Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 78 of 185
Found at i:24464423 original size:45 final size:44
Alignment explanation
Indices: 24464372--24464466 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
24464362 GGATTAGAGG
* * *
24464372 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
24464417 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
24464461 TGTAAT
1 TGTAAT
24464467 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:24464649 original size:18 final size:17
Alignment explanation
Indices: 24464628--24464662 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24464618 TTATTATTTA
*
24464628 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24464646 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24464663 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24464656 original size:28 final size:27
Alignment explanation
Indices: 24464586--24464658 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
24464576 TTTATTATCA
*
24464586 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
24464614 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
24464641 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
24464659 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:24464796 original size:18 final size:17
Alignment explanation
Indices: 24464775--24464809 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24464765 TTATTATTAA
*
24464775 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24464793 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24464810 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24464821 original size:147 final size:149
Alignment explanation
Indices: 24464547--24464821 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
24464537 ATGATTATTG
*
24464547 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
24464612 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
24464677 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
24464696 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
24464759 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
24464822 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:24464917 original size:18 final size:17
Alignment explanation
Indices: 24464877--24464929 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
24464867 AAATATAAAT
24464877 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
24464891 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
24464906 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
24464924 TAAAAT
1 TAAAAT
24464930 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:24464987 original size:60 final size:59
Alignment explanation
Indices: 24464803--24464989 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
24464793 ATATAATTTA
*
24464803 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
24464864 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
24464922 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
24464983 ATAAAAT
1 ATAAAAT
24464990 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:24464988 original size:119 final size:120
Alignment explanation
Indices: 24464755--24465049 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
24464745 TTACTCATAT
*
24464755 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
24464820 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
24464876 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
24464940 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
24464995 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
24465050 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:24468084 original size:29 final size:31
Alignment explanation
Indices: 24468028--24468086 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
24468018 AATTTCATAT
* *
24468028 CTTAATGTGAGAACAATTGTCAAGTTTAAGC
1 CTTAATATGAGAACAATTGTCAAATTTAAGC
24468059 CTTAATATGAG-A-AATTGTCAAATTTAAG
1 CTTAATATGAGAACAATTGTCAAATTTAAG
24468087 GATTAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 1 0.04
31 10 0.38
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (31 bp):
CTTAATATGAGAACAATTGTCAAATTTAAGC
Found at i:24471286 original size:31 final size:31
Alignment explanation
Indices: 24471223--24471290 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
24471213 TTAACAGCCT
* *
24471223 AGTGATTTAAATAAAAACTTTTGAGTAATTC
1 AGTGACTTAAATAAAAACTTTTGAATAATTC
* *
24471254 AGTGACTTAAATGAAAACTTTCT-AATAGTTC
1 AGTGACTTAAATAAAAACTTT-TGAATAATTC
24471285 AGTGAC
1 AGTGAC
24471291 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAATTC
Found at i:24473566 original size:46 final size:47
Alignment explanation
Indices: 24473498--24473597 Score: 193
Period size: 46 Copynumber: 2.1 Consensus size: 47
24473488 ACTTTCATAC
24473498 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
1 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
24473545 CAAGCT-AGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
1 CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
24473591 CAAGCTG
1 CAAGCTG
24473598 TCTTCATCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 46 0.88
47 6 0.12
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (47 bp):
CAAGCTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAG
Found at i:24475344 original size:41 final size:41
Alignment explanation
Indices: 24475293--24475452 Score: 212
Period size: 42 Copynumber: 3.9 Consensus size: 41
24475283 CAAACAAAAA
**
24475293 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
*
24475334 CGCCTCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
* * *
24475376 CGACGCTAAAGAACATGTTCTTTAGTGGCGATTTTTATTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTTAAG
* * * *
24475418 CACCGCTAAAGAACATGATCCTTAGCGGCGCTTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
24475453 ATACAAAAAC
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 38 0.37
42 60 0.58
43 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
Found at i:24480969 original size:43 final size:43
Alignment explanation
Indices: 24480907--24481069 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
24480897 GCGTCGCTAA
*
24480907 CTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
* * * *
24480950 CTTTAGCGGCGCTTCTCCCACAAATGCCGCTGAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
* * *
24480993 CTTTAGCGGCACTTTTCCCACAAACGCAGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
**
24481036 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
24481070 AGTACAATTC
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
Found at i:24487390 original size:26 final size:26
Alignment explanation
Indices: 24487358--24487415 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
24487348 TTAAAACGCC
24487358 AGTTATAACCATAAATGAGTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
* *
24487384 ATTTATAACCATAAATGATTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
24487410 AGTTAT
1 AGTTAT
24487416 GTAAGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (26 bp):
AGTTATAACCATAAATGAGTTATGTA
Found at i:24487417 original size:9 final size:9
Alignment explanation
Indices: 24487403--24487644 Score: 180
Period size: 9 Copynumber: 27.4 Consensus size: 9
24487393 CATAAATGAT
24487403 TTATGTAAG
1 TTATGTAAG
24487412 TTATGTAAG
1 TTATGTAAG
* *
24487421 TTATTTAGG
1 TTATGTAAG
**
24487430 CAATGT-A-
1 TTATGTAAG
*
24487437 TTATGTAAA
1 TTATGTAAG
*
24487446 TAATGTAAG
1 TTATGTAAG
*
24487455 TTA-GGAATG
1 TTATGTAA-G
24487464 TTATGT-A-
1 TTATGTAAG
24487471 TTATGTAAG
1 TTATGTAAG
*
24487480 TTATTTAAG
1 TTATGTAAG
24487489 TTATGTAAG
1 TTATGTAAG
24487498 TTATGTAAG
1 TTATGTAAG
* *
24487507 TTATTTAAT
1 TTATGTAAG
24487516 TTATGTAAG
1 TTATGTAAG
24487525 TTATGTAAG
1 TTATGTAAG
* *
24487534 TTATTTAGG
1 TTATGTAAG
**
24487543 CAATGT-A-
1 TTATGTAAG
*
24487550 TTATGTAAA
1 TTATGTAAG
*
24487559 TAATGTAAG
1 TTATGTAAG
*
24487568 TTA-GGAAGG
1 TTATGTAA-G
24487577 TTATGT-A-
1 TTATGTAAG
24487584 TTATGTAAG
1 TTATGTAAG
*
24487593 TTATTTAATAAG
1 TTA--T-GTAAG
24487605 TTATGTAAG
1 TTATGTAAG
* *
24487614 TTATTTAAT
1 TTATGTAAG
*
24487623 TTATGTAAC
1 TTATGTAAG
24487632 TTATGTAAG
1 TTATGTAAG
24487641 TTAT
1 TTAT
24487645 TTAGGCAATG
Statistics
Matches: 179, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
7 20 0.11
8 10 0.06
9 138 0.77
10 3 0.02
11 1 0.01
12 7 0.04
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24487452 original size:34 final size:36
Alignment explanation
Indices: 24487403--24487656 Score: 142
Period size: 34 Copynumber: 6.9 Consensus size: 36
24487393 CATAAATGAT
24487403 TTATGTAAGTTATGTAAGTTATTTAGGCAATGT-A-
1 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTAAG
* * * *
24487437 TTATGTAAATAATGTAAGTTAGGAATGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTAAGTT----AT-TTAGGCA--ATGTAAG
* * * ** * *
24487480 TTATTTAAGTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTAAG
24487516 TTATGTAAGTTATGTAAGTTATTTAGGCAATGT-A-
1 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTAAG
* * *** **
24487550 TTATGTAAATAATGTAAGTTAGGAAGGTTATGT-A-
1 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTAAG
* * * ** * *
24487584 TTATGTAAGTTATTTAATAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTA--T-GTAAGTTATTTAGGCAATGTAAG
*
24487623 TTATGTAACTTATGTAAGTTATTTAGGCAATGTA
1 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTA
24487657 CTATGTTAGT
Statistics
Matches: 167, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
34 55 0.33
35 1 0.01
36 48 0.29
37 16 0.10
38 7 0.04
39 18 0.11
41 4 0.02
42 1 0.01
43 17 0.10
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.45
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATTTAGGCAATGTAAG
Found at i:24487453 original size:43 final size:43
Alignment explanation
Indices: 24487405--24487532 Score: 111
Period size: 43 Copynumber: 2.9 Consensus size: 43
24487395 TAAATGATTT
24487405 ATGTAAGTTATGTAAGTTATTTAGGCAATGT-A-TTATGTAAATA
1 ATGTAAGTTATGTAAGTTATTTA--CAATGTAAGTTATGTAAATA
* * ** * * *
24487448 ATGTAAGTTA-GGAATGTTATGTATTATGTAAGTTATTTAAGTT
1 ATGTAAGTTATGTAA-GTTATTTACAATGTAAGTTATGTAAATA
24487491 ATGTAAGTTATGTAAGTTATTTA-ATTTATGTAAGTTATGTAA
1 ATGTAAGTTATGTAAGTTATTTACA---ATGTAAGTTATGTAA
24487533 GTTATTTAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
41 4 0.06
42 4 0.06
43 42 0.63
44 3 0.04
45 14 0.21
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (43 bp):
ATGTAAGTTATGTAAGTTATTTACAATGTAAGTTATGTAAATA
Found at i:24487535 original size:113 final size:107
Alignment explanation
Indices: 24487401--24487662 Score: 443
Period size: 113 Copynumber: 2.4 Consensus size: 107
24487391 ACCATAAATG
*
24487401 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAATGTT
1 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
24487466 ATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTATTTA
66 ATGTATTATGTAAGTTATTT-A---A--TAAGTTATGTAAGTTATTTA
24487514 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
1 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
24487579 ATGTATTATGTAAGTTATTTAATAAGTTATGTAAGTTATTTA
66 ATGTATTATGTAAGTTATTTAATAAGTTATGTAAGTTATTTA
* *
24487621 ATTTATGTAACTTATGTAAGTTATTTAGGCAATGTACTATGT
1 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGT
24487663 TAGTTATTAT
Statistics
Matches: 146, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
107 60 0.41
109 1 0.01
112 1 0.01
113 84 0.58
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.45
Consensus pattern (107 bp):
ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
ATGTATTATGTAAGTTATTTAATAAGTTATGTAAGTTATTTA
Found at i:24487696 original size:29 final size:29
Alignment explanation
Indices: 24487664--24487770 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 29
24487654 GTACTATGTT
24487664 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
* * * **
24487693 AGTTACATTATATGTGTTCATAT-ATTGTATGTT
1 AGTT--ATTATGT-TATT-ATATAAGT-TATGCA
24487726 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
*
24487755 AGTTATATAAGTTATT
1 AGTTAT-TATGTTATT
24487771 TAAGTTGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
29 18 0.30
30 13 0.22
31 12 0.20
32 5 0.08
33 12 0.20
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.50
Consensus pattern (29 bp):
AGTTATTATGTTATTATATAAGTTATGCA
Found at i:24487707 original size:33 final size:33
Alignment explanation
Indices: 24487661--24487759 Score: 93
Period size: 33 Copynumber: 3.1 Consensus size: 33
24487651 AATGTACTAT
*
24487661 GTTAGTTATTATGTTATTATATAAGTTATGCAA
1 GTTAATTATTATGTTATTATATAAGTTATGCAA
* * *
24487694 GTTACATTA-TATGTGT-TCATAT-A--T-TGTAT
1 GTTA-ATTATTATGT-TATTATATAAGTTATGCAA
*
24487723 GTTAGTTATTATGTTATTATATAAGTTATGCAA
1 GTTAATTATTATGTTATTATATAAGTTATGCAA
24487756 GTTA
1 GTTA
24487760 TATAAGTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
28 4 0.08
29 17 0.34
30 2 0.04
32 2 0.04
33 21 0.42
34 4 0.08
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (33 bp):
GTTAATTATTATGTTATTATATAAGTTATGCAA
Found at i:24488166 original size:25 final size:25
Alignment explanation
Indices: 24488131--24488178 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24488121 TTGCTGCATT
*
24488131 ATAATTTAAAAAAT-TAAATTAATAC
1 ATAATTAAAAAAATAT-AATTAATAC
24488156 ATAATTAAAAAAATATAATTAAT
1 ATAATTAAAAAAATATAATTAAT
24488179 CCCTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATTAAAAAAATATAATTAATAC
Found at i:24489454 original size:191 final size:191
Alignment explanation
Indices: 24489130--24489510 Score: 591
Period size: 191 Copynumber: 2.0 Consensus size: 191
24489120 GAAGCAACAC
*
24489130 GGAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATG
1 GGAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAAGG
* * *
24489195 AACAGCTATATACGTATTCAACGAAAAAAGTAGGGATTTGGAAAGATTTTTACTAGTCAGCCCAG
66 AACAGCCATATACGGAGTCAACGAAAAAAGTAGGGATTTGGAAAGATTTTTACTAGTCAGCCCAG
* * * *
24489260 ACGAGAAGCAACATTCGATCGAGAAGAGGGGAAATTGTTGTTGAAGGGGTGAAAGGTCTAT
131 ACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTAT
* * * *
24489321 GGAATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTAGAGAAAGAAAGAATCGAGCAGAAAAAGG
1 GGAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAAGG
* * * *
24489386 AACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGTTTTTTACTAGTCAGCCCAG
66 AACAGCCATATACGGAGTCAACGAAAAAAGTAGGGATTTGGAAAGATTTTTACTAGTCAGCCCAG
* * *
24489451 ACGAGAAGCGATATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTTAAAGGTCTA
131 ACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTA
24489511 GGGATTTGCA
Statistics
Matches: 171, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 171 1.00
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (191 bp):
GGAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAAGG
AACAGCCATATACGGAGTCAACGAAAAAAGTAGGGATTTGGAAAGATTTTTACTAGTCAGCCCAG
ACGAGAAGCAACATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTAT
Found at i:24490202 original size:21 final size:21
Alignment explanation
Indices: 24490178--24490221 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24490168 AACCCCTATC
* *
24490178 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
24490199 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
24490220 CC
1 CC
24490222 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:24491162 original size:114 final size:112
Alignment explanation
Indices: 24490961--24491592 Score: 616
Period size: 114 Copynumber: 5.7 Consensus size: 112
24490951 TTTCGGTTTA
* * * * * *
24490961 AAACGATACGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACT
1 AAACGATGCGTTTTGGTT-A-ATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCT
* *
24491026 TTCGCGGCG--TTTCACTCTAGCGCCACTAATTCTAAAATACCTCAAGACC
64 TTAGCGGCGTTTTTCA-T-AAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
24491075 AAACGATGCGTTTTGGTTAATATTTTTTACGGCGCCTTTCATAATGTGCCGGTAGCT-CTGTGCT
1 AAACGATGCGTTTTGGTTAATA-TTTTTACGGCGCTTTTTATAATGTGCCGCTA-ATGATGTGCT
* *
24491139 TTAGCGGCGTTTGTTCATAAGCGCCACTAATTCTAATATACCTCAATACC
64 TTAGCGGCGTTT-TTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
24491189 AAACGCTGTGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
*
24491254 TAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
65 TAGCGGCGTTTT-TCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * * *
24491303 AAACGATACATTTTTGTTAATATTTTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTT
1 AAACGATGCGTTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTTT
*
24491368 AGCGGCGTTTCATT-ATAAGCGCCGCTAATTCTAAAATACCTCAAGACC
66 AGCGGCGTTT--TTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * *
24491416 AAACAATGCGCTTTT-GTTAATATATTTGCGGCGCTTTTTATAA--T---GC-----A---GCAT
1 AAACGATGCG-TTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
*
24491467 TAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACC
65 TAGCGGCGTTTTT-CATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * ** * * *
24491516 AAACGCTGCGTTTTGGTTAAGATATTCTGCGGCGCTTTTTGCATTGCGCCGCTAATTATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTT
24491581 TAGCGGCGTTTT
65 TAGCGGCGTTTT
24491593 ACGAAGATCG
Statistics
Matches: 428, Mismatches: 62, Indels: 56
0.78 0.11 0.10
Matches are distributed among these distances:
98 2 0.00
99 4 0.01
100 60 0.14
101 15 0.04
103 1 0.00
106 2 0.00
108 2 0.00
111 2 0.00
112 2 0.00
113 153 0.36
114 178 0.42
115 3 0.01
116 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (112 bp):
AAACGATGCGTTTTGGTTAATATTTTTACGGCGCTTTTTATAATGTGCCGCTAATGATGTGCTTT
AGCGGCGTTTTTCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:24491376 original size:227 final size:226
Alignment explanation
Indices: 24490969--24491591 Score: 688
Period size: 227 Copynumber: 2.8 Consensus size: 226
24490959 TAAAACGATA
* * * *
24490969 CGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACTTTCGCGGC
1 CGTTTTGGTTAAGA-TATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGC
* * *
24491034 GTTTCACTCT-AGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATAT
65 GTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATA-
* * * * * * * *
24491098 TTTTTACGGCGCCTTTCATAATGTGCCGGTAGCTCTGTGCTTTAGCGGCGTTT-GTTCATAAGCG
129 TTTTTGCGGCGCTTTTTATATTGTGCCGCTA-ATATGTGCTTTAGCGGCGTTTCATT-ATAAGCG
* * **
24491162 CCACTAATTCTAATATACCTCAATACCAAACGCTG
192 CCACTAATTCTAAAATACCTCAAGACCAAACAATG
* * *
24491197 TGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
1 CGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
* * *
24491262 TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATACATTTTTGTTAATATT
66 TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATATT
* * * *
24491327 TTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTTAGCGGCGTTTCATTATAAGCGCCG
131 TTTGCGGCGCTTTTTATATTGTGCCGCTAAT-ATGTGCTTTAGCGGCGTTTCATTATAAGCGCCA
24491392 CTAATTCTAAAATACCTCAAGACCAAACAATG
195 CTAATTCTAAAATACCTCAAGACCAAACAATG
* *
24491424 CGCTTTT-GTTAATATA-TTTGCGGCGCTTTTTATAAT-----GC-----A---GCATTAGCGGC
1 CG-TTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGC
* * * *
24491474 GTTTT-TCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGA
65 GTTTTAT-TATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATA
* ** *
24491538 TATTCTGCGGCGCTTTTTGCATTGCGCCGCTAATTATGTGCTTTAGCGGCGTTT
129 T-TTTTGCGGCGCTTTTTATATTGTGCCGCTAA-TATGTGCTTTAGCGGCGTTT
24491592 TACGAAGATC
Statistics
Matches: 340, Mismatches: 48, Indels: 28
0.82 0.12 0.07
Matches are distributed among these distances:
212 1 0.00
213 66 0.19
214 43 0.13
215 1 0.00
216 1 0.00
221 2 0.01
226 20 0.06
227 138 0.41
228 68 0.20
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (226 bp):
CGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCG
TTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTTTTGGTTAATATT
TTTGCGGCGCTTTTTATATTGTGCCGCTAATATGTGCTTTAGCGGCGTTTCATTATAAGCGCCAC
TAATTCTAAAATACCTCAAGACCAAACAATG
Found at i:24491383 original size:113 final size:113
Alignment explanation
Indices: 24490961--24491461 Score: 605
Period size: 113 Copynumber: 4.4 Consensus size: 113
24490951 TTTCGGTTTA
* * * *
24490961 AAACGATACGTTTTGGTTAAGATTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTACT
1 AAACGATGCGTTTTGGTT-A-ATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCT
* * *
24491026 TTCGCGGCGTTTCACTCT-AGCGCCACTAATTCTAAAATACCTCAAGACC
64 TTAGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * *
24491075 AAACGATGCGTTTTGGTTAATATTTTTTACGGCGCCTTTCATAATGTGCCGGTAGCT-CTGTGCT
1 AAACGATGCGTTTTGGTTAATA-TTTTTGCGGCGCTTTTTATAATGCGCCGCTA-ATGATGTGCT
* * *
24491139 TTAGCGGCGTTT-GTTCATAAGCGCCACTAATTCTAATATACCTCAATACC
64 TTAGCGGCGTTTCATT-ATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
24491189 AAACGCTGTGTTTTGGTAAAGATATTTTACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAATAT-TTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTT
*
24491254 TAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
65 TAGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * * *
24491303 AAACGATACATTTTTGTTAATATTTTTGCTGCGCTTTTTATATTGTGCCGCTAATGATGTTCGTT
1 AAACGATGCGTTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTT
*
24491368 AGCGGCGTTTCATTATAAGCGCCGCTAATTCTAAAATACCTCAAGACC
66 AGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* *
24491416 AAACAATGCGCTTTT-GTTAATATATTTGCGGCGCTTTTTATAATGC
1 AAACGATGCG-TTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGC
24491462 AGCATTAGCG
Statistics
Matches: 327, Mismatches: 52, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
112 3 0.01
113 161 0.49
114 161 0.49
115 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (113 bp):
AAACGATGCGTTTTGGTTAATATTTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTT
AGCGGCGTTTCATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:24491541 original size:100 final size:100
Alignment explanation
Indices: 24491366--24491555 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
24491356 ATGATGTTCG
*
24491366 TTAGCGGCGTTTCATTATAAGCGCCGCTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTT
1 TTAGCGGCGTTT-ATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTT
*
24491431 GTTAATATATT-TGCGGCGCTTTTTATAATGCAGCA
65 GTTAAGATATTCTGCGGCGCTTTTTATAATGCAGCA
* **
24491466 TTAGCGGCGTTT-TTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG-TTT
1 TTAGCGGCGTTTATT--ATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTT
24491529 TGGTTAAGATATTCTGCGGCGCTTTTT
64 T-GTTAAGATATTCTGCGGCGCTTTTT
24491556 GCATTGCGCC
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
98 2 0.02
99 4 0.05
100 62 0.77
101 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (100 bp):
TTAGCGGCGTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACCAAACAATGCGCTTTTG
TTAAGATATTCTGCGGCGCTTTTTATAATGCAGCA
Found at i:24498593 original size:12 final size:12
Alignment explanation
Indices: 24498576--24498600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24498566 CAGAGGCTAT
24498576 TAACAATATTTA
1 TAACAATATTTA
24498588 TAACAATATTTA
1 TAACAATATTTA
24498600 T
1 T
24498601 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:24501150 original size:21 final size:20
Alignment explanation
Indices: 24501121--24501159 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
24501111 ACGCCTACGA
24501121 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
24501141 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
24501160 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:24501352 original size:15 final size:15
Alignment explanation
Indices: 24501332--24501370 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
24501322 TATCATTTCA
24501332 ATATATAATTTAAAT
1 ATATATAATTTAAAT
24501347 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
24501363 ATAT-TAAT
1 ATATATAAT
24501371 AATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:24504147 original size:15 final size:15
Alignment explanation
Indices: 24504127--24504164 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
24504117 AGGATTTGGT
24504127 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
24504142 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
24504157 TTATTTAT
1 TTGTTTAT
24504165 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:24504188 original size:13 final size:13
Alignment explanation
Indices: 24504166--24504217 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
24504156 ATTATTTATC
24504166 ATTTAAATATATA
1 ATTTAAATATATA
*
24504179 ATTTATATATATA
1 ATTTAAATATATA
*
24504192 AATTAAA-ATAT-
1 ATTTAAATATATA
*
24504203 ATTAATAATATATA
1 ATTTA-AATATATA
24504217 A
1 A
24504218 ATAATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.10
12 6 0.19
13 21 0.68
14 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:24504213 original size:25 final size:25
Alignment explanation
Indices: 24504168--24504237 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 25
24504158 TATTTATCAT
*
24504168 TTAAATATATAATTTAT-ATATATAAA
1 TTAAA-ATAT-ATTAATAATATATAAA
24504194 TTAAAATATATTAATAATATATAAA
1 TTAAAATATATTAATAATATATAAA
*
24504219 -T--AATATTTTAATAATATAT
1 TTAAAATATATTAATAATATAT
24504238 TAATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 17 0.41
24 6 0.15
25 13 0.32
26 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAAATATATTAATAATATATAAA
Found at i:24504214 original size:11 final size:11
Alignment explanation
Indices: 24504193--24504256 Score: 89
Period size: 11 Copynumber: 6.1 Consensus size: 11
24504183 ATATATATAA
24504193 ATTAA-AATAT
1 ATTAATAATAT
24504203 ATTAATAATAT
1 ATTAATAATAT
*
24504214 ATAAATAATAT
1 ATTAATAATAT
*
24504225 TTTAATAATAT
1 ATTAATAATAT
24504236 ATTAAT-A-AT
1 ATTAATAATAT
24504245 ATTAATAATAT
1 ATTAATAATAT
24504256 A
1 A
24504257 GAAAGAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 8 0.17
10 7 0.15
11 32 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAATAATAT
Found at i:24504245 original size:25 final size:25
Alignment explanation
Indices: 24504185--24504245 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 25
24504175 TATAATTTAT
*
24504185 ATATATAAATTAA-AATATATTAATA
1 ATATATTAA-TAATAATATATTAATA
*
24504210 ATATA-T-A-AATAATATTTTAATA
1 ATATATTAATAATAATATATTAATA
24504232 ATATATTAATAATA
1 ATATATTAATAATA
24504246 TTAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.07
22 16 0.53
23 2 0.07
24 1 0.03
25 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATATTAATAATAATATATTAATA
Found at i:24504267 original size:22 final size:20
Alignment explanation
Indices: 24504196--24504268 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 20
24504186 TATATAAATT
*
24504196 AAAATATATTAATAATATATA
1 AAAAAATATTAATAATATA-A
* * *
24504217 AATAATATTTTAATAATATAT
1 AA-AAAATATTAATAATATAA
* *
24504238 TAATAATATTAATAATATAGA
1 AAAAAATATTAATAATATA-A
24504259 AAGAAAATAT
1 AA-AAAATAT
24504269 GCATTATATA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 14 0.35
21 4 0.10
22 22 0.55
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAATATTAATAATATAA
Found at i:24509403 original size:98 final size:98
Alignment explanation
Indices: 24509286--24509472 Score: 311
Period size: 98 Copynumber: 1.9 Consensus size: 98
24509276 CATGAAGGGA
*
24509286 ATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
1 ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
*
24509351 TGGATAAGTGGATATTCTTTTAAATTAAAGGAC
66 TGGATAAGTGGATACTCTTTTAAATTAAAGGAC
* * *
24509384 ATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAATGTATTGGGTGTGGTTTCTTAAATCT
1 ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
* *
24509449 TGGATGAGTGGATGCTCTTTTAAA
66 TGGATAAGTGGATACTCTTTTAAA
24509473 ATTTTTATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.38
Consensus pattern (98 bp):
ATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCT
TGGATAAGTGGATACTCTTTTAAATTAAAGGAC
Found at i:24513825 original size:108 final size:108
Alignment explanation
Indices: 24513670--24513886 Score: 416
Period size: 108 Copynumber: 2.0 Consensus size: 108
24513660 TACATTGAAG
24513670 GCCCCATTTATTAAGCATCTGTTAGGGAGTGCTTCTAAAAGCTTTTCTGATATAATTATGAACGG
1 GCCCCATTTATTAAGCATCTGTTAGGGAGTGCTTCTAAAAGCTTTTCTGATATAATTATGAACGG
*
24513735 GGAAATGATAGAAAATGCTATCAGAAGTGGGAAAATAGATGCT
66 GGAAATGATAGAAAATGCCATCAGAAGTGGGAAAATAGATGCT
*
24513778 GCCCCATTTATTACGCATCTGTTAGGGAGTGCTTCTAAAAGCTTTTCTGATATAATTATGAACGG
1 GCCCCATTTATTAAGCATCTGTTAGGGAGTGCTTCTAAAAGCTTTTCTGATATAATTATGAACGG
24513843 GGAAATGATAGAAAATGCCATCAGAAGTGGGAAAATAGATGCT
66 GGAAATGATAGAAAATGCCATCAGAAGTGGGAAAATAGATGCT
24513886 G
1 G
24513887 GGGAAAGTAG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (108 bp):
GCCCCATTTATTAAGCATCTGTTAGGGAGTGCTTCTAAAAGCTTTTCTGATATAATTATGAACGG
GGAAATGATAGAAAATGCCATCAGAAGTGGGAAAATAGATGCT
Found at i:24521198 original size:44 final size:44
Alignment explanation
Indices: 24520970--24521338 Score: 139
Period size: 44 Copynumber: 8.4 Consensus size: 44
24520960 TGGTGAAACA
* * * * **
24520970 CCAAGTCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
1 CCAA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
* * * *
24521015 -AAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGG
1 CCA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
* * * * **
24521059 CGAATCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGTTTTAAG-CCA
1 CCAATCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATTGAAGACGG
* * * * * * **
24521102 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTG
1 CCAA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
* *
24521147 -TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
1 CCA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
* * * **
24521191 CGAATCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAG-CCA
1 CCAATCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATTGAAGACGG
* * * * * * * * **
24521234 CCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAAGATTG
1 CCAA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
* ** *
24521279 -TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAGG
1 CCA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
*
24521323 CAAATCTTATCTCCCT
1 CCAATCTTATCTCCCT
24521339 GAATTTGCAG
Statistics
Matches: 229, Mismatches: 73, Indels: 45
0.66 0.21 0.13
Matches are distributed among these distances:
42 12 0.05
43 16 0.07
44 179 0.78
45 13 0.06
46 9 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
CCAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGG
Found at i:24521205 original size:132 final size:132
Alignment explanation
Indices: 24520968--24521334 Score: 617
Period size: 132 Copynumber: 2.8 Consensus size: 132
24520958 ACTGGTGAAA
* * * *
24520968 CACCAAGTCTTATCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
24521033 GTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGTTTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
24521098 GC
131 GC
24521100 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
24521165 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
24521230 GC
131 GC
* * **
24521232 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
24521297 GCAGTAGTGGAGCAGATCAAAGAAGGCAAATCTTATCT
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
24521335 CCCTGAATTT
Statistics
Matches: 222, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 222 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
GC
Found at i:24523685 original size:21 final size:22
Alignment explanation
Indices: 24523661--24523711 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
24523651 CAATTAAACT
* *
24523661 TAAAAAATTTAATT-TCAAAAA
1 TAAAAAACTAAATTCTCAAAAA
*
24523682 TAAAAATACTAAATTCTTAAAAA
1 TAAAAA-ACTAAATTCTCAAAAA
24523705 TAAAAAA
1 TAAAAAA
24523712 AATTGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAACTAAATTCTCAAAAA
Found at i:24534130 original size:17 final size:18
Alignment explanation
Indices: 24534097--24534132 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24534087 TAATGAATAC
*
24534097 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
24534115 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
24534132 A
1 A
24534133 AAATGAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:24535298 original size:7 final size:7
Alignment explanation
Indices: 24535286--24535338 Score: 61
Period size: 8 Copynumber: 7.0 Consensus size: 7
24535276 TTAAAATGGA
24535286 TTATTTT
1 TTATTTT
24535293 TTATTTT
1 TTATTTT
24535300 TTATTTTT
1 TTA-TTTT
24535308 ATTATTTT
1 -TTATTTT
24535316 TTATATTT
1 TTAT-TTT
*
24535324 TTGTTTAT
1 TTATTT-T
24535332 TTATTTT
1 TTATTTT
24535339 CGATTTGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 17 0.43
8 20 0.50
9 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (7 bp):
TTATTTT
Found at i:24535312 original size:23 final size:22
Alignment explanation
Indices: 24535285--24535338 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
24535275 TTTAAAATGG
* *
24535285 ATTATTTTTTATTTTTTATTTTT
1 ATTATTTTTTATATTTT-TGTTT
24535308 ATTATTTTTTATATTTTTGTTT
1 ATTATTTTTTATATTTTTGTTT
24535330 ATTTATTTT
1 A-TTATTTT
24535339 CGATTTGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (22 bp):
ATTATTTTTTATATTTTTGTTT
Found at i:24535332 original size:10 final size:9
Alignment explanation
Indices: 24535296--24535338 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
24535286 TTATTTTTTA
24535296 TTTTTTATT
1 TTTTTTATT
*
24535305 TTTATTATT
1 TTTTTTATT
*
24535314 TTTTATATT
1 TTTTTTATT
24535323 TTTGTTTATT
1 TTT-TTTATT
24535333 TATTTT
1 T-TTTT
24535339 CGATTTGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 18 0.64
10 8 0.29
11 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTTTTATT
Found at i:24535778 original size:111 final size:111
Alignment explanation
Indices: 24535582--24535801 Score: 341
Period size: 111 Copynumber: 2.0 Consensus size: 111
24535572 TCCCTACTCT
* * *
24535582 TGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTATTGCTTAGGGAGAAAAGATCTGTGATTT
1 TGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGAAAAGATCTATAATTT
24535647 CCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTCC
66 CCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTCC
* * * * ** *
24535693 TGAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAATTT
1 TGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGAAAAGATCTATAATTT
*
24535758 CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTT
66 CCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTT
24535802 AAATTTGCTT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (111 bp):
TGAAGATAAGATTCGCCGTCTCCAATATGCTCCACTACTGCTTAGGGAGAAAAGATCTATAATTT
CCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTCC
Found at i:24535923 original size:128 final size:128
Alignment explanation
Indices: 24535693--24536303 Score: 981
Period size: 128 Copynumber: 4.8 Consensus size: 128
24535683 TGTGGCTTCC
* * * *
24535693 TGAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAATTT
1 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
* * *
24535758 CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTACTCT
66 TCAACCTATTCCACTGCTGACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCT
* * * *
24535821 TGAAGATAAGATTCGCCATATTTGATTTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTT
1 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
*
24535886 TCAACCTATTCCACTGCTGACCAGGGAGATATAACTTGTGGCTTAAATCTGCTTCCCTACTCT
66 TCAACCTATTCCACTGCTGACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCT
* *
24535949 TGAAGATAAGATTAGCCGTATTCGATCTGCTCCGCTACTGCTTATGGAGACAAGATCTGTAATTT
1 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
24536014 TCAACCTATTCCACTGCTGACCAGGGAGATA-AGACTTGTGGCTTAAATCTGCTTCCCTACTCT
66 TCAACCTATTCCACTGCTGACCAGGGAGATAGA-ACTTGTGGCTTAAATCTGCTTCCCTACTCT
* *
24536077 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTACTTAGGGAGACAATATCTGTAATTT
1 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
* *
24536142 CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCT
66 TCAACCTATTCCACTGCTGACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCT
* * * *
24536205 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAATCT
1 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
* * *
24536270 TCAATCTATTCCACTGCTGCCCAGAGAGATAGAA
66 TCAACCTATTCCACTGCTGACCAGGGAGATAGAA
24536304 TTACTGGCTT
Statistics
Matches: 448, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
127 1 0.00
128 447 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (128 bp):
TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
TCAACCTATTCCACTGCTGACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCT
Found at i:24536312 original size:128 final size:126
Alignment explanation
Indices: 24535693--24536437 Score: 918
Period size: 128 Copynumber: 5.8 Consensus size: 126
24535683 TGTGGCTTCC
* * * * *
24535693 TGAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTATAATTT
1 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
* *
24535758 CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTACTCT
66 -CAACCTATTCCACTGCTGACCAGGGAGATA-GAATTGTGGCTTAAATCTGCTTCCCTACTCT
* * * * *
24535821 TGAAGATAAGATTCGCCATATTTGATTTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTT
1 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA-TT
*
24535886 TCAACCTATTCCACTGCTGACCAGGGAGATATAACTTGTGGCTTAAATCTGCTTCCCTACTCT
65 TCAACCTATTCCACTGCTGACCAGGGAGATAGAA-TTGTGGCTTAAATCTGCTTCCCTACTCT
*
24535949 TGAAGATAAGATT-AGCCGTATTCGATCTGCTCCGCTACTGCTTATGGAGACAAGATCTGTAATT
1 TGAAGATAAGATTCA-CCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA-T
*
24536013 TTCAACCTATTCCACTGCTGACCAGGGAGATAAGACTTGTGGCTTAAATCTGCTTCCCTACTCT
64 TTCAACCTATTCCACTGCTGACCAGGGAGAT-AGAATTGTGGCTTAAATCTGCTTCCCTACTCT
* * *
24536077 TGAAGATAAGATTCGCCGTATTCGATCTGCTCCGCTACTACTTAGGGAGACAATATCTGTAATTT
1 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
*
24536142 CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCT
66 -CAACCTATTCCACTGCTGACCAGGGAGATA-GAATTGTGGCTTAAATCTGCTTCCCTACTCT
* *
24536205 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAATCT
1 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-T
* * * * * * * ** *
24536270 TCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCA
65 TCAACCTATTCCACTGCTGACCAGGGAGATAGAATT-GTGGCTTAAATCTGCT-T-CCCT-A-CT
*
24536335 CA
125 CT
* * * * * * * * * *
24536337 AGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCT
1 TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-T
* * *
24536402 TTAATCTATTCCACTGCTG-CCTAGGGAGGTAGAATT
65 TCAACCTATTCCACTGCTGACC-AGGGAGATAGAATT
24536438 CAAAATTCTC
Statistics
Matches: 552, Mismatches: 51, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
127 9 0.02
128 443 0.80
129 8 0.01
130 2 0.00
131 3 0.01
132 87 0.16
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (126 bp):
TGAAGATAAGATTCACCGTATTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT
CAACCTATTCCACTGCTGACCAGGGAGATAGAATTGTGGCTTAAATCTGCTTCCCTACTCT
Found at i:24536604 original size:88 final size:88
Alignment explanation
Indices: 24536483--24536744 Score: 332
Period size: 88 Copynumber: 3.0 Consensus size: 88
24536473 GATAGGACTG
** *
24536483 GTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGCTAGATTTGCTATTTTTAACCTGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCTAGATCTGCTATTTTTAACCTGCTCCAC
24536548 TGCAACCGAGGGAGGCAAGGCTA
66 TGCAACCGAGGGAGGCAAGGCTA
* * * * * *
24536571 GTATCTTCGATCTGCTTTGCTGTCAATGTAGGAAGG-TAAGATCTACTATCTTTATCCCGCTCCA
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCT-AGATCTGCTATTTTTAACCTGCTCCA
* * *
24536635 CTGTAACCAAGGGAGGCAAGGCTTT
65 CTGCAACCGAGGGAGGCAAGGC-TA
* * * **
24536660 GT-T-TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATTTTCAATTTGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCTAGATCTGCTATTTTTAACCTGCTCCAC
24536723 TGCAACCGAGGGAGGCAAGGCT
66 TGCAACCGAGGGAGGCAAGGCT
24536745 GGTGATTTCA
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
86 1 0.01
87 68 0.47
88 74 0.51
89 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (88 bp):
GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCTAGATCTGCTATTTTTAACCTGCTCCAC
TGCAACCGAGGGAGGCAAGGCTA
Found at i:24537974 original size:6 final size:6
Alignment explanation
Indices: 24537965--24538016 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
24537955 TATTTTTACT
* *
24537965 TTTTCA TTTTTCA TTTTCA TTTTCA TTTTTTCA TTTTTCA TATTCT TTTTCA
1 TTTTCA -TTTTCA TTTTCA TTTTCA --TTTTCA -TTTTCA TTTTCA TTTTCA
24538017 ACTTAAAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 20 0.51
7 13 0.33
8 6 0.15
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:24537974 original size:7 final size:7
Alignment explanation
Indices: 24537964--24538005 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
24537954 CTATTTTTAC
24537964 TTTTTCA
1 TTTTTCA
24537971 TTTTTCA
1 TTTTTCA
24537978 -TTTTCA
1 TTTTTCA
24537984 -TTTTCA
1 TTTTTCA
24537990 TTTTTTCA
1 -TTTTTCA
24537998 TTTTTCA
1 TTTTTCA
24538005 T
1 T
24538006 ATTCTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.36
7 15 0.45
8 6 0.18
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:24537986 original size:27 final size:27
Alignment explanation
Indices: 24537956--24538014 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
24537946 TAGCCTCTCT
*
24537956 ATTTTTACTTTTTCATTTTTCATTTTC
1 ATTTTTACTTTTTCATTTTTCATATTC
* *
24537983 ATTTTCATTTTTTCATTTTTCATATTC
1 ATTTTTACTTTTTCATTTTTCATATTC
24538010 -TTTTT
1 ATTTTT
24538015 CAACTTAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (27 bp):
ATTTTTACTTTTTCATTTTTCATATTC
Found at i:24538014 original size:21 final size:20
Alignment explanation
Indices: 24537967--24538014 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24537957 TTTTTACTTT
*
24537967 TTCA-TTTTTCATTTTCATT
1 TTCATTTTTTCATTTTCATA
24537986 TTCATTTTTTCATTTTTCATA
1 TTCATTTTTTCA-TTTTCATA
24538007 TTC-TTTTT
1 TTCATTTTT
24538015 CAACTTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCATTTTTTCATTTTCATA
Found at i:24538015 original size:27 final size:27
Alignment explanation
Indices: 24537964--24538016 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24537954 CTATTTTTAC
*
24537964 TTTTTCATTTTTCATTTTCATTTTCAT
1 TTTTTCATTTTTCATATTCATTTTCAT
*
24537991 TTTTTCATTTTTCATATTCTTTTTCA
1 TTTTTCATTTTTCATATTCATTTTCA
24538017 ACTTAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTCATTTTTCATATTCATTTTCAT
Found at i:24538961 original size:29 final size:28
Alignment explanation
Indices: 24538929--24538998 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
24538919 CTTTTTATCA
* *
24538929 TTTTCATATTTTTTATTTTGACTTTGATT
1 TTTTCAT-TTTTTTATTCTAACTTTGATT
* * * *
24538958 TTTTCCTTTTTTTTCTTCTAATTTTGTTT
1 TTTT-CATTTTTTTATTCTAACTTTGATT
24538987 TTTTCATTTTTT
1 TTTTCATTTTTT
24538999 CGTTCTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 7 0.21
29 24 0.73
30 2 0.06
ACGTcount: A:0.11, C:0.10, G:0.04, T:0.74
Consensus pattern (28 bp):
TTTTCATTTTTTTATTCTAACTTTGATT
Found at i:24543857 original size:17 final size:18
Alignment explanation
Indices: 24543824--24543859 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24543814 TAATGAATAC
*
24543824 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
24543842 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
24543859 A
1 A
24543860 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:24550000 original size:23 final size:22
Alignment explanation
Indices: 24549957--24550000 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
24549947 TTTCAAGTCA
24549957 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
24549980 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
24550001 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:24555076 original size:94 final size:93
Alignment explanation
Indices: 24554828--24555088 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 93
24554818 CAATCAAGAG
* * **
24554828 AGTTCGCTAGGACATTAAACATAGGGTTACATGTGTAAGACCTTAGTTCAGCTATAAAAACATGT
1 AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATGT
* * * *
24554893 GGAGTCCATCGGGATAGTAAACCCGGGGT
66 AGAATCCA-CGGGATAGTAAACACAGGGT
* ** * *
24554922 AGTTCGCCAGGACATTAAACATAGGGTTACTTGTGTAACGCCTTA-TCTCAACTATGGCAACATG
1 AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGT-TCAGCTATAGCAACATG
*
24554986 TAGAATCTGCA-GTGATAGTAAACACAGGGT
65 TAGAATC--CACGGGATAGTAAACACAGGGT
* * *
24555016 AG-TCTGCCAGGACATTAAACA-AGGGGTTACATGTGTAAAACCATAGTTCGGTTATAGCAACAT
1 AGTTC-GCCAGGACATTAAACATA-GGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACAT
24555079 GT-GAAGTCCA
64 GTAGAA-TCCA
24555089 TAGATCAGTA
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
92 2 0.01
93 7 0.05
94 127 0.91
95 1 0.01
96 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (93 bp):
AGTTCGCCAGGACATTAAACATAGGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATGT
AGAATCCACGGGATAGTAAACACAGGGT
Found at i:24559396 original size:41 final size:41
Alignment explanation
Indices: 24559351--24559466 Score: 178
Period size: 42 Copynumber: 2.8 Consensus size: 41
24559341 ATCAGCACTT
* *
24559351 AGCCTGCTAGACATATAGTCTGAAATGTTTCACAAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACAAGCATTA
* **
24559392 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAA-TGTTTCACAAGCATTA
24559434 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCAC
24559467 TGGCAATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 30 0.44
42 38 0.56
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACAAGCATTA
Found at i:24567134 original size:30 final size:30
Alignment explanation
Indices: 24567083--24567140 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
24567073 AGACTTTATC
* * *
24567083 ACTTTTTGAATTTATCAATTTTAGTCCTAT
1 ACTTTTTCAATTTATAAATTTTAATCCTAT
24567113 ACTTTTTCAATTT-TAATATTTTAATCCT
1 ACTTTTTCAATTTATAA-ATTTTAATCCT
24567141 GACCCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.55
Consensus pattern (30 bp):
ACTTTTTCAATTTATAAATTTTAATCCTAT
Found at i:24569999 original size:4 final size:4
Alignment explanation
Indices: 24569990--24570025 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
24569980 CCAAGGTACT
*
24569990 CATA CATA CATA CATA CATA CATA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
24570026 TATGAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:24574213 original size:6 final size:6
Alignment explanation
Indices: 24574204--24574232 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
24574194 ATGGTAATGG
24574204 TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
24574233 ACAGCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (6 bp):
TTTGGT
Found at i:24578920 original size:9 final size:10
Alignment explanation
Indices: 24578905--24578963 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
24578895 TTTATATACT
*
24578905 TTTTTTTGAA
1 TTTTTTAGAA
24578915 TTTTTTAGAA
1 TTTTTTAGAA
*
24578925 -TTTTTAAAA
1 TTTTTTAGAA
* *
24578934 ATTTATA-AA
1 TTTTTTAGAA
* *
24578943 ATTTTTAGAT
1 TTTTTTAGAA
24578953 TTTTTTAGAA
1 TTTTTTAGAA
24578963 T
1 T
24578964 ATATAAACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 16 0.40
10 24 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:24578968 original size:28 final size:28
Alignment explanation
Indices: 24578916--24578970 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
24578906 TTTTTTGAAT
*
24578916 TTTTTAGAATTTTTAAAAATTTATAAAA
1 TTTTTAGAATTTTTAAAAATATATAAAA
* * *
24578944 TTTTTAGATTTTTTTAGAATATATAAA
1 TTTTTAGAATTTTTAAAAATATATAAA
24578971 CATTGAGACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTTTAGAATTTTTAAAAATATATAAAA
Found at i:24582819 original size:20 final size:19
Alignment explanation
Indices: 24582794--24582840 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
24582784 AATGGAATCG
*
24582794 ACTTTTTTACAAAAAAAAA
1 ACTTTTTGACAAAAAAAAA
* *
24582813 TACTTTTTGGCAGAAAAAAA
1 -ACTTTTTGACAAAAAAAAA
24582833 ACTTTTTG
1 ACTTTTTG
24582841 GACTAATTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (19 bp):
ACTTTTTGACAAAAAAAAA
Found at i:24583814 original size:9 final size:9
Alignment explanation
Indices: 24583797--24583833 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24583787 TGAGTTTTTG
24583797 AATTCGAAT
1 AATTCGAAT
*
24583806 AACTCGAAT
1 AATTCGAAT
24583815 AATTCGAAT
1 AATTCGAAT
24583824 AATTCGAAT
1 AATTCGAAT
24583833 A
1 A
24583834 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24590050 original size:35 final size:34
Alignment explanation
Indices: 24590004--24590100 Score: 124
Period size: 34 Copynumber: 2.8 Consensus size: 34
24589994 GTAATTGATA
* *
24590004 TCGTCAATTTATTCGACTAGCGCTGGGCACAACTT
1 TCGTCAGTTTATTCGACTAGCGCTGGGCAC-ACAT
*
24590039 TCGTCAGTTTA-TCTGACTAGTGCTGGGCACACAT
1 TCGTCAGTTTATTC-GACTAGCGCTGGGCACACAT
**
24590073 TCGTTGGTTTATTCGACTAGCGCTGGGC
1 TCGTCAGTTTATTCGACTAGCGCTGGGC
24590101 GCGAACATCG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
34 27 0.50
35 27 0.50
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (34 bp):
TCGTCAGTTTATTCGACTAGCGCTGGGCACACAT
Found at i:24590083 original size:34 final size:36
Alignment explanation
Indices: 24590011--24590120 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 36
24590001 ATATCGTCAA
* **
24590011 TTTAT-TCGACTAGCGCTGGGCACAACTTTCGTCAG
1 TTTATCTCGACTAGCGCTGGGCACAACATTCGTTGG
*
24590046 TTTATCT-GACTAGTGCTGGGCAC-ACATTCGTTGG
1 TTTATCTCGACTAGCGCTGGGCACAACATTCGTTGG
*
24590080 TTTAT-TCGACTAGCGCTGGGCGCGAACA-TCGTTGG
1 TTTATCTCGACTAGCGCTGGGCAC-AACATTCGTTGG
24590115 TTTATC
1 TTTATC
24590121 CAACTAGAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
33 1 0.02
34 27 0.42
35 32 0.50
36 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (36 bp):
TTTATCTCGACTAGCGCTGGGCACAACATTCGTTGG
Found at i:24598163 original size:17 final size:18
Alignment explanation
Indices: 24598122--24598156 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24598112 CTCAAACATA
24598122 TACATC-AACCAATTCAT
1 TACATCAAACCAATTCAT
*
24598139 TACATCAAACCGATTCAT
1 TACATCAAACCAATTCAT
24598157 ATATCAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TACATCAAACCAATTCAT
Found at i:24601801 original size:25 final size:24
Alignment explanation
Indices: 24601763--24601810 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
24601753 ATCCAAGCAA
24601763 TATAACGAGAAGCTCACAAAGAGCT
1 TATAACGAGAAGCTC-CAAAGAGCT
* * *
24601788 TATAACGGGTAGCTCCGAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
24601811 AATTAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCT
Found at i:24607740 original size:20 final size:19
Alignment explanation
Indices: 24607706--24607743 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24607696 AATCAAAGAA
24607706 GGTTTCTAAGAAAATTTGG
1 GGTTTCTAAGAAAATTTGG
*
24607725 GGTTTTTAATGAAAATTTG
1 GGTTTCTAA-GAAAATTTG
24607744 AGAGGCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.42
Consensus pattern (19 bp):
GGTTTCTAAGAAAATTTGG
Found at i:24609984 original size:22 final size:22
Alignment explanation
Indices: 24609959--24610015 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
24609949 TTTCTTGTTG
*
24609959 TTTTCTCCTTATTTTGCTACCA
1 TTTTCTCATTATTTTGCTACCA
* *
24609981 TTTTACT-ATTATGTTGCTACTA
1 TTTT-CTCATTATTTTGCTACCA
* *
24610003 TTTTGTCGTTATT
1 TTTTCTCATTATT
24610016 GTTCGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.58
Consensus pattern (22 bp):
TTTTCTCATTATTTTGCTACCA
Found at i:24612896 original size:7 final size:7
Alignment explanation
Indices: 24612884--24612940 Score: 69
Period size: 7 Copynumber: 7.4 Consensus size: 7
24612874 TCAACCTTTA
24612884 ATTTAAT
1 ATTTAAT
24612891 ATTTAAT
1 ATTTAAT
24612898 ATTTAAT
1 ATTTAAT
24612905 ATTTAAT
1 ATTTAAT
24612912 ATTTTTTACAT
1 A---TTTA-AT
24612923 AATTTAAT
1 -ATTTAAT
24612931 ATTTAAT
1 ATTTAAT
24612938 ATT
1 ATT
24612941 ATTTAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
7 32 0.71
8 2 0.04
9 4 0.09
10 4 0.09
11 2 0.04
12 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:24613844 original size:25 final size:24
Alignment explanation
Indices: 24613816--24613869 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
24613806 AACTTGAACA
* * *
24613816 TAAAATAACTCAAATTTATTAAATT
1 TAAAAAAACT-AAATTCATCAAATT
24613841 TAAAAAAAACTAAATTCATCAAATT
1 T-AAAAAAACTAAATTCATCAAATT
24613866 TAAA
1 TAAA
24613870 CTAATCCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.56
26 8 0.32
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAAAACTAAATTCATCAAATT
Found at i:24618622 original size:29 final size:27
Alignment explanation
Indices: 24618558--24618624 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
24618548 GAGTTTCACG
*
24618558 TGTATAATTACATCAAATTAAAGTTTA
1 TGTATAATTACATCAAATTAAAGTTCA
* *
24618585 TGTACATAATTGCACATTACATTAAAGTTCA
1 TGT--ATAATT--ACATCAAATTAAAGTTCA
24618616 TGTATAATT
1 TGTATAATT
24618625 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
29 12 0.36
31 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTACATCAAATTAAAGTTCA
Found at i:24620707 original size:11 final size:11
Alignment explanation
Indices: 24620691--24620716 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24620681 TATGTGTTCT
24620691 ATTTATTTTTA
1 ATTTATTTTTA
24620702 ATTTATTTTTA
1 ATTTATTTTTA
24620713 ATTT
1 ATTT
24620717 TTAAATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:24625923 original size:15 final size:15
Alignment explanation
Indices: 24625897--24625935 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
24625887 GATATAAACT
24625897 TGATTGAAAAACTTGA
1 TGATT-AAAAACTTGA
24625913 TGATTAAAAACTTGA
1 TGATTAAAAACTTGA
24625928 TGATTAAA
1 TGATTAAA
24625936 TGAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
TGATTAAAAACTTGA
Found at i:24638142 original size:15 final size:16
Alignment explanation
Indices: 24638122--24638152 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24638112 TCTGACTGAC
24638122 AAACTTG-AATAACTT
1 AAACTTGAAATAACTT
24638137 AAACTTGAAATAACTT
1 AAACTTGAAATAACTT
24638153 GAATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
AAACTTGAAATAACTT
Found at i:24664358 original size:23 final size:22
Alignment explanation
Indices: 24664306--24664358 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
24664296 TCCTTGTCTT
*
24664306 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
24664328 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
24664351 TTTCTTTT
1 TTTCTTTT
24664359 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:24664372 original size:18 final size:18
Alignment explanation
Indices: 24664351--24664390 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24664341 CTTTCTTCAA
* * *
24664351 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
24664369 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
24664387 TTTC
1 TTTC
24664391 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:24666311 original size:23 final size:22
Alignment explanation
Indices: 24666259--24666311 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
24666249 TCCTTGTCTT
*
24666259 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
24666281 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
24666304 TTTCTTTT
1 TTTCTTTT
24666312 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:24674109 original size:3 final size:3
Alignment explanation
Indices: 24674066--24674091 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24674056 ACTTTATCCC
24674066 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
24674092 TGAGTGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24686693 original size:12 final size:12
Alignment explanation
Indices: 24686676--24686715 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
24686666 CAAATTTTTC
24686676 ATTTTAATATAT
1 ATTTTAATATAT
24686688 ATTTTAATATAT
1 ATTTTAATATAT
*
24686700 GTTTTAA-ATAT
1 ATTTTAATATAT
24686711 -TTTTA
1 ATTTTA
24686716 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
ATTTTAATATAT
Found at i:24688608 original size:22 final size:21
Alignment explanation
Indices: 24688582--24688632 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
24688572 ATTTTTTATT
*
24688582 TAAAAATTAACCATAAAAAATC
1 TAAAAATTAA-CATAAAAAAAC
*
24688604 T-AAAATTAATATAAAAAAAC
1 TAAAAATTAACATAAAAAAAC
24688624 TAATAAATT
1 TAA-AAATT
24688633 CGTGATGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.40
21 9 0.36
22 6 0.24
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAATTAACATAAAAAAAC
Found at i:24688619 original size:20 final size:21
Alignment explanation
Indices: 24688584--24688626 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
24688574 TTTTTATTTA
*
24688584 AAAATTAACCATAAAAAATCT
1 AAAATTAACCATAAAAAAACT
*
24688605 AAAATTAA-TATAAAAAAACT
1 AAAATTAACCATAAAAAAACT
24688625 AA
1 AA
24688627 TAAATTCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATTAACCATAAAAAAACT
Found at i:24697157 original size:21 final size:22
Alignment explanation
Indices: 24697133--24697176 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
24697123 TAAAAAAAGA
24697133 AAAAAATAGAAA-AAAAAGTTT
1 AAAAAATAGAAAGAAAAAGTTT
24697154 AAAAAATAGAAAGAAAAAGTTT
1 AAAAAATAGAAAGAAAAAGTTT
24697176 A
1 A
24697177 GATCTTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAAATAGAAAGAAAAAGTTT
Found at i:24698150 original size:21 final size:22
Alignment explanation
Indices: 24698125--24698191 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
24698115 ATTTTATGTA
24698125 ATTATATTATTATCATAC-ATT
1 ATTATATTATTATCATACTATT
*
24698146 TTTATATTATT-TC--ACTATT
1 ATTATATTATTATCATACTATT
*
24698165 ATTATCATTATTATCATA-TAGT
1 ATTAT-ATTATTATCATACTATT
24698187 ATTAT
1 ATTAT
24698192 TAATTGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 8 0.21
21 12 0.32
22 8 0.21
23 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTATATTATTATCATACTATT
Found at i:24698167 original size:3 final size:3
Alignment explanation
Indices: 24698161--24698237 Score: 64
Period size: 3 Copynumber: 24.3 Consensus size: 3
24698151 ATTATTTCAC
* * * *
24698161 TAT TAT TAT CAT TAT TAT CAT ATAG TAT TAT TAAT TGAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T-AT TAT TAT TAT
* *
24698209 TAT TAT TGT TAT TAT TATT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
24698238 GTATTCACTA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
3 50 0.86
4 8 0.14
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:24704526 original size:44 final size:44
Alignment explanation
Indices: 24704463--24704577 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
24704453 TACAATGGTG
24704463 AATCTTAT-CTCCTTGAAGTTGCAGTGGAACAAGA-TGAAGCTACA
1 AATCTTATAC-CCTTGAAGTTGCAGTGGAAC-AGATTGAAGCTACA
** *
24704507 AATCTTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAGCTACA
1 AATCTTATACCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACA
* * * * *
24704551 ATTCCTATACCCCTAAAGTTGTAGTGG
1 AATCTTATACCCTTGAAGTTGCAGTGG
24704578 GTAGGAATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 58 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATACCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACA
Found at i:24704560 original size:138 final size:138
Alignment explanation
Indices: 24704381--24704689 Score: 392
Period size: 138 Copynumber: 2.2 Consensus size: 138
24704371 TTTCGGTCTT
* *** * * *
24704381 CCTGAAGTTGTAGTGAAACGGA-TGAAGCTACAATTCCTATACCCTTGAAGTTACCGTGGGTCA-
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGT-AG
* * * *
24704444 GAAT-AAAATTACAATGGTGAATCTTATCTCCTTGAAGTTGCAGTGGAACAAGA-TGAAGCTACA
65 GAATGAAAA-TACAATGGTGAATCTTATCTCCTTGAAATTACAGTAGAACAA-ACTAAAGCTACA
*
24704507 AATCTTATACC
128 AATCCTATACC
* **
24704518 CTTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTAGG
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGTAGG
*
24704583 AATGAAAATACAATGGTGAATCTTATCTCCTTGAAATTACAGTAGAGCAAACTAAAGCTACAAAT
66 AATGAAAATACAATGGTGAATCTTATCTCCTTGAAATTACAGTAGAACAAACTAAAGCTACAAAT
24704648 CCTATACC
131 CCTATACC
* * *
24704656 CCTGAAGTTGTAGTGGGTCAGATTGAAACTACAA
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAA
24704690 ATGACAAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
137 19 0.13
138 125 0.84
139 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (138 bp):
CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTACAGTGGGTAGG
AATGAAAATACAATGGTGAATCTTATCTCCTTGAAATTACAGTAGAACAAACTAAAGCTACAAAT
CCTATACC
Found at i:24704578 original size:44 final size:44
Alignment explanation
Indices: 24704496--24704588 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
24704486 GTGGAACAAG
* * * *
24704496 ATGAAGCTACAAATCTTATACCCTTGAAGTTGCAGTGGGTCGGA
1 ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
* * *
24704540 TTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTAGGA
1 ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
24704584 ATGAA
1 ATGAA
24704589 AATACAATGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
ATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTAGGA
Found at i:24704605 original size:94 final size:93
Alignment explanation
Indices: 24704504--24704998 Score: 478
Period size: 94 Copynumber: 5.3 Consensus size: 93
24704494 AGATGAAGCT
* * * * *
24704504 ACAAATCTTATAC-CCTTGAAGTTGCAGTGGGTC-GGATTGAAGCTACAATTCCTATACCCCTAA
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGGG-CAAGA-TAAAGCTACAAATCCTATACCCCTGA
* *
24704567 AGTTGTAGTGGGT-AGGAATGAAAATACAATG
63 AGTTGCAGTGGGTCA-GAATGAAACTACAATG
*** * * * *
24704598 GTGAATCTTATCTCCTTGAAATTACAGTAGAGCAA-ACTAAAGCTACAAATCCTATACCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGT-GGGCAAGA-TAAAGCTACAAATCCTATACCCCTGAA
* *
24704662 GTTGTAGTGGGTCAGATTGAAACTACAAATG
64 GTTGCAGTGGGTCAGAATGAAACTAC-AATG
* * * *
24704693 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAGATGAAGCTACAAGTCCTATACCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGG-GCAAGATAAAGCTACAAATCCTATACCCCTGAAG
* *
24704758 TTACAATGGGTC-GAATTGAAACTACAATG
65 TTGCAGTGGGTCAGAA-TGAAACTACAATG
* * *
24704787 GCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGT-GGGCAAGATAAAGCTACAAATCCTATACCCCTGAAG
* * *
24704852 TTGCAGTTGGTCAGATTGAAACTATAATG
65 TTGCAGTGGGTCAGAATGAAACTACAATG
** * * * * * *
24704881 ATGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATAAAGCTACAATTTCTATGCCTCTGAAC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGG-GCAAGATAAAGCTACAAATCCTATACCCCTGAAG
** * **
24704946 TTGCAGTGGGTTGGAATAAAACTACAACA
65 TTGCAGTGGGTCAGAATGAAACTACAATG
*
24704975 ACAAATCTTATCTCCTTGAAGTTG
1 ACAAATCTTATCTCCCTGAAGTTG
24704999 AAATAGAGCA
Statistics
Matches: 331, Mismatches: 59, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
93 2 0.01
94 248 0.75
95 80 0.24
96 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (93 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGGCAAGATAAAGCTACAAATCCTATACCCCTGAAGT
TGCAGTGGGTCAGAATGAAACTACAATG
Found at i:24704736 original size:189 final size:187
Alignment explanation
Indices: 24704541--24705012 Score: 576
Period size: 189 Copynumber: 2.5 Consensus size: 187
24704531 TGGGTCGGAT
* * **
24704541 TGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTAGGAATGAAAATACAATGGTGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGT-GGAATGAAAATACAATGGCAAATCT
* *
24704606 TATCTCCTTGAAA-TTACAGTAGAGCAA-ACTAAAGCTACAAATCCTATACCCCTGAAGTTGTAG
65 TATCTCCCT-AAAGTTACAGTAGAGCAAGA-TAAAGCTACAAATCCTATACCCCTGAAGTTGCAG
24704669 TGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCT-AAAGTTACAGTGGAGCAAGA
128 TGGGTCAGATTGAAACTA-AAATGACAAATCTTATCTCCCTGAAA-TTACAGTGGAGCAAGA
* * * * *
24704730 TGAAGCTACAAGTCCTATACCCCTGAAGTTACAATGGGTCGAATTGAAACTACAATGGCAAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTGGAA-TGAAAATACAATGGCAAATCT
* *
24704795 TATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTT
65 TATCTCCCTAAAGTTACAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTG
* ** *
24704860 GGTCAGATTGAAACTATAATGATGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA
130 GGTCAGATTGAAACTAAAATGACAAATCTTATCTCCCTGAAATTACAGTGGAGCAAGA
* * * * * ***
24704918 TAAAGCTACAATTTCTATGCCTCTGAACTTGCAGTGGGTTGGAAT-AAAACTACAACAACAAATC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGG-TGGAATGAAAA-TACAATGGCAAATC
* * *
24704982 TTATCTCCTTGAAGTTGA-AATAGAGCAAGAT
64 TTATCTCCCTAAAGTT-ACAGTAGAGCAAGAT
24705013 GAAACTTTGA
Statistics
Matches: 242, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
187 3 0.01
188 108 0.45
189 130 0.54
190 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (187 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTGGAATGAAAATACAATGGCAAATCTT
ATCTCCCTAAAGTTACAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGG
GTCAGATTGAAACTAAAATGACAAATCTTATCTCCCTGAAATTACAGTGGAGCAAGA
Found at i:24705008 original size:188 final size:189
Alignment explanation
Indices: 24704601--24705012 Score: 537
Period size: 188 Copynumber: 2.2 Consensus size: 189
24704591 TACAATGGTG
*
24704601 AATCTTATCTCCTTGAAATT-ACAGTAGAGCAA-ACTAAAGCTACAAATCCTATACCCCTGAAGT
1 AATCTTATCTCCTTGAAGTTGA-AGTAGAGCAAGA-TAAAGCTACAAATCCTATACCCCTGAAGT
*
24704664 TGTAGTGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAG
64 TGCAGTGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAG
* * * ***
24704729 ATGAAGCTACAAGTCCTATACCCCTGAAGTTACAATGGGTCGAATTGAAACTACAATGGCA
129 ATAAAGCTACAAGTCCTATACCCCTGAACTTACAATGGGTCGAATTAAAACTACAACAACA
* * *
24704790 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCTTGAAGTTGAAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
* * ** *
24704855 CAGTTGGTCAGATTGAAACTA-TAATGATGAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAAGA
66 CAGTGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCT-AAAGTTACAGTGGAGCAAGA
* * * * * * *
24704918 TAAAGCTACAATTTCTATGCCTCTGAACTTGCAGTGGGTTGGAA-TAAAACTACAACAACA
130 TAAAGCTACAAGTCCTATACCCCTGAACTTACAATGGG-TCGAATTAAAACTACAACAACA
*
24704978 AATCTTATCTCCTTGAAGTTGAAATAGAGCAAGAT
1 AATCTTATCTCCTTGAAGTTGAAGTAGAGCAAGAT
24705013 GAAACTTTGA
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
188 107 0.56
189 84 0.44
190 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (189 bp):
AATCTTATCTCCTTGAAGTTGAAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
CAGTGGGTCAGATTGAAACTACAAATGACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAGAT
AAAGCTACAAGTCCTATACCCCTGAACTTACAATGGGTCGAATTAAAACTACAACAACA
Found at i:24705613 original size:29 final size:31
Alignment explanation
Indices: 24705551--24705616 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
24705541 AAGAACAGAG
*
24705551 AGCAGAGAACAGCAGAAACACAAAAGTAGAAA
1 AGCA-AGAACAGCAGAAACACAAAAGGAGAAA
*
24705583 AGCAAGAATAGCAGAAACA-AAAAGGAG-AA
1 AGCAAGAACAGCAGAAACACAAAAGGAGAAA
24705612 AGCAA
1 AGCAA
24705617 AAAAAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 7 0.22
30 7 0.22
31 14 0.44
32 4 0.12
ACGTcount: A:0.61, C:0.14, G:0.23, T:0.03
Consensus pattern (31 bp):
AGCAAGAACAGCAGAAACACAAAAGGAGAAA
Found at i:24706179 original size:13 final size:13
Alignment explanation
Indices: 24706148--24706176 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24706138 TTGAAACAGG
24706148 TTTTAAAATGATT
1 TTTTAAAATGATT
24706161 TTTTAAAAT-ATT
1 TTTTAAAATGATT
24706173 TTTT
1 TTTT
24706177 TAACTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTTAAAATGATT
Found at i:24723386 original size:19 final size:18
Alignment explanation
Indices: 24723362--24723410 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
24723352 TTTTATTGTC
*
24723362 TTTAAATTATTGTTGAAAT
1 TTTAAATTATT-TTCAAAT
24723381 TTTAAATTGA-TTTCAAAT
1 TTTAAATT-ATTTTCAAAT
*
24723399 TTTAAAATATTT
1 TTTAAATTATTT
24723411 AAATTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 15 0.58
19 9 0.35
20 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAAATTATTTTCAAAT
Found at i:24731975 original size:25 final size:24
Alignment explanation
Indices: 24731940--24732033 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
24731930 CTGATTACAG
24731940 CTCGTGAGAGCTTACCGATTCTCAA
1 CTCGT-AGAGCTTACCGATTCTCAA
* *
24731965 CTCGTATGAGCTTATCGATT-ACAA
1 CTCGTA-GAGCTTACCGATTCTCAA
* *
24731989 CTTGTGAGAGCTTACCGATTCTCAG
1 CTCGT-AGAGCTTACCGATTCTCAA
*
24732014 CTCGCAAGAGCTTACCGATT
1 CTCG-TAGAGCTTACCGATT
24732034 TATAGCTAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 20 0.35
25 37 0.65
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (24 bp):
CTCGTAGAGCTTACCGATTCTCAA
Found at i:24732004 original size:49 final size:49
Alignment explanation
Indices: 24731927--24732074 Score: 172
Period size: 49 Copynumber: 3.0 Consensus size: 49
24731917 CCATTAGGGA
* * *
24731927 TTACTGATTACAGCTCGTGAGAGCTTACCGATTCTCAACTCGTATGAGC
1 TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
* * * * *
24731976 TTATCGATTACAACTTGTGAGAGCTTACCGATTCTCAGCTCGCAAGAGC
1 TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
* * *
24732025 TTACCGATTTATAGCTAGCGAGAGCATACCGATTCAT-AGCTCGTATGAGC
1 TTACCGA-TTACAGCTAGTGAGAGCTTACCGATTC-TCAGCTCGTATGAGC
24732075 ATACATGTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 48 0.59
50 33 0.40
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (49 bp):
TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
Found at i:24732078 original size:25 final size:24
Alignment explanation
Indices: 24731938--24732074 Score: 95
Period size: 25 Copynumber: 5.5 Consensus size: 24
24731928 TACTGATTAC
24731938 AGCTCGTGAGAGCTTACCGATTC-T
1 AGCTCGT-AGAGCTTACCGATTCAT
* *
24731962 CAACTCGTATGAGCTTATCGATTACA-
1 -AGCTCGTA-GAGCTTACCGATT-CAT
*
24731988 A-CTTGTGAGAGCTTACCGATTC-T
1 AGCTCGT-AGAGCTTACCGATTCAT
* *
24732011 CAGCTCGCAAGAGCTTACCGATTTAT
1 -AGCTCG-TAGAGCTTACCGATTCAT
*
24732037 AGCTAGCG-AGAGCATACCGATTCAT
1 AGCT--CGTAGAGCTTACCGATTCAT
24732062 AGCTCGTATGAGC
1 AGCTCGTA-GAGC
24732075 ATACATGTAC
Statistics
Matches: 90, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.03
24 19 0.21
25 64 0.71
26 2 0.02
27 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCTCGTAGAGCTTACCGATTCAT
Found at i:24743472 original size:27 final size:27
Alignment explanation
Indices: 24743442--24743619 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
24743432 ATATTGAGCC
* *
24743442 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
24743469 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24743496 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24743524 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24743551 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
24743578 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
24743605 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24743620 GTACAATTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.79
28 24 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24743608 original size:54 final size:55
Alignment explanation
Indices: 24743442--24743619 Score: 168
Period size: 54 Copynumber: 3.3 Consensus size: 55
24743432 ATATTGAGCC
* * * * * *
24743442 CGCACACTCAGTGCTATATAATC-AACTCGCACATTTAGTGCCACGTAA-TCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAAC-AAAGTCAAAT
** ** *
24743496 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACAAAGTCAAAT
* **
24743551 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACAAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACAAAGTCA-AAT
24743605 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24743620 GTACAATTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.01
54 57 0.56
55 44 0.43
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACAAAGTCAAAT
Found at i:24762470 original size:3 final size:3
Alignment explanation
Indices: 24762462--24762490 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24762452 ATCACATGTT
24762462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24762491 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24766335 original size:20 final size:20
Alignment explanation
Indices: 24766287--24766349 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
24766277 TTGAAATGCT
*
24766287 AACAGAGGCACCATAGTGCAA
1 AACAGAGGCACCAAAGTGC-A
*
24766308 ATACAGAGGCATCAAAGTGCA
1 A-ACAGAGGCACCAAAGTGCA
*
24766329 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
24766349 A
1 A
24766350 TCCCTTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.49
21 3 0.08
22 16 0.43
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:24769274 original size:3 final size:3
Alignment explanation
Indices: 24769266--24769316 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
24769256 ATAACCAAAT
** * *
24769266 ATA ATA ATA GCA ATA ATA ATA AGA GTA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
24769312 ATA AT
1 ATA AT
24769317 TAATTAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24770828 original size:45 final size:45
Alignment explanation
Indices: 24770656--24770828 Score: 142
Period size: 45 Copynumber: 3.9 Consensus size: 45
24770646 TGAGACTTGG
* * * * *
24770656 CTTCAATCTGCCCCGCTACAACTTCAGGGGGATAAGATTCGCTA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
24770700 --T-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATACCAGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGCTA-T
* *
24770745 CTTCAATCTGCTCCACTGCAATTTCAGGGA-AGTGAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGA-TAAGATTTGCTAT
*
24770790 CTTCAGTCTGCTCCACTAG-AACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAGATT
24770829 CGCTGCCTTC
Statistics
Matches: 99, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
41 27 0.27
42 2 0.02
43 2 0.02
45 33 0.33
46 5 0.05
47 3 0.03
48 27 0.27
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:24770839 original size:45 final size:45
Alignment explanation
Indices: 24770745--24770840 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
24770735 CTATACCAGT
* * * * *
24770745 CTTCAATCTGCTCCACTGCAATTTCAGGGAAGTGAGATTTGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAGTAAGATTCGCTAC
*
24770790 CTTCAGTCTGCTCCACTAG-AACTTCAGGG-AGATAAGATTCGCTGC
1 CTTCAGTCTGCTCCACT-GCAACTTCAGGGAAG-TAAGATTCGCTAC
24770835 CTTCAG
1 CTTCAG
24770841 CTTTAATCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.05
45 40 0.93
46 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAAGTAAGATTCGCTAC
Found at i:24770933 original size:97 final size:97
Alignment explanation
Indices: 24770814--24771727 Score: 868
Period size: 97 Copynumber: 9.4 Consensus size: 97
24770804 ACTAGAACTT
* * * * *
24770814 CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCACTACAATGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
** *
24770879 TAACTGTCTTCAGCTTTAATCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
*
24770911 TAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
24770976 TCGCTACCTTCAGCTTTAACCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * * **
24771008 CAGGGAAATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
24771073 TCGCTGCCTTCAGCTTTAATCTATCGCAATGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* *
24771105 CAGGGAAGCAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
24771170 TCGTTGCCTTCAGCTTTAATCTACTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * ** *
24771202 CAAGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAAAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
**
24771267 TCGCTGCCTTCAGCTTTAATCTATTGCAACTT
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * **
24771299 CAGGGAAACAAGATTCACTGCCTTCAGCTTTAATCTATTCCACTGCAACGTTAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
24771364 CCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGT
66 TCGCTGCCTTCAGCTTTAATCTA-T----TGCAACGC
* * * * * * ** * *
24771401 CAAGGAAATAAGAATCGCTACCTTTAGCTTTAATC---T--ATTGCAATACCATGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * *
24771461 TCGCTGCCTTCAGCTTTAATTTGTTCCAATGCAATGC
66 TCGCTGCCTTCAGCTTTAA-----TCTATTGCAACGC
** * * * * * * *
24771498 CAATGAAATAAGATTTGTTGCCTTCAGCTTTAAACTATT--A---CAACGCCAGGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * * * *
24771558 TCACTGCATTCAGCTTTAATCTGTTCCACTGAAACGT
66 TCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGC
* * * * *
24771595 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGCCAGGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * *
24771655 TCGTTGCCTTCAGCTTTAATCTGTTCAACTGCAACGT
66 TCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGC
* * *
24771692 CAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCT
24771728 ACTACAATGC
Statistics
Matches: 696, Mismatches: 99, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
92 2 0.00
94 2 0.00
97 649 0.93
98 1 0.00
99 1 0.00
100 2 0.00
102 39 0.06
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (97 bp):
CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
Found at i:24771461 original size:342 final size:341
Alignment explanation
Indices: 24770821--24771728 Score: 1188
Period size: 342 Copynumber: 2.7 Consensus size: 341
24770811 CTTCAGGGAG
* * * *
24770821 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCACTACAATGCCAAGGAAATAAGATTAACTGT
1 ATAAGATTCGTTGCCTTCAGCTTTAATC----T-ACTACAACGCCAAGGAAATAAGATTCACTGC
* * * *
24770886 CTTCAGCTTTAATC---T--ATTGCAACGCTAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATC
61 CTTCAGCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
* * * * *
24770946 TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAACCTA-T---TGCAACG
126 ---T--ATTGCAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTCACTGCAACG
* * ** * *
24771007 CCAGGGAAATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGA
186 TCAAGGAAATAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGA
* * * *
24771072 TTCGCTGCCTTCAGCTTTAATCTATCGCAATGCCAGGGAAGCAAGATTCGCTGCCTTCAGCTTTA
251 ATCGCTACCTTCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTA
*
24771137 ATCTGTTCCACTGCAATGCCAAGGAA
316 ATCTGTTCCAATGCAATGCCAAGGAA
* **
24771163 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTCA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
*
24771228 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAAATTCGCTGCCTTCAGCTTTAATCTATTG
66 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
** * *
24771293 CAACTTCAGGGAAACAAGATTCACTGCCTTCAGCTTTAATCTATTCCACTGCAACGTTAAGGAAA
131 CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATT-CACTGCAACGTCAAGGAAA
* *
24771358 TAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGTCAAGGAAATAAGAATCGCTACC
195 TAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGAATCGCTACC
* * * *
24771423 TTTAGCTTTAATCTATTGCAATACCATGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGTTCC
260 TTCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCC
*
24771488 AATGCAATGCCAATGAA
325 AATGCAATGCCAAGGAA
* * * * * *
24771505 ATAAGATTTGTTGCCTTCAGCTTTAAACTATTACAACGCCAGGGAAACAAGATTCACTGCATTCA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
* *
24771570 GCTTTAATCTGTTCCACTGAAACGTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
66 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
* *
24771635 CAACGCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATCTGTTCAACTGCAACGTCAAGGAAA
131 CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTC-ACTGCAACGTCAAGGAAA
24771700 TAAGATTCC-CTGCCTTCAGCTTTAATCTA
195 TAAGA-TCCGCTGCCTTCAGCTTTAATCTA
24771729 CTACAATGCC
Statistics
Matches: 497, Mismatches: 57, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
337 78 0.16
338 2 0.00
339 1 0.00
340 1 0.00
341 1 0.00
342 411 0.83
343 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (341 bp):
ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTCACTGCAACGTCAAGGAAAT
AAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGAATCGCTACCT
TCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
ATGCAATGCCAAGGAA
Found at i:24771781 original size:97 final size:97
Alignment explanation
Indices: 24771391--24771781 Score: 275
Period size: 97 Copynumber: 4.0 Consensus size: 97
24771381 AATCTATTCC
* * * * * * * ** *
24771391 ACTGCAACGTCAAGGAAATAAGAATCGCTACCTTTAGCTTTAATCTATTGCAATACCATGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* * * * *** *
24771456 AAGATTCGCTGCCTTCAGCTTTAATTTGTTCCA
66 AAGATTCGTTACCTTCAGATCTAA-TCACTGCA
* * * * *** * *
24771489 A-TGCAATGCCAATGAAATAAGATTTGTTGCCTTCAGCTTTAAACTATTACAACGCCAGGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
** * * * * ** * *
24771553 AAGATTCACTGCATTCAGCTTTAATCTGTTCC
66 AAGATTCGTTACCTTCAGATCTAATCACTGCA
* * *
24771585 ACTGAAACGTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTGCAACGCCAGGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* * * ** *
24771650 AAGATTCGTTGCCTTCAGCTTTAATCTGTTCA
66 AAGATTCGTTACCTTCAGATCTAATCACTGCA
* * *
24771682 ACTGCAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAATGCCAGGGAAAT
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* *
24771747 AAGATTC-TCTATCTTCA-ATCTACTCCACTGCA
66 AAGATTCGT-TACCTTCAGATCTAAT-CACTGCA
24771779 ACT
1 ACT
24771782 TCAGAGAGAT
Statistics
Matches: 244, Mismatches: 46, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
96 9 0.04
97 234 0.96
98 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (97 bp):
ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
AAGATTCGTTACCTTCAGATCTAATCACTGCA
Found at i:24771873 original size:45 final size:45
Alignment explanation
Indices: 24771759--24772381 Score: 270
Period size: 44 Copynumber: 13.8 Consensus size: 45
24771749 GATTCTCTAT
*
24771759 CTTC-AATCTACTCCACTGCAACTTCAGAGAGATAAGACTTGTAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * * * * *
24771803 CTTCAATTC-GCTCTACTGCAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * * *
24771847 CTTTAAATCTACTCCACTGTAACTTCAGGGAGATTCAGAGAGATAAGATTCTCCAT
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGA-T---A-AG---A-CTTGT--AG
* * *
24771903 CTTC-AGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
** * * *
24771947 CTTC-AATCCT-CTCCACTATAACTTCAAGGAGATAGGA-TTATTAG
1 CTTCAAAT-CTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * * * *
24771991 CTT-TAATATGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCAT
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAG
* * * *
24772036 CTTC-AGTCT-GTCCCACTGCAACTTCAGGGGGATAAGACTTGTAA
1 CTTCAAATCTACT-CCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * *
24772080 CTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACT-TG-T-AG
* * * *
24772126 -TTC-AGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-G
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * * * *
24772168 ACCTC-AATCTGC-CCACTACAACTTCAGGGGGATAAGA-TTGATAT
1 -CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TAG
* * * * * *
24772212 CTTC-AACCTACTCCACTACAACTTTAGGGAAATCAAGTC-TGCTAA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGAT-AAGACTTG-TAG
* * * *
24772257 CTTC-AGTCTACTCCACTACAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* *** * * * *
24772301 CTT-TAATCCGTTCCACTACAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * *
24772345 CTT-TAATCTGCTCCACTGCAACTTAAAGGAGATAAGA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGA
24772382 TTCGCCATAA
Statistics
Matches: 446, Mismatches: 93, Indels: 80
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.01
43 38 0.09
44 228 0.51
45 130 0.29
46 8 0.02
47 1 0.00
49 1 0.00
50 3 0.01
51 1 0.00
53 1 0.00
54 2 0.00
55 26 0.06
56 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
Found at i:24771970 original size:44 final size:44
Alignment explanation
Indices: 24771903--24772381 Score: 316
Period size: 44 Copynumber: 10.8 Consensus size: 44
24771893 GATTCTCCAT
* * * * *
24771903 CTTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * * *
24771947 CTTCAATCCT-CTCCACTATAACTTCAAGGAGATAGGA-TTATTAG
1 CTTCAAT-CTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTAG
* * * * * *
24771991 CTTTAATATGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-G-TAG
* * * *
24772036 CTTCAGTCTG-TCCCACTGCAACTTCAGGGGGATAAGACTTGTAA
1 CTTCAATCTGCT-CCACTACAACTTCAGGGAGATAAGACTTGTAG
* *
24772080 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAG
1 CTTCAATC-TGCTCCACTACAACTTCAGGGAGATAAGACT-TG-T-AG
* * * *
24772126 -TTCAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-G
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * *
24772168 ACCTCAATCTGC-CCACTACAACTTCAGGGGGATAAGA-TTGATAT
1 -CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TAG
* * * * * *
24772212 CTTCAACCTACTCCACTACAACTTTAGGGAAATCAAGTC-TGCTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AAGACTTG-TAG
* * * *
24772257 CTTCAGTCTACTCCACTACAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * * * * *
24772301 CTTTAATCCGTTCCACTACAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTAG
* * * *
24772345 CTTTAATCTGCTCCACTGCAACTTAAAGGAGATAAGA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
24772382 TTCGCCATAA
Statistics
Matches: 343, Mismatches: 70, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
42 4 0.01
43 37 0.11
44 190 0.55
45 107 0.31
46 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
Found at i:24772130 original size:89 final size:89
Alignment explanation
Indices: 24771999--24772388 Score: 267
Period size: 89 Copynumber: 4.4 Consensus size: 89
24771989 AGCTTTAATA
* * *
24771999 TGCTCGACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG-TCCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCT-CCACTGCAACCTCAG
* *
24772063 GGGGATAAGACTTGTAACTTCAA-C
65 GGAGATAAGACTTGTAACCTCAATC
* * * *
24772087 TTGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAGTTCAGTCTGCTCTACTGCAACCTCA
1 -TGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCAACTTCAGTCTGCTCCACTGCAACCTCA
*
24772151 GGGAGATAAGACTTGTGACCTCAATC
64 GGGAGATAAGACTTGTAACCTCAATC
* * ** * ** * * * *
24772177 TGC-CCACTACAACTTCAGGGGGATAAGATT-GATATCTTCAACCTACTCCACTACAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAGG
* * * *
24772240 GAAATCAAGTC-TGCTAACTTCAGTC
66 GAGAT-AAGACTTG-TAACCTCAATC
* * * * * * * * * *
24772265 TACTCCACTACAACTTTAGGGAGATAAGACTT-G-TAACTTTAATCCGTTCCACTACAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAG
* * ** * *
24772328 GGAGATAGGA-TTATTGGCTTTAATC
65 GGAGATAAGACTT-GTAACCTCAATC
* *
24772353 TGCTCCACTGCAACTTAAAGGAGATAAGATTCGCCA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA
24772389 TAATAACTTC
Statistics
Matches: 238, Mismatches: 51, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
87 31 0.13
88 74 0.31
89 128 0.54
90 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAGG
GAGATAAGACTTGTAACCTCAATC
Found at i:24772216 original size:132 final size:133
Alignment explanation
Indices: 24771999--24772380 Score: 409
Period size: 132 Copynumber: 2.9 Consensus size: 133
24771989 AGCTTTAATA
* * * * *
24771999 TGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGTCCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGTCCCACTACAACTTCAG
* * *
24772063 GGGGATAAGACTTG-TAACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCTAAGT
64 GGGGATAAGA-TTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGATAAGGTCTGCTAACT
24772127 TCAGTC
128 TCAGTC
* * * *
24772133 TGCTCTACTGCAACCTCAGGGAGATAAGACTTGTGACCTCAATCTG-CCCACTACAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
* * * * *
24772197 GGATAAGATTGATATCTTCAACCTACTCCACTACAACTTTAGGGAAATCAA-GTCTGCTAACTTC
66 GGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGAT-AAGGTCTGCTAACTTC
24772261 AGTC
130 AGTC
* * * * * *
24772265 TACTCCACTACAACTTTAGGGAGATAAGACTTGTAACTTTAATCCGTTCCACTACAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
* * * *
24772330 AGATAGGATT-AT-TGGCTTTAA-TCTGCTCCACTGCAACTTAAAGGAGATAAG
66 GGATAAGATTGATAT--CTTCAACT-TGCTCCACTGCAACTTAAGGGAGATAAG
24772381 ATTCGCCATA
Statistics
Matches: 206, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
131 4 0.02
132 112 0.54
133 60 0.29
134 28 0.14
135 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
GGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGATAAGGTCTGCTAACTTCA
GTC
Found at i:24772330 original size:221 final size:222
Alignment explanation
Indices: 24771904--24772334 Score: 500
Period size: 221 Copynumber: 1.9 Consensus size: 222
24771894 ATTCTCCATC
* * * *
24771904 TTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAATCCTCTCCACTATAAC
1 TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAGCCTCAATCCTCTCCACTACAAC
* * * * * * *
24771969 TTCAAGGAGATAGGATTATTAGCTTTAATATGCTCGACTGCAACTTCAGGGAGATAAGATTCGCC
66 TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
* * * * * *
24772034 ATCTTCAGTCTGTCCCACTGCAACTTCAGGGGGATAAGACTTGTAACTTCAACTTGCTCCACTGC
131 AACTTCAGTCTCTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACTCGCTCCACTAC
24772099 AACTTCAGGGAGATAAGGTCTGCTAAG
196 AACTTCAGGGAGATAAGGTCTGCTAAG
*
24772126 TTCAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-GACCTCAAT-CTGC-CCACTACA
1 TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAG-CCTCAATCCT-CTCCACTACA
* * * * *
24772188 ACTTCAGGGGGATAAGATTGA-TATCTTCAACCTACTCCACTACAACTTTAGGGAAATCAAG--T
64 ACTTCAAGGAGATAAGATT-ATTAGCTTCAACATACTCCACTACAACTTCAGGGAAAT-AAGATT
* * * *
24772250 CTGCTAACTTCAGTCTACT-CCACTACAACTTTAGGGAGATAAGACTTGTAACTTTAA-TCCGTT
127 C-GCCAACTTCAGTCT-CTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACT-CGCT
24772313 CCACTACAACTTCAGGGAGATA
189 CCACTACAACTTCAGGGAGATA
24772335 GGATTATTGG
Statistics
Matches: 175, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
220 3 0.02
221 122 0.70
222 50 0.29
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (222 bp):
TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAGCCTCAATCCTCTCCACTACAAC
TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
AACTTCAGTCTCTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACTCGCTCCACTAC
AACTTCAGGGAGATAAGGTCTGCTAAG
Found at i:24772747 original size:24 final size:24
Alignment explanation
Indices: 24772711--24772768 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
24772701 CAGATTGCCC
*
24772711 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
24772735 CCACTGTACTCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
24772759 CCACTGTACT
1 CCACTGTACT
24772769 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
CCACTGTACTCTTCAAGGTTCAAT
Found at i:24773740 original size:43 final size:44
Alignment explanation
Indices: 24773671--24773799 Score: 197
Period size: 44 Copynumber: 3.0 Consensus size: 44
24773661 TGGCCTCTCC
* **
24773671 TTTTTTTTATGACTCAAAGCGCCCTTTTTGGGTTTTCACCTTA-
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
* *
24773714 TTTTTTTTAGGACTCAAGGCGTCCTTTGCGGGTTTTCACCTTAG
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
*
24773758 TCTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
24773800 GGTCCCTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 38 0.49
44 39 0.51
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (44 bp):
TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
Found at i:24775727 original size:16 final size:16
Alignment explanation
Indices: 24775706--24775737 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24775696 ATTTTGTTGC
*
24775706 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
24775722 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
24775738 CTTTCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:24776081 original size:47 final size:51
Alignment explanation
Indices: 24775965--24776101 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 51
24775955 CCAGTTCACA
* *
24775965 TAGTAGCCTGCACATAGTATTACACATATGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * * *
24776016 TAGTGGCCTGCACGTAGTACTACACATGTGACC-T-A-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
*
24776063 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
24776102 TTCACTTTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 39 0.53
48 2 0.03
49 2 0.03
50 2 0.03
51 29 0.39
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:24778025 original size:26 final size:27
Alignment explanation
Indices: 24777968--24778031 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
24777958 TTGGCCTCTC
* *
24777968 CTTTTTCTTTTCCTTTTCTTTTTCCTT
1 CTTTTTATTTTCCTTTTCTTTTTCCAT
**
24777995 CTTTTT-TTTT-CTTTTCTTTTTTGAT
1 CTTTTTATTTTCCTTTTCTTTTTCCAT
24778020 CATTTTTATTTT
1 C-TTTTTATTTT
24778032 TTGAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.41
26 9 0.28
27 10 0.31
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (27 bp):
CTTTTTATTTTCCTTTTCTTTTTCCAT
Done.