Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 64 of 145
Found at i:22009526 original size:37 final size:37
Alignment explanation
Indices: 22009485--22009652 Score: 97
Period size: 37 Copynumber: 4.5 Consensus size: 37
22009475 TTTACTGTTT
* *
22009485 ATCTCTGTTTTTTCTTTGCAAAGAATCACTCATGCTC
1 ATCTCAGTCTTTTCTTTGCAAAGAATCACTCATGCTC
* * * * *
22009522 ATCTCAGTCTTTTCTTTGTAGAGAATCTCTCTTGTTC
1 ATCTCAGTCTTTTCTTTGCAAAGAATCACTCATGCTC
* ** ** * *
22009559 ATCTTTA-TCTTTTCTTTATAGGGAATCACTCCTGTTC
1 ATC-TCAGTCTTTTCTTTGCAAAGAATCACTCATGCTC
* * * * ** * *
22009596 ATATCTGTCTTTGCTTTGTAGGGAATCACTCTTGCTT
1 ATCTCAGTCTTTTCTTTGCAAAGAATCACTCATGCTC
*
22009633 ATCTTCA-TCTTTACTTTGCA
1 ATC-TCAGTCTTTTCTTTGCA
22009653 GGGAATATTT
Statistics
Matches: 104, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
36 1 0.01
37 99 0.95
38 4 0.04
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.47
Consensus pattern (37 bp):
ATCTCAGTCTTTTCTTTGCAAAGAATCACTCATGCTC
Found at i:22009656 original size:37 final size:37
Alignment explanation
Indices: 22009507--22009658 Score: 148
Period size: 37 Copynumber: 4.1 Consensus size: 37
22009497 TCTTTGCAAA
* * *
22009507 GAATCACTCATGCTCATC-TCAGTCTTTTCTTTGTAGA
1 GAATCACTCTTGTTCATCTTCA-TCTTTTCTTTGTAGG
* * *
22009544 GAATCTCTCTTGTTCATCTTTATCTTTTCTTTATAGG
1 GAATCACTCTTGTTCATCTTCATCTTTTCTTTGTAGG
* * * *
22009581 GAATCACTCCTGTTCAT-ATCTGTCTTTGCTTTGTAGG
1 GAATCACTCTTGTTCATCTTC-ATCTTTTCTTTGTAGG
* *
22009618 GAATCACTCTTGCTT-ATCTTCATCTTTACTTTGCAGG
1 GAATCACTCTTG-TTCATCTTCATCTTTTCTTTGTAGG
22009655 GAAT
1 GAAT
22009659 ATTTGAAGGT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
36 1 0.01
37 86 0.92
38 6 0.06
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (37 bp):
GAATCACTCTTGTTCATCTTCATCTTTTCTTTGTAGG
Found at i:22009656 original size:74 final size:74
Alignment explanation
Indices: 22009498--22009658 Score: 189
Period size: 74 Copynumber: 2.2 Consensus size: 74
22009488 TCTGTTTTTT
** * * *
22009498 CTTTGCAAAGAATCACTCATGCTCATCTCAGTCTTTTCTTTGTAGAGAATCTCTCTTGTTCATCT
1 CTTTGCAGGGAATCACTCATGCTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTGTTCATCT
* *
22009563 TTATCTTTT
66 TCATCTTTA
** * * * *
22009572 CTTTATAGGGAATCACTCCTGTTCATATCTGTCTTTGCTTTGTAGGGAATCACTCTTGCTT-ATC
1 CTTTGCAGGGAATCACTCATGCTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTG-TTCATC
22009636 TTCATCTTTA
65 TTCATCTTTA
22009646 CTTTGCAGGGAAT
1 CTTTGCAGGGAAT
22009659 ATTTGAAGGT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 69 0.97
75 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (74 bp):
CTTTGCAGGGAATCACTCATGCTCATATCAGTCTTTGCTTTGTAGAGAATCACTCTTGTTCATCT
TCATCTTTA
Found at i:22012484 original size:5 final size:5
Alignment explanation
Indices: 22012476--22012561 Score: 93
Period size: 5 Copynumber: 17.2 Consensus size: 5
22012466 TAATTTATTA
* * *
22012476 CATAT CATAT CATAT CATAT TAGAT CATAT CATAT CTTAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* * **
22012526 CGTAT CATAT CA-AGT TATAT TGTAT CATAT CATAT C
1 CATAT CATAT CATA-T CATAT CATAT CATAT CATAT C
22012562 CTACCCCCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
4 1 0.01
5 65 0.97
6 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (5 bp):
CATAT
Found at i:22013448 original size:12 final size:12
Alignment explanation
Indices: 22013431--22013887 Score: 878
Period size: 12 Copynumber: 38.0 Consensus size: 12
22013421 GAAAGGTATG
*
22013431 ATAATAATAATA
1 ATAATAACAATA
*
22013443 ATAATAATAATTA
1 ATAATAACAA-TA
22013456 ATAATAACAATA
1 ATAATAACAATA
22013468 ATAATAACAATA
1 ATAATAACAATA
22013480 ATAATAACAATA
1 ATAATAACAATA
22013492 ATAATAACAATA
1 ATAATAACAATA
22013504 ATAATAACAATA
1 ATAATAACAATA
22013516 ATAATAACAATA
1 ATAATAACAATA
22013528 ATAATAACAATA
1 ATAATAACAATA
22013540 ATAATAACAATA
1 ATAATAACAATA
22013552 ATAATAACAATA
1 ATAATAACAATA
22013564 ATAATAACAATA
1 ATAATAACAATA
22013576 ATAATAACAATA
1 ATAATAACAATA
22013588 ATAATAACAATA
1 ATAATAACAATA
22013600 ATAATAACAATA
1 ATAATAACAATA
22013612 ATAATAACAATA
1 ATAATAACAATA
22013624 ATAATAACAATA
1 ATAATAACAATA
22013636 ATAATAACAATA
1 ATAATAACAATA
22013648 ATAATAACAATA
1 ATAATAACAATA
22013660 ATAATAACAATA
1 ATAATAACAATA
22013672 ATAATAACAATA
1 ATAATAACAATA
22013684 ATAATAACAATA
1 ATAATAACAATA
22013696 ATAATAACAATA
1 ATAATAACAATA
22013708 ATAATAACAATA
1 ATAATAACAATA
22013720 ATAATAACAATA
1 ATAATAACAATA
22013732 ATAATAACAATA
1 ATAATAACAATA
22013744 ATAATAACAATA
1 ATAATAACAATA
22013756 ATAATAACAATA
1 ATAATAACAATA
22013768 ATAATAACAATA
1 ATAATAACAATA
22013780 ATAATAACAATA
1 ATAATAACAATA
22013792 ATAATAACAATA
1 ATAATAACAATA
22013804 ATAATAACAATA
1 ATAATAACAATA
22013816 ATAATAACAATA
1 ATAATAACAATA
22013828 ATAATAACAATA
1 ATAATAACAATA
22013840 ATAATAACAATA
1 ATAATAACAATA
22013852 ATAATAACAATA
1 ATAATAACAATA
22013864 ATAATAACAATA
1 ATAATAACAATA
*
22013876 ATAATAATAATA
1 ATAATAACAATA
22013888 GTGGATCATG
Statistics
Matches: 442, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
12 431 0.98
13 11 0.02
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAATAACAATA
Found at i:22013930 original size:13 final size:13
Alignment explanation
Indices: 22013908--22013941 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22013898 CAAATTAAAC
22013908 AAAGAAAAGAAAAG
1 AAAGAAAAG-AAAG
22013922 AAA-AAAAGAAAG
1 AAAGAAAAGAAAG
22013934 AAAGAAAA
1 AAAGAAAA
22013942 TGAGAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.37
13 9 0.47
14 3 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:22020870 original size:21 final size:20
Alignment explanation
Indices: 22020823--22020877 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
22020813 ATCATTGTTT
* *
22020823 CTAATCTCACTGCTACAGTA
1 CTAATCTCACCGCTACAATA
*
22020843 TTCAATCTCACCGCTACAATAA
1 CT-AATCTCACCGCTACAAT-A
22020865 CTAATCTCACCGC
1 CTAATCTCACCGC
22020878 CATCGCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.31, C:0.35, G:0.07, T:0.27
Consensus pattern (20 bp):
CTAATCTCACCGCTACAATA
Found at i:22025040 original size:41 final size:41
Alignment explanation
Indices: 22024961--22025042 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
22024951 AGACCAATTT
* *
22024961 AATTGGATCAATCATTGTACGATTAATCATACAGTTTATTC
1 AATTAGATCAATCATTGTACGATTAATCATACAATTTATTC
** *
22025002 AATTAGATCAATGGTTGTACGATTAAT-GTCACAATTTATTC
1 AATTAGATCAATCATTGTACGATTAATCAT-ACAATTTATTC
22025043 GATCATGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (41 bp):
AATTAGATCAATCATTGTACGATTAATCATACAATTTATTC
Found at i:22025523 original size:41 final size:41
Alignment explanation
Indices: 22025461--22025550 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
22025451 ACATGGACTG
* *
22025461 ATTCAATTGGATCAATGATTGTACAGTTAAT-TATACAATTT
1 ATTCAATTGGATCAATGATTGTACAATTAATGT-CACAATTT
*
22025502 ATTCAATTGGATCAATTATTGTACAATTAATGTCACAATTT
1 ATTCAATTGGATCAATGATTGTACAATTAATGTCACAATTT
22025543 ATTCAATT
1 ATTCAATT
22025551 ATGCTAGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (41 bp):
ATTCAATTGGATCAATGATTGTACAATTAATGTCACAATTT
Found at i:22025911 original size:501 final size:500
Alignment explanation
Indices: 22024750--22026343 Score: 2056
Period size: 501 Copynumber: 3.2 Consensus size: 500
22024740 TACTCTTCAA
* * *
22024750 GTTAGTACATTCGTACATAGATCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTTG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* * ** * *
22024815 TAGTTAG-GG--TGCATAATTGATAAATACTCTTAAATGGATGACAA-ACGTAAAATTAAACATT
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCA-AATATTTGAAATTAAACATA
* * * * *
22024876 GATGGTCCAAAATTTTGATATATTTCACTATATGATAATGAATTCCAAA-ATGTATGCTCAATGT
130 GGTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGT
* * * * * *
22024940 TGTGTTTACATAGACCAATTTAATTGGATCAATCATTGTACGATTAATCATACAGTTTATTCAAT
195 AGTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAAT
* * * * *
22025005 TAGATCAATGGTTGTACGATTAATGTCACAATTTATTCGATCATGCTAACTAATAATTAGAGGAA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATG----CTAGTAATTAGAGGAA
* ** ** **
22025070 TATACAATTGATCAATACTCTTAAAAATACCTATACACTACAATGACATTATTTTCATACATAGA
321 TATACAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGA
* * * * * *
22025135 TTCATTCAATTAAATCAATGATTGTACAATTATTGTCATAACTCATTCAACTACATTGGA-AATT
386 TTAATTCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTT-AATAATT
* * * * *
22025199 AGAGAAATGAAAAAGTGATC-ATGACTTTTCAAATTACTCATACACCACAAT
450 AGAGAAATGTACAATTGATCAAT-ACTTTTTAAATTACTCGTACACCACAAT
* * * * * * *
22025250 GCTAGTACATTTGTATATAGACCTGATTCAATTAGTTCAATGTCATTATCATTCAATTACATAAG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* *
22025315 TAGTTAGAGGAATGCATAAGTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATCG
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
* * * *
22025380 GTAGTCCAAAGTTTTGATATATTTCACTATATGATATTGCATTCTAAACATGTATAATCAAAGTA
131 GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTA
**
22025445 GTGTTTACATGGACTGATTCAATTGGATCAATGATTGTAC-AGTTAATTATACAATTTATTCAAT
196 GTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGA-TTAATTATACAATTTATTCAAT
* *
22025509 TGGATCAATTATTGTACAATTAATGTCACAATTTATTCAATTATGCTAGTAATTAGAGGAATATA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATA
*
22025574 CAATTGATCAATACTTTTAAAAATATTTATACACTACAACGTTATTACCTTCATACATAGATTAA
325 CAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTAA
* *
22025639 TTCGATTAAATCAATAATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGA
390 TTCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGA
* * * * *
22025704 AACGTGCAATTCATCAATACTTTTTTAAATTACTTGTATACCACAAT
455 AATGTACAATTGATCAATAC-TTTTTAAATTACTCGTACACCACAAT
* * * * * * *
22025751 GTTAGTATATTCGTATATAAACCCAATCCAATTGGCTCAATGTCATAATCACTCAATTACATTAG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
* * * *
22025816 TATTTAGAGGAATGCATAATTGATAAATACCCTTAAATTGATCAAATATTTGAAGTTAAATATAG
66 TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
*
22025881 GTGGTCCAATGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTT
131 GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATG-T
** *
22025946 A-TGTTTACATGGACCAATTCAATTACATCAATGATTGTATGATTAATTATACAATTTATTCAAT
195 AGTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAAT
* * ** * *
22026010 TGGATCTATGATTGTACAATTAATGTCACAATTTATTTGATTACACTAGTAATTAGTGGAATAGA
260 TGGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATA
* * * *
22026075 CAATTGATCAATACTTTTAAAAGTATTTATGCACTACAATGTTATTACCTTTATACATAGATTTA
325 CAATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTAA
* * * *
22026140 TTCAATTAGATCAAGGATTGTACAATTAAT-ATCATAACTCATGCAATTATGTTAATAATTAGAG
390 TTCAATTAAATCAATGATTGTACAATTAATGA-CATAACTCATTCAATTACGTTAATAATTAGAG
* * * *
22026204 AAATGTACAATTGGTTAATACTTTTTGAATTACTCGTACACCATAAT
454 AAATGTACAATTGATCAATACTTTTTAAATTACTCGTACACCACAAT
* * * * * *
22026251 GTTAGTACATTCATATATAGATCCGATTTAATTGGTTCAATGCCATAAGCATTCAATTACGTTTG
1 GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
22026316 TAGTTAGAGGAATGCATAATTGATAAAT
66 TAGTTAGAGGAATGCATAATTGATAAAT
22026344 TGTGACGCCC
Statistics
Matches: 945, Mismatches: 137, Indels: 24
0.85 0.12 0.02
Matches are distributed among these distances:
499 1 0.00
500 306 0.32
501 441 0.47
502 5 0.01
503 86 0.09
504 106 0.11
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (500 bp):
GTTAGTACATTCGTATATAGACCCGATTCAATTGGTTCAATGTCATAAGCATTCAATTACATTAG
TAGTTAGAGGAATGCATAATTGATAAATACTCTTAAATTGATCAAATATTTGAAATTAAACATAG
GTGGTCCAAAGTTTTGATATATTTCACTATATGATATTGAATTCTAAACATGTATACTCAATGTA
GTGTTTACATGGACCAATTCAATTGGATCAATGATTGTACGATTAATTATACAATTTATTCAATT
GGATCAATGATTGTACAATTAATGTCACAATTTATTCGATTATGCTAGTAATTAGAGGAATATAC
AATTGATCAATACTTTTAAAAATATTTATACACTACAATGTTATTACCTTCATACATAGATTAAT
TCAATTAAATCAATGATTGTACAATTAATGACATAACTCATTCAATTACGTTAATAATTAGAGAA
ATGTACAATTGATCAATACTTTTTAAATTACTCGTACACCACAAT
Found at i:22026032 original size:41 final size:41
Alignment explanation
Indices: 22025962--22026046 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
22025952 ACATGGACCA
** *
22025962 ATTCAATTACATCAATGATTGTATGATTAAT-TATACAATTT
1 ATTCAATTACATCAATGATTGTACAATTAATGT-CACAATTT
** *
22026003 ATTCAATTGGATCTATGATTGTACAATTAATGTCACAATTT
1 ATTCAATTACATCAATGATTGTACAATTAATGTCACAATTT
22026044 ATT
1 ATT
22026047 TGATTACACT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (41 bp):
ATTCAATTACATCAATGATTGTACAATTAATGTCACAATTT
Found at i:22029306 original size:42 final size:42
Alignment explanation
Indices: 22029249--22029348 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
22029239 TACATTAATG
** * * *
22029249 CTCACACGTGCTGTGGGTC-AGAATATAAGCTACACGATGTTG
1 CTCACACAAGCTGTGGGTCGA-AATATAAGCTACACAATGCTA
*
22029291 CTCAGACAAGCTGTGGGTCGAAATATAAGCTACACAATGCTA
1 CTCACACAAGCTGTGGGTCGAAATATAAGCTACACAATGCTA
*
22029333 CTTACACAAGCTGTGG
1 CTCACACAAGCTGTGG
22029349 TGAATAGTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (42 bp):
CTCACACAAGCTGTGGGTCGAAATATAAGCTACACAATGCTA
Found at i:22029837 original size:13 final size:13
Alignment explanation
Indices: 22029816--22029859 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
22029806 CACGGGCGTA
* *
22029816 TGGCTTGGCCGTG
1 TGGCATGGCCATG
22029829 TGGCATGGCCATG
1 TGGCATGGCCATG
22029842 TGGCATGGCCATG
1 TGGCATGGCCATG
22029855 TGGCA
1 TGGCA
22029860 CAAGTCAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.11, C:0.23, G:0.41, T:0.25
Consensus pattern (13 bp):
TGGCATGGCCATG
Found at i:22032131 original size:41 final size:41
Alignment explanation
Indices: 22032017--22032166 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
22032007 CATAATTTAA
* *
22032017 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
22032059 CATATCACTGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* ** **
22032100 CCA-ATCACCGGCACTTAGCCTGCTAGATTTATAGTCTGAAA
1 -CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
22032141 AAT-TCACCGGCATTTAGCCTGCTAGG
1 CATATCACCGGCACTTAGCCTGCTAGG
22032167 CGCTTAGCCT
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
40 22 0.24
41 64 0.70
42 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:22032179 original size:40 final size:40
Alignment explanation
Indices: 22032020--22032186 Score: 117
Period size: 41 Copynumber: 4.1 Consensus size: 40
22032010 AATTTAACAT
***
22032020 ATTCACCGGCACTTAGCCTGCTAG-GCTTATAGCCTGATTC
1 ATTCACCGGCACTTAGCCTGCTAGAGC-TATAGCCTGAAAA
* * * * **
22032060 ATATCACTGGCACGTAGCCTGCTAG-GTTTATAACCTGATTCCA
1 AT-TCACCGGCACTTAGCCTGCTAGAG-CTATAGCCTGA--AAA
** *
22032103 A-TCACCGGCACTTAGCCTGCTAGATTTATAGTCTGAAAA
1 ATTCACCGGCACTTAGCCTGCTAGAGCTATAGCCTGAAAA
* *
22032142 ATTCACCGGCATTTAGCCTGCTAGGCGCT-TAGCCTGAAAA
1 ATTCACCGGCACTTAGCCTGCTA-GAGCTATAGCCTGAAAA
*
22032182 TTTCA
1 ATTCA
22032187 ATTTCACAGA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.02
40 36 0.36
41 61 0.61
43 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (40 bp):
ATTCACCGGCACTTAGCCTGCTAGAGCTATAGCCTGAAAA
Found at i:22035831 original size:13 final size:15
Alignment explanation
Indices: 22035804--22035835 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
22035794 CTTTATTATG
22035804 TTTTTCTTATCAATT
1 TTTTTCTTATCAATT
22035819 TTTTTCTT-T-AATT
1 TTTTTCTTATCAATT
22035832 TTTT
1 TTTT
22035836 GCCCTATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCTTATCAATT
Found at i:22037903 original size:49 final size:49
Alignment explanation
Indices: 22037831--22037924 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
22037821 TGCTATGCAA
* * *
22037831 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCAGTATTTATACAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
22037880 TGCTAAAATTAGTCTTCTACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
22037925 CCCTTCTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (49 bp):
TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:22039343 original size:44 final size:44
Alignment explanation
Indices: 22039292--22039378 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
22039282 TCATATTTCA
*
22039292 TTTCTCATCTCATAATCATTTCTTATATTTGCCATTTCAATATT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATATT
* * * *
22039336 TTTCTCATCTCATATTTATTTCTCATCTTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
22039379 CAATTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.01, T:0.54
Consensus pattern (44 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATATT
Found at i:22052158 original size:25 final size:25
Alignment explanation
Indices: 22052130--22052213 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
22052120 TGAGCCCTTT
22052130 TCCAATTGGTTTTCGTCATTTCTAG
1 TCCAATTGGTTTTCGTCATTTCTAG
** * *
22052155 TCCAATTAATTTTCGCCA--TCGAG
1 TCCAATTGGTTTTCGTCATTTCTAG
* **
22052178 T-TAA-TGGTTTTTTTCATTTCTAG
1 TCCAATTGGTTTTCGTCATTTCTAG
22052201 TCCAATTGGTTTT
1 TCCAATTGGTTTT
22052214 TTTTTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
21 7 0.16
22 2 0.05
23 10 0.23
24 2 0.05
25 22 0.51
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (25 bp):
TCCAATTGGTTTTCGTCATTTCTAG
Found at i:22054475 original size:22 final size:22
Alignment explanation
Indices: 22054449--22054502 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
22054439 AATAAAATTT
22054449 AACTTACCTCTGTAAGTTATCA
1 AACTTACCTCTGTAAGTTATCA
22054471 AACTTACCTCTGTAAGTTATCA
1 AACTTACCTCTGTAAGTTATCA
22054493 AACTTACCTC
1 AACTTACCTC
22054503 AACACATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (22 bp):
AACTTACCTCTGTAAGTTATCA
Found at i:22056579 original size:16 final size:16
Alignment explanation
Indices: 22056558--22056591 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22056548 TAAGTATAAC
22056558 TTAAAAAT-TTTTTGAT
1 TTAAAAATATTTTT-AT
22056574 TTAAAAATATTTTTAT
1 TTAAAAATATTTTTAT
22056590 TT
1 TT
22056592 GATATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTAAAAATATTTTTAT
Found at i:22073802 original size:29 final size:30
Alignment explanation
Indices: 22073759--22073817 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
22073749 GAATTGGATC
* * *
22073759 AAATCAAAATTTTATGTATAAAATTGCACA
1 AAATCAAAAGTTTATATATAAAATTACACA
*
22073789 AAATC-AAAGTTTATATATACAATTACACA
1 AAATCAAAAGTTTATATATAAAATTACACA
22073818 TTAAAACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCAAAAGTTTATATATAAAATTACACA
Found at i:22076802 original size:242 final size:242
Alignment explanation
Indices: 22076376--22076833 Score: 643
Period size: 242 Copynumber: 1.9 Consensus size: 242
22076366 ATGTTGGTAG
* * * *
22076376 AAAGAAAATCAAGGTGAAAATCGAGGGATGATAGGAGATTTGGTATCGAAATTCAAGGGGTTGGA
1 AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGAGATTTGGTATCGAAATTCAAGGGGTTGAA
* * ** * * *
22076441 TCTTCTGGATCCCGTTTCAATATCTTGGCTAATGGAAATAAGGGAAGGAATGATACTGTGGGGAT
66 TCTTCTAGATCCCATTTCAATATCTTGGCTAATAAAAATAAAGAAAGGAATGATAATGTGGGGAT
* *
22076506 TGGGGAAATCGATAAAGGGCAGTCGAAGGGAGTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
131 TGGGGAAATCGAGAAAGGGCAGTCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
*
22076571 TTAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
196 TGAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
* *
22076618 AAAGAAAATAAAGGCGGAAATCGAGGGATGATAA-AGGATTTGG-AGTTGAAATTCAAGGGGTTG
1 AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGA-GATTTGGTA-TCGAAATTCAAGGGGTTG
* * *
22076681 AATCTTTTAGATCTCATTTCAATATCTTGGCTGATAAAAATAAAGAAAGGAATGATAATGTGGGG
64 AATCTTCTAGATCCCATTTCAATATCTTGGCTAATAAAAATAAAGAAAGGAATGATAATGTGGGG
* * * * *
22076746 ATTGGGGAAAT-TAGGAAGGAGCAGTTGAAGGGACTTTTAAATGGTAATAGAAGTGAAGCTATTA
129 ATTGGGGAAATCGAGAAAGG-GCAGTCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTA
*
22076810 ATTTGAGTAAAAATTCAGGGTTGG
193 ATTTGAGTAAAAATTCAGGATTGG
22076834 ATAAGATGGT
Statistics
Matches: 188, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
241 7 0.04
242 181 0.96
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.27
Consensus pattern (242 bp):
AAAGAAAATAAAGGCGAAAATCGAGGGATGATAAGAGATTTGGTATCGAAATTCAAGGGGTTGAA
TCTTCTAGATCCCATTTCAATATCTTGGCTAATAAAAATAAAGAAAGGAATGATAATGTGGGGAT
TGGGGAAATCGAGAAAGGGCAGTCGAAGGGACTTCTAAATGGTAATAAAAGTGAAGCTATTAATT
TGAGTAAAAATTCAGGATTGGGTGAGAGGGCAATAGTTGTTTCCAAC
Found at i:22080460 original size:5 final size:5
Alignment explanation
Indices: 22080450--22080501 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
22080440 CATTTTCCTA
* *
22080450 TTTAT TTTA- TTTAT TATTAT TTTAT TATTAA TTCAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT
22080501 T
1 T
22080502 CCTTTACTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 27 0.68
6 9 0.22
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:22082169 original size:12 final size:12
Alignment explanation
Indices: 22082136--22082169 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22082126 ATTTTATTTG
22082136 TTTTCTTTTTAA
1 TTTTCTTTTTAA
**
22082148 TTTTAATTTTAA
1 TTTTCTTTTTAA
22082160 TTTTCTTTTT
1 TTTTCTTTTT
22082170 TTATGTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTAA
Found at i:22088377 original size:9 final size:9
Alignment explanation
Indices: 22088328--22088384 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
22088318 TTTGGTTAAA
22088328 AATTAACCG
1 AATTAACCG
*
22088337 AA-TAACTG
1 AATTAACCG
*
22088345 AATTACCCG
1 AATTAACCG
* *
22088354 AATTACCCT
1 AATTAACCG
22088363 AATTAACCG
1 AATTAACCG
*
22088372 AATTAACCA
1 AATTAACCG
22088381 AATT
1 AATT
22088385 GAATCACTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 7 0.17
9 33 0.82
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:22088510 original size:18 final size:18
Alignment explanation
Indices: 22088487--22088535 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
22088477 AATTTTTATG
*
22088487 ATTGGGTTGGGATGGATA
1 ATTGGGTTGGGATGAATA
*
22088505 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGATGAATA
* *
22088523 CTTGGGTTTGGAT
1 ATTGGGTTGGGAT
22088536 TGGGTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGATGAATA
Found at i:22090448 original size:18 final size:18
Alignment explanation
Indices: 22090425--22090464 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22090415 TTATTATTTT
*
22090425 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
22090443 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
22090461 TAAA
1 TAAA
22090465 TTACTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:22097654 original size:14 final size:13
Alignment explanation
Indices: 22097630--22097667 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
22097620 CAAAATGTAC
22097630 AATATAATTAAAT
1 AATATAATTAAAT
22097643 AATATAAATTAAAT
1 AATAT-AATTAAAT
*
22097657 AATTTAATTAA
1 AATATAATTAA
22097668 CTATTTACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:22100713 original size:24 final size:24
Alignment explanation
Indices: 22100685--22100736 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22100675 CCGATTCATA
* *
22100685 TTTTTGTATTGCTTTTGGATTACT
1 TTTTTCTATTGATTTTGGATTACT
* *
22100709 TTTTTCTGTTGATTTTGGATTGCT
1 TTTTTCTATTGATTTTGGATTACT
22100733 TTTT
1 TTTT
22100737 CTTTTTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.08, G:0.17, T:0.65
Consensus pattern (24 bp):
TTTTTCTATTGATTTTGGATTACT
Found at i:22101054 original size:125 final size:126
Alignment explanation
Indices: 22100832--22101086 Score: 368
Period size: 125 Copynumber: 2.0 Consensus size: 126
22100822 GGAGTTGGAT
* * * **
22100832 TTTTTTAATTTTACTGTAAGAGAACAATAACGGGAATAGCTGCCCATCATTGCCACAATTGGTCG
1 TTTTTTAATTTTACTGTAACAAAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
*
22100897 TTACCTGTAAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTC-CATCGCTA
66 TTACCCGTAAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
** * ***
22100957 TTTTTTAATTTTACTGTAACAAAACAATAACAGGAATAGAGGCCTGTTATTGCTGTAATTGGTCG
1 TTTTTTAATTTTACTGTAACAAAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
* * *
22101022 TTACCCGTTAAATTGCGACCGCGATCCACCGCTATTGGTGTGGTTCTGCTTCACATCGCTA
66 TTACCCGTAAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
22101083 TTTT
1 TTTT
22101087 CAGCAATAAC
Statistics
Matches: 114, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 102 0.89
126 12 0.11
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (126 bp):
TTTTTTAATTTTACTGTAACAAAACAATAACAGGAATAGAGGCCCATCATTGCCACAATTGGTCG
TTACCCGTAAAATTGCAACCGCGATCCACCGCTATTGGTGTGGTTCCGCTTCACATCGCTA
Found at i:22102332 original size:47 final size:47
Alignment explanation
Indices: 22102256--22103075 Score: 1313
Period size: 47 Copynumber: 17.5 Consensus size: 47
22102246 ATTTTCACAC
* * *
22102256 CAAAATTTGGACAGCATAT--ATACAAAATTGGACTGCATTTGTACAT
1 CAAAAATT-GACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
22102302 CAAAAATTGACAGCATATAAATATATAATTGGACTGTATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102349 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102396 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102443 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA-AGT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACA-T
* * *
22102490 TAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACGT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
22102537 CAAAAATTGACAGCATATACATATGTATTTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
22102584 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* * **
22102631 CAAAAATTGACAGCATATACATAAATATTTGGACTGCATTTGTGTAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
22102678 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* * **
22102725 CAAAAATTGACAGCATATACATAAATATTTGGACTGCATTTGTGTAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
* *
22102772 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
22102819 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102866 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102913 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22102960 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22103007 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
*
22103054 CAAAATTTGACAGCATATACAT
1 CAAAAATTGACAGCATATACAT
22103076 TCATTTACCC
Statistics
Matches: 725, Mismatches: 45, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
45 10 0.01
46 8 0.01
47 707 0.98
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (47 bp):
CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
Found at i:22105639 original size:30 final size:30
Alignment explanation
Indices: 22105594--22105715 Score: 167
Period size: 30 Copynumber: 4.1 Consensus size: 30
22105584 ATAGAAACTA
*
22105594 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATT-ACTGATTCTTAGGAAATTAGG
*
22105625 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
22105654 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
* *
22105684 ATATCGATTATTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
22105714 AT
1 AT
22105716 TTATTTCCTT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
28 5 0.06
29 21 0.26
30 42 0.52
31 13 0.16
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (30 bp):
ATATCAATTACTGATTCTTAGGAAATTAGG
Found at i:22105681 original size:59 final size:60
Alignment explanation
Indices: 22105588--22105708 Score: 217
Period size: 59 Copynumber: 2.0 Consensus size: 60
22105578 TTGTAAATAG
22105588 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
* *
22105648 AAACTAATATCAGTT-ACTGATTCTTAGGAAATTAGGATATCGATTATTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
22105707 AA
1 AA
22105709 TTAGGATTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 44 0.75
60 15 0.25
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (60 bp):
AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
Found at i:22110332 original size:30 final size:30
Alignment explanation
Indices: 22110287--22110408 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
22110277 ATAGAAACTA
*
22110287 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATT-ACTGATTCTTAGGAAATTAGG
*
22110318 ATATCAATTACTGATTCTTAGGAAAACTA--
1 ATATCAATTACTGATTCTTAGG-AAATTAGG
*
22110347 ATATCAGTTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
22110377 ATATCAATTACTGATTCTTAGGAAATTAGG
1 ATATCAATTACTGATTCTTAGGAAATTAGG
22110407 AT
1 AT
22110409 TTATTTCCTT
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
28 5 0.06
29 21 0.25
30 44 0.53
31 13 0.16
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (30 bp):
ATATCAATTACTGATTCTTAGGAAATTAGG
Found at i:22110374 original size:59 final size:60
Alignment explanation
Indices: 22110281--22110401 Score: 235
Period size: 59 Copynumber: 2.0 Consensus size: 60
22110271 TTGTAAATAG
22110281 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
22110341 AAACTAATATCAGTT-ACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
1 AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
22110400 AA
1 AA
22110402 TTAGGATTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 46 0.75
60 15 0.25
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (60 bp):
AAACTAATATCAGTTAACTGATTCTTAGGAAATTAGGATATCAATTACTGATTCTTAGGA
Found at i:22111548 original size:24 final size:24
Alignment explanation
Indices: 22111474--22111585 Score: 122
Period size: 24 Copynumber: 4.6 Consensus size: 24
22111464 GTACATGTAT
*
22111474 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA--AATCGGTAA
22111499 GCTC-TAACGAGCTGTAAATCGGTAA
1 GCTCAT-ACGAGCTG-AAATCGGTAA
* *
22111524 GCTCATACGAGCTGAAATTGATAA
1 GCTCATACGAGCTGAAATCGGTAA
22111548 GCTC-TCACGAGCTGAAATCGGTAA
1 GCTCAT-ACGAGCTGAAATCGGTAA
*
22111572 GCTCATACAAGCTG
1 GCTCATACGAGCTG
22111586 TGGTGTGTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.01
24 40 0.53
25 32 0.43
26 1 0.01
27 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:22121255 original size:34 final size:35
Alignment explanation
Indices: 22121205--22121302 Score: 146
Period size: 34 Copynumber: 2.9 Consensus size: 35
22121195 GTGTAGAGTT
* *
22121205 TTTTAAAAAAACTAATTAAATTAGGTTTTAAGGG-
1 TTTTAAATAAATTAATTAAATTAGGTTTTAAGGGA
*
22121239 TTTTAAATAAATTAATTAAATTAAGTTTT-AGGGA
1 TTTTAAATAAATTAATTAAATTAGGTTTTAAGGGA
*
22121273 TTTTAAATAAATTAATTAAATTAGGGTTTA
1 TTTTAAATAAATTAATTAAATTAGGTTTTA
22121303 GTTTTTTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
33 4 0.07
34 53 0.93
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTAAATAAATTAATTAAATTAGGTTTTAAGGGA
Found at i:22121311 original size:34 final size:34
Alignment explanation
Indices: 22121186--22121313 Score: 141
Period size: 34 Copynumber: 3.7 Consensus size: 34
22121176 TTTTAGAAAA
* * * *
22121186 TAAATTAGGGTGTAGAGTTTTTTAAAAAAACTAAT
1 TAAATTAGGGTTTAG-GGTTTTTAAATAAATTAAT
*
22121221 TAAATTAGGTTTTAAGGG-TTTTAAATAAATTAAT
1 TAAATTAGGGTTT-AGGGTTTTTAAATAAATTAAT
* * *
22121255 TAAATTAAGTTTTAGGGATTTTAAATAAATTAAT
1 TAAATTAGGGTTTAGGGTTTTTAAATAAATTAAT
**
22121289 TAAATTAGGGTTTAGTTTTTTTAAA
1 TAAATTAGGGTTTAGGGTTTTTAAA
22121314 ATAATTTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
33 4 0.05
34 62 0.77
35 12 0.15
36 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.44
Consensus pattern (34 bp):
TAAATTAGGGTTTAGGGTTTTTAAATAAATTAAT
Found at i:22124907 original size:18 final size:18
Alignment explanation
Indices: 22124881--22124923 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
22124871 GACTGAGAAA
* *
22124881 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
22124899 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
22124917 AGGATAC
1 AGGATAC
22124924 TCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:22129510 original size:23 final size:19
Alignment explanation
Indices: 22129466--22129516 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 19
22129456 ATTTAATAAT
22129466 ATAAAAATATATAAATTTA
1 ATAAAAATATATAAATTTA
22129485 ATAAAATATATAATTAATATTTA
1 ATAAAA-ATAT-A-TAA-ATTTA
22129508 ATAAAAATA
1 ATAAAAATA
22129517 ATTATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 1 0.04
22 6 0.21
23 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAAATATATAAATTTA
Found at i:22129519 original size:20 final size:20
Alignment explanation
Indices: 22129466--22129525 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
22129456 ATTTAATAAT
22129466 ATAAAAAT-ATATAA-ATTTA
1 ATAAAAATAAT-TAATATTTA
22129485 ATAAAATATATAATTAATATTTA
1 AT-AAA-A-ATAATTAATATTTA
22129508 ATAAAAATAATT-ATATTT
1 ATAAAAATAATTAATATTT
22129526 TAAAATATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 8 0.22
20 9 0.25
21 2 0.06
22 8 0.22
23 9 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATAATTAATATTTA
Found at i:22134601 original size:179 final size:179
Alignment explanation
Indices: 22134244--22134761 Score: 550
Period size: 179 Copynumber: 2.9 Consensus size: 179
22134234 ATGAACCAAT
* * * * * * *
22134244 ATCGATGATAAGGAATCAAATGCCTCAACTACAACCATCCC-CACCCACTTCCTCTTTTCCAATT
1 ATCGATAATAAGCAATCGAATGTCTCAACTACAATCA-CCCTCCCCCACTTCCTCTTTTCCATTT
* **
22134308 TGGAGATATTGCTAGACATAATATTCGGGTAAAACACAGTCGACACCC-T-AGTAAAGGTTAAAA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTCGACACCCTTGAAAAAAGG-TAAAA
* *
22134371 CAGTAAGAC-TTAGAGCCACCACTTAGATGATACAAATCACATAACTAACAAAC
129 CAGTAAGACATT-GAGCCACCACTCAGATAATACAAATCAC--AACTAACAAAC
* * * * * * *
22134424 AT-TATCAATGAGGAATTGAATGTCTCAACTATAATCATCCT-GCCCACTTCCTCTTTTCCATTT
1 ATCGAT-AATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCTCTTTTCCATTT
* *
22134487 TGGAGGTATTGCTAGACATAATGTT-TGGTAAAACAACAGTCGACACCCTTGCAAAAAAAAGGTA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAAC-ACAGTCGACACCCTTG---AAAAAAGGTA
* * *
22134551 AAACGGTAAGGCATTGAGCCACCGCTCAGATAATACAAATCAC-A-TAACAAAC
126 AAACAGTAAGACATTGAGCCACCACTCAGATAATACAAATCACAACTAACAAAC
* * * *
22134603 ATCGATGATAAGCAGTCGAATGTCTCACCTACAATCACCCTCCCCCACTTCCTCCTTTTTCATTT
1 ATCGATAATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCT-CTTTTCCATTT
* * * *
22134668 TGGAGATATTGCTATACATAATGTTCGGGTAAAACACAGTCAGACGCTCTTGTAAAAAAGTTAAA
65 TGGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTC-GACACCCTTG-AAAAAAGGTAAA
* *
22134733 ACAGTAAGACATAGAGCCACCATTCAGAT
128 ACAGTAAGACATTGAGCCACCACTCAGAT
22134762 TTCAGATGAT
Statistics
Matches: 280, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
178 8 0.03
179 97 0.35
180 75 0.27
181 39 0.14
182 16 0.06
183 37 0.13
184 8 0.03
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (179 bp):
ATCGATAATAAGCAATCGAATGTCTCAACTACAATCACCCTCCCCCACTTCCTCTTTTCCATTTT
GGAGATATTGCTAGACATAATGTTCGGGTAAAACACAGTCGACACCCTTGAAAAAAGGTAAAACA
GTAAGACATTGAGCCACCACTCAGATAATACAAATCACAACTAACAAAC
Found at i:22137078 original size:23 final size:22
Alignment explanation
Indices: 22137052--22137094 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22137042 TTTTAAATAT
*
22137052 TTTATCTTATTCTAAAATTTTCA
1 TTTAT-TTATTATAAAATTTTCA
*
22137075 TTTATTTCTTATAAAATTTT
1 TTTATTTATTATAAAATTTT
22137095 AAATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATTTATTATAAAATTTTCA
Found at i:22137164 original size:20 final size:20
Alignment explanation
Indices: 22137139--22137187 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
22137129 CTAAAAATAA
22137139 TAAAAATTTGATTTAATCCT
1 TAAAAATTTGATTTAATCCT
* *
22137159 TAAAAAATTGATTTAATCTT
1 TAAAAATTTGATTTAATCCT
*
22137179 TTAAAATTT
1 TAAAAATTT
22137188 ATTGTACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
TAAAAATTTGATTTAATCCT
Found at i:22138574 original size:12 final size:12
Alignment explanation
Indices: 22138553--22138590 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
22138543 TATTATTATC
22138553 ATATTTAATTTT
1 ATATTTAATTTT
22138565 AT-TATTAATTATT
1 ATAT-TTAATT-TT
22138578 ATATTTAATTTT
1 ATATTTAATTTT
22138590 A
1 A
22138591 GAAAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 11 0.48
13 10 0.43
14 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTAATTTT
Found at i:22138581 original size:25 final size:24
Alignment explanation
Indices: 22138537--22138590 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
22138527 GTTGAAGATG
22138537 ATTTT-TTATTATTATCATATTTA
1 ATTTTATTATTATTATCATATTTA
*
22138560 ATTTTATTATTAATTATTATATTTA
1 ATTTTATTATT-ATTATCATATTTA
22138585 ATTTTA
1 ATTTTA
22138591 GAAAAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 5 0.18
24 5 0.18
25 18 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTATTATTATTATCATATTTA
Found at i:22138585 original size:13 final size:13
Alignment explanation
Indices: 22138547--22138587 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22138537 ATTTTTTATT
*
22138547 ATTATCATATTTA
1 ATTATTATATTTA
22138560 ATT-TTAT-TATTA
1 ATTATTATAT-TTA
22138572 ATTATTATATTTA
1 ATTATTATATTTA
22138585 ATT
1 ATT
22138588 TTAGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.38
13 13 0.54
14 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATTATATTTA
Found at i:22141256 original size:5 final size:5
Alignment explanation
Indices: 22141246--22141289 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
22141236 GATTATGTTT
22141246 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA T
22141290 ACATAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 22 0.63
6 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:22141271 original size:19 final size:19
Alignment explanation
Indices: 22141247--22141289 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
22141237 ATTATGTTTT
22141247 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
22141266 TATATTATATTATATTATA
1 TATATTATATTATATTATA
22141285 TATAT
1 TATAT
22141290 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:22141319 original size:15 final size:15
Alignment explanation
Indices: 22141299--22141340 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
22141289 TACATAAAAC
*
22141299 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
22141314 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
22141329 AACAGAATAGAA
1 AAAAGAA-AGAA
22141341 GAGACGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:22141397 original size:4 final size:4
Alignment explanation
Indices: 22141390--22141417 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22141380 GAGAAGGAAG
22141390 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
22141418 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:22148575 original size:27 final size:27
Alignment explanation
Indices: 22148542--22148597 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
22148532 GATTATGTGT
*
22148542 TAGGCTTTGGGCCAAATGGATTTAATC
1 TAGGCTTTGGGCCAAATAGATTTAATC
22148569 TAGGCTTTGGGCCAAATAGATTTAATC
1 TAGGCTTTGGGCCAAATAGATTTAATC
22148596 TA
1 TA
22148598 TGTCTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (27 bp):
TAGGCTTTGGGCCAAATAGATTTAATC
Found at i:22153530 original size:56 final size:56
Alignment explanation
Indices: 22153453--22153564 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
22153443 TACTGGTGTG
* *
22153453 GAAAAAGATACAAGGGATTGATTTGATCAGACCA-ACTGAAGAGAAAGTGAAAGTGA
1 GAAAAAAATACAAGGGATTGATTTGATCAGA-CAGACTGAAGAAAAAGTGAAAGTGA
* * *
22153509 GAAAAAAATACACGGGGTTGATTTGATCAGAGAGACTGAAGAAAAAGTGAAAGTGA
1 GAAAAAAATACAAGGGATTGATTTGATCAGACAGACTGAAGAAAAAGTGAAAGTGA
22153565 TTCGTGACAG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.46, C:0.08, G:0.28, T:0.18
Consensus pattern (56 bp):
GAAAAAAATACAAGGGATTGATTTGATCAGACAGACTGAAGAAAAAGTGAAAGTGA
Found at i:22154819 original size:28 final size:30
Alignment explanation
Indices: 22154788--22154845 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
22154778 GAAAATATAG
*
22154788 ATTAGGGGTTAAAT-TGAGAAAT-GTGAAA
1 ATTAGGGGTCAAATGTGAGAAATGGTGAAA
* *
22154816 ATTATGGGTCAAATGTGGGAAATGGTGAAA
1 ATTAGGGGTCAAATGTGAGAAATGGTGAAA
22154846 TATATGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.28
Consensus pattern (30 bp):
ATTAGGGGTCAAATGTGAGAAATGGTGAAA
Found at i:22158153 original size:23 final size:25
Alignment explanation
Indices: 22158092--22158158 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 25
22158082 TTTCTTTGTT
* *
22158092 TTTAAGTTTTTATTTATTT-ACTTTA
1 TTTAAG-TTTTATTTATTTGTCCTTA
22158117 TTTAAGTTTT-TTTATTTGTCCTTA
1 TTTAAGTTTTATTTATTTGTCCTTA
22158141 TTT-A-TTTTATTTATTTGT
1 TTTAAGTTTTATTTATTTGT
22158159 TTATTATTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.11
23 17 0.45
24 11 0.29
25 6 0.16
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTAAGTTTTATTTATTTGTCCTTA
Found at i:22158268 original size:21 final size:21
Alignment explanation
Indices: 22158220--22158268 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
22158210 ATTATTTTTT
*
22158220 TATATTAAAAAAGTAAAAATT
1 TATATTAAAAAAGTAAAAATA
* * *
22158241 TAAATTAGAAAATTAAAAATA
1 TATATTAAAAAAGTAAAAATA
22158262 TATATTA
1 TATATTA
22158269 TAACTGGTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATATTAAAAAAGTAAAAATA
Found at i:22162141 original size:43 final size:43
Alignment explanation
Indices: 22161986--22162142 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
22161976 TGAGTTATCT
* * * *
22161986 TGTAAGACCACATCTGGGACGTTGGCGTCGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-AGA-TTACA
* * * * *
22162030 TGTAGGACCATGTCTAGGACATCGGCATCG-TA-TACGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTA-GATTACA
** * *
22162072 TGTAAGACCTTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTAGATTACA
*
22162115 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
22162143 TCTAAGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.33
43 36 0.40
44 24 0.27
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTAGATTACA
Found at i:22164641 original size:30 final size:29
Alignment explanation
Indices: 22164532--22164668 Score: 132
Period size: 30 Copynumber: 4.6 Consensus size: 29
22164522 GTCACAGAGC
* *
22164532 AGTTCATATCACTC-GTACATGGGCGGCTTG
1 AGTTCATATCACCCAG-ACATGGGC-GATTG
22164562 AGTTCATATCACCCAGACATGGGCGACTTG
1 AGTTCATATCACCCAGACATGGGCGA-TTG
***
22164592 AGTTCATATCACTTGGACATGGGCGATTCG
1 AGTTCATATCACCCAGACATGGGCGATT-G
* ** *
22164622 AGTTCACATCACCCAGACATAAGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGATT-G
*
22164652 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
22164669 GCAACCACCG
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
29 3 0.03
30 86 0.96
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (29 bp):
AGTTCATATCACCCAGACATGGGCGATTG
Found at i:22164655 original size:60 final size:60
Alignment explanation
Indices: 22164532--22164663 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
22164522 GTCACAGAGC
* * * **
22164532 AGTTCATATCACTCGTACATGGGCGGCTTGAGTTCATATCACCCAGACATGGGCGACTTG
1 AGTTCATATCACTCGGACATGGGCGGATTGAGTTCACATCACCCAGACATAAGCGACTTG
* *
22164592 AGTTCATATCACTTGGACATGGGC-GATTCGAGTTCACATCACCCAGACATAAGCG-GTTCG
1 AGTTCATATCACTCGGACATGGGCGGATT-GAGTTCACATCACCCAGACATAAGCGACTT-G
*
22164652 AGTTCATTTCAC
1 AGTTCATATCAC
22164664 CCAGAGCAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.08
60 57 0.92
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (60 bp):
AGTTCATATCACTCGGACATGGGCGGATTGAGTTCACATCACCCAGACATAAGCGACTTG
Found at i:22167542 original size:363 final size:363
Alignment explanation
Indices: 22166877--22167604 Score: 1393
Period size: 363 Copynumber: 2.0 Consensus size: 363
22166867 CAATCGACAA
22166877 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
1 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
*
22166942 ACAACTCCTCGAACTGCGAATTTGACTCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
66 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
*
22167007 AACCCGGATGCATGCGTTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
131 AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
* *
22167072 AATAGTGCCATGACTCGGGTTTCTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
196 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
*
22167137 CATCATCGATATCGTCCGGAACCTCATCAATATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
261 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
*
22167202 GAATCTTTACCATTATTGATCATTTCTCTGACATTTGC
326 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
22167240 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
1 CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
22167305 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
66 ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
*
22167370 AACTCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
131 AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
22167435 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
196 AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
22167500 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
261 CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
22167565 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
326 GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
22167603 CT
1 CT
22167605 CTGTGCTTAT
Statistics
Matches: 358, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
363 358 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (363 bp):
CTTTATGATGTATTGTTTGATGGCAGACACACAGTCCACCTTGTTCTCGAACTGTTACCTAACGA
ACAACTCCTCGAACTGCGAATTTGACGCCAATCTATAATTAGGTACTATATCGGTGTACTTAGGG
AACCCGGATGCATGCGCTACATCTGGATCTACGTACAACATGTCGCCCCCAGGTTCATTTCGTAA
AATAGTGCCACGACTCGGGTTACTGAATGAAGAGCCGTAAACATCTTCATCCTCCTCCAGGCCTT
CATCATCGATATCGTCCGGAACCTCATCAACATCGGGGTCACTAAAATCTTCAACGTCCTGATCA
GAATCTTCACCATTATTGATCATTTCTCTGACATTTGC
Found at i:22168416 original size:29 final size:28
Alignment explanation
Indices: 22168369--22168446 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 28
22168359 TTTGAATATC
* *
22168369 TTTAAAATTA-ATTTAAAAATT-AATAAT
1 TTTAAAATTATATTT-AAAATTAAAAAAA
22168396 TTATAAAAATTATATTTAAAATTAAAAAAA
1 TT-T-AAAATTATATTTAAAATTAAAAAAA
22168426 TTTAAAATATATATTTAAAAT
1 TTTAAAAT-TATATTTAAAAT
22168447 ATTATAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 2 0.05
28 6 0.14
29 26 0.59
30 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTAAAATTATATTTAAAATTAAAAAAA
Found at i:22168443 original size:13 final size:13
Alignment explanation
Indices: 22168425--22168468 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
22168415 AATTAAAAAA
22168425 ATTTAAAATATAT
1 ATTTAAAATATAT
22168438 ATTTAAAATAT-T
1 ATTTAAAATATAT
22168450 A--T-AAATATAT
1 ATTTAAAATATAT
22168460 ATTTAAAAT
1 ATTTAAAAT
22168469 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:22168445 original size:22 final size:22
Alignment explanation
Indices: 22168394--22168467 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
22168384 AAAATTAATA
** *
22168394 ATTTATAAAAATTATATTTA-AA
1 ATTTA-AAAAATTATAAATATAT
*
22168416 ATTAAAAAAATT-TAAAATATAT
1 ATTTAAAAAATTAT-AAATATAT
*
22168438 ATTTAAAATATTATAAATATAT
1 ATTTAAAAAATTATAAATATAT
22168460 ATTTAAAA
1 ATTTAAAA
22168468 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
22 31 0.72
23 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTAAAAAATTATAAATATAT
Found at i:22168455 original size:29 final size:28
Alignment explanation
Indices: 22168369--22168455 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
22168359 TTTGAATATC
22168369 TTTAAAAT-TA-ATTTAAAA-ATTAATAA
1 TTTAAAATATATATTTAAAATATTAA-AA
* **
22168395 TTTATAAAAATTATATTTAAAATTAAAAAAA
1 TTTA-AAATA-TATATTTAAAA-TATTAAAA
22168426 TTTAAAATATATATTTAAAATATTATAAA
1 TTTAAAATATATATTTAAAATATTA-AAA
22168455 T
1 T
22168456 ATATATTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 3 0.06
29 17 0.35
30 12 0.25
31 6 0.12
32 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAAATATATATTTAAAATATTAAAA
Found at i:22168477 original size:22 final size:22
Alignment explanation
Indices: 22168429--22168489 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
22168419 AAAAAAATTT
*
22168429 AAAATATATATTTAAAATATTA
1 AAAATATATATTTAAAATATAA
*
22168451 TAAATATATATTTAAAAT-TAA
1 AAAATATATATTTAAAATATAA
22168472 AAAA-ATAATATTATAAAA
1 AAAATAT-ATATT-TAAAA
22168490 CAATTCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 22 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATATATATTTAAAATATAA
Found at i:22170025 original size:26 final size:27
Alignment explanation
Indices: 22169971--22170027 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
22169961 AATTTTAAAA
* *
22169971 TATTTTTAAAATACTTTTTTTAATTTT
1 TATTTTTAAAATACATTTTTTAATGTT
**
22169998 TATTTTTAAAATA-ATTTTTTGGTGTT
1 TATTTTTAAAATACATTTTTTAATGTT
22170024 TATT
1 TATT
22170028 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACATTTTTTAATGTT
Found at i:22171311 original size:27 final size:27
Alignment explanation
Indices: 22171247--22171312 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
22171237 GGTCGAGGGT
22171247 CTGCCACAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCGGCACCAAAGGTGCCA
* * *
22171274 GTGGCAGAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCGGCACCAAAGGTGCCA
22171301 CTGCCACAGGCG
1 CTGCCACAGGCG
22171313 ACACTTGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.33, G:0.35, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAAAGGTGCCA
Found at i:22171395 original size:3 final size:3
Alignment explanation
Indices: 22171387--22171460 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
22171377 TCAGCTGCAT
* * *
22171387 GAA GAA GAA GAAA GAA -AA GGA -AA GGA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
22171431 AAA GAA GAA GAA G-A GAA GAA GAA AAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
22171461 GAGGAGGAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22171433 original size:29 final size:27
Alignment explanation
Indices: 22171391--22171472 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 27
22171381 CTGCATGAAG
22171391 AAGAAGAAAGAAAAGGAAAGGAGAAGAAA
1 AAGAAGAAA-AAAAGGAAAGGAGAAG-AA
* *
22171420 AAGAAGAAGAAAAA-G-AAGAAGAAGAG
1 AAGAAGAA-AAAAAGGAAAGGAGAAGAA
*
22171446 AAGAAGAAAAAGAAGGAGGAGGAGAAG
1 AAGAAGAAAAA-AAGGA-AAGGAGAAG
22171473 GAGAGGGCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 11 0.25
27 9 0.20
28 1 0.02
29 19 0.43
30 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (27 bp):
AAGAAGAAAAAAAGGAAAGGAGAAGAA
Found at i:22171451 original size:23 final size:22
Alignment explanation
Indices: 22171388--22171460 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 22
22171378 CAGCTGCATG
22171388 AAGAAGAAGAAAGAA-AAGGAAA
1 AAGAAGAAGAAAGAAGAA-GAAA
*
22171410 GGAGAAGAA-AAAGAAGAAGAAA
1 -AAGAAGAAGAAAGAAGAAGAAA
22171432 AAGAAGAAGAAGAGAAGAAGAAA
1 AAGAAGAAGAA-AGAAGAAGAAA
22171455 AAGAAG
1 AAGAAG
22171461 GAGGAGGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.16
22 12 0.27
23 26 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAAGAAGAAGAAA
Found at i:22171517 original size:21 final size:20
Alignment explanation
Indices: 22171487--22171534 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
22171477 GGGCGGTGCC
*
22171487 AGAAAAAGAAAAGAAAAAGAG
1 AGAAAGAGAAAAGAAAAAG-G
* *
22171508 AGAAAGAGAATAGAGAAAGG
1 AGAAAGAGAAAAGAAAAAGG
22171528 AGAAAGA
1 AGAAAGA
22171535 AATAGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
AGAAAGAGAAAAGAAAAAGG
Found at i:22174903 original size:8 final size:8
Alignment explanation
Indices: 22174875--22174916 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
22174865 GAGCTTATGC
*
22174875 TGTAAAGT
1 TGTAATGT
*
22174883 TGTTATG-
1 TGTAATGT
22174890 TGTAATGT
1 TGTAATGT
22174898 TGTAATGT
1 TGTAATGT
22174906 TGTAATGT
1 TGTAATGT
22174914 TGT
1 TGT
22174917 TGTAACAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:22175712 original size:25 final size:26
Alignment explanation
Indices: 22175653--22175712 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
22175643 TAATTAAATT
**
22175653 TATACAAAAAAGTACAAACTTTGTAA
1 TATACAAAAAAGTACAAACTGAGTAA
*
22175679 TATA-AAAAAAATACAAACTAGAGTAA
1 TATACAAAAAAGTACAAACT-GAGTAA
22175705 TAT-CAAAA
1 TATACAAAA
22175713 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (26 bp):
TATACAAAAAAGTACAAACTGAGTAA
Found at i:22178509 original size:30 final size:30
Alignment explanation
Indices: 22178467--22178545 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
22178457 TAACAAATAA
22178467 ATAAAATAAAATAATAAAACATAGAATGTAC
1 ATAAAAT-AAATAATAAAACATAGAATGTAC
* *
22178498 ATAACATAAATAATAAAACATAGAATGTGC
1 ATAAAATAAATAATAAAACATAGAATGTAC
22178528 ATAAAATAAA-AATTAAAA
1 ATAAAATAAATAA-TAAAA
22178546 TTAAATTATG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.05
30 36 0.82
31 6 0.14
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (30 bp):
ATAAAATAAATAATAAAACATAGAATGTAC
Found at i:22178619 original size:39 final size:39
Alignment explanation
Indices: 22178537--22178611 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
22178527 CATAAAATAA
* * *
22178537 AAAT-TAAAATTAAATTATGAATGAATGAAAATATAGAT
1 AAATATAAAATTAAATTATGAATAAATGAAAACATACAT
22178575 AAATATAAAATTAAATTATGAATAAAT-ATAAACATAC
1 AAATATAAAATTAAATTATGAATAAATGA-AAACATAC
22178612 CTTAATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.31
Consensus pattern (39 bp):
AAATATAAAATTAAATTATGAATAAATGAAAACATACAT
Found at i:22178814 original size:3 final size:3
Alignment explanation
Indices: 22178806--22178914 Score: 55
Period size: 3 Copynumber: 36.3 Consensus size: 3
22178796 CTTCCCTCCC
* * * *
22178806 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT
* * * * * * *
22178852 GCG CCT CCT TCC CCT TCT TCA TCT TC- TCT TC- TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
22178897 TCT TCT CTCAT TCT TCT T
1 TCT TCT -TC-T TCT TCT T
22178915 TCCTGTAGCT
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.10
3 61 0.77
4 9 0.11
5 1 0.01
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:22178892 original size:11 final size:11
Alignment explanation
Indices: 22178865--22178914 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
22178855 CCTCCTTCCC
22178865 CTTCTTCATCTT
1 CTTCTTC-TCTT
22178877 C-TCTTCTCTT
1 CTTCTTCTCTT
*
22178887 CTTCTTTTCTT
1 CTTCTTCTCTT
22178898 CTTC-TCTCATT
1 CTTCTTCTC-TT
22178909 CTTCTT
1 CTTCTT
22178915 TCCTGTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 8 0.24
11 23 0.70
12 2 0.06
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (11 bp):
CTTCTTCTCTT
Found at i:22179617 original size:12 final size:12
Alignment explanation
Indices: 22179596--22179629 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22179586 NATATATATT
*
22179596 AAAATTATATAA
1 AAAATAATATAA
22179608 AAAATAATATAA
1 AAAATAATATAA
*
22179620 AAATTAATAT
1 AAAATAATAT
22179630 GGACGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:22180400 original size:31 final size:29
Alignment explanation
Indices: 22180325--22180401 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
22180315 GGATTGGATC
22180325 AAAATTTCATGTATAAAATTATACAAAACT
1 AAAA-TTCATGTATAAAATTATACAAAACT
* * * *
22180355 AAAATTTATATATAAAATTATACTTTAAATT
1 AAAATTCATGTATAAAATTATAC--AAAACT
22180386 AAAATTCATGTATAAA
1 AAAATTCATGTATAAA
22180402 TTTGAGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 17 0.44
30 4 0.10
31 18 0.46
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTCATGTATAAAATTATACAAAACT
Found at i:22182385 original size:7 final size:7
Alignment explanation
Indices: 22182373--22182409 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182363 GCTAAGCTAC
22182373 CACTTAT
1 CACTTAT
22182380 CACTTAT
1 CACTTAT
22182387 CACTTAT
1 CACTTAT
*
22182394 CACTTGT
1 CACTTAT
*
22182401 CACTGAT
1 CACTTAT
22182408 CA
1 CA
22182410 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22182394 original size:57 final size:57
Alignment explanation
Indices: 22182321--22182834 Score: 849
Period size: 57 Copynumber: 9.2 Consensus size: 57
22182311 CTTACACGGA
* *
22182321 ATCACTTATCAATTATCTCTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182378 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182435 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182492 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182549 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182606 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
22182663 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCT---AC--
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
*
22182715 --CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCT-AAGCTACCACTT
* * *
22182771 AT-A---A--A-TTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCT-AAGCTACCACTT
*
22182822 ATCACTTGTCACT
1 ATCACTTATCACT
22182835 GATTAGAAGT
Statistics
Matches: 436, Mismatches: 6, Indels: 29
0.93 0.01 0.06
Matches are distributed among these distances:
50 42 0.10
51 51 0.12
52 2 0.00
54 5 0.01
57 335 0.77
58 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (57 bp):
ATCACTTATCACTTATCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
Found at i:22182442 original size:7 final size:7
Alignment explanation
Indices: 22182430--22182466 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182420 GCTAAGCTAC
22182430 CACTTAT
1 CACTTAT
22182437 CACTTAT
1 CACTTAT
22182444 CACTTAT
1 CACTTAT
*
22182451 CACTTGT
1 CACTTAT
*
22182458 CACTGAT
1 CACTTAT
22182465 CA
1 CA
22182467 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22182499 original size:7 final size:7
Alignment explanation
Indices: 22182487--22182523 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182477 GCTAAGCTAC
22182487 CACTTAT
1 CACTTAT
22182494 CACTTAT
1 CACTTAT
22182501 CACTTAT
1 CACTTAT
*
22182508 CACTTGT
1 CACTTAT
*
22182515 CACTGAT
1 CACTTAT
22182522 CA
1 CA
22182524 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22182556 original size:7 final size:7
Alignment explanation
Indices: 22182544--22182580 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182534 GCTAAGCTAC
22182544 CACTTAT
1 CACTTAT
22182551 CACTTAT
1 CACTTAT
22182558 CACTTAT
1 CACTTAT
*
22182565 CACTTGT
1 CACTTAT
*
22182572 CACTGAT
1 CACTTAT
22182579 CA
1 CA
22182581 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22182613 original size:7 final size:7
Alignment explanation
Indices: 22182601--22182637 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182591 GCTAAGCTAC
22182601 CACTTAT
1 CACTTAT
22182608 CACTTAT
1 CACTTAT
22182615 CACTTAT
1 CACTTAT
*
22182622 CACTTGT
1 CACTTAT
*
22182629 CACTGAT
1 CACTTAT
22182636 CA
1 CA
22182638 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22182670 original size:7 final size:7
Alignment explanation
Indices: 22182658--22182694 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22182648 GCTAAGCTAC
22182658 CACTTAT
1 CACTTAT
22182665 CACTTAT
1 CACTTAT
22182672 CACTTAT
1 CACTTAT
*
22182679 CACTTGT
1 CACTTAT
*
22182686 CACTGAT
1 CACTTAT
22182693 CA
1 CA
22182695 AATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:22183559 original size:45 final size:46
Alignment explanation
Indices: 22183490--22183580 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 46
22183480 GGTTTCGATA
22183490 CCTTATTTTCGATTCTAATTATTTTAATATTTATTCCTAGTACACT
1 CCTTATTTTCGATTCTAATTATTTTAATATTTATTCCTAGTACACT
22183536 CCTT-TTTTCGATTCTAATTATTTTAATATTTATTCCTAGTACACT
1 CCTTATTTTCGATTCTAATTATTTTAATATTTATTCCTAGTACACT
22183581 ATTCACTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 41 0.91
46 4 0.09
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.53
Consensus pattern (46 bp):
CCTTATTTTCGATTCTAATTATTTTAATATTTATTCCTAGTACACT
Found at i:22184000 original size:30 final size:30
Alignment explanation
Indices: 22183935--22184022 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
22183925 GGTGCAAGGG
* * *
22183935 TGAGTGCATATTGATAGTAATACATTTTCTA
1 TGAGTGCACATTGATAGTAAAAC-CTTTCTA
** *
22183966 TGAGTGTGCATTGATAGTAAAACCTTTGTA
1 TGAGTGCACATTGATAGTAAAACCTTTCTA
*
22183996 TGAGTGCATATTGATAGTAAAACCTTT
1 TGAGTGCACATTGATAGTAAAACCTTT
22184023 TGTGTTGTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (30 bp):
TGAGTGCACATTGATAGTAAAACCTTTCTA
Found at i:22184186 original size:105 final size:105
Alignment explanation
Indices: 22183996--22184209 Score: 338
Period size: 105 Copynumber: 2.0 Consensus size: 105
22183986 AACCTTTGTA
*
22183996 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGGTTTTACTTGCTAAATTCATAGGAGAGAA
1 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
*
22184061 CTTAGTAGTGAGAGTATTAATGATCTTCAAGGTGCAAGGG
66 CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
* * * *
22184101 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGTTGAATTCATAGGGGTGAA
1 TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
* * * *
22184166 TTTAGTGGTGAAAGTTTTAATGATTTTCAAGGTGCAAGGG
66 CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
22184206 TGAG
1 TGAG
22184210 GAAAATTATC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.37
Consensus pattern (105 bp):
TGAGTGCATATTGATAGTAAAACCTTTTGTGTTGTGATTTTACTTGCTAAATTCATAGGAGAGAA
CTTAGTAGTGAAAGTATTAATGATCTTCAAGGTGCAAGGG
Found at i:22186402 original size:2 final size:2
Alignment explanation
Indices: 22186395--22186427 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22186385 AATTAGATTT
*
22186395 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22186428 CTTGATGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22196114 original size:20 final size:20
Alignment explanation
Indices: 22196089--22196143 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
22196079 TGCAGCTTCG
*
22196089 TTGTATCGGTAGAAGGAAAC
1 TTGTATCGGTAAAAGGAAAC
22196109 TTGTATCGGTAAAAGGAAAC
1 TTGTATCGGTAAAAGGAAAC
22196129 TTGTATCGGTAAAAG
1 TTGTATCGGTAAAAG
22196144 TCTTTCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (20 bp):
TTGTATCGGTAAAAGGAAAC
Found at i:22198064 original size:21 final size:22
Alignment explanation
Indices: 22198016--22198064 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
22198006 ATAAATAATA
* *
22198016 AATATGTATATACAAAATATGT
1 AATATATATATACAAAATATGG
*
22198038 ACATATATATATA-AAATTATGG
1 A-ATATATATATACAAAATATGG
22198060 AATAT
1 AATAT
22198065 GAAAATAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
AATATATATATACAAAATATGG
Found at i:22198268 original size:3 final size:3
Alignment explanation
Indices: 22198238--22198289 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
22198228 AAATAAAAAC
* ** * *
22198238 ATA ACA ATA ATA ACC ATA ATA TTG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22198286 ATA A
1 ATA A
22198290 AAGATGATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22203070 original size:20 final size:18
Alignment explanation
Indices: 22203019--22203073 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
22203009 TTAAAATCTT
*
22203019 TTTTAAATTTTTAAAAAA
1 TTTTAAAATTTTAAAAAA
*
22203037 ATTTAAAATCTTTTAAAATTAA
1 TTTTAAAA--TTTTAAAA--AA
22203059 TTTTAAAATTTTAAA
1 TTTTAAAATTTTAAA
22203074 TCACGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.20
20 15 0.50
22 9 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAATTTTAAAAAA
Found at i:22203072 original size:30 final size:30
Alignment explanation
Indices: 22203001--22203073 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
22202991 TATTATAAAA
* *
22203001 ATAAAAGTTTAAAATCTTTTTTAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
*
22203031 AAAAAAATTTAAAATC-TTTTAAAATTAATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
22203062 -TAAAATTTTAAA
1 ATAAAAATTTAAA
22203074 TCACGAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.25
30 24 0.67
31 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:22203824 original size:15 final size:15
Alignment explanation
Indices: 22203804--22203833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22203794 CCCTAACTCG
22203804 ACCCTAAATCTCTAA
1 ACCCTAAATCTCTAA
22203819 ACCCTAAATCTCTAA
1 ACCCTAAATCTCTAA
22203834 CTCTAGCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
ACCCTAAATCTCTAA
Found at i:22204738 original size:41 final size:41
Alignment explanation
Indices: 22204706--22204927 Score: 336
Period size: 41 Copynumber: 5.4 Consensus size: 41
22204696 GCGCTTTACC
22204706 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * * *
22204747 AAAAAACGCCGCTAGAGGTCTGCACATTAGCGGCGTTTCTTT
1 -AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
* * * *
22204789 AAAAACGCCGCTAAAGGTCTGCGCATAAGCGACGCTTATTT
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
** *
22204830 AAAAACGCCGCTAAAGGTCTGTACATTAGCGGCACTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
22204871 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
22204912 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
22204928 ACCTACAAGG
Statistics
Matches: 160, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 123 0.77
42 37 0.23
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTG
Found at i:22205095 original size:40 final size:38
Alignment explanation
Indices: 22204965--22205099 Score: 103
Period size: 40 Copynumber: 3.4 Consensus size: 38
22204955 TGGGCTTAGG
* * *
22204965 TTTTTTGCGGCGTTTCCTCAAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTT--TCAGAAAGCGCCGCTAATGCTCA
* * * * * *
22205005 TTTTTAGTGGCGCTTCTCAGAAATCGCCGCGATTGATCGA
1 TTTTTAGCGGCG-TTTTCAGAAAGCGCCGCTAATGCTC-A
22205045 TCTTTT-GCGGCGTTTT-ACGTAAAGCGCCGCTAATGCTCAA
1 T-TTTTAGCGGCGTTTTCA-G-AAAGCGCCGCTAATGCTC-A
22205085 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
22205100 GTCTAACAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
38 1 0.01
39 25 0.34
40 42 0.57
41 6 0.08
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAGAAAGCGCCGCTAATGCTCA
Found at i:22232590 original size:41 final size:37
Alignment explanation
Indices: 22232523--22232608 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 37
22232513 TTTAATTTAG
22232523 AATTATTAGTTAAAAAATTGATGTAAAATAGAAGTCGTGAT
1 AATTA-TAGTTAAAAAATTGATGTAAAA-A-AA-TCGTGAT
* *
22232564 AATTATATTTAAAAAATT-ATTAGTAAAAAAATTGTGAT
1 AATTATAGTTAAAAAATTGA-T-GTAAAAAAATCGTGAT
22232602 AATTATA
1 AATTATA
22232609 ATTATAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 13 0.32
39 3 0.07
40 14 0.34
41 11 0.27
ACGTcount: A:0.50, C:0.01, G:0.12, T:0.37
Consensus pattern (37 bp):
AATTATAGTTAAAAAATTGATGTAAAAAAATCGTGAT
Found at i:22232659 original size:15 final size:16
Alignment explanation
Indices: 22232634--22232663 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22232624 GCAATAATCA
22232634 ATTGTATGTAAAATTT
1 ATTGTATGTAAAATTT
22232650 ATTG-ATGTAAAATT
1 ATTGTATGTAAAATT
22232664 AAGATATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (16 bp):
ATTGTATGTAAAATTT
Found at i:22256970 original size:6 final size:6
Alignment explanation
Indices: 22256961--22256986 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22256951 ATAGAAGCAA
22256961 ATGAAT ATGAAT ATGAAT ATGAAT AT
1 ATGAAT ATGAAT ATGAAT ATGAAT AT
22256987 TGGAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATGAAT
Found at i:22258900 original size:94 final size:95
Alignment explanation
Indices: 22258787--22258976 Score: 355
Period size: 94 Copynumber: 2.0 Consensus size: 95
22258777 TTAAAAGCTA
* *
22258787 AATCCTATTAAGAATCAAAGGAAGCTAAACCTTCTGTTCTTTTTTTTTTTTTTTTTTAATTACCT
1 AATCCTATTAAGAATCAAAGGAAGCTAAACCTTCTGTTCTTTTTTTTTTTTTTTTTGAATGACCT
22258852 TAATCCATTAAGTTTTTTTGATCTTTTCAT
66 TAATCCATTAAGTTTTTTTGATCTTTTCAT
22258882 AATCCTATT-AGAATCAAAGGAAGCTAAACCTTCTGTTCTTTTTTTTTTTTTTTTTGAATGACCT
1 AATCCTATTAAGAATCAAAGGAAGCTAAACCTTCTGTTCTTTTTTTTTTTTTTTTTGAATGACCT
22258946 TAATCCATTAAGTTTTTTTGATCTTTTCAT
66 TAATCCATTAAGTTTTTTTGATCTTTTCAT
22258976 A
1 A
22258977 CCTTTTTCCA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 84 0.90
95 9 0.10
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (95 bp):
AATCCTATTAAGAATCAAAGGAAGCTAAACCTTCTGTTCTTTTTTTTTTTTTTTTTGAATGACCT
TAATCCATTAAGTTTTTTTGATCTTTTCAT
Found at i:22262275 original size:2 final size:2
Alignment explanation
Indices: 22262270--22262298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22262260 ACACACACAC
22262270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22262299 ACTCGAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22262413 original size:2 final size:2
Alignment explanation
Indices: 22262408--22262436 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22262398 CACACACCAC
22262408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22262437 ACTCGAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22262430 original size:138 final size:137
Alignment explanation
Indices: 22262256--22262532 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 137
22262246 CTCCTCCTCA
22262256 ACACACACACACACATATATATATATATATATATATATATATAACTCGAGAATTACTTAGGAAAT
1 ACACACACACACACATATATATATATATATATATATATATATAACTCGAGAATTACTTAGGAAAT
22262321 CGCCATTTCCAGCTTATAATCAGAATCTCATCCTTGGATTCTCAAAATAATTGCCATAAAAATTC
66 CGCCATTTCCAGCTTATAATCAGAATCTCATCCTTGGATTCTCAAAATAATTGCCATAAAAATTC
22262386 ATCTTTT
131 ATCTTTT
22262393 ACACACACACACCACATATATATATATATATATATATATATATAACTCGAGAATTACTTAGGAAA
1 ACACACACACA-CACATATATATATATATATATATATATATATAACTCGAGAATTACTTAGGAAA
22262458 TCGCCATTTCCAGCTTATAATCAGAATCTCATCCTTGGATTCTCAAAATAATTGCCATAAAAATT
65 TCGCCATTTCCAGCTTATAATCAGAATCTCATCCTTGGATTCTCAAAATAATTGCCATAAAAATT
22262523 CATCTTTT
130 CATCTTTT
22262531 AC
1 AC
22262533 TGTGTTCGAG
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 11 0.08
138 128 0.92
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (137 bp):
ACACACACACACACATATATATATATATATATATATATATATAACTCGAGAATTACTTAGGAAAT
CGCCATTTCCAGCTTATAATCAGAATCTCATCCTTGGATTCTCAAAATAATTGCCATAAAAATTC
ATCTTTT
Found at i:22264484 original size:38 final size:38
Alignment explanation
Indices: 22264441--22264518 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
22264431 TTCTAGGTAA
22264441 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
1 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
*
22264479 TATCATCATCATCGTCGTCAAACCAAAGCCATGGGTTT
1 TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
22264517 TA
1 TA
22264519 GTTTGTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (38 bp):
TATCATCATCATCATCGTCAAACCAAAGCCATGGGTTT
Found at i:22276084 original size:18 final size:19
Alignment explanation
Indices: 22276055--22276091 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22276045 AACATTAAGC
*
22276055 TTTAATTTTTTTTTTAATT
1 TTTAATTTTTTTTATAATT
22276074 TTTAA-TTTTTTTATAATT
1 TTTAATTTTTTTTATAATT
22276092 AAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTAATTTTTTTTATAATT
Found at i:22284314 original size:21 final size:22
Alignment explanation
Indices: 22284278--22284362 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 22
22284268 CCAAGAATAA
*
22284278 AGCAAAAAAGAGGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
*
22284300 AGCAAAAACGA-GGGACAAACC
1 AGCAAAAACGAGGGGAGAAACC
* * *
22284321 AGTAAGAAC-AAGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
* *
22284342 AACAAGAACGAGGGGAGAAAC
1 AGCAAAAACGAGGGGAGAAAC
22284363 TGCTGTTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 20 0.38
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.01
Consensus pattern (22 bp):
AGCAAAAACGAGGGGAGAAACC
Found at i:22285515 original size:34 final size:35
Alignment explanation
Indices: 22285446--22285681 Score: 137
Period size: 35 Copynumber: 6.5 Consensus size: 35
22285436 CGTGATCCGA
22285446 TTGAAACACGAGAATTTTTTTTAAACACAGAAAAT
1 TTGAAACACGAGAATTTTTTTTAAACACAGAAAAT
* * *
22285481 TTGAAACACTA-ATTTTTTTTTAAA-ACATGGAAATTT
1 TTGAAACACGAGAATTTTTTTTAAACACA--GAAA-AT
* **
22285517 TTGAAACATGAGAATTTTTTGCAAA-ACACGAAAATGT
1 TTGAAACACGAGAATTTTTTTTAAACACA-GAAAA--T
* ** **
22285554 TTGAAACACGA-AAATTTTTGAAAACA-AGAATTTTT
1 TTGAAACACGAGAATTTTTTTTAAACACAGAA--AAT
*
22285589 TTGAAACACGA-AATTTTTTTGAAA-ACACGAAAACTT
1 TTGAAACACGAGAATTTTTTTTAAACACA-GAAAA--T
* * *
22285625 TTGAAACACGGGAAATTTTTTTGAAA-AAACGAAAATTT
1 TTGAAACACGAG-AATTTTTTTTAAACACA-GAAAA--T
*
22285663 TTGAAACACGAAAATTTTT
1 TTGAAACACGAGAATTTTT
22285682 GATAAATTAC
Statistics
Matches: 161, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
33 3 0.02
34 13 0.08
35 40 0.25
36 40 0.25
37 32 0.20
38 33 0.20
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (35 bp):
TTGAAACACGAGAATTTTTTTTAAACACAGAAAAT
Found at i:22285523 original size:17 final size:17
Alignment explanation
Indices: 22285497--22285683 Score: 167
Period size: 17 Copynumber: 10.4 Consensus size: 17
22285487 CACTAATTTT
* * *
22285497 TTTTTAAAACATGGAAA
1 TTTTTGAAACACGAAAA
* *
22285514 TTTTTGAAACATGAGAAT
1 TTTTTGAAACACGA-AAA
22285532 TTTTTGCAAAACACGAAAA
1 TTTTTG--AAACACGAAAA
*
22285551 TGTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
22285568 TTTTTGAAAACAAGAATT
1 TTTTTG-AAACACGAAAA
*
22285586 TTTTTGAAACACGAAATT
1 TTTTTGAAACACGAAA-A
22285604 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
22285622 CTTTTGAAACACGGGAAATT
1 TTTTTGAAACAC--GAAA-A
*
22285642 TTTTTGAAAAAACGAAAA
1 TTTTTG-AAACACGAAAA
22285660 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
22285677 TTTTTGA
1 TTTTTGA
22285684 TAAATTACAT
Statistics
Matches: 141, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 59 0.42
18 40 0.28
19 25 0.18
20 12 0.09
21 5 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:22285524 original size:71 final size:70
Alignment explanation
Indices: 22285446--22285681 Score: 244
Period size: 71 Copynumber: 3.3 Consensus size: 70
22285436 CGTGATCCGA
* * *
22285446 TTGAAACACGAGAATTTTTTT-TAAACACAGAAAA-TTTGAAACACTAATTTTTTTTTAAAACAT
1 TTGAAACACGAGAATTTTTTTCAAAACAC-GAAAATTTTGAAACACGAA-TTTTTTTGAAAACA-
22285509 GGAAATTT
63 GGAAATTT
* * ** *
22285517 TTGAAACATGAGAATTTTTTGCAAAACACGAAAATGTTTGAAACACGAAAATTTTTGAAAACAAG
1 TTGAAACACGAGAATTTTTTTCAAAACACGAAAAT-TTTGAAACACGAATTTTTTTGAAAACAGG
*
22285582 AATTTTT
65 AA-ATTT
* *
22285589 TTGAAACACGA-AATTTTTTTGAAAACACGAAAACTTTTGAAACACGGGAAATTTTTTTGAAAAA
1 TTGAAACACGAGAATTTTTTTCAAAACACGAAAA-TTTTGAAACAC--G-AATTTTTTTGAAAAC
*
22285653 ACGAAAATTT
62 A-GGAAATTT
*
22285663 TTGAAACACGAAAATTTTT
1 TTGAAACACGAGAATTTTT
22285682 GATAAATTAC
Statistics
Matches: 137, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
71 57 0.42
72 31 0.23
73 13 0.09
74 27 0.20
75 9 0.07
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (70 bp):
TTGAAACACGAGAATTTTTTTCAAAACACGAAAATTTTGAAACACGAATTTTTTTGAAAACAGGA
AATTT
Found at i:22285535 original size:18 final size:17
Alignment explanation
Indices: 22285446--22285683 Score: 158
Period size: 17 Copynumber: 13.2 Consensus size: 17
22285436 CGTGATCCGA
22285446 TTGAAACACGAGAATTTTT
1 TTGAAACACGA-AA-TTTT
* *
22285465 TTTAAACACAGAAA--AT
1 TTGAAACAC-GAAATTTT
* *
22285481 TTGAAACACTAATTTTTTT
1 TTGAAACACGAA--ATTTT
* *
22285500 TTAAAACATGGAAA-TTT
1 TTGAAACA-CGAAATTTT
*
22285517 TTGAAACATGAGAATTTT
1 TTGAAACACGA-AATTTT
* *
22285535 TTGCAAAACACGAAAATGT
1 TTG--AAACACGAAATTTT
*
22285554 TTGAAACACGAAAATTT
1 TTGAAACACGAAATTTT
* *
22285571 TTGAAAACAAGAATTTTT
1 TTG-AAACACGAAATTTT
22285589 TTGAAACACGAAATTTTT
1 TTGAAACACGAAA-TTTT
**
22285607 TTGAAAACACGAAAACTT
1 TTG-AAACACGAAATTTT
22285625 TTGAAACACGGGAAATTTTT
1 TTGAAACAC--GAAA-TTTT
* *
22285645 TTGAAAAAACGAAAATTT
1 TTG-AAACACGAAATTTT
*
22285663 TTGAAACACGAAAATTT
1 TTGAAACACGAAATTTT
22285680 TTGA
1 TTGA
22285684 TAAATTACAT
Statistics
Matches: 174, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.01
16 11 0.06
17 59 0.34
18 38 0.22
19 43 0.25
20 16 0.09
21 5 0.03
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (17 bp):
TTGAAACACGAAATTTT
Found at i:22286226 original size:21 final size:22
Alignment explanation
Indices: 22286202--22286243 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22286192 TACTTTTGGG
22286202 CCTTTTTTCTCTCTT-TTTTTC
1 CCTTTTTTCTCTCTTCTTTTTC
*
22286223 CCTTTTTTTTCTCTTCTTTTT
1 CCTTTTTTCTCTCTTCTTTTT
22286244 TCTGTTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
CCTTTTTTCTCTCTTCTTTTTC
Found at i:22286245 original size:12 final size:12
Alignment explanation
Indices: 22286203--22286246 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
22286193 ACTTTTGGGC
22286203 CTTTTTTCTC-T
1 CTTTTTTCTCTT
*
22286214 CTTTTTTTCCCTT
1 C-TTTTTTCTCTT
22286227 -TTTTTTCTCTT
1 CTTTTTTCTCTT
22286238 CTTTTTTCT
1 CTTTTTTCT
22286247 GTTGGGCCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 11 0.39
12 16 0.57
13 1 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
CTTTTTTCTCTT
Found at i:22286512 original size:22 final size:22
Alignment explanation
Indices: 22286455--22286513 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 22
22286445 TGCCACCGTC
22286455 TTTTCCTCCTTCTCTTCTTCTCCT
1 TTTTCCT-CTTCT-TTCTTCTCCT
* *
22286479 TTCTCCTC-TCTTTC-TCTCTT
1 TTTTCCTCTTCTTTCTTCTCCT
22286499 TTTTCCTCTTTCTTT
1 TTTTCCTC-TTCTTT
22286514 TTGCTGCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 8 0.27
23 1 0.03
24 6 0.20
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTCCTCTTCTTTCTTCTCCT
Found at i:22286788 original size:29 final size:29
Alignment explanation
Indices: 22286746--22286909 Score: 154
Period size: 29 Copynumber: 5.6 Consensus size: 29
22286736 AAAACTTCTG
*
22286746 GGGTCAAAATGTAATTTTAAGAAAATTTA
1 GGGTCAAAATGTAATTTCAAGAAAATTTA
22286775 GGGTCAAAATGTAATTT-AA-AAAAGTTTA
1 GGGTCAAAATGTAATTTCAAGAAAA-TTTA
* *
22286803 GGGGTCAAAATATAATTTCAAGAAAGTTTAA
1 -GGGTCAAAATGTAATTTCAAGAAAATTT-A
** * *
22286834 GGGTTGAAATATAATTTCAAGAAATTTTA
1 GGGTCAAAATGTAATTTCAAGAAAATTTA
* * * *
22286863 GGGGTTAAAATGCAATTCCAA-AAAAGTTAA
1 -GGGTCAAAATGTAATTTCAAGAAAA-TTTA
*
22286893 GGGTCAAAATGCAATTT
1 GGGTCAAAATGTAATTT
22286910 TTTTAAAAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.03
28 6 0.05
29 52 0.45
30 49 0.43
31 4 0.03
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTCAAGAAAATTTA
Found at i:22286831 original size:30 final size:30
Alignment explanation
Indices: 22286745--22286909 Score: 174
Period size: 30 Copynumber: 5.6 Consensus size: 30
22286735 CAAAACTTCT
* *
22286745 GGGGTCAAAATGTAATTTTAAGAAAATTTA
1 GGGGTCAAAATGTAATTTCAAGAAAGTTTA
*
22286775 -GGGTCAAAATGTAATTT-AAAAAAGTTTA
1 GGGGTCAAAATGTAATTTCAAGAAAGTTTA
*
22286803 GGGGTCAAAATATAATTTCAAGAAAGTTTA
1 GGGGTCAAAATGTAATTTCAAGAAAGTTTA
* ** * *
22286833 AGGGTTGAAATATAATTTCAAGAAATTTTA
1 GGGGTCAAAATGTAATTTCAAGAAAGTTTA
* * * *
22286863 GGGGTTAAAATGCAATTCCAAAAAAG-TTA
1 GGGGTCAAAATGTAATTTCAAGAAAGTTTA
* *
22286892 AGGGTCAAAATGCAATTT
1 GGGGTCAAAATGTAATTT
22286910 TTTTAAAAAC
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
28 9 0.08
29 51 0.44
30 55 0.48
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTCAAGAAAGTTTA
Found at i:22287680 original size:79 final size:77
Alignment explanation
Indices: 22287092--22288726 Score: 1890
Period size: 78 Copynumber: 20.9 Consensus size: 77
22287082 TCCTTTTTCT
* * * * * * *
22287092 TTTTTGAAAAACAGAAATTGAAAAAATACCTCGGCGTGCGACCTGAAGCTTAACTCACCTCTCGC
1 TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
22287157 AATATGAGTTGA
66 AATATGAGTTGA
** * * * **
22287169 TTTTTGAAAAATA-ATTTTTTTAAAAAATACCTCGGCATATAACCCGAACCTCAACTCACCTCTC
1 TTTTTGAAAAATAGA--AATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
22287233 GCAATA-GAGTTGA
64 GCAATATGAGTTGA
* *
22287246 TTTTTGAAAAACAGAAATTTTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCGCCTCTC
1 TTTTTGAAAAATAGAAA--TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
22287311 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* * *
22287325 TTTTTGAAAAAT--AAATT-GAAAAATACCTCGGCGTGTGACCCGAGGCTCAATTCACCTCTCGC
1 TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
22287387 AATATGAGTTGA
66 AATATGAGTTGA
* * * * *
22287399 TTTTTTGAAAAACAAAAATTAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACATCTTG
1 -TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
22287464 C-A-ATGAGTTGA
65 CAATATGAGTTGA
* *
22287475 TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAATTCACCTCTC
1 TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
22287539 ACAATATGAGTTGA
64 GCAATATGAGTTGA
** * * ** * *
22287553 TTTTTGAAAACCATAAATT-GAAAAATACCTCGGCGGGTGACTCGAGGCTCAACTCACCTCTTGC
1 TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
22287617 AATATGAGTTGA
66 AATATGAGTTGA
* *
22287629 TTTTTTTGAAAAATAGAAATTAAAAAAATATCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTC
1 --TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
22287694 GCAATATGAGTTGA
64 GCAATATGAGTTGA
*
22287708 TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
22287773 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* * * * *
22287787 TTTTTG-AAAA-ACAAATT-GAAAAATACCTCGGCGTGCGACCCGAGGCTTAACTCACCTCTCGC
1 TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
22287849 AATATGAGTTGA
66 AATATGAGTTGA
* * *
22287861 TATTTTGAAAAATAGAAATTAAAAAAAATACCTTGGCGTGTGACCCGAGGCTCAACTCACCTCTT
1 T-TTTTGAAAAATAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
22287926 ACAATATGAGTTGA
64 GCAATATGAGTTGA
* * ** *
22287940 TTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATGT-ATTCGAGGCTCAACTCATCTCTC
1 TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
22288004 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* ** *
22288018 TTTTTGAAAAATAAAAATTTAAAAGAAATACCTCGGCATGTG-TTCGAGGCTCAACTCACCTATC
1 TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
22288082 GCAATGTGAGTTGA
64 GCAATATGAGTTGA
* * *
22288096 TTTTTTGAAAAAAAAATAGAAATTAAAAAAATACATCGGTATGTGAGCCGAGGCTCAACTCACCT
1 -TTTTTG----AAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
22288161 CTCGCAATATGAGTTGA
61 CTCGCAATATGAGTTGA
* * * *
22288178 TTTTTGAAAAATAGAAATTTAAAAAAATACTTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAAATAGAAA-TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
*
22288243 CAATATAAGTTGA
65 CAATATGAGTTGA
* * *
22288256 TTTTTTTTGAAAAACAGAAATTTAAAAGAAATATCTCGGCATGTG-TCCGAGGCTCAACTCACCT
1 ---TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
22288320 CTCGCAATATGAGTTGA
61 CTCGCAATATGAGTTGA
* * * * *
22288337 TTTTTTTAAAAAAAAATAGAAATTAAAAAAAATACATCGGTATGTGAGCCGAGGCTGAACTCACC
1 --TTTTT---GAAAAATAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACC
*
22288402 TCTCGCAATATAAGTTGA
60 TCTCGCAATATGAGTTGA
* * *
22288420 TTTTTGAAAAATAGAAATTTAAAAAAATACCTCAGCGTGTGACCCGAGGCTCAATTCACCTCTCG
1 TTTTTGAAAAATAGAAA-TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
22288485 CAATATGAGTT-A
65 CAATATGAGTTGA
* * *
22288497 TTTTTTTAAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCT
1 --TTTTT-GAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
* *
22288561 CTCGCAATATAAATTGA
61 CTCGCAATATGAGTTGA
* *
22288578 TTTTTGAAAAA-A-AAATTTAAAAGAAATACATCGGCATGTG-TCCGAGGCTCAACTCACCTCTC
1 TTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
22288640 GCAATATGAGTTTA
64 GCAATATGAGTTGA
* ** *
22288654 TTTTTTTTGAAAAAAATAGAAA-TAAAAAAATACCTCGGTATGTGACTTGAGACTCAACTCACCT
1 ---TTTTTG--AAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
*
22288718 CTCGTAATA
61 CTCGCAATA
22288727 ACCCGAGGCT
Statistics
Matches: 1353, Mismatches: 147, Indels: 112
0.84 0.09 0.07
Matches are distributed among these distances:
74 104 0.08
75 50 0.04
76 134 0.10
77 99 0.07
78 419 0.31
79 219 0.16
80 69 0.05
81 131 0.10
82 68 0.05
83 60 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (77 bp):
TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGA
Found at i:22289522 original size:35 final size:35
Alignment explanation
Indices: 22289476--22289551 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
22289466 TTCTGAGAAT
* *
22289476 GCTTCAAATATTGCAATCTTGCCATTCGACTCCAC
1 GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
* *
22289511 GCTTCAAATATTGTAATCTCGCCAATCGACTCCCC
1 GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
22289546 G-TTCAA
1 GCTTCAA
22289552 GTCGTCTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 5 0.14
35 32 0.86
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (35 bp):
GCTTCAAATATTGCAATCTCGCCAATCGACTCCAC
Done.