Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 76 of 190
Found at i:21788344 original size:43 final size:43
Alignment explanation
Indices: 21788292--21788373 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
21788282 CGCTTTAGTG
**
21788292 GAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCATTTTTAGGA
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGGCATTTTTAGGA
* * *
21788335 GAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGGCATTTTT
21788374 CTCTCAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAGGATCTTTAGCGGCATTTTTAGGA
Found at i:21796383 original size:16 final size:16
Alignment explanation
Indices: 21796362--21796405 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
21796352 ATTAAGCTAC
21796362 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
21796378 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
21796394 GAAAATTATGTA
1 GTAAGTTATGTA
21796406 AGTTGTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:21796401 original size:25 final size:25
Alignment explanation
Indices: 21796373--21796428 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
21796363 TAAGTTATGT
*
21796373 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
21796398 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
21796423 AGTATG
1 ATTATG
21796429 CTATGTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:21796442 original size:9 final size:9
Alignment explanation
Indices: 21796430--21796630 Score: 87
Period size: 9 Copynumber: 23.7 Consensus size: 9
21796420 AAAAGTATGC
21796430 TATGTAAGT
1 TATGTAAGT
21796439 TATGTAAGT
1 TATGTAAGT
** *
21796448 CGTATAAGT
1 TATGTAAGT
21796457 TATGTAAG-
1 TATGTAAGT
21796465 T-TGTAAGT
1 TATGTAAGT
21796473 TATGTAAGT
1 TATGTAAGT
*
21796482 TAT-TTA-T
1 TATGTAAGT
* *
21796489 TATGAAAAT
1 TATGTAAGT
**
21796498 TA---AAAA
1 TATGTAAGT
21796504 TATGTAAGT
1 TATGTAAGT
21796513 TATGTAAG-
1 TATGTAAGT
21796521 T-TGTAAGT
1 TATGTAAGT
*
21796529 TATGTATA-A
1 TATGTA-AGT
21796538 TAT-TAA-T
1 TATGTAAGT
**
21796545 TAACTAAGT
1 TATGTAAGT
*
21796554 TATGTAATT
1 TATGTAAGT
*
21796563 TATGTATAATAT
1 TATG--TAA-GT
21796575 TAATGTAAGT
1 T-ATGTAAGT
*
21796585 TATGTAATT
1 TATGTAAGT
21796594 TATGT-A--
1 TATGTAAGT
21796600 TAT-TAA-T
1 TATGTAAGT
21796607 TAAT-TAAGT
1 T-ATGTAAGT
*
21796616 TATGTAATT
1 TATGTAAGT
21796625 TATGTA
1 TATGTA
21796631 TAATATTAAT
Statistics
Matches: 149, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
5 1 0.01
6 9 0.06
7 20 0.13
8 20 0.13
9 85 0.57
10 3 0.02
11 6 0.04
12 2 0.01
13 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (9 bp):
TATGTAAGT
Found at i:21796457 original size:18 final size:16
Alignment explanation
Indices: 21796434--21796484 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
21796424 GTATGCTATG
21796434 TAAGTTATGTAAGTCGTA
1 TAAGTTATGTAAGT--TA
*
21796452 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTA
21796468 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTA
21796484 T
1 T
21796485 TTATTATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (16 bp):
TAAGTTATGTAAGTTA
Found at i:21796587 original size:22 final size:21
Alignment explanation
Indices: 21796553--21796653 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 21
21796543 ATTAACTAAG
*
21796553 TTATGTAATTTATGTATAATA
1 TTATGTAAGTTATGTATAATA
21796574 TTAATGTAAGTTATG--TAAT-
1 TT-ATGTAAGTTATGTATAATA
*
21796593 TTATGTATA-TTAAT-TAATTAA-G
1 TTATGTA-AGTT-ATGT-A-TAATA
*
21796615 TTATGTAATTTATGTATAATA
1 TTATGTAAGTTATGTATAATA
21796636 TTAATGTAAGTTATGTAT
1 TT-ATGTAAGTTATGTAT
21796654 TTTATGTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 23
0.71 0.03 0.25
Matches are distributed among these distances:
18 7 0.11
19 5 0.08
20 7 0.11
21 8 0.12
22 38 0.58
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
TTATGTAAGTTATGTATAATA
Found at i:21796587 original size:31 final size:31
Alignment explanation
Indices: 21796514--21796672 Score: 207
Period size: 31 Copynumber: 5.1 Consensus size: 31
21796504 TATGTAAGTT
*
21796514 ATGTAAG-T-TGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
21796543 ATTAACTAAGTTATGTAATTTATGTATAATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
*
21796577 ATGTAAGTTATGTAATTTATGTATATTAATTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
21796609 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
21796639 ATGTAAGTTATGTATTTTATGTATATTAATTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
21796671 AT
1 AT
21796673 TAAATGATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.01
30 7 0.06
31 68 0.59
32 16 0.14
33 2 0.02
34 21 0.18
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:21796618 original size:62 final size:62
Alignment explanation
Indices: 21796537--21796675 Score: 260
Period size: 62 Copynumber: 2.2 Consensus size: 62
21796527 GTTATGTATA
*
21796537 ATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGT
1 ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGT
*
21796599 ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATTTTATGT
1 ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGT
21796661 ATATTAATTAATTAA
1 ATATTAATTAATTAA
21796676 ATGATATGTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 75 1.00
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.50
Consensus pattern (62 bp):
ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGT
Found at i:21799736 original size:7 final size:7
Alignment explanation
Indices: 21799724--21799830 Score: 56
Period size: 7 Copynumber: 14.6 Consensus size: 7
21799714 ATAATCGTTG
21799724 AAACCCT
1 AAACCCT
21799731 AAACCCT
1 AAACCCT
*
21799738 AAACCCC
1 AAACCCT
*
21799745 AAATCCAT
1 AAA-CCCT
*
21799753 AACCCCT
1 AAACCCT
21799760 -AACCCT
1 AAACCCT
**
21799766 TTACCCTT
1 AAACCC-T
21799774 AAATCCCTT
1 AAA-CCC-T
*
21799783 AACCCCT
1 AAACCCT
* *
21799790 AAAGCAT
1 AAACCCT
21799797 -AACCCTT
1 AAACCC-T
21799804 AAACCCT
1 AAACCCT
21799811 AAATCCCCT
1 AAA--CCCT
*
21799820 AACCCCT
1 AAACCCT
21799827 AAAC
1 AAAC
21799831 ATCAAATTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
6 8 0.11
7 40 0.53
8 14 0.19
9 13 0.17
ACGTcount: A:0.37, C:0.42, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:21799787 original size:16 final size:16
Alignment explanation
Indices: 21799727--21799829 Score: 72
Period size: 16 Copynumber: 6.4 Consensus size: 16
21799717 ATCGTTGAAA
*
21799727 CCCTAAA-CCCTAAAC
1 CCCTAAATCCCTTAAC
*
21799742 CCC-AAAT-CCATAAC
1 CCCTAAATCCCTTAAC
*
21799756 CCCT-AA-CCCTTTAC
1 CCCTAAATCCCTTAAC
*
21799770 CCTTAAATCCCTTAAC
1 CCCTAAATCCCTTAAC
*
21799786 CCCTAAAGCATAACCCTTAAA
1 CCCT-AA--AT--CCCTTAAC
*
21799807 CCCTAAATCCCCTAAC
1 CCCTAAATCCCTTAAC
21799823 CCCTAAA
1 CCCTAAA
21799830 CATCAAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
14 21 0.31
15 5 0.07
16 23 0.34
17 2 0.03
18 2 0.03
19 2 0.03
20 2 0.03
21 11 0.16
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.20
Consensus pattern (16 bp):
CCCTAAATCCCTTAAC
Found at i:21799788 original size:30 final size:29
Alignment explanation
Indices: 21799752--21799824 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
21799742 CCCAAATCCA
* *
21799752 TAACCCCTAACCCTTTACCCTTAAATCCCT
1 TAACCCCTAACCCATAACCCTTAAA-CCCT
**
21799782 TAACCCCTAAAGCATAACCCTTAAACCCT
1 TAACCCCTAACCCATAACCCTTAAACCCT
*
21799811 AAATCCCCTAACCC
1 TAA-CCCCTAACCC
21799825 CTAAACATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.33, C:0.42, G:0.01, T:0.23
Consensus pattern (29 bp):
TAACCCCTAACCCATAACCCTTAAACCCT
Found at i:21799800 original size:37 final size:37
Alignment explanation
Indices: 21799725--21799829 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 37
21799715 TAATCGTTGA
* * * ** *
21799725 AACCC-TAAACCCTAAA-CCCCAAATCCATAACCCCT
1 AACCCTTAAACCCTAAATCCCCTAACCCCTAAAGCAT
* *
21799760 AACCCTT-TACCCTTAAATCCCTTAACCCCTAAAGCAT
1 AACCCTTAAACCC-TAAATCCCCTAACCCCTAAAGCAT
21799797 AACCCTTAAACCCTAAATCCCCTAACCCCTAAA
1 AACCCTTAAACCCTAAATCCCCTAACCCCTAAA
21799830 CATCAAATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
35 9 0.16
36 5 0.09
37 38 0.68
38 4 0.07
ACGTcount: A:0.37, C:0.42, G:0.01, T:0.20
Consensus pattern (37 bp):
AACCCTTAAACCCTAAATCCCCTAACCCCTAAAGCAT
Found at i:21801713 original size:41 final size:40
Alignment explanation
Indices: 21801627--21801986 Score: 384
Period size: 41 Copynumber: 8.8 Consensus size: 40
21801617 TTTTGTTACT
* * ***
21801627 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATA-C
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA-G-ACCGAGC
* * * * *
21801668 ATTAGCGGCGCTTAGATACAAACGCCGCTGAAGACAAGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-CGAGC
* * ** * *
21801709 ATTAGTGGCGCTCAGTTAGAAACGCAGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CCGAGC
*
21801750 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTAG-ACAAAAACGCCGCTAAAGA-CCGAGC
*
21801791 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CCGAGC
*
21801832 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CCGAGC
* *
21801873 ATTAGCGGCGCTTAGACGAAAACGCCACTAAAGACTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-CGAGC
* **
21801914 ATTAGCGGCGCTTAGACAAAAATGCCGCT-AAGATTGGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CCGAGC
*
21801954 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
21801987 GTTTAAAAAA
Statistics
Matches: 276, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.00
40 40 0.14
41 233 0.84
42 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCGAGC
Found at i:21809345 original size:88 final size:87
Alignment explanation
Indices: 21809195--21809420 Score: 290
Period size: 88 Copynumber: 2.6 Consensus size: 87
21809185 TATGCTAAAT
* ** * *** *
21809195 GATGGTCGTAACCATCCCTTTTCATTTTCGATGGTCGTTTCCATCCCTTTTCATATTCGATGGTC
1 GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCATATTCGATGGTC
*
21809260 GGAACCATCCCTTTTCATTAATC
66 AGAACCATCCCTTTTCA-TAATC
*
21809283 GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCATATTTGATGGTC
1 GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCATATTCGATGGTC
** * * *
21809348 ATCACCATCGCTTTTCATAGTT
66 AGAACCATCCCTTTTCATAATC
* *
21809370 GATGGTCGTCACCATCCCTTTTCATAGTTGATAGTCGAAACTATCCTTTTT
1 GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTT
21809421 TTTAATCGAT
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 52 0.43
88 69 0.57
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (87 bp):
GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGAAACTATCCCTTTTCATATTCGATGGTC
AGAACCATCCCTTTTCATAATC
Found at i:21809367 original size:58 final size:58
Alignment explanation
Indices: 21809195--21809406 Score: 264
Period size: 58 Copynumber: 3.6 Consensus size: 58
21809185 TATGCTAAAT
** *
21809195 GATGGTCGTAACCATCCCTTTTCAT-TTTCGATGGTCGTTTCCATCCCTTTTCATATTC
1 GATGGTCGTAACCATCCCTTTTCATATTT-GATGGTCGTCACCATCCCTTTTCATAGTC
* * *
21809253 GATGGTCGGAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTC
1 GATGGTCGTAACCATCCCTTTTCA-TATTTGATGGTCGTCACCATCCCTTTTCATAGTC
* * * * * *
21809312 GATAGTCGAAACTATCCCTTTTCATATTTGATGGTCATCACCATCGCTTTTCATAGTT
1 GATGGTCGTAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATAGTC
* * *
21809370 GATGGTCGTCACCATCCCTTTTCATAGTTGATAGTCG
1 GATGGTCGTAACCATCCCTTTTCATATTTGATGGTCG
21809407 AAACTATCCT
Statistics
Matches: 131, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 82 0.63
59 48 0.37
60 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (58 bp):
GATGGTCGTAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATAGTC
Found at i:21809395 original size:29 final size:29
Alignment explanation
Indices: 21809194--21809420 Score: 233
Period size: 29 Copynumber: 7.8 Consensus size: 29
21809184 GTATGCTAAA
*
21809194 TGATGGTCGTAACCATCCCTTTTCAT-TT
1 TGATGGTCGTAACCATCCCTTTTCATAGT
**
21809222 TCGATGGTCGTTTCCATCCCTTTTCATA-T
1 T-GATGGTCGTAACCATCCCTTTTCATAGT
* *
21809251 TCGATGGTCGGAACCATCCCTTTTCATTAAT
1 T-GATGGTCGTAACCATCCCTTTTCA-TAGT
* *
21809282 CGATGGTCGTCACCATCCCTTTTCATAGT
1 TGATGGTCGTAACCATCCCTTTTCATAGT
* * * * *
21809311 CGATAGTCGAAACTATCCCTTTTCATATT
1 TGATGGTCGTAACCATCCCTTTTCATAGT
* * *
21809340 TGATGGTCATCACCATCGCTTTTCATAGT
1 TGATGGTCGTAACCATCCCTTTTCATAGT
*
21809369 TGATGGTCGTCACCATCCCTTTTCATAGT
1 TGATGGTCGTAACCATCCCTTTTCATAGT
* * * *
21809398 TGATAGTCGAAACTATCCTTTTT
1 TGATGGTCGTAACCATCCCTTTT
21809421 TTTAATCGAT
Statistics
Matches: 166, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
28 1 0.01
29 140 0.84
30 24 0.14
31 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (29 bp):
TGATGGTCGTAACCATCCCTTTTCATAGT
Found at i:21817451 original size:20 final size:18
Alignment explanation
Indices: 21817417--21817464 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
21817407 CCATCAACTC
21817417 TTATTTTATTTTATTTCA
1 TTATTTTATTTTATTTCA
*
21817435 TTATTGTTATATTTATTTTA
1 TTATT-TTAT-TTTATTTCA
21817455 TTATTATTAT
1 TTATT-TTAT
21817465 CACTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 17 0.65
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTATTTTATTTCA
Found at i:21821160 original size:10 final size:10
Alignment explanation
Indices: 21821136--21821171 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
21821126 CAAAAATACG
21821136 TTAAACACA-
1 TTAAACACAT
21821145 TTAAACACAT
1 TTAAACACAT
21821155 TTAAACACAT
1 TTAAACACAT
21821165 ATTAAAC
1 -TTAAAC
21821172 TTAATAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 10 0.40
11 6 0.24
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (10 bp):
TTAAACACAT
Found at i:21823838 original size:46 final size:40
Alignment explanation
Indices: 21823788--21823892 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 40
21823778 CCAACCATTA
*
21823788 ATTAACTAAAATGAGTTTAATGAAAATAAAGTCTAACAACTCAATT
1 ATTAACTAAAATGAGTTTAAT----AT--AGTCCAACAACTCAATT
21823834 ATTAACTAAGAA-GAGTTTAATATAGTCCAACAACTCAATT
1 ATTAACTAA-AATGAGTTTAATATAGTCCAACAACTCAATT
* *
21823874 ATTATCTAAGATGAGTTTA
1 ATTAACTAAAATGAGTTTA
21823893 TTAAAATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
39 1 0.02
40 31 0.57
42 2 0.04
46 18 0.33
47 2 0.04
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.32
Consensus pattern (40 bp):
ATTAACTAAAATGAGTTTAATATAGTCCAACAACTCAATT
Found at i:21823866 original size:40 final size:40
Alignment explanation
Indices: 21823812--21823897 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
21823802 GTTTAATGAA
*
21823812 AATAAAGTCTAACAACTCAATTATTAACTAAGAAGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGAAGAGTTT
* * *
21823852 AATATAGTCCAACAACTCAATTATTATCTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGAAGAGTTT
*
21823892 ATTAAA
1 AATAAA
21823898 ATTAATGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGAAGAGTTT
Found at i:21831411 original size:46 final size:44
Alignment explanation
Indices: 21831360--21831471 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 44
21831350 CCAACCATTA
* *
21831360 ATTAACTAAAATGAGTTTAATGAAAATAAAGTCTAACAACTCAATT
1 ATTAACTAAAATGAGTTTAATGAAAAT--AGTCCAAAAACTCAATT
* * *
21831406 ATTAACTAAGAGGAGTTTAAT----ATAGTCCAAAAAGTCAATT
1 ATTAACTAAAATGAGTTTAATGAAAATAGTCCAAAAACTCAATT
*
21831446 ATTATCTAAAATGAGTTT-ATGAAAAT
1 ATTAACTAAAATGAGTTTAATGAAAAT
21831472 TAATGTTTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
39 2 0.04
40 29 0.54
42 2 0.04
43 2 0.04
46 19 0.35
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (44 bp):
ATTAACTAAAATGAGTTTAATGAAAATAGTCCAAAAACTCAATT
Found at i:21835258 original size:22 final size:22
Alignment explanation
Indices: 21835233--21835347 Score: 158
Period size: 22 Copynumber: 5.2 Consensus size: 22
21835223 GCCAAAGTTT
21835233 TGTTTAACGTACTAAGCTCTCA
1 TGTTTAACGTACTAAGCTCTCA
* * *
21835255 TGTTTAACGAACTAAACCCTCA
1 TGTTTAACGTACTAAGCTCTCA
**
21835277 TGGCTAACGTACTAAGCTCTCA
1 TGTTTAACGTACTAAGCTCTCA
**
21835299 TGGCTAACGTACTAAGCTCTCA
1 TGTTTAACGTACTAAGCTCTCA
*
21835321 TGTTTCACGTACTAAGCTCTCA
1 TGTTTAACGTACTAAGCTCTCA
21835343 TGTTT
1 TGTTT
21835348 GAACAATAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 82 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (22 bp):
TGTTTAACGTACTAAGCTCTCA
Found at i:21841120 original size:12 final size:11
Alignment explanation
Indices: 21841097--21841152 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
21841087 CACTCCCTCA
21841097 CTTTTTTT-TT
1 CTTTTTTTCTT
21841107 CTTTTTTTCATT
1 CTTTTTTTC-TT
21841119 CTTTTTTTCTT
1 CTTTTTTTCTT
* *
21841130 ATACTTTTTCTTT
1 CT-TTTTTTC-TT
21841143 CTTTTCTTTC
1 CTTTT-TTTC
21841153 AATTTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.22
11 3 0.08
12 19 0.51
13 7 0.19
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:21844177 original size:20 final size:19
Alignment explanation
Indices: 21844154--21844200 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
21844144 CCTACAATCA
21844154 AAACACATTAAAAACAAATT
1 AAACACATTAAAAAC-AATT
* *
21844174 AAACACATTAAACACATTT
1 AAACACATTAAAAACAATT
21844193 AAACACAT
1 AAACACAT
21844201 ATTAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACACATTAAAAACAATT
Found at i:21844183 original size:9 final size:9
Alignment explanation
Indices: 21844154--21844200 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
21844144 CCTACAATCA
21844154 AAACACATT
1 AAACACATT
*
21844163 AAAAACAAATT
1 --AAACACATT
21844174 AAACACATT
1 AAACACATT
21844183 AAACACATTT
1 AAACACA-TT
21844193 AAACACAT
1 AAACACAT
21844201 ATTAAACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 16 0.48
10 9 0.27
11 8 0.24
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:21844207 original size:11 final size:11
Alignment explanation
Indices: 21844160--21844207 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
21844150 ATCAAAACAC
* *
21844160 ATTAAAAACAA
1 ATTAAACACAT
21844171 ATTAAACAC--
1 ATTAAACACAT
21844180 ATTAAACACAT
1 ATTAAACACAT
21844191 -TTAAACACAT
1 ATTAAACACAT
21844201 ATTAAAC
1 ATTAAAC
21844208 TTAATAAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.27
10 10 0.30
11 14 0.42
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (11 bp):
ATTAAACACAT
Found at i:21844374 original size:40 final size:40
Alignment explanation
Indices: 21844324--21844409 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
21844314 GTTTAATGAA
21844324 AATAAAGTCCAACAAATCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAAATCAATTATTAACTAAGATGAGTTT
* * *
21844364 AATATAGTCCAGCAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAAATCAATTATTAACTAAGATGAGTTT
*
21844404 ATTAAA
1 AATAAA
21844410 ATTAATGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAAATCAATTATTAACTAAGATGAGTTT
Found at i:21845028 original size:30 final size:30
Alignment explanation
Indices: 21844994--21845086 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
21844984 ATGTGCCCAA
* *
21844994 ATAACATCAAATAGCCACAAAGGTGTTGTC
1 ATAACATCAGATAGCCACAAAGGTGTTCTC
* *
21845024 ATAACATCAGATAGCCACAAAGGTGTCCTT
1 ATAACATCAGATAGCCACAAAGGTGTTCTC
* *
21845054 ATAGCATCAGATAGACACAAAGGTGTTCTC
1 ATAACATCAGATAGCCACAAAGGTGTTCTC
21845084 ATA
1 ATA
21845087 TATTAGACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (30 bp):
ATAACATCAGATAGCCACAAAGGTGTTCTC
Found at i:21845029 original size:60 final size:60
Alignment explanation
Indices: 21844965--21845086 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
21844955 GGTGTCCATG
* * * * *
21844965 TAACATTAGATAGACATAAATGTGCCCAAATAACATCAAATAGCCACAAAGGTGTTGTCA
1 TAACATCAGATAGACACAAAGGTGCCCAAATAACATCAAATAGACACAAAGGTGTTCTCA
* * ** * *
21845025 TAACATCAGATAGCCACAAAGGTGTCCTTATAGCATCAGATAGACACAAAGGTGTTCTCA
1 TAACATCAGATAGACACAAAGGTGCCCAAATAACATCAAATAGACACAAAGGTGTTCTCA
21845085 TA
1 TA
21845087 TATTAGACTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (60 bp):
TAACATCAGATAGACACAAAGGTGCCCAAATAACATCAAATAGACACAAAGGTGTTCTCA
Found at i:21850556 original size:3 final size:3
Alignment explanation
Indices: 21850550--21850584 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21850540 TTCCATCTCC
21850550 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
21850585 CTTTTGTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:21854184 original size:41 final size:41
Alignment explanation
Indices: 21854123--21854347 Score: 213
Period size: 41 Copynumber: 5.5 Consensus size: 41
21854113 GAACTACATT
* * *
21854123 TACGTGCCCCTGTTTGTACTTCAGTATCCCTGAATTACACT
1 TACGTGCCCCTATTTGTACTTCAGTACCCCTGAATTACACA
* * * ** *
21854164 TACATGCCCATGTTTGTACTTTGGTACCCCTGAATTGCACA
1 TACGTGCCCCTATTTGTACTTCAGTACCCCTGAATTACACA
* * * *
21854205 TATGTGCCCCTATTTGTACTTC-GATACCCCTAAATTATAGA
1 TACGTGCCCCTATTTGTACTTCAG-TACCCCTGAATTACACA
* * *
21854246 TACGTGCCCCTATTTGTACTTCAGTACACCAGAATTGCACA
1 TACGTGCCCCTATTTGTACTTCAGTACCCCTGAATTACACA
* *
21854287 TATGTGGCCCC-ATTTGTACTTCAGTACCCTTGAA-TAGCACA
1 TACGT-GCCCCTATTTGTACTTCAGTACCCCTGAATTA-CACA
* * *
21854328 TCCGTGCCCCTGTTTATACT
1 TACGTGCCCCTATTTGTACT
21854348 CGGTAACTTC
Statistics
Matches: 147, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
40 7 0.05
41 134 0.91
42 6 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (41 bp):
TACGTGCCCCTATTTGTACTTCAGTACCCCTGAATTACACA
Found at i:21854334 original size:82 final size:81
Alignment explanation
Indices: 21854126--21854347 Score: 243
Period size: 82 Copynumber: 2.7 Consensus size: 81
21854116 CTACATTTAC
* * * * **
21854126 GTGCCCCTGTTTGTACTTCAGTATCCCTGAATTACACTTACATGCCCATGTTTGTACTTTGGTAC
1 GTGCCCCTATTTGTACTTCAGTA-CCCTGAATTACACATACGTGCCCCTGTTTGTACTTCAGTAC
* *
21854191 CCCTGAATTGCACATAT
65 ACCAGAATTGCACATAT
* * * *
21854208 GTGCCCCTATTTGTACTTC-GATACCCCTAAATTATAGATACGTGCCCCTATTTGTACTTCAGTA
1 GTGCCCCTATTTGTACTTCAG-TA-CCCTGAATTACACATACGTGCCCCTGTTTGTACTTCAGTA
21854272 CACCAGAATTGCACATAT
64 CACCAGAATTGCACATAT
* *
21854290 GTGGCCCC-ATTTGTACTTCAGTACCCTTGAA-TAGCACATCCGTGCCCCTGTTTATACT
1 GT-GCCCCTATTTGTACTTCAGTACCC-TGAATTA-CACATACGTGCCCCTGTTTGTACT
21854348 CGGTAACTTC
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
81 6 0.05
82 104 0.90
83 6 0.05
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (81 bp):
GTGCCCCTATTTGTACTTCAGTACCCTGAATTACACATACGTGCCCCTGTTTGTACTTCAGTACA
CCAGAATTGCACATAT
Found at i:21860123 original size:41 final size:41
Alignment explanation
Indices: 21860055--21860260 Score: 211
Period size: 41 Copynumber: 5.0 Consensus size: 41
21860045 ACTTCCTAGA
* * *
21860055 TGAATTGCAGTTACGTGCCTCTTTTTGTA-TTTCGATACCCC
1 TGAATTGCACTTACGTGCCCCTATTTGTACTTT-GATACCCC
* * * *
21860096 TGAATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACTTACGTGCCCCTATTTGTACTTTGATACCCC
* * *
21860137 TGAATTGCA-TATATGTGTCCCTATTTGTACTTTTG-TACCCT
1 TGAATTGCACT-TACGTGCCCCTATTTGTAC-TTTGATACCCC
* * * *
21860178 TGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCT
1 TGAATTGCACTTACGTGCCCCTATTTGTACTTTGATACCCC
* * *
21860219 TGAATCGTACATACGTGCCCCTATTTGTACTTTGATACCCC
1 TGAATTGCACTTACGTGCCCCTATTTGTACTTTGATACCCC
21860260 T
1 T
21860261 AAATACCACA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 5 0.04
41 131 0.93
42 5 0.04
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (41 bp):
TGAATTGCACTTACGTGCCCCTATTTGTACTTTGATACCCC
Found at i:21860271 original size:82 final size:82
Alignment explanation
Indices: 21860066--21860280 Score: 236
Period size: 82 Copynumber: 2.6 Consensus size: 82
21860056 GAATTGCAGT
* * * ** *
21860066 TACGTGCCTCTTTTTGTA-TTTCGATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
1 TACGTGCCCCTATTTGTACTTT-GATACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCG
* *
21860130 GTACCCCTGAATTGCATA
65 GTACCCCTGAATCGCACA
* * * *
21860148 TATGTGTCCCTATTTGTACTTTTG-TACCCTTGAATTGCACATATGTGCCCCTATTTGTACTTTG
1 TACGTGCCCCTATTTGTAC-TTTGATACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCG
* *
21860212 GTACCCTTGAATCGTACA
65 GTACCCCTGAATCGCACA
* ** *
21860230 TACGTGCCCCTATTTGTACTTTGATACCCCTAAATACCACATTTGTGCCCC
1 TACGTGCCCCTATTTGTACTTTGATACCCCTGAATTGCACATATGTGCCCC
21860281 CGTTTATACT
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
81 4 0.04
82 101 0.93
83 1 0.01
84 3 0.03
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (82 bp):
TACGTGCCCCTATTTGTACTTTGATACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCGG
TACCCCTGAATCGCACA
Found at i:21860278 original size:41 final size:41
Alignment explanation
Indices: 21860090--21860280 Score: 195
Period size: 41 Copynumber: 4.7 Consensus size: 41
21860080 TGTATTTCGA
* * ** * *
21860090 TACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCGG
1 TACCCCTGAATTCCACATATGTGCCCCTATTTGTACTTTGG
* * * *
21860131 TACCCCTGAATTGCATATATGTGTCCCTATTTGTACTTTTG
1 TACCCCTGAATTCCACATATGTGCCCCTATTTGTACTTTGG
* *
21860172 TACCCTTGAATTGCACATATGTGCCCCTATTTGTACTTTGG
1 TACCCCTGAATTCCACATATGTGCCCCTATTTGTACTTTGG
* * * *
21860213 TACCCTTGAA-TCGTACATACGTGCCCCTATTTGTACTTTGA
1 TACCCCTGAATTC-CACATATGTGCCCCTATTTGTACTTTGG
* * *
21860254 TACCCCTAAATACCACATTTGTGCCCC
1 TACCCCTGAATTCCACATATGTGCCCC
21860281 CGTTTATACT
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 124 0.98
42 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (41 bp):
TACCCCTGAATTCCACATATGTGCCCCTATTTGTACTTTGG
Found at i:21864067 original size:29 final size:29
Alignment explanation
Indices: 21864030--21864089 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
21864020 ACGATTCAAG
*
21864030 ATCAATATATTGGCATACTTAACATGCGA
1 ATCAATATAATGGCATACTTAACATGCGA
* * *
21864059 ATCAGTATAATGGCATGCTTAACATGTGA
1 ATCAATATAATGGCATACTTAACATGCGA
21864088 AT
1 AT
21864090 AAGAATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (29 bp):
ATCAATATAATGGCATACTTAACATGCGA
Found at i:21866125 original size:14 final size:13
Alignment explanation
Indices: 21866093--21866124 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21866083 AAGAGTTCGT
21866093 AAAAAATTCATGA
1 AAAAAATTCATGA
*
21866106 AAAAAATTCGTGA
1 AAAAAATTCATGA
21866119 AAAAAA
1 AAAAAA
21866125 AGATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAAAATTCATGA
Found at i:21867212 original size:28 final size:29
Alignment explanation
Indices: 21867155--21867212 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 29
21867145 AGATTAAGAC
*
21867155 TGAAAAAGAATGTGATCAAGAAAATAAAAT
1 TGAAAAAGAATGTGA-CAAGAAAAGAAAAT
*
21867185 TGAAAAAGAGA-GTGA-AAGAAAAGGAAAT
1 TGAAAAAGA-ATGTGACAAGAAAAGAAAAT
21867213 CGGCAAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 11 0.44
30 13 0.52
31 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.22, T:0.16
Consensus pattern (29 bp):
TGAAAAAGAATGTGACAAGAAAAGAAAAT
Found at i:21869644 original size:16 final size:16
Alignment explanation
Indices: 21869606--21869647 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21869596 ATATGGGAGC
* *
21869606 ATACATGAATGGCTGG
1 ATACATGGATGGCTAG
21869622 ATACATGGATGGCTAG
1 ATACATGGATGGCTAG
*
21869638 ATTCATGGAT
1 ATACATGGAT
21869648 ACGGCTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (16 bp):
ATACATGGATGGCTAG
Found at i:21877600 original size:17 final size:18
Alignment explanation
Indices: 21877567--21877600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21877557 CCATGTGGAC
21877567 TGCCCGTGTGAGCCCACA
1 TGCCCGTGTGAGCCCACA
*
21877585 TGCCTGTGTG-GCCCAC
1 TGCCCGTGTGAGCCCAC
21877601 TCGGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (18 bp):
TGCCCGTGTGAGCCCACA
Found at i:21884638 original size:16 final size:16
Alignment explanation
Indices: 21884617--21884648 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21884607 GTTTTCTTGC
*
21884617 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21884633 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21884649 CTTTCAATCA
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:21884941 original size:51 final size:51
Alignment explanation
Indices: 21884876--21885066 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 51
21884866 CGAGTTCACA
* * *
21884876 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCAATACACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGTACACT
* * * * * *
21884927 TATTAGCCTGCACATAGTAATATACACGTGATCGA--AGCTATCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCAGTACACT
* * *
21884978 TAGTAGCCTGCACATAGTACAACACATGCGACCTATCA-T-T-CAGGTACA-T
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCA-GTACACT
21885027 GTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 -TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21885067 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 21, Indels: 17
0.74 0.14 0.11
Matches are distributed among these distances:
49 5 0.05
50 39 0.35
51 64 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGTACACT
Found at i:21885082 original size:101 final size:102
Alignment explanation
Indices: 21884869--21885058 Score: 244
Period size: 102 Copynumber: 1.9 Consensus size: 102
21884859 AATTATACGA
* * *
21884869 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCAATACACTTATTAGC
1 GTTCACATAGTAGCCTACACATAGTACAACACATGCGACCATCACTATCCAATACACTTAGTAGC
* *
21884934 CTGCACATAGTAATATACACGTGATCGAAGCTATCCG
66 CTGCACATAGTAATACACACGTGATCCAAGCTATCCG
* * *
21884971 GTACACATAGTAGCCTGCACATAGTACAACACATGCGACCTATCA-T-T-CAGGTACA-TGTAGT
1 GTTCACATAGTAGCCTACACATAGTACAACACATGCGACC-ATCACTATCCA-ATACACT-TAGT
*
21885032 AGCCTGCACATAGTACTACACACGTGA
63 AGCCTGCACATAGTAATACACACGTGA
21885059 CCATCACTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
100 3 0.04
101 33 0.43
102 37 0.48
103 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACAACACATGCGACCATCACTATCCAATACACTTAGTAGC
CTGCACATAGTAATACACACGTGATCCAAGCTATCCG
Found at i:21891063 original size:11 final size:11
Alignment explanation
Indices: 21891019--21891086 Score: 77
Period size: 11 Copynumber: 6.2 Consensus size: 11
21891009 TAAATCCTTT
*
21891019 CTCTC-AATTT
1 CTCTCAAATTC
21891029 CTCTCTAATATT-
1 CTCTC-AA-ATTC
21891041 CTCTCAAATTC
1 CTCTCAAATTC
* *
21891052 CTGTCAATTTC
1 CTCTCAAATTC
21891063 CTCTCAAATTC
1 CTCTCAAATTC
21891074 CTCTCAAATTC
1 CTCTCAAATTC
21891085 CT
1 CT
21891087 ACTTAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
10 8 0.16
11 33 0.66
12 6 0.12
13 3 0.06
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:21891078 original size:33 final size:33
Alignment explanation
Indices: 21891022--21891086 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
21891012 ATCCTTTCTC
21891022 TCAATTTCTCTCTAATATTCTCTCAAATTCCTG
1 TCAATTTCTCTCTAATATTCTCTCAAATTCCTG
21891055 TCAATTTC-CTCTCAA-ATTCCTCTCAAATTCCT
1 TCAATTTCTCTCT-AATATT-CTCTCAAATTCCT
21891087 ACTTAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.43
Consensus pattern (33 bp):
TCAATTTCTCTCTAATATTCTCTCAAATTCCTG
Found at i:21891293 original size:15 final size:16
Alignment explanation
Indices: 21891273--21891303 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21891263 TTTTTAAATA
21891273 TTATTTATG-AATTTT
1 TTATTTATGCAATTTT
21891288 TTATTTATGCAATTTT
1 TTATTTATGCAATTTT
21891304 AAATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATTTATGCAATTTT
Found at i:21896837 original size:126 final size:126
Alignment explanation
Indices: 21896612--21897025 Score: 711
Period size: 126 Copynumber: 3.3 Consensus size: 126
21896602 CCAAACATGC
** * *
21896612 GCTACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCT
* *
21896677 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
* * *
21896738 GCTACTATAGCAAAAGCGCATCTACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCT
*
21896803 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAAGTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
*
21896864 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCT
*
21896929 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTAATTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
*
21896990 GCTACTGTAGCAAAAGTGCATCCACGTGGGAGCTTC
1 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTC
21897026 CTTAAATTAA
Statistics
Matches: 271, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 271 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
Found at i:21897220 original size:96 final size:94
Alignment explanation
Indices: 21897061--21897340 Score: 305
Period size: 96 Copynumber: 2.9 Consensus size: 94
21897051 AGTAACCCTA
* *
21897061 AACCCAAAACCCTAATTTATTTGAGTTCTTACTTAAAAACCC-TAACCATTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTTAACC--TAAACCCTAATCTAA
*
21897125 TTTTATAAAAAGTTATAATTAATTTACTCAAGT
63 TTTT-TAAAAAATTATAATTAATTTACTCAAGT
* * *
21897158 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAGAAACCCTTAACTCTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTTAAC-CTAAACCCTAATCTAA-T
*
21897223 TTTTAAAAAAATT-TAATTAAATTACTCAAGT
64 TTTT-AAAAAATTATAATTAATTTACTCAAGT
* * * ** * * *
21897254 AACCCTAAACCCTAATTTAATTAATTTTTTCTTAAAAACAATAAACACGAAA-CCTAATCCAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTTAAC-CTAAACCCTAATCTAATT
* **
21897318 TTGAAAATTTTATAATTAATTTA
65 TTTAAAAAATTATAATTAATTTA
21897341 ATTGACAAAC
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
93 6 0.04
94 14 0.09
95 9 0.06
96 89 0.57
97 37 0.24
98 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.37
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTTAACCTAAACCCTAATCTAATTT
TTAAAAAATTATAATTAATTTACTCAAGT
Found at i:21898558 original size:23 final size:20
Alignment explanation
Indices: 21898501--21898558 Score: 53
Period size: 26 Copynumber: 2.6 Consensus size: 20
21898491 AATTAGCTAT
*
21898501 TTTGGATATTTTCTGCTTGA
1 TTTGGATATTTTCTGCTTCA
21898521 TTTGGATGATGTTTTCATGACTTTCA
1 TTTGGAT-A--TTTTC-TG-C-TTCA
21898547 TTTGGATATTTT
1 TTTGGATATTTT
21898559 ATCTTGCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
23 9 0.29
24 2 0.06
25 2 0.06
26 10 0.32
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (20 bp):
TTTGGATATTTTCTGCTTCA
Found at i:21907013 original size:106 final size:106
Alignment explanation
Indices: 21906820--21907344 Score: 838
Period size: 107 Copynumber: 4.9 Consensus size: 106
21906810 AAGGAAAATT
21906820 TTTCTAAA-TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTC-AAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
21906884 TTGATTTCTAGTTCGACCAAATAGCCAAATATCCTTATAAAA
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTATAAAA
*
21906926 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21906991 CGATTTCTCGTTCAACCAAATAGCCAAATATCCTTCTAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTATAAAA
*
21907032 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21907097 CGATTTTTTCATTCGACCAAATAGCCAAATATCC-TATTAAAA
66 CGA-TTTCTCGTTCGACCAAATAGCCAAATATCCTTA-TAAAA
* * *
21907139 TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21907204 CGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGA-TTTCTCGTTCGACCAAATAGCCAAATATCCTTATAAAA
* * *
21907246 TTTCAAACTAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21907311 CGATTTCTCGTTTGACCAAATTGCCAAATATCCT
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCT
21907345 CTTAAATCTC
Statistics
Matches: 390, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
105 3 0.01
106 192 0.49
107 194 0.50
108 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (106 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTATAAAA
Found at i:21907172 original size:107 final size:105
Alignment explanation
Indices: 21906820--21907350 Score: 837
Period size: 106 Copynumber: 5.0 Consensus size: 105
21906810 AAGGAAAATT
*
21906820 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21906885 TGATTTCTAGTTCGACCAAATAGCCAAATATCCTTATAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTT-TAAAA
* *
21906926 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
21906991 CGATTTCTCGTTCAACCAAATAGCCAAATATCCTTCTAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTT-TAAAA
* *
21907032 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21907097 CGATTTTTTCATTCGACCAAATAGCCAAATATCCTATTAAAA
66 CGA-TTTCTCGTTCGACCAAATAGCCAAATATCCT-TTAAAA
* *
21907139 TTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
21907204 CGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGA-TTTCTCGTTCGACCAAATAGCCAAATATCC-TTTAAAA
* * *
21907246 TTTCAAACTAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21907311 CGATTTCTCGTTTGACCAAATTGCCAAATATCCTCTTAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCT-TTAAA
21907351 TCTCAATCCA
Statistics
Matches: 396, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
105 1 0.00
106 197 0.50
107 196 0.49
108 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (105 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTAAAA
Found at i:21907203 original size:213 final size:211
Alignment explanation
Indices: 21906820--21907350 Score: 841
Period size: 213 Copynumber: 2.5 Consensus size: 211
21906810 AAGGAAAATT
21906820 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTC-AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
21906885 TGATTTCT-AGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAGTAAGGCAATATTTTG
65 CGATTTCTCA-TTCGACCAAATAGCCAAATATCCTT-TAAAATTTCAAAATAAGGCAATATTTTG
*
21906949 CGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTCTCGTTCAACCAAATA
128 CGTTTAGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATA
21907013 GCCAAATATCCTTCTAAAA
193 GCCAAATATCCTTCTAAAA
*
21907032 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAA-TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
21907097 CGATTTTTTCATTCGACCAAATAGCCAAATATCCTATTAAAATTTCAAAATAAGGCAATATTTTG
65 CGA-TTTCTCATTCGACCAAATAGCCAAATATCCT-TTAAAATTTCAAAATAAGGCAATATTTTG
* * * *
21907162 CGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTTCGTTCGACCAAATA
128 CGTTTAGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATA
*
21907227 GCCAAATATCCTTTTAAAA
193 GCCAAATATCCTTCTAAAA
* *
21907246 TTTCAAACTAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAA-TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
21907311 CGATTTCTCGTTTGACCAAATTGCCAAATATCCTCTTAAA
65 CGATTTCTCATTCGACCAAATAGCCAAATATCCT-TTAAA
21907351 TCTCAATCCA
Statistics
Matches: 295, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
211 3 0.01
212 62 0.21
213 129 0.44
214 101 0.34
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (211 bp):
TTTCAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
GATTTCTCATTCGACCAAATAGCCAAATATCCTTTAAAATTTCAAAATAAGGCAATATTTTGCGT
TTAGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATAGCC
AAATATCCTTCTAAAA
Found at i:21909000 original size:50 final size:51
Alignment explanation
Indices: 21908823--21909010 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 51
21908813 TGCCTATAAA
* * * * *
21908823 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGAT-TTGGT
* * * *
21908874 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGTTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGATTTGGT
* * *
21908925 CACGTGTGTAGTGCTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGATTTGGT
*
21908975 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
21909011 TCGAATGATA
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 38 0.32
51 76 0.64
52 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGATTTGGT
Found at i:21909003 original size:101 final size:102
Alignment explanation
Indices: 21908823--21909010 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 102
21908813 TGCCTATAAA
* * * *
21908823 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTAC
1 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
* *
21908888 TATGTGCAGGCTACTATGTGTACCGGAAGGTTTTGGT
66 TATGTGAAGGCTACTACGTGTACCGGAAGGTTTTGGT
* * * * *
21908925 CACGTGTGTAGTGCTATGTGCAGGCTACTACGTGAACCGGAAAG-T-TTGATCACGTGTGTAGTA
1 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGAACC-GAAAGATAATGATCACATGTGTAGTA
21908988 CTATGTGAAGGCTACTACGTGTA
65 CTATGTGAAGGCTACTACGTGTA
21909011 TCGAATGATA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 36 0.49
102 34 0.46
103 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (102 bp):
CACGTGTATAGTACTAAGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
TATGTGAAGGCTACTACGTGTACCGGAAGGTTTTGGT
Found at i:21923701 original size:2 final size:2
Alignment explanation
Indices: 21923694--21923721 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21923684 GCAACCAAAA
21923694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21923722 TTAAATCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21926978 original size:21 final size:21
Alignment explanation
Indices: 21926940--21926979 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21926930 TTTATTAGTT
*
21926940 TTAAATATTATCTGATAAAGA
1 TTAAATATTATCTCATAAAGA
21926961 TTAAAGTATTAT-TCATAAA
1 TTAAA-TATTATCTCATAAA
21926980 TATTTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (21 bp):
TTAAATATTATCTCATAAAGA
Found at i:21927804 original size:22 final size:22
Alignment explanation
Indices: 21927746--21927787 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21927736 ATTTACACAT
* *
21927746 AATATATAAACTAAAATTAAAA
1 AATATAAAAATTAAAATTAAAA
21927768 AATATAAAAATTAAAATTAA
1 AATATAAAAATTAAAATTAA
21927788 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AATATAAAAATTAAAATTAAAA
Found at i:21932080 original size:23 final size:22
Alignment explanation
Indices: 21932054--21932096 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
21932044 AAATGGTTTA
21932054 TTTA-CCATTTAAGTCCATTTACT
1 TTTATCCA-TTAAG-CCATTTACT
*
21932077 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
21932097 ATCATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACT
Found at i:21933449 original size:32 final size:32
Alignment explanation
Indices: 21933413--21933484 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
21933403 AAGAGTCTTC
* * *
21933413 GGTGTGAACACTTGGATTTGGACGATCTTTTA
1 GGTGTGAACACTAGGAATTGGACGATCTATTA
*
21933445 GGTGTGAACACTAGGAATTGGACGGTCTATTA
1 GGTGTGAACACTAGGAATTGGACGATCTATTA
21933477 -GTGTGAAC
1 GGTGTGAAC
21933485 GAAAGTAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.32
Consensus pattern (32 bp):
GGTGTGAACACTAGGAATTGGACGATCTATTA
Found at i:21937735 original size:17 final size:16
Alignment explanation
Indices: 21937693--21937735 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
21937683 AGATTGAAAT
*
21937693 GAATTAAAAAAAGTTC
1 GAATAAAAAAAAGTTC
*
21937709 GATTAAAAAAAAGTTTC
1 GAATAAAAAAAAG-TTC
21937726 GAATACAAAA
1 GAATA-AAAA
21937736 TTGGGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 7 0.32
18 4 0.18
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (16 bp):
GAATAAAAAAAAGTTC
Found at i:21939923 original size:36 final size:34
Alignment explanation
Indices: 21939859--21939942 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 34
21939849 ATGAAAAGAT
* *
21939859 GAGAGGAAAGAAAAGTGAAAAAGAAAAAGCAAAGAA
1 GAGAAGAAAGAAAATTGAAAAAGAAAAAG-AAA-AA
*
21939895 TGAGAA-AAAGAAAATTGAAATACG-AAAAGAAAAA
1 -GAGAAGAAAGAAAATTGAAA-AAGAAAAAGAAAAA
21939929 GAGAAGAAA-AAAAT
1 GAGAAGAAAGAAAAT
21939943 AGTGAACTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
33 10 0.24
34 5 0.12
35 3 0.07
36 18 0.43
37 6 0.14
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (34 bp):
GAGAAGAAAGAAAATTGAAAAAGAAAAAGAAAAA
Found at i:21943542 original size:19 final size:20
Alignment explanation
Indices: 21943508--21943552 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
21943498 AAACGCAACT
21943508 AAAATTAATAAAAAATGAAAC
1 AAAA-TAATAAAAAATGAAAC
21943529 AAAATAAT-AAAAATGAAAC
1 AAAATAATAAAAAATGAAAC
21943548 AAAAT
1 AAAAT
21943553 TTAAAACAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 16 0.67
20 4 0.17
21 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAATAATAAAAAATGAAAC
Found at i:21943565 original size:19 final size:19
Alignment explanation
Indices: 21943508--21943565 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
21943498 AAACGCAACT
*
21943508 AAAATTAATAAAAAATGAAAC
1 AAAA-TAAT-AAAAAGGAAAC
*
21943529 AAAATAATAAAAATGAAAC
1 AAAATAATAAAAAGGAAAC
*
21943548 AAAAT-TTAAAACAGGAAA
1 AAAATAATAAAA-AGGAAA
21943566 TAGAAGTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.15
19 21 0.62
20 4 0.12
21 4 0.12
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAATAATAAAAAGGAAAC
Found at i:21951940 original size:50 final size:50
Alignment explanation
Indices: 21951882--21952124 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
21951872 ATTTGGGTAA
*
21951882 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
*
21951932 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
21951982 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** * * * * *
21952032 AGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** *
21952082 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
21952125 TGTTATTATC
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 142 0.81
51 33 0.19
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
Found at i:21953913 original size:3 final size:3
Alignment explanation
Indices: 21953905--21953937 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21953895 ATTTTTAACT
21953905 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21953938 AGGTTTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21958794 original size:6 final size:6
Alignment explanation
Indices: 21958783--21958816 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
21958773 AATTTAAAAA
21958783 AAAATC AAAATC AAAATC AAAATC AGAAA-C AAAA
1 AAAATC AAAATC AAAATC AAAATC A-AAATC AAAA
21958817 GAAGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.11
6 21 0.78
7 3 0.11
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:21958884 original size:22 final size:20
Alignment explanation
Indices: 21958846--21958901 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 20
21958836 AGTCAAAGTC
* *
21958846 AAAATGAAAATGAAAAAAGAG
1 AAAAAGAAAAGGAAAAAAG-G
*
21958867 AGAAAGAAAAAAGGAAAAAAGG
1 A-AAA-AGAAAAGGAAAAAAGG
21958889 AAAAAGAAAAGGA
1 AAAAAGAAAAGGA
21958902 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 5 0.17
23 12 0.41
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAGGAAAAAAGG
Found at i:21961240 original size:44 final size:44
Alignment explanation
Indices: 21961132--21961732 Score: 336
Period size: 44 Copynumber: 13.7 Consensus size: 44
21961122 AGTGAGCAGG
* * * *
21961132 TCTTATC-CCACTGAAGTGGCAGTGGGGCAGATCGAAGATGGCA-AA
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAG-TCG-ATAA
* * * *
21961177 TCTTAACTCCCTGAGGTTGTAGTGGAGCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
* * * * * *
21961221 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAAT-AATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATA-A
* * ** * * **
21961265 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TC-A-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
* * * * **
21961306 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTG-AGTAAGCA-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-CG-ATAA
* * * * **
21961350 TCTTATCCCCCTGAAGTGGCAGTGGGGCAAATCAAAGAT-GATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCGAT-AA
* * * *
21961395 GCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTGAAGACGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
* * * * *
21961439 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT-AATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATA-A
* * ** * * *
21961483 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TC-A-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
* * * * *
21961524 TCTTATCTCTCTGAGGTTGCAGTGGAACAGACTG-AGT-AAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGA-TA-A
* * * * *
21961568 TCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAGATGGCA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCG-ATAA
21961613 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
* * * * * *
21961657 TCCTATCTCCCTGAAGTTGTAGTGGAACGGATTAAAGTAG-TAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATA-A
* * *
21961701 TCTTATCTCTCTGAAGTTGCAATAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
21961733 CGCATCAAGT
Statistics
Matches: 421, Mismatches: 109, Indels: 53
0.72 0.19 0.09
Matches are distributed among these distances:
40 2 0.00
41 57 0.14
43 15 0.04
44 244 0.58
45 97 0.23
46 5 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA
Found at i:21961421 original size:218 final size:218
Alignment explanation
Indices: 21961040--21961745 Score: 1135
Period size: 218 Copynumber: 3.2 Consensus size: 218
21961030 ATTAGTGAAT
*
21961040 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTC-TATCTCCCTAAGG
1 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
* * *
21961104 TTGCAGTGGAGTAGACTGAGTGAGCAGGTCTTATCCCACTGAAGTGGCAGTGGGGCAGATCGAAG
66 TTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAG
* * *
21961169 ATGGCAAATCTTAACTCCCTGAGGTTGTAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTG
131 ATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTG
21961234 AAGTTGTAGTGGAGCGGATTAAA
196 AAGTTGTAGTGGAGCGGATTAAA
*
21961257 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGG
1 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
* * *
21961322 TTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTGGCAGTGGGGCAAATCAAAG
66 TTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAG
** * *
21961387 ATGATAAAGCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTG
131 ATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTG
21961452 AAGTTGTAGTGGAGCGGATTAAA
196 AAGTTGTAGTGGAGCGGATTAAA
* * * *
21961475 GTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGATCTTATCTCTCTGAGG
1 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
* * *
21961540 TTGCAGTGGAACAGACTGAGTAAGTAGATCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAG
66 TTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAG
* *
21961605 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTG
131 ATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTG
*
21961670 AAGTTGTAGTGGAACGGATTAAA
196 AAGTTGTAGTGGAGCGGATTAAA
* * * * *
21961693 GTAGTAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCAAGTCTT
1 ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTT
21961746 GCCCACTAAA
Statistics
Matches: 451, Mismatches: 37, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
217 50 0.11
218 401 0.89
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (218 bp):
ATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
TTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAG
ATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTG
AAGTTGTAGTGGAGCGGATTAAA
Found at i:21963284 original size:3 final size:3
Alignment explanation
Indices: 21963276--21963347 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
21963266 ATTTTTAACT
* * *
21963276 TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21963324 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
21963348 AGGTTTGTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21966574 original size:22 final size:22
Alignment explanation
Indices: 21966549--21966688 Score: 199
Period size: 22 Copynumber: 6.4 Consensus size: 22
21966539 TGTTAAAAGA
*
21966549 ACTAAGCTCTCATGTTTCACGT
1 ACTAAGCTCTCATGTTTAACGT
21966571 ACTAAGCTCTCATGTTTAACGT
1 ACTAAGCTCTCATGTTTAACGT
*
21966593 ACTAAGCTCTCATGTTTAACGA
1 ACTAAGCTCTCATGTTTAACGT
* * **
21966615 ACTAAACCCTCATGGCTAACGT
1 ACTAAGCTCTCATGTTTAACGT
**
21966637 ACTAAGCTCTCATGGCTAACGT
1 ACTAAGCTCTCATGTTTAACGT
*
21966659 ACTAAGCTCTCATGTTTCACGT
1 ACTAAGCTCTCATGTTTAACGT
21966681 ACTAAGCT
1 ACTAAGCT
21966689 GTAGAAGCAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 106 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (22 bp):
ACTAAGCTCTCATGTTTAACGT
Found at i:21971729 original size:50 final size:50
Alignment explanation
Indices: 21971659--21971844 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 50
21971649 ATTTGGGTAA
* *
21971659 AGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
21971709 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
21971759 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
21971809 AGAACATCTCATGTAAGACCATGTCTAGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
21971845 TTTGTCATGT
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 91 0.77
51 27 0.23
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:21979298 original size:30 final size:30
Alignment explanation
Indices: 21979263--21979322 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
21979253 TAGTTGATTA
* *
21979263 CTTAGTTAATTCTTAGTTATCGGATCACCT
1 CTTAGTTAATTATTAGTTATCAGATCACCT
*
21979293 CTTAGTTAATTATTAGTTATTAGATCACCT
1 CTTAGTTAATTATTAGTTATCAGATCACCT
21979323 TTTTCAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.45
Consensus pattern (30 bp):
CTTAGTTAATTATTAGTTATCAGATCACCT
Found at i:21983272 original size:49 final size:50
Alignment explanation
Indices: 21983208--21983495 Score: 316
Period size: 51 Copynumber: 5.7 Consensus size: 50
21983198 TATCATTCGA
*
21983208 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
*
21983257 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
* *
21983307 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGG
* * * * * * * *
21983358 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTA-CGG
* * * *
21983409 TACACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCCTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGG
* *
21983460 TACACATAGTAGCCTTCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
21983496 TTCATTGACA
Statistics
Matches: 201, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
49 41 0.20
50 46 0.23
51 106 0.53
52 5 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
Found at i:21983444 original size:102 final size:102
Alignment explanation
Indices: 21983205--21983494 Score: 367
Period size: 102 Copynumber: 2.9 Consensus size: 102
21983195 TTTTATCATT
* * * *
21983205 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * *
21983267 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC
65 AGCCTTCACTTAGTACTACACACGTAACCAAGTTTTAC
* * * * *
21983305 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
*
21983369 GCCTTCACTTAGTACTACACATGTAACCATAG-TTTAC
66 GCCTTCACTTAGTACTACACACGTAACCA-AGTTTTAC
* * *
21983406 CGATACACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCCTTTCGGTACACATAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
21983470 AGCCTTCACTTAGTACTACACACGT
65 AGCCTTCACTTAGTACTACACACGT
21983495 GTTCATTGAC
Statistics
Matches: 162, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
99 35 0.22
100 2 0.01
101 44 0.27
102 81 0.50
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACACGTAACCAAGTTTTAC
Found at i:21985523 original size:31 final size:31
Alignment explanation
Indices: 21985462--21985529 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
21985452 ACGGTGAGTA
* *
21985462 ACTAAAATGATAAAAGTATGTTCTAGTAGTG
1 ACTAAAATGATAAAAGTATGTACGAGTAGTG
*
21985493 ACTAAAATGGTAAAAGTATGTAACGA-TAGTG
1 ACTAAAATGATAAAAGTATGT-ACGAGTAGTG
*
21985524 TCTAAA
1 ACTAAA
21985530 TAACAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTAAAATGATAAAAGTATGTACGAGTAGTG
Found at i:21990865 original size:2 final size:2
Alignment explanation
Indices: 21990858--21990888 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21990848 AACACTATGA
21990858 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21990889 TCCATCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21993969 original size:22 final size:22
Alignment explanation
Indices: 21993944--21993985 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
21993934 ACCAAATAAT
21993944 AAACCAAATCAAAAAA-ATTAAA
1 AAACCAAAT-AAAAAATATTAAA
21993966 AAACCAAATAAAAAATATTA
1 AAACCAAATAAAAAATATTA
21993986 TATAAAAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACCAAATAAAAAATATTAAA
Found at i:21993979 original size:12 final size:12
Alignment explanation
Indices: 21993933--21993980 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
21993923 CCGGGCCCAC
*
21993933 AACCAAATAATA
1 AACCAAATAAAA
*
21993945 AACCAAATCAAA
1 AACCAAATAAAA
*
21993957 AA--AATTAAAA
1 AACCAAATAAAA
21993967 AACCAAATAAAA
1 AACCAAATAAAA
21993979 AA
1 AA
21993981 TATTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
10 8 0.28
12 21 0.72
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
AACCAAATAAAA
Found at i:21997381 original size:21 final size:21
Alignment explanation
Indices: 21997355--21997400 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
21997345 TGTTTTGATA
21997355 GCATGGCATTATGATTGCATT
1 GCATGGCATTATGATTGCATT
21997376 GCATGGCATTATGATTGCATT
1 GCATGGCATTATGATTGCATT
21997397 GCAT
1 GCAT
21997401 TTTCATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (21 bp):
GCATGGCATTATGATTGCATT
Found at i:22000763 original size:12 final size:12
Alignment explanation
Indices: 22000746--22000787 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
22000736 TCAGATCCAA
22000746 TCAAAAAATATT
1 TCAAAAAATATT
*
22000758 TCAAAAAA-AAT
1 TCAAAAAATATT
*
22000769 T-AGAAAATATT
1 TCAAAAAATATT
22000780 TCAAAAAA
1 TCAAAAAA
22000788 ATGAAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.21
11 6 0.25
12 13 0.54
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (12 bp):
TCAAAAAATATT
Found at i:22001806 original size:43 final size:43
Alignment explanation
Indices: 22001742--22001836 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
22001732 TACTTTGCAT
* * *
22001742 AAAAAAAGACTAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCC
1 AAAAAAA-ACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
* * **
22001786 AAAAAAAACCAAGGTAAAAACCCGCAAAGGGTACTTTGAGTTT
1 AAAAAAAACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
22001829 AAAAAAAA
1 AAAAAAAA
22001837 AGGTAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 37 0.84
44 7 0.16
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (43 bp):
AAAAAAAACCAAGGTAAAAACCCGCAAAGGGCACCTTGAGTCC
Found at i:22003102 original size:48 final size:46
Alignment explanation
Indices: 22003031--22003150 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 46
22003021 AAACCACAAA
* * * * * *
22003031 TCTTATACCACTGAAGTTGCAGTGGAATAGACTGAAGAGAATGTCGAA-
1 TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGA-AAAG-C-AAG
* *
22003079 TCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGAAAAGCAAG
1 TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGAAAAGCAAG
22003125 TCTTATCCCCCTGAAGTTACAGTGGA
1 TCTTATCCCCCTGAAGTTACAGTGGA
22003151 GCAGATTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 26 0.42
47 3 0.05
48 31 0.50
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (46 bp):
TCTTATCCCCCTGAAGTTACAGTGGAACAAACTGAAGAAAAGCAAG
Found at i:22003196 original size:44 final size:43
Alignment explanation
Indices: 22003077--22003509 Score: 218
Period size: 44 Copynumber: 9.8 Consensus size: 43
22003067 GAGAATGTCG
* * * * **
22003077 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * *
22003120 GCAAGTCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAA
1 --AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * * *
22003166 TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTGACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-A
* ** *
22003211 AGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTT-AAGAT-AGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAG-TCA--A
* * *
22003256 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-------TCA-A
* ** * * * * *
22003307 GATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TCATGGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * *
22003348 AATCTTATCTCCTTGAAGTTGTAGT---GTAGATTAAAGTCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
* * * *** *
22003388 TAATCCTATCTCCTTGAAGTTGTAGTGGAATGGATTAAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-A
* * * *
22003433 AGTCTTATCT-CCTAGAAGTTGCAATGGAGCAGATTGAAG-AAA
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGTCAA
*
22003475 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
22003510 CTGAAAAAAG
Statistics
Matches: 304, Mismatches: 60, Indels: 49
0.74 0.15 0.12
Matches are distributed among these distances:
38 5 0.02
39 4 0.01
40 1 0.00
41 47 0.15
42 1 0.00
43 4 0.01
44 130 0.43
45 45 0.15
46 35 0.12
50 3 0.01
51 28 0.09
52 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA
Found at i:22003552 original size:45 final size:44
Alignment explanation
Indices: 22003431--22003545 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
22003421 ATTAAAGTTA
* * *
22003431 CAAGTCTTATCTCCTAGAAGTTGCAATGGAGCAGATTGAAGAAAC
1 CAAGTCTTATCTCCT-GAAGTTGCAGTGGAGCAGACTGAAAAAAC
* *
22003476 CAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAG
1 CAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAAAAAC
22003520 CAAGTCTTATCCTCCTGAAGTTGCAG
1 CAAGTCTTAT-CTCCTGAAGTTGCAG
22003546 CAGAGCAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 35 0.57
45 24 0.39
46 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
CAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAC
Found at i:22003605 original size:222 final size:222
Alignment explanation
Indices: 22003119--22003554 Score: 480
Period size: 222 Copynumber: 2.0 Consensus size: 222
22003109 ACTGAAGAAA
* * *
22003119 AGCAAGTCTTATCCCCCT-GAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGA
1 AGCAAATCTTAT-CTCCTGGAAGTTGCAGTGGA-CAGATTAAAGCCAATAATCCTATCTCCCTGA
* * *
22003183 AGTTGTAGTGGAGCGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTTA
64 AGTTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTTA
* * * * * * *
22003248 AGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATCACAGATCTT
129 AGATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAA-C-ATAAAGCACAGATCTT
* * * *
22003313 ATCTCTTTGAAGTTGCAGTAGAGTAGATCAT
192 ATCTCTCTGAAGTTGCAGCAGAGCAAATCAT
* * * * * *
22003344 GGCAAATCTTATCTCCTTGAAGTTGTAGT-G-TAGATTAAAGTCAATAATCCTATCTCCTTGAAG
1 AGCAAATCTTATCTCCTGGAAGTTGCAGTGGACAGATTAAAGCCAATAATCCTATCTCCCTGAAG
* * *
22003407 TTGTAGTGGAATGGATTAAAGTTACAAGTCTTATCT-CCTAGAAGTTGCAATGGAGCAGA-TTGA
66 TTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCT-GAAGTTGCAATGGAACAGACTT-A
* *
22003470 AGA-AACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-A-AAAGCA-AG-TCTTAT
129 AGATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACATAAAGCACAGATCTTAT
22003530 C-CTCCTGAAGTTGCAGCAGAGCAAA
194 CTCT-CTGAAGTTGCAGCAGAGCAAA
22003555 CTAAAGATAG
Statistics
Matches: 180, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
214 2 0.01
215 24 0.13
216 2 0.01
217 5 0.03
218 1 0.01
221 39 0.22
222 83 0.46
224 5 0.03
225 19 0.11
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (222 bp):
AGCAAATCTTATCTCCTGGAAGTTGCAGTGGACAGATTAAAGCCAATAATCCTATCTCCCTGAAG
TTGTAGTGGAACGGATTAAAGTGACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTTAAG
ATAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTAAACATAAAGCACAGATCTTATCT
CTCTGAAGTTGCAGCAGAGCAAATCAT
Found at i:22003746 original size:143 final size:142
Alignment explanation
Indices: 22003482--22004178 Score: 898
Period size: 143 Copynumber: 4.9 Consensus size: 142
22003472 AAACCAATCC
* * *** * *
22003482 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAAGCAAGTCTTATC-CTCCTGAAGTTGCAG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTC-CCTGAAGTTGCAG
* * * * * * * *
22003546 CAGAGCAAACTAAAGATAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTATA
64 CGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCTACA
22003611 AATTATGGCAGATCT
128 AATTATGGCAGATCT
* *
22003626 TATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCG
**
22003691 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTATAGTAGAACAAATTAAAGCTACAAA
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCTACAAA
**
22003756 TTATGGTGGATCT
130 TTATGGCAGATCT
* *
22003769 TATCTTTCTAAAGTTGCAGT-GAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCG
* *
22003833 AAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGATTAAAGCTACAAA
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTG-AACAAATTAAAGCTACAAA
22003898 TTATGGCAGATCT
130 TTATGGCAGATCT
* * * *
22003911 TATCTTCCT-ACAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTATCTCCCTAAAGTTGCAGC
1 TATCTTCCTGA-AGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
* * *
22003975 GGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAACAAATTAAATCTACGA
65 GGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTG-AACAAATTAAAGCTACAA
*
22004040 GTTATGGC-GAATCT
129 ATTATGGCAG-ATCT
* * * ** * *
22004054 TATCTTCCTGAAGTTGTAGTGAAACAGATTGAAGCCATTAGCTTTATCTCCCTGAAGTTGCAGTG
1 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCG
* * *
22004119 GAACAGACTGAAGACAGCGAATCTTATTTCCCCGGTGTTGCAGTGGAACAAATTAAAGCT
66 GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGT-GAACAAATTAAAGCT
22004179 GAAGGCAGTG
Statistics
Matches: 489, Mismatches: 57, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
141 2 0.00
142 131 0.27
143 322 0.66
144 34 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (142 bp):
TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCG
GAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAACAAATTAAAGCTACAAAT
TATGGCAGATCT
Found at i:22004056 original size:285 final size:286
Alignment explanation
Indices: 22003525--22004178 Score: 933
Period size: 285 Copynumber: 2.3 Consensus size: 286
22003515 AAAAGCAAGT
* * * * *
22003525 CTTATC-CTCCTGAAGTTGCAGC-AGAGCAAACTAAAGATAGTGAATCTTATTTCCCTGGCATTG
1 CTTATCTC-CCTGAAGTTGCAGCGA-AGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTG
*
22003588 CAGTGGAACAGATTAAAGCTATAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAG
64 CAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAG
* * *
22003653 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTAT
129 ATTAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTAT
* * * *
22003718 TTCCCTGGCGTTATAGTAGAACAAATTAAAGCTACAAATTATGGTGGATCTTATCTTTCTAAAGT
194 TTCCCTGGCGTTACAGTAGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGT
*
22003783 TGCAGTG-AGCAGATTGAAGCCACCAGC
259 TGCAGTGAAACAGATTGAAGCCACCAGC
22003810 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
* * *
22003875 GTGAAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCT-ACAGTTGCAGTGGAGTAGA
66 GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGA-AGTTACAGTGGAGCAGA
* *
22003939 TTAAAGCCATCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTATT
130 TTAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATT
* * * * *
22004004 TCCCTGGCGTTGCAGT-GAAACAAATTAAATCTACGAGTTATGGCGAATCTTATCTTCCTGAAGT
195 TCCCTGGCGTTACAGTAG-AACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGT
* **
22004068 TGTAGTGAAACAGATTGAAGCCATTAGC
259 TGCAGTGAAACAGATTGAAGCCACCAGC
* * * *
22004096 TTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTGAAGACAGCGAATCTTATTTCCCCGGTGTTGC
1 CTTATCTCCCTGAAGTTGCAG-CGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGC
*
22004160 AGTGGAACAAATTAAAGCT
65 AGTGGAACAGATTAAAGCT
22004179 GAAGGCAGTG
Statistics
Matches: 330, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
284 2 0.01
285 233 0.71
286 92 0.28
287 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGAT
TAAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTT
CCCTGGCGTTACAGTAGAACAAATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTAAAGTTG
CAGTGAAACAGATTGAAGCCACCAGC
Found at i:22004967 original size:21 final size:23
Alignment explanation
Indices: 22004914--22004967 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 23
22004904 TATTATGTAA
22004914 TATTATTTTAAGTTTTCCATATAT
1 TATTATTTTAAG-TTTCCATATAT
22004938 TATTA-TTTAA-TTT-CATA-AT
1 TATTATTTTAAGTTTCCATATAT
22004957 CTATTATTTTA
1 -TATTATTTTA
22004968 CATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTTTAAGTTTCCATATAT
Found at i:22007244 original size:50 final size:50
Alignment explanation
Indices: 22007172--22007388 Score: 220
Period size: 50 Copynumber: 4.2 Consensus size: 50
22007162 TATCCCAAAT
* ** * * * *
22007172 ATGGTCTTACATGGGAGTTCTCATATCAGTGCCTATGCCATGTCCCAGAC
1 ATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
22007222 CTAGTCTTAC-GGGGCACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACACGGG-ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
22007272 ATGGTCTTACACGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * * * *
22007322 ATGGTCTTATATGGGACCTCTCATAATGTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGGGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGAC
22007378 ATGGTCTTACA
1 ATGGTCTTACA
22007389 TCGGATCTCA
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.02
50 99 0.71
51 3 0.02
53 3 0.02
56 31 0.22
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:22009745 original size:4 final size:4
Alignment explanation
Indices: 22009736--22009762 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22009726 TAAAAGTAAA
22009736 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
22009763 ATGATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22013291 original size:11 final size:11
Alignment explanation
Indices: 22013275--22013302 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22013265 TATATATTTT
22013275 AAATTATATAA
1 AAATTATATAA
22013286 AAATTATATAA
1 AAATTATATAA
22013297 AAATTA
1 AAATTA
22013303 ATATTGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATTATATAA
Found at i:22022435 original size:40 final size:40
Alignment explanation
Indices: 22022391--22022520 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 40
22022381 ACTTTGTTTA
* * *
22022391 GCACTTAGTATGTGATTCGAG-ATAGCTTC-GACTATTTATG
1 GCACTTAGTATGCGATT-GAGAATAACTTCAG-CTATATATG
*
22022431 GCACTTAGTGTGCGATTGAGAATAACTTCAGCTATATATG
1 GCACTTAGTATGCGATTGAGAATAACTTCAGCTATATATG
* * * * * *
22022471 GCACTTAGTGTACGAAACTGAG-ATAGCTTCAGCTATGTAAG
1 GCACTTAGTATGCG--ATTGAGAATAACTTCAGCTATATATG
22022512 GCACTTAGT
1 GCACTTAGT
22022521 GTGTGGGATC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.04
40 43 0.56
41 26 0.34
42 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (40 bp):
GCACTTAGTATGCGATTGAGAATAACTTCAGCTATATATG
Found at i:22022515 original size:41 final size:39
Alignment explanation
Indices: 22022409--22022522 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
22022399 TATGTGATTC
* * *
22022409 GAGATAGCTTC-GACTATTTATGGCACTTAGTGTGCGATT
1 GAGATAGCTTCAG-CTATATATGGCACTTAGTGTACGACT
*
22022448 GAGAATAACTTCAGCTATATATGGCACTTAGTGTACGAAACT
1 GAG-ATAGCTTCAGCTATATATGGCACTTAGTGTACG--ACT
* *
22022490 GAGATAGCTTCAGCTATGTAAGGCACTTAGTGT
1 GAGATAGCTTCAGCTATATATGGCACTTAGTGT
22022523 GTGGGATCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.05
40 28 0.44
41 28 0.44
42 5 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (39 bp):
GAGATAGCTTCAGCTATATATGGCACTTAGTGTACGACT
Found at i:22023380 original size:23 final size:23
Alignment explanation
Indices: 22023208--22023379 Score: 256
Period size: 23 Copynumber: 7.5 Consensus size: 23
22023198 TGACTAATTG
22023208 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22023231 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22023254 AT-CTTGTCCAATTTGGTGTATAA
1 ATGC-TGTCCAATTTGATGTATAA
*
22023277 ATGCTGTCCAATTTGCTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22023300 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22023323 ATGCTATCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* *
22023346 ATGTTGTCCAAATTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22023369 AAGCTGTCCAA
1 ATGCTGTCCAA
22023380 AACAGGGTAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 135 0.99
24 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:22025096 original size:50 final size:50
Alignment explanation
Indices: 22024983--22025105 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 50
22024973 TTATGAAAGG
* * * ***
22024983 TCCCACATAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
22025033 TCCCCCGTCAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
22025083 TCTCATGTAAGACCGTATCTGGG
1 TCCCACGTAAGACCATGTCTGGG
22025106 TTATGGAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:22025393 original size:20 final size:20
Alignment explanation
Indices: 22025368--22025406 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22025358 TGAGTTATTT
22025368 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
22025388 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
22025407 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:22035496 original size:12 final size:12
Alignment explanation
Indices: 22035479--22035515 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
22035469 TACCCAATTA
*
22035479 AATTAATTCAAT
1 AATTAATTTAAT
22035491 AATTAATTTAAT
1 AATTAATTTAAT
22035503 AATTAATTTAAT
1 AATTAATTTAAT
22035515 A
1 A
22035516 CATGTGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAATTTAAT
Found at i:22041068 original size:50 final size:50
Alignment explanation
Indices: 22041013--22041152 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
22041003 TATGGAGGTT
* * * *
22041013 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
*
22041063 ATGAGAGGTCTACC--GTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTC--CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * *
22041113 ATGAGAACTCTCATGTAAGACCATATTTGGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
22041153 TTGCTGTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
48 1 0.01
50 72 0.96
52 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:22041431 original size:20 final size:20
Alignment explanation
Indices: 22041406--22041444 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22041396 TGAGTTATTT
22041406 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
22041426 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
22041445 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:22048489 original size:40 final size:40
Alignment explanation
Indices: 22048406--22048629 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
22048396 GATAAATCGA
* * * * *
22048406 CTATGTTTAGCACTTAGTATGTGATT-CGAGATAGCTTCTG
1 CTATGTATGGCACTTAGTGTGTGATTGGGA-ATAGCTTCGG
* * *
22048446 CTATTTATGGCACTTAGTGTGTAATTGGGAATAACTTCGG
1 CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
* *
22048486 CTATGTATGGCACTTAGTATGTGATT-CGAGATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGTGATTGGGA-ATAGCTTCGG
* * *
22048526 CTATTTATGGCACTTAGTGTTTGATTGGGAATAGCTTCGA
1 CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
* * * *
22048566 ATATGTATGGCACTTAGTGTGCGAAAATGAG-ATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGTG--ATTGGGAATAGCTTCGG
* * *
22048607 CTATATAAGGCACTTAGTATGTG
1 CTATGTATGGCACTTAGTGTGTG
22048630 GGATTATAAT
Statistics
Matches: 149, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.01
40 112 0.75
41 31 0.21
42 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGTGATTGGGAATAGCTTCGG
Found at i:22048539 original size:80 final size:80
Alignment explanation
Indices: 22048402--22048624 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 80
22048392 CATCGATAAA
* * *
22048402 TCGACTATGTTTAGCACTTAGTATGTGATTCGAGATAGCTTCTGCTATTTATGGCACTTAGTGTG
1 TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
22048467 TAATTGGGAATAACT
66 TAATTGGGAATAACT
* *
22048482 TCGGCTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTT
1 TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
* *
22048547 TGATTGGGAATAGCT
66 TAATTGGGAATAACT
* * * * * *
22048562 TCGAATATGTATGGCACTTAGTGTGCGAAAAT-GAGATAGCTTCGGCTATATAAGGCACTTAGT
1 TCGACTATGTATGGCACTTAGTATGTG--ATTCGAGATAGCTTCGGCTATTTATGGCACTTAGT
22048625 ATGTGGGATT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 96 0.76
81 29 0.23
82 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (80 bp):
TCGACTATGTATGGCACTTAGTATGTGATTCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTG
TAATTGGGAATAACT
Found at i:22049340 original size:23 final size:23
Alignment explanation
Indices: 22049314--22049531 Score: 328
Period size: 23 Copynumber: 9.5 Consensus size: 23
22049304 TGACTGATTG
22049314 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22049337 ATGCTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
22049360 ATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22049383 ATGCTGTCCAATTTGCTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* *
22049406 ATGCTGTCTAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22049429 ATGCTATCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22049452 ATGCTGTCCAATTTGATGTGTAA
1 ATGCTGTCCAATTTGATGTATAA
* *
22049475 ATGTTGTCCAATTTGGTGTATAA
1 ATGCTGTCCAATTTGATGTATAA
* * *
22049498 ATGTTGTCTAATTTAATGTATAA
1 ATGCTGTCCAATTTGATGTATAA
*
22049521 AAGCTGTCCAA
1 ATGCTGTCCAA
22049532 AACATGGTAG
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 176 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:22051144 original size:16 final size:17
Alignment explanation
Indices: 22051123--22051160 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22051113 AATAAAAGGT
22051123 AGAGAATAAG-GAACAA
1 AGAGAATAAGAGAACAA
* *
22051139 AGAGAATGAGAGAGCAA
1 AGAGAATAAGAGAACAA
22051156 AGAGA
1 AGAGA
22051161 GAACGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.58, C:0.05, G:0.32, T:0.05
Consensus pattern (17 bp):
AGAGAATAAGAGAACAA
Found at i:22053058 original size:38 final size:38
Alignment explanation
Indices: 22053002--22053150 Score: 208
Period size: 38 Copynumber: 3.9 Consensus size: 38
22052992 AGAAGCATAA
* ** *
22053002 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTCATGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
* **
22053040 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTATTGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
*
22053078 TGTTATTCAGGCTCTGTGCCTAGTAGGCTTTGTGCTGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
**
22053116 TGTTATTCAAACTCTGTGCCTAGCAGGCTTTGTGC
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGC
22053151 CTAACAGCCT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.13, C:0.21, G:0.29, T:0.38
Consensus pattern (38 bp):
TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCTGG
Found at i:22053212 original size:38 final size:38
Alignment explanation
Indices: 22053170--22053367 Score: 175
Period size: 38 Copynumber: 5.1 Consensus size: 38
22053160 TTCCTGTCGA
* *
22053170 TGTTATTCGGGCTCTGTGCCTAGCAGTCTTTGTGCCAG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * *
22053208 TGTTATTCAGTCTTTGTGCTGGTGTTAGTCAGGCTTTGTGCCAG
1 TGTTATTCAGGCTCTGTGC-----CTAG-CAGGCTTTGTGCCAG
* * * *
22053252 TGCTAGTC-GCGCTCTATGCCTAGCAGGCTTTATGCCAG
1 TGTTATTCAG-GCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * * *
22053290 TGTTATTCAGGTTCTATGCCTAGCATGCTTTGTGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * *
22053328 TGTTATTCAGGCTTTGTCCCTAGCAGGC-TTGTGCCGG
1 TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
22053365 TGT
1 TGT
22053368 ATTGAAAGTT
Statistics
Matches: 129, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
37 12 0.09
38 83 0.64
39 4 0.03
43 4 0.03
44 26 0.20
ACGTcount: A:0.12, C:0.22, G:0.28, T:0.37
Consensus pattern (38 bp):
TGTTATTCAGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
Found at i:22053221 original size:22 final size:22
Alignment explanation
Indices: 22053193--22053259 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
22053183 CTGTGCCTAG
*
22053193 CAGTCTTTGTGCCAGTGTTATT
1 CAGTCTTTGTGCCAGTGTTAGT
**
22053215 CAGTCTTTGTGCTGGTGTTAGT
1 CAGTCTTTGTGCCAGTGTTAGT
* *
22053237 CAGGCTTTGTGCCAGTGCTAGT
1 CAGTCTTTGTGCCAGTGTTAGT
22053259 C
1 C
22053260 GCGCTCTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.12, C:0.19, G:0.28, T:0.40
Consensus pattern (22 bp):
CAGTCTTTGTGCCAGTGTTAGT
Found at i:22069018 original size:26 final size:26
Alignment explanation
Indices: 22068961--22069022 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
22068951 TACCTACAGT
* *
22068961 AGTTTTAGAATATCATAACGTGTATC
1 AGTTTCAGAATATCATAACATGTATC
* *
22068987 AGTTTCAGAATATCATAGCATGTCTC
1 AGTTTCAGAATATCATAACATGTATC
22069013 -GATTTCAGAA
1 AG-TTTCAGAA
22069023 CACTTATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATGTATC
Found at i:22085909 original size:38 final size:37
Alignment explanation
Indices: 22085849--22086182 Score: 149
Period size: 38 Copynumber: 8.7 Consensus size: 37
22085839 ATAATGTTAT
* *
22085849 TGCCTAGCAAGCTTCGTGCCGGTGTTATTCGAGCTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTC-AGCTCTG
* *
22085887 TGCCTAGCAGGCTTTGTACCGGTGTTATTCAGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCA-GCTCTG
* * * *
22085925 TGCCTAGTAGGCTTTATGTCGGTGTTATTTAGACTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAG-CTCTG
* * * * * * * *
22085963 TGACTAGAAGGATTTGTGTCGATGTTATTCTGGTTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTC-AGCTCTG
* * ** * *
22086001 TGCC--G--GTGTTATTCGGGCTCTATGTCTA-GCAGGCTTTG
1 TGCCTAGCAG-GCT-TT-GTGC-CGGTGT-TATTCA-GCTCTG
** * * ** *
22086039 TGCCAGTGTTATTTAGGCTTTGTGTCGGTGCTATTTGGGGTCTG
1 TGCC-----TA-GCAGGCTTTGTGCCGGTGTTA-TTCAGCTCTG
* * * *
22086083 TGCCTAGCAGACTTTGTCCCGGTGTTATTTGAGTTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTA-TTCAGCTCTG
*
22086121 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAGGCTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGTTATTCA-GCTCTG
22086159 TGCCTAGCAGGC-TTGTGCCGGTGT
1 TGCCTAGCAGGCTTTGTGCCGGTGT
22086183 ATTGAAAGTT
Statistics
Matches: 222, Mismatches: 52, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
34 1 0.00
35 2 0.01
36 3 0.01
37 19 0.09
38 172 0.77
39 5 0.02
43 2 0.01
44 11 0.05
45 2 0.01
46 2 0.01
47 2 0.01
48 1 0.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (37 bp):
TGCCTAGCAGGCTTTGTGCCGGTGTTATTCAGCTCTG
Found at i:22086049 original size:60 final size:59
Alignment explanation
Indices: 22085985--22086124 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
22085975 TTTGTGTCGA
* * * *
22085985 TGTTATTCTGGTTTTGTGCCGGTGTTATTCGGGCTCTATGTCTAGCAGGCTTTGTGCCAG
1 TGTTATT-TGGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
* * * * * *
22086045 TGTTATTTAGGCTTTGTGTCGGTGCTATTTGGGGTCTGTGCCTAGCAGACTTTGTCCCGG
1 TGTTATTT-GGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
*
22086105 TGTTATTTGAGTTCTGTGCC
1 TGTTATTTG-GTTTTGTGCC
22086125 TAGCAGGCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 2 0.03
60 63 0.97
ACGTcount: A:0.10, C:0.18, G:0.30, T:0.42
Consensus pattern (59 bp):
TGTTATTTGGTTTTGTGCCGGTGCTATTCGGGCTCTATGCCTAGCAGACTTTGTCCCAG
Found at i:22086073 original size:22 final size:22
Alignment explanation
Indices: 22086031--22086074 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22086021 TATGTCTAGC
*
22086031 AGGCTTTGTGCCAGTGTTATTT
1 AGGCTTTGTGCCAGTGCTATTT
* *
22086053 AGGCTTTGTGTCGGTGCTATTT
1 AGGCTTTGTGCCAGTGCTATTT
22086075 GGGGTCTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.45
Consensus pattern (22 bp):
AGGCTTTGTGCCAGTGCTATTT
Found at i:22090760 original size:17 final size:17
Alignment explanation
Indices: 22090738--22090771 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22090728 TAAATGTTTT
22090738 TTGAAATT-AGAATCTAA
1 TTGAAATTCA-AATCTAA
22090755 TTGAAATTCAAATCTAA
1 TTGAAATTCAAATCTAA
22090772 AATTCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (17 bp):
TTGAAATTCAAATCTAA
Found at i:22091826 original size:23 final size:22
Alignment explanation
Indices: 22091783--22091828 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
22091773 CTAAAAATTA
*
22091783 TAAAATATAAATTTAACTTTCC
1 TAAAATATAAAATTAACTTTCC
*
22091805 TAAAATATAAAAATTAATTTTCC
1 TAAAATAT-AAAATTAACTTTCC
22091828 T
1 T
22091829 CCGCCTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATATAAAATTAACTTTCC
Found at i:22092675 original size:5 final size:5
Alignment explanation
Indices: 22092665--22092692 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22092655 ATTAAAAGAT
22092665 TATCC TATCC TATCC TATCC TATCC TAT
1 TATCC TATCC TATCC TATCC TATCC TAT
22092693 TTAATTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (5 bp):
TATCC
Found at i:22103768 original size:51 final size:51
Alignment explanation
Indices: 22103701--22103832 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
22103691 CGATAGGTCG
* *
22103701 CATGTGTAGTACTATGTGCAGGTTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCA
* * * * *
22103752 CATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
22103803 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
22103833 TGAACCGAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 71 0.99
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
Found at i:22103834 original size:26 final size:26
Alignment explanation
Indices: 22103753--22103834 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
22103743 TTTCGATCAC
22103753 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
22103779 ACGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
22103804 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
22103830 ATGTG
1 ATGTG
22103835 AACCGAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:22103927 original size:45 final size:45
Alignment explanation
Indices: 22103836--22103930 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
22103826 TACTATGTGA
* * * *
22103836 ACCGAACATCATTGATTAGTAAGGTGGTTGCTTTGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
* *
22103881 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTAAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
22103926 ACCGA
1 ACCGA
22103931 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
Found at i:22104047 original size:38 final size:37
Alignment explanation
Indices: 22104005--22104077 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
22103995 ATGTGTGGAA
*
22104005 TTGAATTGAATAT-TGACTTAGAAA-TGGAAAAGTGAATT
1 TTGAATTGAAT-TGTGAC-T-GAAAGTGAAAAAGTGAATT
22104043 TTGAATTGAATTGTGACTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATTGTGACTGAAAGTGAAAAAGTGAA
22104078 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATTGTGACTGAAAGTGAAAAAGTGAATT
Found at i:22107755 original size:6 final size:6
Alignment explanation
Indices: 22107744--22107771 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22107734 ATTTATGTCA
22107744 ATGGCT ATGGCT ATGGCT ATGGCT ATGG
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGG
22107772 AATGGTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (6 bp):
ATGGCT
Found at i:22120515 original size:71 final size:71
Alignment explanation
Indices: 22120399--22120543 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
22120389 GCGAAGTAAT
22120399 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
1 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
22120464 TTCTCC
66 TTCTCC
* *
22120470 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATGTCCTTGAGAATAA
1 CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
22120535 TTCTCC
66 TTCTCC
22120541 CAA
1 CAA
22120544 CATTGATAGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (71 bp):
CAATGATGGAAAGTAGGCATTTCCTGCCTTCTTCCTTGCACAGTCTTGAATCTCCTTAAGAATAA
TTCTCC
Done.