884284 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* *** *
62884300 TAGAATTATCGAAATACTTTTGTAGGGTAGAAATACCGAAATACCACTATAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTACCG
* *
62884365 AGATACCCTTGTAG
66 AAATACCCCTGTAG
62884379 AGTAAAATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCACTATAAGGTAGAATTACCG
AAATACCCCTGTAGGA
Found at i:62884378 original size:54 final size:54
Alignment explanation
Indices: 62884218--62884386 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
62884208 TGGATAAGTT
* * * * *
62884218 GTAGAATTACCGAAATACCCCTGTATGGTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * * **
62884272 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTATCGAAATACTTTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
62884326 GTAGAAATACCGAAATACCACTATAGGGTAGAATTACCGAGATACCCTTGTAGA
1 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
62884380 GTA-AAAT
1 GTAGAAAT
62884387 TACTATTTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.04
54 92 0.96
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:62885159 original size:26 final size:27
Alignment explanation
Indices: 62885130--62885189 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
62885120 CGACATATAT
*
62885130 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
62885156 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
62885183 ATATCTG
1 ATATCTG
62885190 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:62891255 original size:27 final size:27
Alignment explanation
Indices: 62891217--62891362 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
62891207 TGGATAAGTT
62891217 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
62891244 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
62891271 ATAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
62891298 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
62891325 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
62891352 GTAAAATTACC
1 GTAGAATTACC
62891363 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:62892862 original size:39 final size:40
Alignment explanation
Indices: 62892817--62892904 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
62892807 CGGGGTTTAG
* *
62892817 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATCAAGGCCTTCGGGACTTAAC
*** * * *
62892856 CCGGATATGGTCACTAGCATTAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATCAAGGCCTTCGGGACTTAAC
62892896 CCGGATATA
1 CCGGATATA
62892905 GTCGCTAGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATCAAGGCCTTCGGGACTTAAC
Found at i:62892887 original size:40 final size:40
Alignment explanation
Indices: 62892840--62892984 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
62892830 CTCGCACAAG
* * * * **
62892840 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATTAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
62892880 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
62892920 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
62892961 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
62892985 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:62897863 original size:38 final size:38
Alignment explanation
Indices: 62897820--62898028 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
62897810 TTTCAAATTA
* *
62897820 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
62897858 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
62897899 GAATCAATATATGTAACCGTGGCATATCCACTTTGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
62897943 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGTACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
62897991 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
62898029 TTTTCCATTC
Statistics
Matches: 137, Mismatches: 17, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
38 61 0.45
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 26 0.19
48 33 0.24
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:62897974 original size:48 final size:48
Alignment explanation
Indices: 62897865--62897998 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
62897855 GTTACATGTT
* *
62897865 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
62897912 TAACCGTGGCATATCCACTTTGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
62897960 TAATCGTGGTATATCCACTTAGTACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
62897999 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 29 0.38
48 47 0.62
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:62899624 original size:20 final size:20
Alignment explanation
Indices: 62899586--62899624 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62899576 AACTTCTTCA
* *
62899586 CTTACTCACTTACTTAAATG
1 CTTACTCACTTAATCAAATG
*
62899606 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
62899625 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATG
Found at i:62899997 original size:54 final size:52
Alignment explanation
Indices: 62899809--62900007 Score: 219
Period size: 49 Copynumber: 3.8 Consensus size: 52
62899799 ACACGGGTAC
* * *
62899809 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT--TT-GAAA
1 CTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTCCTTAGAAA
* * *
62899858 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT-CCTTA-GAAA
* * * * *
62899911 CTCACCAATGTCATGCCTTAGCATGGTCTTACATGGGA-CCTTCCCTTAGAAA
1 CTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT-CCTTAGAAA
62899963 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
62900008 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.32
51 1 0.01
52 13 0.11
53 37 0.30
54 29 0.24
55 4 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (52 bp):
CTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTCCTTAGAAA
Found at i:62901688 original size:46 final size:46
Alignment explanation
Indices: 62901638--62901810 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
62901628 TGGTTGAGCA
* *
62901638 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
** * * * * *
62901684 TCCGAACTCGTTGAGTTGAGTCCGAGTT-TGTGAAATGTA-ACTAGGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
* *
62901731 TCTGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
62901777 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62901811 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 65 0.64
47 34 0.34
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:62909228 original size:46 final size:46
Alignment explanation
Indices: 62909168--62909340 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
62909158 TGGTTGAGCA
*
62909168 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
62909214 TCCAAACTAGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62909259 CATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62909307 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62909341 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62909324 original size:93 final size:93
Alignment explanation
Indices: 62909165--62909335 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
62909155 GGATGGTTGA
* * *
62909165 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTAGTTGAGT
1 GCATCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
62909230 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
62909258 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
62909323 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62909336 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:62919911 original size:12 final size:12
Alignment explanation
Indices: 62919896--62919922 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62919886 TCATTTAGCT
62919896 TTGCCATCCGAG
1 TTGCCATCCGAG
62919908 TTGCCATCCGAG
1 TTGCCATCCGAG
62919920 TTG
1 TTG
62919923 GAGAGGATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (12 bp):
TTGCCATCCGAG
Found at i:62923821 original size:18 final size:19
Alignment explanation
Indices: 62923782--62923823 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
62923772 ATCAAAGACC
62923782 AATTTGAGACAAAATAGAA
1 AATTTGAGACAAAATAGAA
* *
62923801 AATTTGGGATAAAAT-GAA
1 AATTTGAGACAAAATAGAA
62923819 AATTT
1 AATTT
62923824 TCAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (19 bp):
AATTTGAGACAAAATAGAA
Found at i:62924746 original size:34 final size:34
Alignment explanation
Indices: 62924707--62924789 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
62924697 CGTTAACCAT
** *
62924707 CCAGCACACCGTATGCTCGTATGAGCCAATCCAC
1 CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
* * *
62924741 CCAGCACACTAAATGCTTGTAAGAGCCAATCCAT
1 CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
*
62924775 CTAGCACACCAAATG
1 CCAGCACACCAAATG
62924790 GACTATATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.33, C:0.34, G:0.16, T:0.18
Consensus pattern (34 bp):
CCAGCACACCAAATGCTCGTAAGAGCCAATCCAC
Found at i:62929299 original size:53 final size:53
Alignment explanation
Indices: 62929205--62929312 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 53
62929195 TATAATTTTT
62929205 TATTAAAAAATGAATGATTAAATCTGAAGATACCATGTGTCACCATCTAATAGG
1 TATTAAAAAATGAATGATTAAATCTGAAGA-ACCATGTGTCACCATCTAATAGG
62929259 TATTAAAAAAATGAATGATTAAATCTGAAG-ACCATGTGTCACCATCTAATAGG
1 TATT-AAAAAATGAATGATTAAATCTGAAGAACCATGTGTCACCATCTAATAGG
62929312 T
1 T
62929313 CCAGTAATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
53 24 0.45
54 4 0.08
55 25 0.47
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (53 bp):
TATTAAAAAATGAATGATTAAATCTGAAGAACCATGTGTCACCATCTAATAGG
Found at i:62934260 original size:43 final size:43
Alignment explanation
Indices: 62934135--62934291 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
62934125 TGTGTTATCT
* *
62934135 TGTAAGACCATGTCTGGAACATTTGCATCGAT-TTGTGATTT-A
1 TGTAAGACCATGTCTGGGACATTCGCATCGATATT-TGATTTCA
* * *
62934177 TGTGTAAGACCATGTCTGGGACATTCACATTG-TATATGATTTCA
1 --TGTAAGACCATGTCTGGGACATTCGCATCGATATTTGATTTCA
* * * * *
62934221 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTCGCATCGATATTTGATTTCA
* * *
62934264 TGTAAGACCACGTTTGAGACATTCGCAT
1 TGTAAGACCATGTCTGGGACATTCGCAT
62934292 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 24 0.27
43 38 0.42
44 28 0.31
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTCGCATCGATATTTGATTTCA
Found at i:62942010 original size:17 final size:17
Alignment explanation
Indices: 62941985--62942018 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62941975 TTTAATTCAA
*
62941985 CATATATCAATCAAAAT
1 CATAAATCAATCAAAAT
*
62942002 CATAAATCAATTAAAAT
1 CATAAATCAATCAAAAT
62942019 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAAATCAATCAAAAT
Found at i:62948251 original size:30 final size:30
Alignment explanation
Indices: 62948217--62948276 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62948207 ATTTAATACG
62948217 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
62948247 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
62948277 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:62957644 original size:98 final size:96
Alignment explanation
Indices: 62957468--62957663 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 96
62957458 AATGTGTATA
* *
62957468 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGCATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
62957533 TGGTAAAGCCGAATGACTAATGTGAAATATG
66 TGGTAAAGCCGAATGACTAATGTGAAATATG
*
62957564 TATGAGATATGCATATATGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTAT
1 TATGAGATATGCATATATGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTAT
* *
62957628 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
63 ATGTGGTAAAGCCGAATGACTAATGTGAAATATG
62957662 TA
1 TA
62957664 GGCGATGTGC
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.39
97 2 0.02
98 53 0.58
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (96 bp):
TATGAGATATGCATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
TGGTAAAGCCGAATGACTAATGTGAAATATG
Found at i:62957679 original size:50 final size:48
Alignment explanation
Indices: 62957464--62957660 Score: 306
Period size: 48 Copynumber: 4.1 Consensus size: 48
62957454 TGTGAATGTG
62957464 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
*
62957512 TATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* * * *
62957560 TATGTATGAGATATGCATATATGGTAAAGCTGAATGG-TCAATGTGAAATA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-A
*
62957610 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
62957658 TAT
1 TAT
62957661 GTAGGCGATG
Statistics
Matches: 134, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
47 1 0.01
48 89 0.66
49 4 0.03
50 39 0.29
51 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (48 bp):
TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
Found at i:62957918 original size:37 final size:37
Alignment explanation
Indices: 62957810--62957918 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
62957800 GGAAATATAT
*
62957810 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
62957847 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
62957884 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
62957919 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:62961315 original size:572 final size:570
Alignment explanation
Indices: 62960227--62961345 Score: 1792
Period size: 572 Copynumber: 2.0 Consensus size: 570
62960217 TCACAGGTAA
* *
62960227 GTTTTAAATATTTATAAGTAATCGTTCTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACC
1 GTTTTAAATATTTACAAGTAATCGTTCTTGAAACTAAATATTATCGCGATGTAGGCAAGTGTACC
62960292 TATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCGAACCCAAAGGAACTAAAAGTACTAG
66 TATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCGAACCCAAAGGAACTAAAAGTACTAG
62960357 TAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTAAC
131 TAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTAAC
** ** * *
62960422 AAATCTAAGAATTCAAAGAGAATGGAATTGGGGGATTGCTTTTGGAAAACCATTGAATTAAGACA
196 AAATCTAAGAACGCAAAGAGAAAAGAATTGGGGAATTGCTTTTGGAAAACCATTGAATGAAGACA
* * *
62960487 ATACCTAAGGAAAAATCCACCTAGACTGTACTTGTTATTCTGGCTTCGAATTGGACGATTTATTC
261 ATACCCAAGGAAAAATCCACCTAGACTGTACTTGTTATTCTGGCTCCGAATCGGACGATTTATTC
* * **
62960552 ATTTAACTTGTTCCGTGGAGATCCTTAAGTTATGTTTTTATCCCAATTCAAGACTAATAACGTCT
326 ATTCAACTTGTTCCGTAGAGATCCTTAAGTTATGTCATTATCCCAATTCAAGACTAATAACGTCT
* * *
62960617 AATCCCCAGATTGAATAATTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAACTCGATC
391 AATCCCCAGATTAAATAACTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAAATCGATC
* *
62960682 TACGGATCCCCTTATTAGGTTTAACCTTAATCCAGCAAAATCTTGTCACCTTATGTCTAGGCGCG
456 TACGGATCCCCTTATTAGGTTTAACCCTAATCCAGCAAAATCTTGTCACCCTATGTCTAGGCGCG
*
62960747 TAAACAACTCCGCTTAATTATGACAAATTGATTGCGAGGTTTCATGATAG
521 CAAACAACTCCGCTTAATTATGACAAATTGATTGCGAGGTTTCATGATAG
* * *
62960797 GTTTTAAA-ATTTTACAATTAATCGTTCTTGAAACTAAATATTATCGTGATTTAGGCAAGTGTAC
1 GTTTTAAATA-TTTACAAGTAATCGTTCTTGAAACTAAATATTATCGCGATGTAGGCAAGTGTAC
* *
62960861 CTATCGAACAGTAGTATAGTTTTAGCAAGATCGGATTGTCGAGCCCAAAGGAACTAAAAGTACTA
65 CTATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCGAACCCAAAGGAACTAAAAGTACTA
* * * *
62960926 GTAATGACTGTCTTTTTATTATCTAGCCTGAGAATAATGGGGTTTTGTTTTAATTAACTAATTAT
130 GTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTAA
* **
62960991 CTAAA-CTAAGAACGCACAGAGAAAAGAATTGGGGAATTGCTTTTGGGAAAATTGATTGAATGAA
195 C-AAATCTAAGAACGCAAAGAGAAAAGAATTGGGGAATTGCTTTT-GGAAAA-CCATTGAATGAA
* *
62961055 GACAATACCCAAGGAAAAATCCACCTGGACTTTACTTGTTATTCTGGCTCCGAATCGGACGATTT
257 GACAATACCCAAGGAAAAATCCACCTAGACTGTACTTGTTATTCTGGCTCCGAATCGGACGATTT
* *
62961120 ATTCATTCAACTTGTTCCGTAGAGATCCTTAAGTTATGTCATTATGCCTATTCAAGACTAATAAC
322 ATTCATTCAACTTGTTCCGTAGAGATCCTTAAGTTATGTCATTATCCCAATTCAAGACTAATAAC
* *
62961185 GTCTAATCCCTAGATTAAATAACTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAAATT
387 GTCTAATCCCCAGATTAAATAACTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAAATC
* * *
62961250 GATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCAGCAAAATCTTGTCACCCTATTTCTAGG
452 GATCTACGGATCCCCTTATTAGGTTTAACCCTAATCCAGCAAAATCTTGTCACCCTATGTCTAGG
* *
62961315 CGTGCAATCAACTCCGCTTAATTATGACAAA
517 CGCGCAAACAACTCCGCTTAATTATGACAAA
62961346 AGTACTATTA
Statistics
Matches: 501, Mismatches: 44, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
569 1 0.00
570 215 0.43
571 9 0.02
572 276 0.55
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (570 bp):
GTTTTAAATATTTACAAGTAATCGTTCTTGAAACTAAATATTATCGCGATGTAGGCAAGTGTACC
TATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCGAACCCAAAGGAACTAAAAGTACTAG
TAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAGGGGGTTTTGTTTTAACTAACTAATTAAC
AAATCTAAGAACGCAAAGAGAAAAGAATTGGGGAATTGCTTTTGGAAAACCATTGAATGAAGACA
ATACCCAAGGAAAAATCCACCTAGACTGTACTTGTTATTCTGGCTCCGAATCGGACGATTTATTC
ATTCAACTTGTTCCGTAGAGATCCTTAAGTTATGTCATTATCCCAATTCAAGACTAATAACGTCT
AATCCCCAGATTAAATAACTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAAATCGATC
TACGGATCCCCTTATTAGGTTTAACCCTAATCCAGCAAAATCTTGTCACCCTATGTCTAGGCGCG
CAAACAACTCCGCTTAATTATGACAAATTGATTGCGAGGTTTCATGATAG
Found at i:62974509 original size:55 final size:54
Alignment explanation
Indices: 62974414--62974563 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
62974404 CTACTTTGTT
* ** * *
62974414 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
62974468 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
62974523 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
62974564 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:62974526 original size:27 final size:27
Alignment explanation
Indices: 62974386--62974563 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
62974376 TAAATTGTAC
62974386 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
62974413 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
62974439 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
62974467 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
62974495 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
62974522 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
62974549 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62974564 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:62974527 original size:82 final size:81
Alignment explanation
Indices: 62974387--62974542 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
62974377 AAATTGTACA
* * * *
62974387 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
62974452 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
62974468 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
62974531 TGTGCGAGTTGA
63 TGTGCGAATTGA
62974543 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:62989942 original size:27 final size:27
Alignment explanation
Indices: 62989911--62989963 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
62989901 GCATCTGGTA
*
62989911 CTGATTCTG-TATTGGGCTTAGGCCCAC
1 CTGATTCTGTTAATGGGC-TAGGCCCAC
62989938 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTTAATGGGCTAGGCCCA
62989964 ATTGTTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (27 bp):
CTGATTCTGTTAATGGGCTAGGCCCAC
Found at i:62990790 original size:12 final size:13
Alignment explanation
Indices: 62990762--62990794 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
62990752 TTATTTCTTT
62990762 TTCTCCATCTACC
1 TTCTCCATCTACC
*
62990775 TTCTCC-TCTTCC
1 TTCTCCATCTACC
62990787 TTCTCCAT
1 TTCTCCAT
62990795 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:62991895 original size:28 final size:28
Alignment explanation
Indices: 62991863--62991927 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
62991853 ATTTACTAGA
*
62991863 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
62991891 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
62991919 ATACCCCTA
1 ATACCCCTA
62991928 GGGTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:62992073 original size:28 final size:27
Alignment explanation
Indices: 62992042--62992121 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
62992032 CTGGTGGTTA
*
62992042 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
** *
62992070 TGCCACGTATATCTGTTTTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTGGCAC
*
62992097 TGCCACAAAATATTTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
62992122 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.52
28 14 0.33
29 6 0.14
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:63003045 original size:27 final size:26
Alignment explanation
Indices: 63003028--63003097 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
63003018 ATATTAAGTC
63003028 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
63003055 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
63003083 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
63003098 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:63003091 original size:28 final size:28
Alignment explanation
Indices: 63003028--63003125 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
63003018 ATATTAAGTC
*
63003028 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
63003055 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
63003083 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
63003112 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63003126 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63003591 original size:14 final size:14
Alignment explanation
Indices: 63003572--63003602 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
63003562 TGGGCATACT
63003572 TATGTATATATATA
1 TATGTATATATATA
63003586 TATGTATATATATA
1 TATGTATATATATA
63003600 TAT
1 TAT
63003603 ACTTCGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:63007343 original size:40 final size:40
Alignment explanation
Indices: 63007266--63007566 Score: 373
Period size: 40 Copynumber: 7.6 Consensus size: 40
63007256 CAACCAAGTA
** *
63007266 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
63007304 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
63007344 CCTTCGGGACTTAGCCCGGATATAGT-ACTTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
63007384 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
63007424 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
63007464 CCTTCGGGACTTAGCCCGGATATAATAACTCGCAC-AATCA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-G
* * * *
63007504 CCTTCAGG-CTTAGCCCGGA-ATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
63007543 CCTTCGGGACTTACCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATA
63007567 TCCGAATATC
Statistics
Matches: 232, Mismatches: 21, Indels: 18
0.86 0.08 0.07
Matches are distributed among these distances:
38 13 0.06
39 45 0.19
40 171 0.74
41 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:63011053 original size:51 final size:52
Alignment explanation
Indices: 63010977--63011105 Score: 201
Period size: 51 Copynumber: 2.5 Consensus size: 52
63010967 GGATACGCAC
* *
63010977 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCTCACTTGTAGTCCAAAGCTATTTTATTCACAAAG
63011028 TGGCCTTCACATAGTACCTCACTTGT-GTCCAAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCTCACTTGTAGTCCAAAGCTATTTTATTCACAAAG
*
63011079 TGGCCTTCACGTAGTA-CTACACTTGTA
1 TGGCCTTCACATAGTACCT-CACTTGTA
63011106 ACATCCCGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
50 3 0.04
51 69 0.96
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (52 bp):
TGGCCTTCACATAGTACCTCACTTGTAGTCCAAAGCTATTTTATTCACAAAG
Found at i:63013568 original size:237 final size:237
Alignment explanation
Indices: 63013153--63013625 Score: 919
Period size: 237 Copynumber: 2.0 Consensus size: 237
63013143 CCATTCCAAT
63013153 GGCTAATCGTTACCAAGCATTTCCATACCACTAAATGAACAATATACAAAATGATTATAATGCTA
1 GGCTAATCGTTACCAAGCATTTCCATACCACTAAATGAACAATATACAAAATGATTATAATGCTA
63013218 TGCTCAAGATATATAAGCCATTTTCGCATGGCTATCCAAATTTATACAATACCAAAAGGTACATG
66 TGCTCAAGATATATAAGCCATTTTCGCATGGCTATCCAAATTTATACAATACCAAAAGGTACATG
63013283 ACCAACAACAAAAGGGCAGTCCTATACATGCCATTAACAGAGTTCAACTAAAAGAGTACCAAAAG
131 ACCAACAACAAAAGGGCAGTCCTATACATGCCATTAACAGAGTTCAACTAAAAGAGTACCAAAAG
*
63013348 GGCTTTGATAGTGTGGGCGACTTCGACTTTGACACTCCCGAA
196 GGCTTTGATAGTGTGGGCGACTTCGAATTTGACACTCCCGAA
63013390 GGCTAATCGTTACCAAGCATTTCCATACCACTAAATGAACAATATACAAAATGATTATAATGCTA
1 GGCTAATCGTTACCAAGCATTTCCATACCACTAAATGAACAATATACAAAATGATTATAATGCTA
*
63013455 TGCTCAAGATATATAAGCCATTTTTGCATGGCTATCCAAATTTATACAATACCAAAAGGTACATG
66 TGCTCAAGATATATAAGCCATTTTCGCATGGCTATCCAAATTTATACAATACCAAAAGGTACATG
*
63013520 ACCAATAACAAAAGGGCAGTCCTATACATGCCATTAACAGAGTTCAACTAAAAGAGTACCAAAAG
131 ACCAACAACAAAAGGGCAGTCCTATACATGCCATTAACAGAGTTCAACTAAAAGAGTACCAAAAG
63013585 GGCTTTGATAGTGTGGGCGACTTCGAATTTGACACTCCCGA
196 GGCTTTGATAGTGTGGGCGACTTCGAATTTGACACTCCCGA
63013626 CTCCGATAGC
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 233 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (237 bp):
GGCTAATCGTTACCAAGCATTTCCATACCACTAAATGAACAATATACAAAATGATTATAATGCTA
TGCTCAAGATATATAAGCCATTTTCGCATGGCTATCCAAATTTATACAATACCAAAAGGTACATG
ACCAACAACAAAAGGGCAGTCCTATACATGCCATTAACAGAGTTCAACTAAAAGAGTACCAAAAG
GGCTTTGATAGTGTGGGCGACTTCGAATTTGACACTCCCGAA
Found at i:63014062 original size:40 final size:40
Alignment explanation
Indices: 63013995--63014171 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
63013985 ACCCAAGTAT
*
63013995 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
63014034 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
63014074 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
63014114 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
63014154 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
63014172 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:63022021 original size:40 final size:40
Alignment explanation
Indices: 63021954--63022130 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
63021944 ACCCAAGTAT
*
63021954 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
63021993 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
63022033 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
63022073 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
63022113 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
63022131 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:63024553 original size:41 final size:42
Alignment explanation
Indices: 63024498--63024603 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 42
63024488 TGTTGTTACG
* ** *
63024498 TGTAAGACCATGTCTGGGACATCGGAATCG-TATTTGAT-TCA
1 TGTAAGACCCTGTCTGGGACAT-GGAATCGATATGAGATAGCA
*
63024539 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGATAGCA
1 TGTAAGACCCTGTCTGGGACA-TGGAATCGATATGAGATAGCA
63024582 TGTAAGACCAC-GTCTGGGACAT
1 TGTAAGACC-CTGTCTGGGACAT
63024604 TGGCATTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
41 26 0.46
42 8 0.14
43 21 0.38
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATGGAATCGATATGAGATAGCA
Found at i:63024590 original size:43 final size:40
Alignment explanation
Indices: 63024498--63024609 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 40
63024488 TGTTGTTACG
* * ** *
63024498 TGTAAGACCATGTCTGGGACATCGGAATCGTATTTGATTCA
1 TGTAAGACCCTGTCTGGGACAT-GGCATCGTATGAGATGCA
63024539 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGATAGCA
1 TGTAAGACCCTGTCTGGGACA-TGGCATCG-TATGAGAT-GCA
63024582 TGTAAGACCAC-GTCTGGGACATTGGCAT
1 TGTAAGACC-CTGTCTGGGACA-TGGCAT
63024610 TGTTCAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 26 0.43
42 7 0.11
43 27 0.44
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
TGTAAGACCCTGTCTGGGACATGGCATCGTATGAGATGCA
Found at i:63029591 original size:29 final size:28
Alignment explanation
Indices: 63029555--63029632 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
63029545 TCATGAGATT
63029555 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
63029585 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
63029612 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
63029633 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:63029850 original size:174 final size:174
Alignment explanation
Indices: 63029585--63029912 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
63029575 AAATTGTACA
*
63029585 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAGG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAGG
* *
63029650 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
63029715 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
63029759 GCACTAAGTGTGTGATTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAGG
*
63029824 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
63029889 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
63029913 ACATTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAGG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:63033037 original size:48 final size:47
Alignment explanation
Indices: 63032985--63033107 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 47
63032975 AATGTGAGGT
*
63032985 AGTGTAAGACCATGTCTGGTACATGGCATC-AGCGTTGATATGTGTACC
1 AGTGTAAGACCATGTCTGG-ACATGGCATCGA-CGATGATATGTGTACC
* * *
63033033 AGTGTAAGACCATGTCTAGGACATGGCATCGATGATGATATGTGTGCT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGACGATGATATGTGTACC
63033081 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCT-GGACATGGC
63033108 TTTGGCATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
48 65 0.96
49 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGACGATGATATGTGTACC
Found at i:63041573 original size:79 final size:81
Alignment explanation
Indices: 63041471--63041654 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
63041461 GCTCCTCGTT
* *
63041471 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
63041533 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
63041551 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
63041615 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
63041631 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63041655 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:63041588 original size:39 final size:41
Alignment explanation
Indices: 63041471--63041654 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
63041461 GCTCCTCGTT
* *
63041471 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
63041511 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
63041551 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
63041590 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
63041631 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63041655 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:63052339 original size:21 final size:21
Alignment explanation
Indices: 63052315--63052357 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
63052305 TTGAATATTT
63052315 ATGGAAGAATATGAAAGATTG
1 ATGGAAGAATATGAAAGATTG
63052336 ATGGAAGAATATGAAAGATTG
1 ATGGAAGAATATGAAAGATTG
63052357 A
1 A
63052358 AGTGTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (21 bp):
ATGGAAGAATATGAAAGATTG
Found at i:63053281 original size:48 final size:48
Alignment explanation
Indices: 63053225--63053388 Score: 222
Period size: 48 Copynumber: 3.4 Consensus size: 48
63053215 AGCCAATGTG
*
63053225 AGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTA
1 AGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTA
* * * *
63053273 AGACCATGTCTAGGACATAGTATTGGCGTTGATATGTGTGCCAGTGTA
1 AGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTA
* * * *
63053321 AGACCATGTCTGGGAAATGGCATCGGTGATGATATGTGT-GCTAGTGTA
1 AGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGGC-AGTGTA
*
63053369 AGACCATGTCTAGGATATGG
1 AGACCATGTCTAGGACATGG
63053389 TCTCAGCACT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 99 0.99
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (48 bp):
AGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTA
Found at i:63053374 original size:96 final size:96
Alignment explanation
Indices: 63053210--63053383 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
63053200 ACCATGGTTA
* * *
63053210 ATGTGAGCCAATGTGAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTAAG
1 ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGCAGTGTAAG
63053275 ACCATGTCTAGGACATAGTATTGGCGTTGAT
66 ACCATGTCTAGGACATAGTATTGGCGTTGAT
* * *
63053306 ATGTGTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGTGATGATATGTGT-GCTAGTGTAA
1 ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGC-AGTGTAA
63053370 GACCATGTCTAGGA
65 GACCATGTCTAGGA
63053384 TATGGTCTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
95 2 0.03
96 69 0.97
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (96 bp):
ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGCAGTGTAAG
ACCATGTCTAGGACATAGTATTGGCGTTGAT
Found at i:63053402 original size:96 final size:96
Alignment explanation
Indices: 63053210--63053404 Score: 257
Period size: 96 Copynumber: 2.0 Consensus size: 96
63053200 ACCATGGTTA
* * *
63053210 ATGTGAGCCAATGTGAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGGCAGTGTAAG
1 ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGCAGTGTAAG
** **
63053275 ACCATGTCTAGGACATAGTATTGGCGTTGAT
66 ACCATGTCTAGGACATAGTATCAGCACTGAT
* * *
63053306 ATGTGTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGTGATGATATGTGT-GCTAGTGTAA
1 ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGC-AGTGTAA
* * *
63053370 GACCATGTCTAGGATATGGTCTCAGCACTGAT
65 GACCATGTCTAGGACATAGTATCAGCACTGAT
63053402 ATG
1 ATG
63053405 AGACTTCGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 2 0.02
96 83 0.98
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (96 bp):
ATGTGAGCCAATGTAAGACCATGTCTGGGAAATGGCATCGGCGATGATATGTGTGGCAGTGTAAG
ACCATGTCTAGGACATAGTATCAGCACTGAT
Found at i:63057466 original size:30 final size:30
Alignment explanation
Indices: 63057410--63057466 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
63057400 ATAAATCATG
* *
63057410 CTTTCATAAATTTACATTTTGACCCTTAAA
1 CTTTCACAAATTTACATTTAGACCCTTAAA
*
63057440 CTTTCACAGATTTACGATTTAG-CCCTT
1 CTTTCACAAATTTAC-ATTTAGACCCTT
63057467 GGGTTCGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
CTTTCACAAATTTACATTTAGACCCTTAAA
Found at i:63058422 original size:28 final size:27
Alignment explanation
Indices: 63058390--63058501 Score: 110
Period size: 24 Copynumber: 4.3 Consensus size: 27
63058380 GGGAAATTTC
*
63058390 TCACTTAGCTCAATGCCGTGGACTTATT
1 TCACTTAGC-CAATGCCATGGACTTATT
*
63058418 TCACTTAG---ATGCCATGGACTTTTT
1 TCACTTAGCCAATGCCATGGACTTATT
* *
63058442 TCACTTAGCACATTGCCATGGAGTTATT
1 TCACTTAGC-CAATGCCATGGACTTATT
*
63058470 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCCAATGCCATGGACTTATT
*
63058494 TCTCTTAG
1 TCACTTAG
63058502 AAAAATGTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
24 42 0.59
28 29 0.41
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (27 bp):
TCACTTAGCCAATGCCATGGACTTATT
Found at i:63058435 original size:24 final size:24
Alignment explanation
Indices: 63058402--63058502 Score: 121
Period size: 24 Copynumber: 4.0 Consensus size: 24
63058392 ACTTAGCTCA
*
63058402 ATGCCGTGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
63058426 ATGCCATGGACTTTTTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
63058450 CACATTGCCATGGAGTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
* *
63058478 ATGCCATGGTCTTATTTCTCTTAG
1 ATGCCATGGACTTATTTCACTTAG
63058502 A
1 A
63058503 AAAATGTCGT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 43 0.65
25 1 0.02
27 1 0.02
28 21 0.32
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:63058447 original size:52 final size:52
Alignment explanation
Indices: 63058390--63058501 Score: 161
Period size: 52 Copynumber: 2.2 Consensus size: 52
63058380 GGGAAATTTC
* * *
63058390 TCACTTAGCTCAATGCCGTGGACTTATTTCACTTAGATGCCATGGACTTTTT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* * *
63058442 TCACTTAGCACATTGCCATGGAGTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
*
63058494 TCTCTTAG
1 TCACTTAG
63058502 AAAAATGTCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:63060678 original size:23 final size:23
Alignment explanation
Indices: 63060634--63060703 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
63060624 AATATCCTCC
*
63060634 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTAA
* *
63060659 TGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTAA
*
63060682 CGAGCTGAAAACAGTAAGCTCT
1 TGAGCTG-AAACAGTAAGCTCT
63060704 TACGAGTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 18 0.47
24 12 0.32
25 8 0.21
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAA
Found at i:63060708 original size:24 final size:23
Alignment explanation
Indices: 63060635--63060709 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
63060625 ATATCCTCCT
* *
63060635 GAGCTGATGAACAGTAAGCTCTATT
1 GAGCTGA-AAACAGTAAGCTCTA-C
* *
63060660 GAGCTG-AAACGGTAAGCTCCAAC
1 GAGCTGAAAACAGTAAGCT-CTAC
63060683 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACAGTAAGCTC-TAC
63060707 GAG
1 GAG
63060710 TTGATATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 17 0.41
24 18 0.44
25 6 0.15
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (23 bp):
GAGCTGAAAACAGTAAGCTCTAC
Found at i:63063558 original size:47 final size:45
Alignment explanation
Indices: 63063497--63063744 Score: 193
Period size: 47 Copynumber: 5.3 Consensus size: 45
63063487 GACGAGGGCT
* * *
63063497 AGTGTAAGATATGTCTGGGACATGCATCAGCCATATTATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGATAGCC
* *
63063543 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATAGATGA-TAGCC
* * *
63063591 AGAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AGC-C-ATAGATGATAGCC
* * *
63063638 AGTGTAAGACGTGTCTGGGACACGCATC-GACCA-AGAGTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCATAGA--TGATAGCC
* * *
63063682 AGTGTAAGATATGTCTGGGACATGCATCAGCATGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC---CATAGATGATAGCC
63063730 AGTGTAAGACCATGT
1 AGTGTAAGA-CATGT
63063745 TTAGGACACG
Statistics
Matches: 161, Mismatches: 22, Indels: 35
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.02
44 29 0.18
45 3 0.02
46 19 0.12
47 61 0.38
48 38 0.24
49 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGATAGCC
Found at i:63063598 original size:48 final size:46
Alignment explanation
Indices: 63063446--63063744 Score: 191
Period size: 47 Copynumber: 6.4 Consensus size: 46
63063436 TGATTTGTGC
* * * * *
63063446 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGACATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CACAGATGAGT
* * * * * *
63063494 GCTAGTGTAAGATATGTCTGGGACATGCATCAGC-CATATTATG-TT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACACA-GATGAGT
*
63063539 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACACAGATGAGT
* * *
63063588 GCCAGAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGA-GA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCAC-ACAGATGAGT
* * * *
63063634 AGCCAGTGTAAGACGTGTCTGGGACACGCATCGAC-CA-AGA-GTTGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACACAGATG-AGT
* * * * * *
63063679 GCTAGTGTAAGATATGTCTGGGACATGCATCAGCATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CACAGATGAGT
63063727 GCCAGTGTAAGACCATGT
1 GCCAGTGTAAGA-CATGT
63063745 TTAGGACACG
Statistics
Matches: 196, Mismatches: 37, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.02
44 30 0.15
45 3 0.02
46 26 0.13
47 74 0.38
48 50 0.26
49 9 0.05
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACACAGATGAGT
Found at i:63063607 original size:94 final size:92
Alignment explanation
Indices: 63063446--63063761 Score: 320
Period size: 94 Copynumber: 3.4 Consensus size: 92
63063436 TGATTTGTGC
* * * *
63063446 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGACATCCAGACGAGGGCTAGTGTAAGATATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CAAGA-GAGTGCTAGTGTAAGATATGT
*
63063511 CTGGGACATGCATCAGCCATATTATGTTA
64 CTGGGACATGCATCAGCCATATTATGATA
* * * *
63063540 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACA-AGA-GAGTGCTAGTGTAAGATATGT
* * *
63063605 CTGGGACATGCATCGACCTCGACA-GA-GATA
64 CTGGGACATGCATC-AGC-C-ATATTATGATA
* * *
63063635 GCCAGTGTAAGA-CGTGTCTGGGACA-CGCATCGAC-CAAGAGTTGTGCTAGTGTAAGATATGTC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAAGAG-AGTGCTAGTGTAAGATATGTC
*
63063697 TGGGACATGCATCAG-CATGCATATATGAGA
65 TGGGACATGCATCAGCCAT--AT-TATGATA
* * *
63063727 GCCAGTGTAAGACCATGTTTAGGACACGGCATCGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
63063762 TAATTTATCC
Statistics
Matches: 182, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
87 1 0.01
88 1 0.01
89 1 0.01
90 2 0.01
91 34 0.19
92 17 0.09
93 18 0.10
94 87 0.48
95 17 0.09
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAAGAGAGTGCTAGTGTAAGATATGTCT
GGGACATGCATCAGCCATATTATGATA
Found at i:63063759 original size:141 final size:141
Alignment explanation
Indices: 63063446--63063761 Score: 324
Period size: 141 Copynumber: 2.2 Consensus size: 141
63063436 TGATTTGTGC
* * * *
63063446 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGACATCCAGACGAGGGCTAGTGTAAGATATGT
1 GCCAGTGTAAGACCATGTTTGGGACA-GGCATCGACATCCAGACGAGAGCCAGTGTAAGACATGT
* * *
63063511 CTGGGACATGCATCAGCCATATTATGTTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
65 CTGGGACACGCATCAGCCATATGATGTTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
*
63063576 ACAGAGATGAGT
130 ACAGAGATGAGA
* * * * * *
63063588 GCCAGAGTAAGA-CATGTCTGGGACATGCATCGACCTCGACAGA-GATAGCCAGTGTAAGACGTG
1 GCCAGTGTAAGACCATGTTTGGGACAGGCATCGACATC--CAGACGAGAGCCAGTGTAAGACATG
* * *
63063651 TCTGGGACACGCATC-GACCA-A-GA-GTTGTGCTAGTGTAAGA-TATGTCTGGGACAT-GCATC
64 TCTGGGACACGCATCAG-CCATATGATGTT-AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* *
63063710 AGCATGCATATATGAGA
127 AGCA--CAGAGATGAGA
*
63063727 GCCAGTGTAAGACCATGTTTAGGACACGGCATCGA
1 GCCAGTGTAAGACCATGTTTGGGACA-GGCATCGA
63063762 TAATTTATCC
Statistics
Matches: 143, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
137 8 0.06
138 16 0.11
139 31 0.22
140 22 0.15
141 51 0.36
142 15 0.10
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (141 bp):
GCCAGTGTAAGACCATGTTTGGGACAGGCATCGACATCCAGACGAGAGCCAGTGTAAGACATGTC
TGGGACACGCATCAGCCATATGATGTTAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
CAGAGATGAGA
Found at i:63069043 original size:40 final size:41
Alignment explanation
Indices: 63068975--63069138 Score: 180
Period size: 40 Copynumber: 4.1 Consensus size: 41
63068965 ACCCAAGTAT
*
63068975 CTTCGGGAT-TTAG-CCGGATATCAG-AACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAAGCAACTCACACAAATGC
*
63069014 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCACACAAATGC
* * *
63069054 CTTTGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCA-CACAAATGC
* * * *
63069094 CTTCGGGACATAGCCCGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCACACAAATGC
63069134 CTTCG
1 CTTCG
63069139 ATCTTAGTCC
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 15 0.14
40 88 0.83
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAAGCAACTCACACAAATGC
Found at i:63077022 original size:40 final size:40
Alignment explanation
Indices: 63076974--63077122 Score: 194
Period size: 40 Copynumber: 3.7 Consensus size: 40
63076964 GGATTTAGCT
63076974 GGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCC
* *
63077014 GGATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCC
1 GGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCC
* * * *
63077054 GGATATAATC-ACT-AGCATAAATGCCTTCGGGACATAGCCC
1 GGATAT-AGCAACTCA-CACAAATGCCTTCGGGTCTTAGCCC
* *
63077094 GGATATAGCAACTCGCACGAATGCCTTCG
1 GGATATAGCAACTCACACAAATGCCTTCG
63077123 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCC
Found at i:63082316 original size:47 final size:46
Alignment explanation
Indices: 63082246--63082508 Score: 168
Period size: 47 Copynumber: 5.7 Consensus size: 46
63082236 TTTGTCCGCC
* * * *
63082246 AGTGTAAGACCATGTCCGGGACATGGCATCGGCATCCAGACGAGGGGT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCAT-CAGATGAGAGCT
* * * *
63082294 AGTGTGAGA-CATGTCTGGGACATGTATCAGCCAT-ATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATC-GGCATCA-GATGAGAGCT
* *
63082340 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATC--AGATGAGAGCT
* * *
63082388 AGAGTAAGA-CATGTCTGGGACATGCATCGGCCTCAACAGA-GATAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGG---CATCAGATGAGAGCT
* * * * * *
63082435 AGTGTAAGA-CATATCTGGGACACGAATCGCCA--AGA-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCATCAGATG-AGAGCT
*
63082478 AGTGTAAGA-CATGTCTGGGACACGGCATCGG
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGG
63082509 TAATTTATCC
Statistics
Matches: 172, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
42 4 0.02
43 24 0.14
44 7 0.04
45 1 0.01
46 25 0.15
47 77 0.45
48 30 0.17
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCATCAGATGAGAGCT
Found at i:63082407 original size:94 final size:94
Alignment explanation
Indices: 63082246--63082499 Score: 263
Period size: 94 Copynumber: 2.7 Consensus size: 94
63082236 TTTGTCCGCC
* * * * * *
63082246 AGTGTAAGACCATGTCCGGGACATGGCATCGGCATC-CAGACGAGGGGTAGTGTGAGACATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCTAGTGTAAGACATGTCT
* **
63082310 GGGACATGTATCAGCCAT-ATTATGAG-AGCT
65 GGGACATGCATCAGCC-TCAACA-GAGAAGCT
* *
63082340 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGTGTAAGACATGTCTG
*
63082405 GGACATGCATCGGCCTCAACAGAGATAGCT
66 GGACATGCATCAGCCTCAACAGAGA-AGCT
* * * * *
63082435 AGTGTAAGA-CATATCTGGGACA-CGAATCGCCA-AGAG-T-TGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGTGTAAGACATGTCTG
63082495 GGACA
66 GGACA
63082500 CGGCATCGGT
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
90 25 0.18
91 1 0.01
92 4 0.03
93 12 0.09
94 82 0.60
95 13 0.09
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGTGTAAGACATGTCTG
GGACATGCATCAGCCTCAACAGAGAAGCT
Found at i:63088280 original size:40 final size:40
Alignment explanation
Indices: 63088235--63088459 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
63088225 CTTCCGCGAG
* * *
63088235 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
63088275 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
63088315 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
63088355 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
63088395 GCCTTCGGATCTTAGTCCGGCTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
63088436 GCCTTCGGGACTTCGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
63088460 CATTCGAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.82
41 28 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:63096764 original size:13 final size:14
Alignment explanation
Indices: 63096738--63096766 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63096728 ACTAACGATG
63096738 AATTAAACCATTAT
1 AATTAAACCATTAT
63096752 AATTAAA-CATTAT
1 AATTAAACCATTAT
63096765 AA
1 AA
63096767 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:63100583 original size:34 final size:34
Alignment explanation
Indices: 63100535--63100603 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
63100525 ATAAACGAAG
63100535 ATTGCTTCAAGCAAATCCATGGAGGCAAATTGTA
1 ATTGCTTCAAGCAAATCCATGGAGGCAAATTGTA
*
63100569 ATTGCTTCATGCAAATCCATGGAGGCAAATTGTA
1 ATTGCTTCAAGCAAATCCATGGAGGCAAATTGTA
63100603 A
1 A
63100604 GGAACAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (34 bp):
ATTGCTTCAAGCAAATCCATGGAGGCAAATTGTA
Found at i:63101879 original size:9 final size:9
Alignment explanation
Indices: 63101865--63102466 Score: 180
Period size: 9 Copynumber: 69.1 Consensus size: 9
63101855 TATGTATTAC
*
63101865 GTAAGTTAA
1 GTAAGTTAT
*
63101874 GTAAGTTTT
1 GTAAGTTAT
*
63101883 GTAAGTTTT
1 GTAAGTTAT
63101892 GTAAGTTAT
1 GTAAGTTAT
63101901 GTAAGTTAT
1 GTAAGTTAT
63101910 GTAAGTTAT
1 GTAAGTTAT
* *
63101919 GATATGATAT
1 G-TAAGTTAT
* *
63101929 -AAATTTAT
1 GTAAGTTAT
*
63101937 GTAAGGTAT
1 GTAAGTTAT
63101946 GTAAGTTAT
1 GTAAGTTAT
*
63101955 GTAAATTAT
1 GTAAGTTAT
* **
63101964 GATATGAAAT
1 G-TAAGTTAT
* *
63101974 AT-ATTTAT
1 GTAAGTTAT
* *
63101982 -TTA-TTAC
1 GTAAGTTAT
63101989 GTAAGTTAT
1 GTAAGTTAT
*
63101998 GTAAGTTAC
1 GTAAGTTAT
* *
63102007 AT-ATTTAT
1 GTAAGTTAT
63102015 GT-A-TTAT
1 GTAAGTTAT
* *
63102022 GAAAGTTTT
1 GTAAGTTAT
*
63102031 GTAAGTAAT
1 GTAAGTTAT
63102040 GTAAGTTAT
1 GTAAGTTAT
* *
63102049 GATATGATAT
1 G-TAAGTTAT
* *
63102059 -AAATTTAT
1 GTAAGTTAT
* *
63102067 ATAAGGTAT
1 GTAAGTTAT
*
63102076 GTAAGGTAT
1 GTAAGTTAT
63102085 GTAAGTTAT
1 GTAAGTTAT
*
63102094 GTAAATTAT
1 GTAAGTTAT
* **
63102103 GATATGAAAT
1 G-TAAGTTAT
* *
63102113 AT-ATTTAT
1 GTAAGTTAT
* *
63102121 -TTA-TTAC
1 GTAAGTTAT
63102128 GTAAGTTAT
1 GTAAGTTAT
*
63102137 GTAAGTTAC
1 GTAAGTTAT
* *
63102146 AT-ATTTAT
1 GTAAGTTAT
63102154 GT-A-TTAT
1 GTAAGTTAT
* *
63102161 GAAAGTTTT
1 GTAAGTTAT
*
63102170 GTAAGTAAT
1 GTAAGTTAT
63102179 GTAAGTTAT
1 GTAAGTTAT
* *
63102188 GATATGATAT
1 G-TAAGTTAT
* *
63102198 -AAATTTAT
1 GTAAGTTAT
* *
63102206 ATAAGGTAT
1 GTAAGTTAT
*
63102215 GTAAGGTAT
1 GTAAGTTAT
63102224 GTAAGTTAT
1 GTAAGTTAT
*
63102233 GTAAATTAT
1 GTAAGTTAT
* **
63102242 GATATGAAAT
1 G-TAAGTTAT
* *
63102252 AT-ATTTAT
1 GTAAGTTAT
* *
63102260 -TTA-TTAC
1 GTAAGTTAT
63102267 GTAAGTTAT
1 GTAAGTTAT
*
63102276 GTAAGTTAC
1 GTAAGTTAT
* *
63102285 AT-ATTTAT
1 GTAAGTTAT
63102293 GT-A-TTAT
1 GTAAGTTAT
* *
63102300 GAAAGTTTT
1 GTAAGTTAT
*
63102309 GTAAGTAAT
1 GTAAGTTAT
63102318 GTAAGTTAT
1 GTAAGTTAT
* *
63102327 GATATGATAT
1 G-TAAGTTAT
* *
63102337 -AAATTTAT
1 GTAAGTTAT
* *
63102345 ATAAGGTAT
1 GTAAGTTAT
*
63102354 GTAAGGTAT
1 GTAAGTTAT
63102363 GTAAGTTAT
1 GTAAGTTAT
*
63102372 GTAAATTAT
1 GTAAGTTAT
* **
63102381 GATATGAAAT
1 G-TAAGTTAT
* *
63102391 AT-ATTTAT
1 GTAAGTTAT
* *
63102399 -TTA-TTAC
1 GTAAGTTAT
63102406 GTAAGTTAT
1 GTAAGTTAT
63102415 GTAAGTTAT
1 GTAAGTTAT
* *
63102424 AT-ATTTAT
1 GTAAGTTAT
*
63102432 AT-A-TTAT
1 GTAAGTTAT
*
63102439 GTAAGTTTT
1 GTAAGTTAT
63102448 GTAAGTTAT
1 GTAAGTTAT
*
63102457 GTAACTTAT
1 GTAAGTTAT
63102466 G
1 G
63102467 ATATGATATA
Statistics
Matches: 424, Mismatches: 137, Indels: 64
0.68 0.22 0.10
Matches are distributed among these distances:
7 36 0.08
8 66 0.16
9 282 0.67
10 40 0.09
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:63102020 original size:33 final size:33
Alignment explanation
Indices: 63101974--63102036 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
63101964 GATATGAAAT
* *
63101974 ATATTTATTTATTACGTAAGTTATGTAAGTTAC
1 ATATTTATGTATTACGAAAGTTATGTAAGTTAC
* *
63102007 ATATTTATGTATTATGAAAGTTTTGTAAGT
1 ATATTTATGTATTACGAAAGTTATGTAAGT
63102037 AATGTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (33 bp):
ATATTTATGTATTACGAAAGTTATGTAAGTTAC
Found at i:63102159 original size:33 final size:33
Alignment explanation
Indices: 63102113--63102175 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
63102103 GATATGAAAT
* *
63102113 ATATTTATTTATTACGTAAGTTATGTAAGTTAC
1 ATATTTATGTATTACGAAAGTTATGTAAGTTAC
* *
63102146 ATATTTATGTATTATGAAAGTTTTGTAAGT
1 ATATTTATGTATTACGAAAGTTATGTAAGT
63102176 AATGTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (33 bp):
ATATTTATGTATTACGAAAGTTATGTAAGTTAC
Found at i:63102298 original size:33 final size:33
Alignment explanation
Indices: 63102252--63102314 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
63102242 GATATGAAAT
* *
63102252 ATATTTATTTATTACGTAAGTTATGTAAGTTAC
1 ATATTTATGTATTACGAAAGTTATGTAAGTTAC
* *
63102285 ATATTTATGTATTATGAAAGTTTTGTAAGT
1 ATATTTATGTATTACGAAAGTTATGTAAGT
63102315 AATGTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (33 bp):
ATATTTATGTATTACGAAAGTTATGTAAGTTAC
Found at i:63102426 original size:33 final size:33
Alignment explanation
Indices: 63102389--63102456 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
63102379 ATGATATGAA
*
63102389 ATATATTTATTTATTACGTAAGTTATGTAAGTT
1 ATATATTTATATATTACGTAAGTTATGTAAGTT
* *
63102422 ATATATTTATATATTATGTAAGTTTTGTAAGTT
1 ATATATTTATATATTACGTAAGTTATGTAAGTT
63102455 AT
1 AT
63102457 GTAACTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (33 bp):
ATATATTTATATATTACGTAAGTTATGTAAGTT
Found at i:63102457 original size:85 final size:88
Alignment explanation
Indices: 63102318--63102482 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 88
63102308 TGTAAGTAAT
*
63102318 GTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAAGTTATGTAAATTATGA
1 GTAAGTTATGATAAGATATAAATTTATATAAGGTATGTAAGGTATGTAAGTTATGTAAATTATGA
63102383 TATGAAATATATTTATTTATTAC
66 TATGAAATATATTTATTTATTAC
* * * * * *
63102406 GTAAGTTATG-TAAGTTATATATTTATAT-A-TTATGTAAGTTTTGTAAGTTATGTAACTTATGA
1 GTAAGTTATGATAAGATATAAATTTATATAAGGTATGTAAGGTATGTAAGTTATGTAAATTATGA
*
63102468 TATGATATATATTTA
66 TATGAAATATATTTA
63102483 ACATTAAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 43 0.62
86 1 0.01
87 15 0.22
88 10 0.14
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (88 bp):
GTAAGTTATGATAAGATATAAATTTATATAAGGTATGTAAGGTATGTAAGTTATGTAAATTATGA
TATGAAATATATTTATTTATTAC
Found at i:63102519 original size:139 final size:139
Alignment explanation
Indices: 63101885--63102482 Score: 1047
Period size: 139 Copynumber: 4.3 Consensus size: 139
63101875 TAAGTTTTGT
* * * * * **
63101885 AAGTTTTGTAAGTTATGTAAGTTATG-TAAGTTAT-GATATGATATAAATTTATGTAAGGTATGT
1 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAAT-TTATAT-AAGGTATGTAAGGTATGT
63101948 AAGTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTT
64 AAGTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTT
63102013 ATGTATTATGA
129 ATGTATTATGA
63102024 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
1 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
63102089 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
66 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
63102154 GTATTATGA
131 GTATTATGA
63102163 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
1 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
63102228 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
66 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
63102293 GTATTATGA
131 GTATTATGA
63102302 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
1 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
*
63102367 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTAT
66 GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
* *
63102432 ATATTATGT
131 GTATTATGA
* * *
63102441 AAGTTTTGTAAGTTATGTAACTTATGATATGATATATATTTA
1 AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTA
63102483 ACATTAAGAT
Statistics
Matches: 444, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
139 431 0.97
140 11 0.02
141 2 0.00
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (139 bp):
AAGTTTTGTAAGTAATGTAAGTTATGATATGATATAAATTTATATAAGGTATGTAAGGTATGTAA
GTTATGTAAATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTACATATTTAT
GTATTATGA
Found at i:63106330 original size:46 final size:45
Alignment explanation
Indices: 63106263--63106434 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
63106253 AACCCGCCCT
* *
63106263 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCA
* * *
63106309 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGTATCCA
** **
63106355 TTTCAAGT--ACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCA
1 --T-AAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTATCCA
63106402 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
63106435 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 60 0.58
47 31 0.30
48 3 0.03
49 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGTATCCA
Found at i:63106378 original size:93 final size:93
Alignment explanation
Indices: 63106270--63106438 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
63106260 CCTTAAGTGA
* ** * **
63106270 ACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
63106335 AGTTCGGATGCCTAGTTACATTTCAAGT
66 AGTTCGGATGCCTAGTTACATTTCAAGT
*
63106363 ACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
63106428 AGTTCGGATGC
66 AGTTCGGATGC
63106439 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATTTCAAGT
Found at i:63106454 original size:46 final size:45
Alignment explanation
Indices: 63106265--63106454 Score: 138
Period size: 46 Copynumber: 4.1 Consensus size: 45
63106255 CCCGCCCTTA
* * ** * **
63106265 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GTATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T
* *
63106310 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATTTCA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACA-TCCT
* ***
63106360 AGT--ACTCGGACTCAACTCAACGAGTTCGAACATTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T
63106403 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCCT
63106450 AGTGA
1 AGTGA
63106455 CATGTCACTT
Statistics
Matches: 112, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 63 0.56
47 28 0.25
48 6 0.05
49 3 0.03
50 1 0.01
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCT
Found at i:63113424 original size:29 final size:30
Alignment explanation
Indices: 63113360--63113452 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 30
63113350 CCCAGTCTCA
* * * *
63113360 TTTATATGGCCC-ATCAGGCCCAATTCACA
1 TTTATATAGCCCGTTCAGGCCCAAATCACC
* * *
63113389 TTCATATAG-TCTTTCAGGCCCAAATCACC
1 TTTATATAGCCCGTTCAGGCCCAAATCACC
*
63113418 TTTATATGGCCCGTT-AGGCCCAAATCACC
1 TTTATATAGCCCGTTCAGGCCCAAATCACC
63113447 -TTATAT
1 TTTATAT
63113453 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.13
29 42 0.81
30 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (30 bp):
TTTATATAGCCCGTTCAGGCCCAAATCACC
Found at i:63120064 original size:22 final size:23
Alignment explanation
Indices: 63120029--63120073 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
63120019 TGTTTTCATT
* *
63120029 GAAAACCTTTATTA-AAATAAAA
1 GAAAACCTTAATTATAAAAAAAA
*
63120051 GAAAATCTTAATTATAAAAAAAA
1 GAAAACCTTAATTATAAAAAAAA
63120074 ACTCTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (23 bp):
GAAAACCTTAATTATAAAAAAAA
Found at i:63121134 original size:28 final size:29
Alignment explanation
Indices: 63121103--63121165 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
63121093 GGCCCACTTC
* *
63121103 GCCCAATTT-TATTTATATGGCCCAGCAG
1 GCCCAATTTACATTCATATGGCCCAGCAG
**
63121131 GCCCAATTTACATTCATATGGCCCTTCAG
1 GCCCAATTTACATTCATATGGCCCAGCAG
63121160 GCCCAA
1 GCCCAA
63121166 ATCATCATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
GCCCAATTTACATTCATATGGCCCAGCAG
Found at i:63121178 original size:29 final size:28
Alignment explanation
Indices: 63121115--63121199 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
63121105 CCAATTTTAT
** * *
63121115 TTATATGGCCCAGCAGGCCCAATTTACA
1 TTATATGGCCCTTCAGGCCCAAATCACA
63121143 TTCATATGGCCCTTCAGGCCCAAATCATCA
1 TT-ATATGGCCCTTCAGGCCCAAATCA-CA
*
63121173 TTATATGGCTCATT-AGGCCCAAATCAC
1 TTATATGGC-CCTTCAGGCCCAAATCAC
63121200 CTTCTATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.06
29 39 0.80
30 7 0.14
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
TTATATGGCCCTTCAGGCCCAAATCACA
Found at i:63121888 original size:32 final size:32
Alignment explanation
Indices: 63121842--63121905 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
63121832 GAGATCTGAT
* * *
63121842 ACTAATTCCTTACCACAGTTGATTGGAAAGAG
1 ACTAATTCCCTACCAAAGTTGATTAGAAAGAG
*
63121874 ACTAATTCCCTACCAAATTTGATTAGAAAGAG
1 ACTAATTCCCTACCAAAGTTGATTAGAAAGAG
63121906 TGAGGAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (32 bp):
ACTAATTCCCTACCAAAGTTGATTAGAAAGAG
Found at i:63128151 original size:43 final size:43
Alignment explanation
Indices: 63128097--63128189 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
63128087 AATATTATCA
* * *
63128097 GGCTTCGGGCCTAGCACGCTATAATGCCGGTGAGATAAAATCG
1 GGCTTCAGGCCTAGCACGCTATAATGCCAGTGAAATAAAATCG
* * *
63128140 GGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATGATATCG
1 GGCTTCAGGCCTAGCACGCTATAATGCCAGTGAAATAAAATCG
63128183 GGCTTCA
1 GGCTTCA
63128190 AGACTAGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (43 bp):
GGCTTCAGGCCTAGCACGCTATAATGCCAGTGAAATAAAATCG
Found at i:63132519 original size:61 final size:61
Alignment explanation
Indices: 63132404--63132520 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
63132394 ATGTGAAATC
*
63132404 AACACGGCGTGGACTTCCGTACACGGGCAAACCACACGCCCATGTAGTTCTAGCAGGCTTT
1 AACACGGCGTGGACTTCCGTACACGGGCAAACCACACGCCCATGTACTTCTAGCAGGCTTT
* * * * * * * *
63132465 AACACGGCTTGGACTTCCTTACACGGGTAGACCACATGCCTATGTCCTTTTAGCAG
1 AACACGGCGTGGACTTCCGTACACGGGCAAACCACACGCCCATGTACTTCTAGCAG
63132521 AATCGAGCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (61 bp):
AACACGGCGTGGACTTCCGTACACGGGCAAACCACACGCCCATGTACTTCTAGCAGGCTTT
Found at i:63134493 original size:39 final size:39
Alignment explanation
Indices: 63134443--63134714 Score: 436
Period size: 39 Copynumber: 7.0 Consensus size: 39
63134433 ATTATATTAT
* *
63134443 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
63134482 CAGCACGAAGCCTGCGAGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
63134521 CAGCACGAAGCCTACGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
63134560 CAGCACGAAGCCTGCGAGACTTTAGTCTGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
63134599 CAACACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
63134638 CAGGACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
63134677 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63134715 TCAGTGTCTT
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 213 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:63138202 original size:12 final size:12
Alignment explanation
Indices: 63138185--63138209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63138175 ACCACGAGGG
63138185 TCGATCACTACT
1 TCGATCACTACT
63138197 TCGATCACTACT
1 TCGATCACTACT
63138209 T
1 T
63138210 GGGAACAAAT
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:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TCGATCACTACT
Found at i:63140662 original size:39 final size:39
Alignment explanation
Indices: 63140619--63140694 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
63140609 CCTTCCATTC
63140619 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTAGT
1 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTAGT
63140658 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTA
1 ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTA
63140695 CTACTGCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (39 bp):
ATTGACCAAATTTGGAAAGATTGTCAGGGCACATGTAGT
Done.