Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 56 of 97
Found at i:22440553 original size:55 final size:52
Alignment explanation
Indices: 22440488--22440624 Score: 195
Period size: 55 Copynumber: 2.5 Consensus size: 52
22440478 AAATATTAAA
*
22440488 AATTTATAATTAAAATTTTGATTTAATTTTTAAAATTAAAATTATTATTTTTTGT
1 AATTTATAATTAAAATTTT-ATTTAATTTTTAAAATTAAAA-TATTA-TTTTTAT
*
22440543 AATTTATAATTAAAATTTTAATTTAATTTTTTAAATTTAAAATATTATTTTTAT
1 AATTTATAATTAAAATTTT-ATTTAA-TTTTTAAAATTAAAATATTATTTTTAT
22440597 AATTTAT-ATTAAAATTTTAGTTTAATTT
1 AATTTATAATTAAAATTTTA-TTTAATTT
22440625 AGAGAGAAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
52 4 0.05
53 16 0.21
54 13 0.17
55 30 0.39
56 14 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (52 bp):
AATTTATAATTAAAATTTTATTTAATTTTTAAAATTAAAATATTATTTTTAT
Found at i:22447710 original size:14 final size:15
Alignment explanation
Indices: 22447691--22447721 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22447681 TTAGCTCCCC
22447691 AATTA-TAAAAAAAA
1 AATTATTAAAAAAAA
22447705 AATTATTAAAAAAAA
1 AATTATTAAAAAAAA
22447720 AA
1 AA
22447722 GCACCCGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATTATTAAAAAAAA
Found at i:22449570 original size:15 final size:15
Alignment explanation
Indices: 22449552--22449582 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22449542 AAAAGGGCTG
22449552 AAAACAAAAAAGGAA
1 AAAACAAAAAAGGAA
*
22449567 AAAACAAGAAAGGAA
1 AAAACAAAAAAGGAA
22449582 A
1 A
22449583 TCTTGTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGGAA
Found at i:22458954 original size:2 final size:2
Alignment explanation
Indices: 22458947--22459043 Score: 90
Period size: 2 Copynumber: 48.0 Consensus size: 2
22458937 TCTTTTCAGA
* * * *
22458947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NT TT ACT TT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* *
22458990 TT ACT AGT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT A-T A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22459033 AT GT AT A- AT AT
1 AT AT AT AT AT AT
22459044 TTCATAAACT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.03
2 72 0.91
3 5 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22461538 original size:47 final size:47
Alignment explanation
Indices: 22461461--22461597 Score: 249
Period size: 47 Copynumber: 2.9 Consensus size: 47
22461451 TATTACAATC
* *
22461461 ATACCTGGTCCT-ATATAAATCCAAACCCCGAAGCACCCAGGTTACG
1 ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTTACG
22461507 ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTTACG
1 ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTTACG
22461554 ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTT
1 ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTT
22461598 GCCTCACCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 12 0.14
47 76 0.86
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (47 bp):
ATACCTGGTCCTAATATAAACCCAAGCCCCGAAGCACCCAGGTTACG
Found at i:22471558 original size:23 final size:22
Alignment explanation
Indices: 22471531--22471575 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22471521 ACATTTAAAA
* *
22471531 TAAAATTAAATATATATATATTT
1 TAAAAATAAATAAATA-ATATTT
*
22471554 TAAAAATATATAAATAATATTT
1 TAAAAATAAATAAATAATATTT
22471576 CTTCTCTCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAAAATAAATAAATAATATTT
Found at i:22472955 original size:2 final size:2
Alignment explanation
Indices: 22472914--22472941 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22472904 TCAACAAAAA
22472914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22472942 TTAACACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22473603 original size:19 final size:19
Alignment explanation
Indices: 22473579--22473616 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22473569 ATTAGAACCT
*
22473579 TTAACCCTAAGAATAGAGG
1 TTAACCCTAACAATAGAGG
22473598 TTAACCCTAACAATAGAGG
1 TTAACCCTAACAATAGAGG
22473617 AGAATCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (19 bp):
TTAACCCTAACAATAGAGG
Found at i:22481879 original size:27 final size:26
Alignment explanation
Indices: 22481824--22481880 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
22481814 TTTTTATTTT
*
22481824 ATTT-TTTAAAATATTATAATTGGTA
1 ATTTATTTAAAATATTATAATTGATA
*
22481849 ATTTATTTAAAATATTAATAATTGATG
1 ATTTATTTAAAATATT-ATAATTGATA
22481876 ATTTA
1 ATTTA
22481881 ATTATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 11 0.39
27 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (26 bp):
ATTTATTTAAAATATTATAATTGATA
Found at i:22481903 original size:21 final size:22
Alignment explanation
Indices: 22481861--22481904 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
22481851 TTATTTAAAA
*
22481861 TATTAATAATTGATGATTTAAT
1 TATTAATAATTGATGATCTAAT
* *
22481883 TATTAAT-ATTGTTTATCTAAT
1 TATTAATAATTGATGATCTAAT
22481904 T
1 T
22481905 TAAGTATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (22 bp):
TATTAATAATTGATGATCTAAT
Found at i:22481996 original size:23 final size:23
Alignment explanation
Indices: 22481952--22481999 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22481942 TTTAAATAGG
* **
22481952 AATAATTTATAAATTATTTTATT
1 AATAATTGATAAATTAAATTATT
*
22481975 AATAATTGATAATTTAAATTATT
1 AATAATTGATAAATTAAATTATT
22481998 AA
1 AA
22482000 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATTGATAAATTAAATTATT
Found at i:22482007 original size:33 final size:31
Alignment explanation
Indices: 22481967--22482029 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
22481957 TTTATAAATT
22481967 ATTTTATTAATAATTGATAAT-TTAAATTATTAA
1 ATTTTATTAATAATT--TAATATTAAA-TATTAA
*
22482000 ATTTTATTTATAATTTAATATTAAATATTA
1 ATTTTATTAATAATTTAATATTAAATATTA
22482030 TTATTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 9 0.32
32 5 0.18
33 14 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTTATTAATAATTTAATATTAAATATTAA
Found at i:22482030 original size:24 final size:26
Alignment explanation
Indices: 22481983--22482053 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 26
22481973 TTAATAATTG
*
22481983 ATAATTTAAATTATTAAATTTTATTT
1 ATAATTTAAATTATTAAATATTATTT
22482009 ATAATTT-AA-TATTAAATATTA-TT
1 ATAATTTAAATTATTAAATATTATTT
* *
22482032 ATTTATTTAAAATATT-AATATT
1 A-TAATTTAAATTATTAAATATT
22482054 TTATTAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.08
24 16 0.40
25 10 0.25
26 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATAATTTAAATTATTAAATATTATTT
Found at i:22482057 original size:24 final size:24
Alignment explanation
Indices: 22481986--22482058 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
22481976 ATAATTGATA
*
22481986 ATTTAAATTATTAA-ATTTTATTT
1 ATTTAAAATATTAATATTTTATTT
*
22482009 ATAATT-TAATATTAAATATTATTATTT
1 AT--TTAAAATATT-AATATT-TTATTT
22482036 ATTTAAAATATTAATATTTTATT
1 ATTTAAAATATTAATATTTTATT
22482059 AAAAGTTGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.05
24 10 0.24
25 12 0.29
26 9 0.22
27 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAAAATATTAATATTTTATTT
Found at i:22482060 original size:19 final size:18
Alignment explanation
Indices: 22482018--22482062 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
22482008 TATAATTTAA
*
22482018 TATT-AAATATTATTATT
1 TATTAAAATATTAATATT
22482035 TATTTAAAATATTAATATTT
1 TA-TTAAAATATTAATA-TT
22482055 TATTAAAA
1 TATTAAAA
22482063 GTTGGGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 16 0.67
20 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAAAATATTAATATT
Found at i:22485422 original size:13 final size:13
Alignment explanation
Indices: 22485404--22485428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22485394 AGAAAATGGG
22485404 ATTTTATAAAATA
1 ATTTTATAAAATA
22485417 ATTTTATAAAAT
1 ATTTTATAAAAT
22485429 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:22488132 original size:36 final size:36
Alignment explanation
Indices: 22488028--22488133 Score: 115
Period size: 36 Copynumber: 2.9 Consensus size: 36
22488018 AATCCATTAT
* * *
22488028 CAACTTGCTTTTTCAACAAGGTCAGGCGTAACCTTTA
1 CAACATGCCTTTTC-ACAAGGTCAGGCGTAACCTTCA
*
22488065 CAACATGCCTTTT-AGCAAGGTCCGGCGTAACCTTCA
1 CAACATGCCTTTTCA-CAAGGTCAGGCGTAACCTTCA
* * * *
22488101 CAATATGCCTTTTCACAAGATTAGGCATAACCT
1 CAACATGCCTTTTCACAAGGTCAGGCGTAACCT
22488134 AAACCAAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.02
36 45 0.78
37 12 0.21
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (36 bp):
CAACATGCCTTTTCACAAGGTCAGGCGTAACCTTCA
Found at i:22488761 original size:63 final size:63
Alignment explanation
Indices: 22488659--22488797 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 63
22488649 ATAAGTTGTT
** *
22488659 GATTCTTCATAAAGTCTAGAACTTTCTATCTTTAAAGAATTGATTTTTCTATT-TTGAGATGTC
1 GATTCTTCATAAAGTCTAGAACTTTCTATCTTTAAAGAATCAATTCTTCT-TTCTTGAGATGTC
* * * * *
22488722 -AGTTCTTCATAAAGTTTGGAACTTTTTGT-TTCTAGAGAATCAATTCTTCTTTCTTGAGATGTC
1 GA-TTCTTCATAAAGTCTAGAACTTTCTATCTT-TAAAGAATCAATTCTTCTTTCTTGAGATGTC
22488785 GATTCTTCCATAA
1 GATTCTT-CATAA
22488798 CTTGGTTCTA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
62 5 0.08
63 52 0.83
64 6 0.10
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (63 bp):
GATTCTTCATAAAGTCTAGAACTTTCTATCTTTAAAGAATCAATTCTTCTTTCTTGAGATGTC
Found at i:22494075 original size:78 final size:79
Alignment explanation
Indices: 22493944--22494122 Score: 188
Period size: 78 Copynumber: 2.3 Consensus size: 79
22493934 CAACATAGTT
* * *
22493944 GTTGAGCTTATTAATTT-AAAGAGATTATCTTTTATTACATCACAAGAAAATTTATATGTC-AAA
1 GTTGAGTTTATTAATTTGAAA-AGATTATCTTTTATTACATCACAAGAAAATTTATAAGGCAAAA
* *
22494007 GTTATCAATATTGTA
65 GTGATCAATATTATA
* * * *
22494022 GTTGAGTTTATTAATTTGAAAAGA-TATTTTTTTATTACAGT-ACATGCATATTTATAAGGCAAA
1 GTTGAGTTTATTAATTTGAAAAGATTA-TCTTTTATTACA-TCACAAGAAAATTTATAAGGCAAA
* *
22494085 AGTGATCAGTATTATT
64 AGTGATCAATATTATA
22494101 GTTGCA-TTTATTAATTTGAAAA
1 GTTG-AGTTTATTAATTTGAAAA
22494123 AATGGTTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.02
78 44 0.52
79 38 0.45
80 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (79 bp):
GTTGAGTTTATTAATTTGAAAAGATTATCTTTTATTACATCACAAGAAAATTTATAAGGCAAAAG
TGATCAATATTATA
Found at i:22495889 original size:2 final size:2
Alignment explanation
Indices: 22495884--22495916 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22495874 ATATATATAG
22495884 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
22495917 AAGATTACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22501519 original size:20 final size:20
Alignment explanation
Indices: 22501494--22501581 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
22501484 TGCCAAGAAC
22501494 GTATCGATACATTAGTGAAT
1 GTATCGATACATTAGTGAAT
22501514 GTATCGATACATTAGTGAAT
1 GTATCGATACATTAGTGAAT
22501534 GTATCGATACATTAGTGAAT
1 GTATCGATACATTAGTGAAT
*
22501554 GTAT---T-GA-TAGTGAAT
1 GTATCGATACATTAGTGAAT
22501569 GTATCGATACATT
1 GTATCGATACATT
22501582 TTCCTCTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
15 12 0.20
16 1 0.02
17 1 0.02
18 1 0.02
19 1 0.02
20 45 0.74
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTAGTGAAT
Found at i:22501566 original size:15 final size:15
Alignment explanation
Indices: 22501546--22501577 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22501536 ATCGATACAT
*
22501546 TAGTGAATGTATTGA
1 TAGTGAATGTATCGA
22501561 TAGTGAATGTATCGA
1 TAGTGAATGTATCGA
22501576 TA
1 TA
22501578 CATTTTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (15 bp):
TAGTGAATGTATCGA
Found at i:22512480 original size:33 final size:32
Alignment explanation
Indices: 22512422--22512504 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
22512412 TTTTAATGTC
* *
22512422 ATATTTTATTTTGTTTCTTAGTATAATCTTAT
1 ATATTTTATTTTATTTCTTAATATAATCTTAT
* *
22512454 ATATTTTATTTTCATTTCTTAATATAATTTTCT
1 ATATTTTATTTT-ATTTCTTAATATAATCTTAT
22512487 ATATTATATATTTTATTT
1 ATATT-T-TATTTTATTT
22512505 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.27
33 21 0.48
34 5 0.11
35 6 0.14
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (32 bp):
ATATTTTATTTTATTTCTTAATATAATCTTAT
Found at i:22518059 original size:23 final size:22
Alignment explanation
Indices: 22518028--22518072 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22518018 TCTTAAATTA
* *
22518028 CCCTTAAATCACTTTTACTTTCT
1 CCCTAAAAT-ACTTCTACTTTCT
*
22518051 CCCTAAAATTCTTCTACTTTCT
1 CCCTAAAATACTTCTACTTTCT
22518073 ATCTCCCCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
CCCTAAAATACTTCTACTTTCT
Found at i:22521904 original size:2 final size:2
Alignment explanation
Indices: 22521897--22521957 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
22521887 CGAATATTTT
*
22521897 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
22521939 AG AG AG AA AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
22521958 CTTTTCATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22522645 original size:35 final size:36
Alignment explanation
Indices: 22522564--22522730 Score: 225
Period size: 35 Copynumber: 4.7 Consensus size: 36
22522554 ACAATTGAGC
* * *
22522564 ATGTGTGGTGTGGGAGTGCACATGACAGTATTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGACTGTACTAGCT
*
22522600 ATGTGTGGTGTGGGAGTGCACATGA-TG-ACCTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGACTGTA-CTAGCT
* *
22522635 ATGTGCGGTGTGGGAGTGCACATGACGGTATTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGACTGTACTAGCT
*
22522671 ATGTGCGATGTGGGAGTGCACATGA-TG-ACCTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGACTGTA-CTAGCT
22522706 ATGTGCGGTGTGGGAGTGCACATGA
1 ATGTGCGGTGTGGGAGTGCACATGA
22522731 GTTGGTGAGC
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
34 2 0.02
35 60 0.51
36 55 0.47
37 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.28
Consensus pattern (36 bp):
ATGTGCGGTGTGGGAGTGCACATGACTGTACTAGCT
Found at i:22522683 original size:71 final size:71
Alignment explanation
Indices: 22522564--22522730 Score: 298
Period size: 71 Copynumber: 2.4 Consensus size: 71
22522554 ACAATTGAGC
* * *
22522564 ATGTGTGGTGTGGGAGTGCACATGACAGTATTAGCTATGTGTGGTGTGGGAGTGCACATGATGAC
1 ATGTGCGGTGTGGGAGTGCACATGACAGTATTAGCTATGTGCGATGTGGGAGTGCACATGATGAC
22522629 CTAGCT
66 CTAGCT
*
22522635 ATGTGCGGTGTGGGAGTGCACATGACGGTATTAGCTATGTGCGATGTGGGAGTGCACATGATGAC
1 ATGTGCGGTGTGGGAGTGCACATGACAGTATTAGCTATGTGCGATGTGGGAGTGCACATGATGAC
22522700 CTAGCT
66 CTAGCT
22522706 ATGTGCGGTGTGGGAGTGCACATGA
1 ATGTGCGGTGTGGGAGTGCACATGA
22522731 GTTGGTGAGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.28
Consensus pattern (71 bp):
ATGTGCGGTGTGGGAGTGCACATGACAGTATTAGCTATGTGCGATGTGGGAGTGCACATGATGAC
CTAGCT
Found at i:22522869 original size:22 final size:22
Alignment explanation
Indices: 22522844--22522886 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22522834 CTTCCAAGTT
*
22522844 GATTTTCATTGTAGCAAGAATG
1 GATTTTCATTGTAACAAGAATG
*
22522866 GATTTTCGTTGTAACAAGAAT
1 GATTTTCATTGTAACAAGAAT
22522887 TCTTCTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (22 bp):
GATTTTCATTGTAACAAGAATG
Found at i:22524362 original size:70 final size:70
Alignment explanation
Indices: 22524228--22524394 Score: 221
Period size: 70 Copynumber: 2.3 Consensus size: 70
22524218 CAGATATAAT
* * *
22524228 GCTCTTAGTCGACTAACTATGCTTCTTAGTTGATTAAGTCGTCTTTGTCTTTGAACCTAGTTTCT
1 GCTCTTAGTCGACTAACTATG---CTTAGTCGATTAAGTCGTCTTTATCTTTGAACCTAATTTCT
* *
22524293 GGTAGTAA
63 AGCAGTAA
*
22524301 GTTCTTAGTCGACTAACTATGCTTAGTCGATTAAGTCGTCTTTAT-TTCTGAATCC-AATTTCTA
1 GCTCTTAGTCGACTAACTATGCTTAGTCGATTAAGTCGTCTTTATCTT-TGAA-CCTAATTTCTA
22524364 GCAGTAA
64 GCAGTAA
22524371 GCTCTTAGTCGACTAACTATGCTT
1 GCTCTTAGTCGACTAACTATGCTT
22524395 CTTAGTTGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
69 2 0.02
70 61 0.72
71 2 0.02
73 20 0.24
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (70 bp):
GCTCTTAGTCGACTAACTATGCTTAGTCGATTAAGTCGTCTTTATCTTTGAACCTAATTTCTAGC
AGTAA
Found at i:22529961 original size:17 final size:17
Alignment explanation
Indices: 22529941--22529979 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22529931 AATTTTATTA
* *
22529941 GAGCATATATTTAGGGG
1 GAGCACATAGTTAGGGG
22529958 GAGCACATAGTTAGGGG
1 GAGCACATAGTTAGGGG
22529975 GAGCA
1 GAGCA
22529980 ATCCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.38, T:0.21
Consensus pattern (17 bp):
GAGCACATAGTTAGGGG
Found at i:22535082 original size:21 final size:21
Alignment explanation
Indices: 22535058--22535098 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22535048 ATATAACTGA
22535058 CTCTTGTTAAAAAACAACTAC
1 CTCTTGTTAAAAAACAACTAC
* *
22535079 CTCTTGTTAAACAGCAACTA
1 CTCTTGTTAAAAAACAACTA
22535099 ACTCCAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.29
Consensus pattern (21 bp):
CTCTTGTTAAAAAACAACTAC
Found at i:22535172 original size:45 final size:44
Alignment explanation
Indices: 22535121--22535209 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
22535111 TAGGAACATG
* *
22535121 TAGATAATGTAAAACT-ACCTCCACAATAATTTAAAAATAGAATGA
1 TAGATAACGCAAAACTGA-CTCCACAATAATTT-AAAATAGAATGA
* * *
22535166 TAGATAACGCAAAATTGATTCCACAATAATTTAAATTAGAATGA
1 TAGATAACGCAAAACTGACTCCACAATAATTTAAAATAGAATGA
22535210 CAATTAACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
44 11 0.29
45 26 0.68
46 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.28
Consensus pattern (44 bp):
TAGATAACGCAAAACTGACTCCACAATAATTTAAAATAGAATGA
Found at i:22535227 original size:45 final size:45
Alignment explanation
Indices: 22535140--22535229 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
22535130 TAAAACTACC
* *
22535140 TCCACAATAATTTAAAAATAGAATGATAGATAACGCAAAATTGAT
1 TCCACAATAATTTAAAAATAGAATGACAGATAACACAAAATTGAT
* *
22535185 TCCACAATAATTT-AAATTAGAATGACA-ATTAACACATTAATTGAT
1 TCCACAATAATTTAAAAATAGAATGACAGA-TAACACA-AAATTGAT
22535230 AGCTAATCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 20 0.51
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (45 bp):
TCCACAATAATTTAAAAATAGAATGACAGATAACACAAAATTGAT
Found at i:22538278 original size:2 final size:2
Alignment explanation
Indices: 22538271--22538306 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22538261 TCACAAGAAC
22538271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22538307 TGTGTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22539404 original size:4 final size:4
Alignment explanation
Indices: 22539389--22539458 Score: 70
Period size: 4 Copynumber: 17.2 Consensus size: 4
22539379 TAATGTAATA
* * ** *
22539389 AAAT ATAT AAAT AAAT AAAT AAAT -AAT AAAC AGCT ACAAT ATTAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT A-AAT AAAT
22539438 AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT A
22539459 CATACATACA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
3 3 0.06
4 45 0.85
5 5 0.09
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:22539589 original size:19 final size:21
Alignment explanation
Indices: 22539562--22539602 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
22539552 GAGTAAATAG
22539562 ACAATACATAAATAAA-AATT
1 ACAATACATAAATAAACAATT
22539582 ACAA-ACATAAATAAACAATT
1 ACAATACATAAATAAACAATT
22539602 A
1 A
22539603 TAGTAGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (21 bp):
ACAATACATAAATAAACAATT
Found at i:22540160 original size:14 final size:15
Alignment explanation
Indices: 22540128--22540160 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22540118 CCTCTGAATC
*
22540128 TAAAAACATGAAGTT
1 TAAAAACATGAAGTA
22540143 TAAAAACATG-AGTA
1 TAAAAACATGAAGTA
22540157 TAAA
1 TAAA
22540161 CTCAGTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (15 bp):
TAAAAACATGAAGTA
Found at i:22540974 original size:12 final size:10
Alignment explanation
Indices: 22540947--22540979 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
22540937 TATCACATAT
22540947 ACATATATAA
1 ACATATATAA
22540957 ACATATATAA
1 ACATATATAA
22540967 ACATATATAA
1 ACATATATAA
22540977 ACA
1 ACA
22540980 CATGCACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (10 bp):
ACATATATAA
Found at i:22541108 original size:42 final size:42
Alignment explanation
Indices: 22541028--22541194 Score: 199
Period size: 42 Copynumber: 4.0 Consensus size: 42
22541018 CATCATCATA
* * * *
22541028 ATCGGCTTATGCACATTCCCTACTCGTACATAGTCGGGTCAGC
1 ATCGGCTTATGCGCACTCCC-ACTCGCACATAGCCGGGTCAGC
* *
22541071 ATTGGCTTATGCGCACTCCCACTTGCACATAGCCGGGTCAGC
1 ATCGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGC
* * *
22541113 ATCGGCTTATGCGCACTTCTACTCGCACATAGCTGGGTCAGC
1 ATCGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGC
* * * * *
22541155 ATCGACGTATGCGCATTCCTACTCGAACATAGCCGGGTCA
1 ATCGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
22541195 ATATCATTAC
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
42 90 0.84
43 17 0.16
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (42 bp):
ATCGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGC
Found at i:22541244 original size:2 final size:2
Alignment explanation
Indices: 22541239--22541273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22541229 CATATATTCG
22541239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22541274 CAACATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22543680 original size:38 final size:40
Alignment explanation
Indices: 22543630--22543732 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 40
22543620 ATAGTGCCCG
* *
22543630 TGTGCATGATGTGGGGGGATGTACACGATGGC-ACTAAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGAATA
* * * * **
22543668 TGTGTACGATGTGGGGGGATGCACATGATGGCGTCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGAATA
22543708 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
22543733 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 28 0.53
39 2 0.04
40 23 0.43
ACGTcount: A:0.20, C:0.14, G:0.41, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCGACGAATA
Found at i:22551428 original size:2 final size:2
Alignment explanation
Indices: 22551421--22551454 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22551411 CATTATGATG
22551421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22551455 GTTATGCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22551622 original size:38 final size:40
Alignment explanation
Indices: 22551572--22551677 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
22551562 ATAGTGCCTG
* *
22551572 TGTGCACAATGTGGGGGGATGTACATGATGGC-ACTAAT-
1 TGTGCACGATGTGGGGGGATGTACATGATGGCGACGAATA
* * **
22551610 TGTGCACGATGTGGGGGGATGCACATGATGGCGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACATGATGGCGACGAATA
*
22551650 TGTGCACGATGTGGGTGGATGTACATGA
1 TGTGCACGATGTGGGGGGATGTACATGA
22551678 GCCGGGTGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 30 0.52
39 2 0.03
40 26 0.45
ACGTcount: A:0.22, C:0.15, G:0.39, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCGACGAATA
Found at i:22558964 original size:57 final size:56
Alignment explanation
Indices: 22558901--22559021 Score: 206
Period size: 57 Copynumber: 2.1 Consensus size: 56
22558891 TTATCTAAAG
*
22558901 TAGTTTTTATTCGTTTTTGTGATTTTAAAGAAAAATGAGTTTTAATGGTAAATCCT
1 TAGTTTTTATTCGTTTTTGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCT
*
22558957 NTAGTTTTTATTCGTTTTTGTGATTTTATAGAAAAATGAGTTTAAATGGTAAATCCT
1 -TAGTTTTTATTCGTTTTTGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCT
22559014 TATGTTTT
1 TA-GTTTT
22559022 ATAAGTAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 2 0.03
57 59 0.97
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (56 bp):
TAGTTTTTATTCGTTTTTGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCT
Found at i:22559036 original size:57 final size:57
Alignment explanation
Indices: 22558918--22559038 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 57
22558908 TATTCGTTTT
* * ** ***
22558918 TGTGATTTTAAAGAAAAATGAGTTTTAATGGTAAATCCTNTAGTTTTTATTCGTTTT
1 TGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCTATAGTTTTTATAAGTAAA
*
22558975 TGTGATTTTATAGAAAAATGAGTTTAAATGGTAAATCCT-TA-TGTTTTATAAGTAAAA
1 TGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCTATAGT-TTTTATAAGT-AAA
22559032 TGTGATT
1 TGTGATT
22559039 AAATGAAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 1 0.02
56 10 0.18
57 44 0.80
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (57 bp):
TGTGATTTTAAAGAAAAATGAGTTTAAATGGTAAATCCTATAGTTTTTATAAGTAAA
Found at i:22561662 original size:2 final size:2
Alignment explanation
Indices: 22561657--22561687 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22561647 CATATATTTG
22561657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22561688 CAACATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22568261 original size:16 final size:15
Alignment explanation
Indices: 22568227--22568264 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
22568217 AAAACCAAAA
22568227 TTTTGATTTTGATTC
1 TTTTGATTTTGATTC
*
22568242 TTTTAGATTTTGATTT
1 TTTT-GATTTTGATTC
22568258 TTTTGAT
1 TTTTGAT
22568265 ATTTTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.68
Consensus pattern (15 bp):
TTTTGATTTTGATTC
Found at i:22571777 original size:29 final size:29
Alignment explanation
Indices: 22571731--22571789 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
22571721 TACATTATCT
* **
22571731 ATTCTAGTACCATGGCAGTGCCTCTAGCA
1 ATTCTAGTACCATAGCAGCACCTCTAGCA
22571760 ATTCTAGTACCATAGCAGCACCTCTAGCA
1 ATTCTAGTACCATAGCAGCACCTCTAGCA
22571789 A
1 A
22571790 CCATCATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
ATTCTAGTACCATAGCAGCACCTCTAGCA
Found at i:22574781 original size:18 final size:19
Alignment explanation
Indices: 22574758--22574799 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22574748 CAAAAAAACA
22574758 AAGAC-AACTTAGTCGACT
1 AAGACAAACTTAGTCGACT
*
22574776 AAGACATAAGTTAGTCGACT
1 AAGACA-AACTTAGTCGACT
22574796 AAGA
1 AAGA
22574800 GCATTCTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (19 bp):
AAGACAAACTTAGTCGACT
Found at i:22577123 original size:22 final size:22
Alignment explanation
Indices: 22577071--22577123 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
22577061 GCTATAAATA
22577071 TCATT-TTCCAACAACTTCTTC
1 TCATTCTTCCAACAACTTCTTC
* * *
22577092 TCATTTTTCCAACAGCTTTTTC
1 TCATTCTTCCAACAACTTCTTC
22577114 TTC-TTCTTCC
1 -TCATTCTTCC
22577124 TCACATCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 20 0.74
23 2 0.07
ACGTcount: A:0.17, C:0.32, G:0.02, T:0.49
Consensus pattern (22 bp):
TCATTCTTCCAACAACTTCTTC
Found at i:22577840 original size:43 final size:43
Alignment explanation
Indices: 22577781--22577916 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
22577771 TTGTGTGATA
* * *
22577781 ATGATGACCCAGCTATGTGCGATGTGGTAGTGTACATGAGCTG
1 ATGATGACCTAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
* * * *
22577824 ATGATGACCTGGCTATGTGCGA-GTAGGGAGTGCGCATAAGCCG
1 ATGATGACCTAGCTATGTGCGATGT-GGGAGTGCACATGAGCTG
* *
22577867 ATGATGACCTAGCTATGTACGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
22577910 ATGATGA
1 ATGATGA
22577917 GGACCTGACT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.03
43 74 0.95
44 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (43 bp):
ATGATGACCTAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
Found at i:22577942 original size:46 final size:42
Alignment explanation
Indices: 22577809--22577951 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 42
22577799 GCGATGTGGT
* *
22577809 AGTGTACATGAGCTGATGATGACCTGGCTATGTGCGAGTAGGG
1 AGTGCACATGAGCTGATGATGACCTGACTATGTG-GAGTAGGG
* * * *
22577852 AGTGCGCATAAGCCGATGATGACCT-AGCTATGTACGGTGT-GGG
1 AGTGCACATGAGCTGATGATGACCTGA-CTATGT--GGAGTAGGG
22577895 AGTGCACATGAGCTGATGATGAGGACCTGACTATGTGTGAGTAGGG
1 AGTGCACATGAGCTGATGAT---GACCTGACTATGTG-GAGTAGGG
*
22577941 AGTTCACATGA
1 AGTGCACATGA
22577952 CGATGAATGA
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
43 47 0.59
44 4 0.05
45 4 0.05
46 24 0.30
47 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.24
Consensus pattern (42 bp):
AGTGCACATGAGCTGATGATGACCTGACTATGTGGAGTAGGG
Found at i:22582382 original size:36 final size:35
Alignment explanation
Indices: 22582342--22582472 Score: 121
Period size: 36 Copynumber: 3.8 Consensus size: 35
22582332 ACTCACCAGC
22582342 TCATGTGCACTCCCACACCGCACATAGCTAGA-ATCA
1 TCATGTGCACTCCCACACCGCACAT-GCTA-ACATCA
* *
22582378 TCATGTGCACTCCTACACCGCACATGGTAACTATCA
1 TCATGTGCACTCCCACACCGCACATGCTAAC-ATCA
* * *
22582414 TCATGTACACTCCCGCA-C-CACAT-C-ATCA-CA
1 TCATGTGCACTCCCACACCGCACATGCTAACATCA
* *
22582444 GGCATGTGCACTCCCACACTGCACATGCT
1 -TCATGTGCACTCCCACACCGCACATGCT
22582473 CGGTTATAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
30 2 0.03
31 15 0.19
32 2 0.03
33 5 0.06
34 7 0.09
35 4 0.05
36 42 0.55
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.21
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACATGCTAACATCA
Found at i:22595425 original size:2 final size:2
Alignment explanation
Indices: 22595418--22595466 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
22595408 GCTGCTGAAC
22595418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
22595461 A- AT AT A
1 AT AT AT A
22595467 CAATATCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22595495 original size:1 final size:1
Alignment explanation
Indices: 22595489--22595520 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
22595479 ATATATGAGG
22595489 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22595521 CTAGCTGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22595553 original size:2 final size:2
Alignment explanation
Indices: 22595546--22595584 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22595536 ATGCTGCTGA
22595546 AT AT AT AT AT 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 AT AT AT AT AT A
22595585 CTCTAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22598450 original size:54 final size:53
Alignment explanation
Indices: 22598389--22598515 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 53
22598379 AAATTCCATT
* * * *
22598389 GAAAATTTCTAACGGAATTTTGTTGGAAATGCTTTTCCAATGAAAAATTTAGTC
1 GAAAATTT-TAACGGAATTCTGTTGGAAATGCTTTACAAACGAAAAATTTAGTC
* ** *
22598443 GAAAATTTTTTATAGAATTCTGTTGGAAATGCTTTACAAACGAAAAATTTAGTT
1 GAAAA-TTTTAACGGAATTCTGTTGGAAATGCTTTACAAACGAAAAATTTAGTC
*
22598497 GGAAATTTTCAACGGAATT
1 GAAAATTTT-AACGGAATT
22598516 GCTATGGTAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
53 4 0.07
54 52 0.88
55 3 0.05
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (53 bp):
GAAAATTTTAACGGAATTCTGTTGGAAATGCTTTACAAACGAAAAATTTAGTC
Found at i:22598756 original size:33 final size:32
Alignment explanation
Indices: 22598714--22598801 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 32
22598704 TTTGGTAGTG
22598714 TACAATGCCTTTTTAAGGAGCATGCACA-ACCTC
1 TACAATGCCTTTTTAAGGAGCA--CACAGACCTC
*
22598747 TACAATGCCTTTTCAAGGAGCACACATGACCTC
1 TACAATGCCTTTTTAAGGAGCACACA-GACCTC
22598780 TACAATGCCTTTTTAAGGAGCA
1 TACAATGCCTTTTTAAGGAGCA
22598802 AGAATACCTC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 4 0.08
33 47 0.92
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (32 bp):
TACAATGCCTTTTTAAGGAGCACACAGACCTC
Found at i:22603558 original size:6 final size:6
Alignment explanation
Indices: 22603547--22603597 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
22603537 GAACAAATAG
* * *
22603547 AATAAA AATAAA AA-AATA AAAAAA AATAAT AATAAT AATAAA AATTAAA
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA AA-TAAA
22603596 AA
1 AA
22603598 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.05
6 29 0.74
7 8 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:22603568 original size:9 final size:9
Alignment explanation
Indices: 22603550--22603600 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
22603540 CAAATAGAAT
22603550 AAAAAT-AA
1 AAAAATAAA
22603558 AAAAATAAAA
1 AAAAAT-AAA
*
22603568 AAAAATAAT
1 AAAAATAAA
* *
22603577 AATAATAAT
1 AAAAATAAA
*
22603586 AAAAATTAA
1 AAAAATAAA
22603595 AAAAAT
1 AAAAAT
22603601 TTAAAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 6 0.17
9 22 0.61
10 8 0.22
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATAAA
Found at i:22613468 original size:92 final size:92
Alignment explanation
Indices: 22613311--22613492 Score: 319
Period size: 92 Copynumber: 2.0 Consensus size: 92
22613301 CGCTGTAGCA
*
22613311 AAATTCCTAACTGCAGTGAGAATTCTTTTTTACTGCAGTGAGAAATAGGGCTGGTTTGTGCCCCC
1 AAATTCCTAACTGCAGTGAGAATTCTTTTTTACTGCAGCGAGAAATAGGGCTGGTTTGTGCCCCC
22613376 ACCACTAGACAGTTTCTCACTGCAGTG
66 ACCACTAGACAGTTTCTCACTGCAGTG
* *
22613403 AAATTCCTAGCTGCAGTGAGAATTCTTTTTTACTGCAGCGAGAAATAGGGTTGGTTTGTGCCCCC
1 AAATTCCTAACTGCAGTGAGAATTCTTTTTTACTGCAGCGAGAAATAGGGCTGGTTTGTGCCCCC
* *
22613468 ACCACTCGATAGTTTCTCACTGCAG
66 ACCACTAGACAGTTTCTCACTGCAG
22613493 CGAGATTCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (92 bp):
AAATTCCTAACTGCAGTGAGAATTCTTTTTTACTGCAGCGAGAAATAGGGCTGGTTTGTGCCCCC
ACCACTAGACAGTTTCTCACTGCAGTG
Found at i:22613767 original size:43 final size:43
Alignment explanation
Indices: 22613668--22613838 Score: 184
Period size: 43 Copynumber: 3.9 Consensus size: 43
22613658 TCATTTATTG
* * *
22613668 TCATGTGCACTCCCTAC-TCACACATAGCCGAGTCATCATCATCAGC
1 TCATGTGCACTCCC-ACATCGCACATAGCTG-G--GTCATCATCAGC
*
22613714 TCATGTGCACTCCCACAACGCACATAGCTGGGTCATCATCAGC
1 TCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATCAGC
* * * *
22613757 TTATGCGCACTCCCTAC-TCACACATAGCCGGGTCATCATCAGC
1 TCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCATCAGC
* **
22613800 TCATGTGTACTATCACATCGCACATAGCTGGGTCATCAT
1 TCATGTGCACTCCCACATCGCACATAGCTGGGTCATCAT
22613839 TATCACACAA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 75 0.71
44 2 0.02
45 3 0.03
46 24 0.23
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (43 bp):
TCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATCAGC
Found at i:22613833 original size:86 final size:88
Alignment explanation
Indices: 22613674--22613838 Score: 262
Period size: 86 Copynumber: 1.9 Consensus size: 88
22613664 ATTGTCATGT
*
22613674 GCACTCCCTACTCACACATAGCCGAGTCATCATCATCAGCTCATGTGCACTCCCACAACGCACAT
1 GCACTCCCTACTCACACATAGCCGAG-CATCATCATCAGCTCATGTGCACTACCACAACGCACAT
22613739 AGCTGGGTCATCATCAGCTTATGC
65 AGCTGGGTCATCATCAGCTTATGC
* * * *
22613763 GCACTCCCTACTCACACATAGCCG-G-GTCATCATCAGCTCATGTGTACTATCACATCGCACATA
1 GCACTCCCTACTCACACATAGCCGAGCATCATCATCAGCTCATGTGCACTACCACAACGCACATA
22613826 GCTGGGTCATCAT
66 GCTGGGTCATCAT
22613839 TATCACACAA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 46 0.65
88 1 0.01
89 24 0.34
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (88 bp):
GCACTCCCTACTCACACATAGCCGAGCATCATCATCAGCTCATGTGCACTACCACAACGCACATA
GCTGGGTCATCATCAGCTTATGC
Found at i:22615597 original size:61 final size:61
Alignment explanation
Indices: 22615486--22615604 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 61
22615476 AAGTATTGAT
* * * * *
22615486 ACTTTGCCCAAAAGTATTAATAGATTTTTAATACAATGGTTATGGCTGAAAATGTATCTAC
1 ACTTTGCCCAAAAGTATCAATAGATTTTTAACACAATGATTATAGATGAAAATGTATCTAC
* * *
22615547 ACTTTGCCCAAAAGTATCGATAGATTTTTAACAGAATGATTCTAGATGAAAATGTATC
1 ACTTTGCCCAAAAGTATCAATAGATTTTTAACACAATGATTATAGATGAAAATGTATC
22615605 GATAAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (61 bp):
ACTTTGCCCAAAAGTATCAATAGATTTTTAACACAATGATTATAGATGAAAATGTATCTAC
Found at i:22616345 original size:11 final size:11
Alignment explanation
Indices: 22616329--22616357 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22616319 CTCAATGAGT
22616329 GAACAAGAAGG
1 GAACAAGAAGG
22616340 GAACAAGAAGG
1 GAACAAGAAGG
22616351 GAACAAG
1 GAACAAG
22616358 CATACCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.34, T:0.00
Consensus pattern (11 bp):
GAACAAGAAGG
Found at i:22619304 original size:36 final size:36
Alignment explanation
Indices: 22619252--22619353 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 36
22619242 ACATACAATA
*
22619252 TCATGTCATGCTCCATTGCTGCAGCAAACGACGAAG
1 TCATGTCATGCCCCATTGCTGCAGCAAACGACGAAG
* *
22619288 TCATGTCATGCCCCATTGC--CATGGCAAACGATGGAG
1 TCATGTCATGCCCCATTGCTGCA--GCAAACGACGAAG
*
22619324 TC-TAGTCACGCCCCATTGCTG-AGCAAACGA
1 TCAT-GTCATGCCCCATTGCTGCAGCAAACGA
22619354 AATAGTGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
34 2 0.04
35 9 0.16
36 45 0.79
37 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (36 bp):
TCATGTCATGCCCCATTGCTGCAGCAAACGACGAAG
Found at i:22619403 original size:35 final size:35
Alignment explanation
Indices: 22619333--22619411 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
22619323 GTCTAGTCAC
* * *
22619333 GCCCCATTGCTGAGCAAACGAAATAGTGTTGTTGT
1 GCCCCATTGCTAAGCAAACGAAATAGTCTTATTGT
*
22619368 GCCCCATTGCTAAGCAAACG-ATTGAGTCTTATTGT
1 GCCCCATTGCTAAGCAAACGAAAT-AGTCTTATTGT
*
22619403 GCCACATTG
1 GCCCCATTG
22619412 TAACAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 2 0.05
35 36 0.95
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (35 bp):
GCCCCATTGCTAAGCAAACGAAATAGTCTTATTGT
Found at i:22625439 original size:68 final size:68
Alignment explanation
Indices: 22625320--22625578 Score: 279
Period size: 68 Copynumber: 3.8 Consensus size: 68
22625310 TGCTTACTCT
* * * * * * * * * * *
22625320 TCTTATAAAGTATATGGAAAATGCATCATATAGATAATTTGATGGCATTTATCAAGCTTTCTCAA
1 TCTTATATAGTATATGGAATATACATCATATACATAATCTCATGGTATTTATCATGCATACTTAA
22625385 TCA
66 TCA
* *
22625388 TCTTATGTAGTATATGGAATATACATCATATACATAATCTCATGGTGTTTATCATGCATACTTAA
1 TCTTATATAGTATATGGAATATACATCATATACATAATCTCATGGTATTTATCATGCATACTTAA
22625453 TCA
66 TCA
* * * *
22625456 -CTTTAAATAGTACATGGAATTTACATCATATAC-TCAATCTCATGGTATTCATCATGCATACTT
1 TC-TTATATAGTATATGGAATATACATCATATACAT-AATCTCATGGTATTTATCATGCATACTT
22625519 AATCA
64 AATCA
* * * ** *
22625524 TCTTATATGGTATATAGAATTTACATCATATACGCAATCTCATGGTATTCATCAT
1 TCTTATATAGTATATGGAATATACATCATATACATAATCTCATGGTATTTATCAT
22625579 ACCAAACATG
Statistics
Matches: 163, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
67 2 0.01
68 160 0.98
69 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (68 bp):
TCTTATATAGTATATGGAATATACATCATATACATAATCTCATGGTATTTATCATGCATACTTAA
TCA
Found at i:22626686 original size:33 final size:33
Alignment explanation
Indices: 22626649--22626717 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
22626639 ATTAAACTCT
*
22626649 TTTACTTAGGTCCTTAGTAGTTAAAACCTAGAA
1 TTTACTTAGGTCCTTAGTAATTAAAACCTAGAA
*
22626682 TTTACTTAGGTTCTTAGTAATTAAAACCTAGAA
1 TTTACTTAGGTCCTTAGTAATTAAAACCTAGAA
22626715 TTT
1 TTT
22626718 GATTTAAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (33 bp):
TTTACTTAGGTCCTTAGTAATTAAAACCTAGAA
Found at i:22629843 original size:20 final size:21
Alignment explanation
Indices: 22629820--22629859 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22629810 AAGTAAGTTA
*
22629820 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTAATTGTTATTTC
22629840 TTTTAATTTAATTGTTATTT
1 TTTTAATTTAATTGTTATTT
22629860 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTAATTTAATTGTTATTTC
Found at i:22629868 original size:25 final size:25
Alignment explanation
Indices: 22629821--22629868 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22629811 AGTAAGTTAT
*
22629821 TTTAATTTTATGTTATTTCTTTTAA
1 TTTAATTTTATGTTATTACTTTTAA
*
22629846 TTTAATTGTTAT-TTATTAGTTTT
1 TTTAATT-TTATGTTATTACTTTT
22629869 TATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTAATTTTATGTTATTACTTTTAA
Found at i:22630215 original size:20 final size:21
Alignment explanation
Indices: 22630190--22630229 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22630180 CAATTAAACC
*
22630190 ATAGGTCAAC-TTAGGGTAGT
1 ATAGGTCAACATTAAGGTAGT
*
22630210 ATAGGTTAACATTAAGGTAG
1 ATAGGTCAACATTAAGGTAG
22630230 ACAACTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (21 bp):
ATAGGTCAACATTAAGGTAGT
Found at i:22631919 original size:28 final size:28
Alignment explanation
Indices: 22631842--22632043 Score: 233
Period size: 28 Copynumber: 7.0 Consensus size: 28
22631832 TGGCAACTTT
22631842 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
22631870 AACATGTTATGTCTTAATTTAGACATGAA
1 AACATGTT-TGTCTTAATTTAGACAAGAA
22631899 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
22631927 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* * * *
22631956 AATATATTTTTTCTTAATTTAAGATAAGAAAAA
1 AACAT-GTTTGTCTTAATTT-AGACAAG---AA
* * * *
22631989 AATATTTTTATCTTAATCTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
22632017 AACATATTTATCTCAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
22632044 TAAAATACTT
Statistics
Matches: 154, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
28 61 0.40
29 59 0.38
30 9 0.06
31 6 0.04
32 12 0.08
33 7 0.05
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:22631930 original size:57 final size:56
Alignment explanation
Indices: 22631842--22632043 Score: 233
Period size: 57 Copynumber: 3.5 Consensus size: 56
22631832 TGGCAACTTT
*
22631842 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAATTTAGACATGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTT-TGTCTTAATTTAGACAAGAA
22631899 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTT-GTCTTAATTTAGACAAGAA
* * * * * * * *
22631956 AATATATTTTTTCTTAATTTAAGATAAGAAAAAAATATTTTTATCTTAATCTAGACAAGAA
1 AACAT-GTTTGTCTTAATTT-AGACAAG---AAAACATGTTTGTCTTAATTTAGACAAGAA
* * *
22632017 AACATATTTATCTCAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
22632044 TAAAATACTT
Statistics
Matches: 125, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
56 2 0.02
57 58 0.46
58 12 0.10
59 12 0.10
60 11 0.09
61 21 0.17
62 9 0.07
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (56 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAA
Found at i:22635050 original size:7 final size:7
Alignment explanation
Indices: 22635038--22635065 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22635028 TTATTATGGT
22635038 AATCTTC
1 AATCTTC
22635045 AATCTTC
1 AATCTTC
22635052 AATCTTC
1 AATCTTC
22635059 AATCTTC
1 AATCTTC
22635066 CATGGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
AATCTTC
Found at i:22637159 original size:23 final size:24
Alignment explanation
Indices: 22637096--22637177 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 24
22637086 ATGCAAAACA
*
22637096 AAAGACA-AATATAACGTAAATAAAAT
1 AAAGACACAAAATAAC--AAAT-AAAT
*
22637122 AAAGACAAGAAAATAA-AAATAAAT
1 AAAGAC-ACAAAATAACAAATAAAT
* **
22637146 AAAGACACATAATAACAAA-ATCT
1 AAAGACACAAAATAACAAATAAAT
22637169 AAAGACACA
1 AAAGACACA
22637178 CCTCAAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 18 0.38
24 13 0.27
25 4 0.08
26 6 0.12
27 1 0.02
28 6 0.12
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.15
Consensus pattern (24 bp):
AAAGACACAAAATAACAAATAAAT
Found at i:22645650 original size:24 final size:25
Alignment explanation
Indices: 22645617--22645672 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
22645607 ATGGACTCTT
22645617 CCCATCTCTTT-CTAATTGGGCCATG
1 CCCAT-TCTTTCCTAATTGGGCCATG
* *
22645642 CCCATTCTTTCCTTATTGGGTCATG
1 CCCATTCTTTCCTAATTGGGCCATG
*
22645667 TCCATT
1 CCCATT
22645673 TTTATGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.14, C:0.30, G:0.14, T:0.41
Consensus pattern (25 bp):
CCCATTCTTTCCTAATTGGGCCATG
Found at i:22645695 original size:2 final size:2
Alignment explanation
Indices: 22645680--22645715 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22645670 ATTTTTATGC
* *
22645680 AT AT AT GT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22645716 TTTTCTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22645726 original size:5 final size:5
Alignment explanation
Indices: 22645716--22645766 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
22645706 ATATATATAT
*
22645716 TTTTC TTTTC TTTTC TTTTC TCTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
22645766 T
1 T
22645767 CTCTTTTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:22645775 original size:15 final size:15
Alignment explanation
Indices: 22645716--22645773 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
22645706 ATATATATAT
*
22645716 TTTTCTTTTCTTTTC
1 TTTTCTCTTCTTTTC
22645731 TTTTCTCTTCTTTTC
1 TTTTCTCTTCTTTTC
*
22645746 TTTTCTTTTCTTTTC
1 TTTTCTCTTCTTTTC
22645761 TTTTCTC-TCTTTT
1 TTTTCTCTTCTTTT
22645774 TCCTCTCTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 34 0.85
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTCTTCTTTTC
Found at i:22645979 original size:33 final size:34
Alignment explanation
Indices: 22645942--22646024 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 34
22645932 TATACACATC
*
22645942 AAAATCAACAGCCAAGTTGCTCTATT-TCTCCT-A
1 AAAATCAACAGCCAAGCTGCTCTATTCTC-CCTCA
* * * *
22645975 AAAATCAGCAACTACGCTGCTCTATTCTCCCTCCA
1 AAAATCAACAGCCAAGCTGCTCTATTCTCCCT-CA
22646010 AAAATCAACAGCCAA
1 AAAATCAACAGCCAA
22646025 AGCTACAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
33 24 0.63
34 2 0.05
35 12 0.32
ACGTcount: A:0.36, C:0.31, G:0.08, T:0.24
Consensus pattern (34 bp):
AAAATCAACAGCCAAGCTGCTCTATTCTCCCTCA
Found at i:22646293 original size:19 final size:19
Alignment explanation
Indices: 22646269--22646309 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22646259 ACTGCTTCTC
22646269 TCTTTT-TTCTTTCCTTTGT
1 TCTTTTGTT-TTTCCTTTGT
*
22646288 TCTTTTGTTTTTCTTTTGT
1 TCTTTTGTTTTTCCTTTGT
22646307 TCT
1 TCT
22646310 CCCTCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (19 bp):
TCTTTTGTTTTTCCTTTGT
Found at i:22650316 original size:5 final size:5
Alignment explanation
Indices: 22650303--22650342 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
22650293 CTATTAAATC
* *
22650303 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
22650343 GGACTTGGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:22650407 original size:15 final size:15
Alignment explanation
Indices: 22650387--22650428 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
22650377 TAAAACAACC
22650387 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
22650402 TTAAAATCTAAAGCT
1 TTAAAATCAAAAACT
22650417 TTAAAATCAAAA
1 TTAAAATCAAAA
22650429 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:22651836 original size:13 final size:13
Alignment explanation
Indices: 22651818--22651842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22651808 TTCCAGAAAA
22651818 TTTATAAAATCAT
1 TTTATAAAATCAT
22651831 TTTATAAAATCA
1 TTTATAAAATCA
22651843 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22657546 original size:11 final size:11
Alignment explanation
Indices: 22657530--22657565 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22657520 TAGATATATA
22657530 TTTTTTTTCTT
1 TTTTTTTTCTT
22657541 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
22657552 TTCTTTCTCTT
1 TTTTTTTTCTT
22657563 TTT
1 TTT
22657566 CCTCTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:22657773 original size:33 final size:34
Alignment explanation
Indices: 22657731--22657815 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 34
22657721 CATATACACA
*
22657731 TCAAAATCAGCAGCCAAGCTGCTCTATT-TCTCC-
1 TCAAAATCAGCAGCCAAGATGCTCTATTCTC-CCT
* *
22657764 TCAAAATCAGTAGCTAAGATGCTCTATTCTCCCT
1 TCAAAATCAGCAGCCAAGATGCTCTATTCTCCCT
*
22657798 TCAAAAATTAGCAGCCAA
1 TC-AAAATCAGCAGCCAA
22657816 AGCTACAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
33 27 0.63
34 4 0.09
35 12 0.28
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (34 bp):
TCAAAATCAGCAGCCAAGATGCTCTATTCTCCCT
Found at i:22657862 original size:35 final size:35
Alignment explanation
Indices: 22657822--22657903 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
22657812 CCAAAGCTAC
* *
22657822 AAAAATTAGCAACAAAAACCACACCTTTCAGCCTT
1 AAAAATAAGCAACAAAAACCACACCTTTCAACCTT
* * * * **
22657857 CAAAATCAGTAACCAAAACTGCACCTTTCAACCTT
1 AAAAATAAGCAACAAAAACCACACCTTTCAACCTT
22657892 AAAAATAAGCAA
1 AAAAATAAGCAA
22657904 TTAAAGCCTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.20
Consensus pattern (35 bp):
AAAAATAAGCAACAAAAACCACACCTTTCAACCTT
Found at i:22658081 original size:19 final size:19
Alignment explanation
Indices: 22658057--22658097 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22658047 GCTGCTTCTC
22658057 TCTTTT-TTCTTTCCTTTGT
1 TCTTTTGTT-TTTCCTTTGT
*
22658076 TCTTTTGTTTTTCTTTTGT
1 TCTTTTGTTTTTCCTTTGT
22658095 TCT
1 TCT
22658098 CCATCACAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (19 bp):
TCTTTTGTTTTTCCTTTGT
Found at i:22661249 original size:39 final size:39
Alignment explanation
Indices: 22661150--22661287 Score: 149
Period size: 39 Copynumber: 3.6 Consensus size: 39
22661140 TCAACTCAGC
* * *
22661150 TCATGTGCACTCCCACACCGCACATAGC-TA-AT-ATCC
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * * *
22661186 TTATATGCTTTCCCACACCACACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* *
22661225 TCATGTGCTCTCCCACACCGCACATGGTATATATCATCGG
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATC-A
*
22661265 T-GTGTGCTCTCCCACACCGCACA
1 TCATGTGCTCTCCCACACCGCACA
22661288 CTACCGGCAC
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
36 22 0.26
37 2 0.02
38 2 0.02
39 57 0.68
40 1 0.01
ACGTcount: A:0.25, C:0.36, G:0.13, T:0.26
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
Found at i:22662207 original size:19 final size:21
Alignment explanation
Indices: 22662167--22662212 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
22662157 ATCAAGAATC
*
22662167 AAGAGAAGAAAGAAAAGGGAA
1 AAGAGAAGAAAGAAAAGAGAA
22662188 AAGA-AAGAAAGAAAA-AGAA
1 AAGAGAAGAAAGAAAAGAGAA
22662207 AAGAGA
1 AAGAGA
22662213 TCGATTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAGAAGAAAGAAAAGAGAA
Found at i:22662696 original size:19 final size:19
Alignment explanation
Indices: 22662656--22662694 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
22662646 TTAATATTTT
22662656 AATATTAATTTATTCATAA
1 AATATTAATTTATTCATAA
*
22662675 AATATTATTTTATT-ATAA
1 AATATTAATTTATTCATAA
22662693 AA
1 AA
22662695 ATCTCTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTAATTTATTCATAA
Found at i:22666573 original size:33 final size:33
Alignment explanation
Indices: 22666531--22666594 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
22666521 ACGAATCTTC
*
22666531 GCTGCAGCGAAAAGGCATTCTCGTTGCAGCGTA
1 GCTGCAGCGAAAAGGAATTCTCGTTGCAGCGTA
* * *
22666564 GCTGCAGCGATAATGAATTTTCGTTGCAGCG
1 GCTGCAGCGAAAAGGAATTCTCGTTGCAGCG
22666595 ACATTAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (33 bp):
GCTGCAGCGAAAAGGAATTCTCGTTGCAGCGTA
Found at i:22673278 original size:39 final size:39
Alignment explanation
Indices: 22673222--22673316 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
22673212 CGAGATTGAA
* * * *
22673222 TCTCACTGCAGCGAAATTGTGACCCAGAAATAGAAGGTT
1 TCTCACTGCAGCAAAATTGTAACCCAGAAACAGAAAGTT
*
22673261 TCTCACTGCAGCAAAATTTTAACCCAGAAACAGAAAGTT
1 TCTCACTGCAGCAAAATTGTAACCCAGAAACAGAAAGTT
*
22673300 TCTCGCTGCAGCGAAAA
1 TCTCACTGCAGC-AAAA
22673317 GCTACAGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 45 0.92
40 4 0.08
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (39 bp):
TCTCACTGCAGCAAAATTGTAACCCAGAAACAGAAAGTT
Found at i:22678495 original size:19 final size:19
Alignment explanation
Indices: 22678447--22678496 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22678437 AAGAAGAAGA
22678447 AGAAGGAGAAGAAGCTGCT
1 AGAAGGAGAAGAAGCTGCT
* *
22678466 AG-AGAATGAAGAAGTTGCT
1 AGAAGGA-GAAGAAGCTGCT
*
22678485 GGAAGGAGAAGA
1 AGAAGGAGAAGA
22678497 TATTTACAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.44, C:0.06, G:0.38, T:0.12
Consensus pattern (19 bp):
AGAAGGAGAAGAAGCTGCT
Found at i:22684198 original size:35 final size:35
Alignment explanation
Indices: 22684153--22684223 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
22684143 TTCCACCAAG
* * *
22684153 CTTTTACAATGG-CTTTTCATAGGATCAGCCACAAC
1 CTTTAACAATGGTCTTTTC-TAGGATCAACCAAAAC
*
22684188 CTTTAACAATGGTTTTTTCTAGGATCAACCAAAAC
1 CTTTAACAATGGTCTTTTCTAGGATCAACCAAAAC
22684223 C
1 C
22684224 CAAAACTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (35 bp):
CTTTAACAATGGTCTTTTCTAGGATCAACCAAAAC
Found at i:22690188 original size:24 final size:23
Alignment explanation
Indices: 22690161--22690205 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
22690151 AACTAAGGTA
*
22690161 AATAAACATAAAATAATATAAAGT
1 AATAAAAATAAAATAAT-TAAAGT
*
22690185 AATAAAAATAAACTAATTAAA
1 AATAAAAATAAAATAATTAAA
22690206 AAAATAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
AATAAAAATAAAATAATTAAAGT
Found at i:22697691 original size:2 final size:2
Alignment explanation
Indices: 22697684--22697721 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22697674 TACATATACC
22697684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22697722 TAGTCTGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22698211 original size:18 final size:18
Alignment explanation
Indices: 22698190--22698229 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22698180 TCCATATTTT
22698190 TATATATT-AATATATATA
1 TATATATTCAAT-TATATA
*
22698208 TATATATTCAATTTTATA
1 TATATATTCAATTATATA
22698226 TATA
1 TATA
22698230 CCTTAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATATTCAATTATATA
Found at i:22710220 original size:11 final size:11
Alignment explanation
Indices: 22710200--22710233 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
22710190 ACCGGTGAAA
22710200 TTCA-CAAGCT
1 TTCACCAAGCT
22710210 TTCACCAAGCT
1 TTCACCAAGCT
22710221 TTCACCAAGCT
1 TTCACCAAGCT
22710232 TT
1 TT
22710234 ACAATGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.32
Consensus pattern (11 bp):
TTCACCAAGCT
Found at i:22712277 original size:42 final size:43
Alignment explanation
Indices: 22712193--22712315 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 43
22712183 CACTCTCCGA
* *
22712193 TCATCATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGG
1 TCATCATCAGCTTATGTGCACTCCCCACTAGCACATAGCTGGG
* * *
22712236 TCATCATCAGCTTATGTGCACT-TCCACTTGTACATAGCTGGG
1 TCATCATCAGCTTATGTGCACTCCCCACTAGCACATAGCTGGG
* * * *
22712278 TCATCATCGGCTTATGTACACT-CCTACTCGCACATAGC
1 TCATCATCAGCTTATGTGCACTCCCCACTAGCACATAGC
22712316 CTGGTCCACA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 48 0.70
43 21 0.30
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (43 bp):
TCATCATCAGCTTATGTGCACTCCCCACTAGCACATAGCTGGG
Found at i:22716951 original size:22 final size:22
Alignment explanation
Indices: 22716915--22716990 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
22716905 CGACGGGTCT
* *
22716915 TCGCTGTAGCAGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
22716937 TCGCTGCAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
*** * *
22716959 TATTTGCAGCGAAAAGGCATTT
1 TCGCTGCAGCGGAAAGGCATTC
*
22716981 TTGCTGCAGC
1 TCGCTGCAGC
22716991 AAAATTCGGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (22 bp):
TCGCTGCAGCGGAAAGGCATTC
Found at i:22718144 original size:30 final size:28
Alignment explanation
Indices: 22718110--22718236 Score: 114
Period size: 30 Copynumber: 4.4 Consensus size: 28
22718100 CCTTGTCTTT
*
22718110 AATTAAGACAAAAATATTTTACCCTATCTA
1 AATTAAGACAAAAATATTTT--CTTATCTA
* * * *
22718140 AATTAAAACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTCTTATCTA
*
22718168 GATTAAGACAAAAAATATTTTTCTTATCTTA
1 AATTAAGAC-AAAAATA-TTTTCTTATC-TA
* * *
22718199 AATTAAGAC--ACATATTTTTTTGTCTA
1 AATTAAGACAAAAATATTTTCTTATCTA
22718225 AATTAAGACAAA
1 AATTAAGACAAA
22718237 CATGTTAAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.14
27 8 0.10
28 18 0.23
29 5 0.06
30 26 0.33
31 10 0.13
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (28 bp):
AATTAAGACAAAAATATTTTCTTATCTA
Found at i:22718201 original size:59 final size:57
Alignment explanation
Indices: 22718110--22718236 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 57
22718100 CCTTGTCTTT
22718110 AATTAAGAC-AAAAATATTTTACCCTATCTAAATTAAAACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTACCCTATCTAAATTAAAACAAATAT-TTTT-TTGTCTA
* * * * *
22718168 GATTAAGACAAAAAATATTTT-TCTTATCTTAAATTAAGACACATATTTTTTTGTCTA
1 AATTAAGACAAAAAATATTTTACCCTATC-TAAATTAAAACAAATATTTTTTTGTCTA
22718225 AATTAAGACAAA
1 AATTAAGACAAA
22718237 CATGTTAAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
57 18 0.30
58 17 0.28
59 26 0.43
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (57 bp):
AATTAAGACAAAAAATATTTTACCCTATCTAAATTAAAACAAATATTTTTTTGTCTA
Found at i:22718204 original size:31 final size:30
Alignment explanation
Indices: 22718110--22718236 Score: 108
Period size: 28 Copynumber: 4.4 Consensus size: 30
22718100 CCTTGTCTTT
* *
22718110 AATTAAGAC-AAAAATATTTTACCCTATCTA
1 AATTAAGACAAAAAATATTTT-TCTTATCTA
* *
22718140 AATT-A-A-AACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAAATAT-TTTTCTTATCTA
*
22718168 GATTAAGACAAAAAATATTTTTCTTATCTTA
1 AATTAAGACAAAAAATATTTTTCTTATC-TA
* *
22718199 AATTAAGAC---ACATATTTTT-TTGTCTA
1 AATTAAGACAAAAAATATTTTTCTTATCTA
22718225 AATTAAGACAAA
1 AATTAAGACAAA
22718237 CATGTTAAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
26 11 0.14
27 4 0.05
28 26 0.33
29 5 0.06
30 14 0.18
31 18 0.23
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (30 bp):
AATTAAGACAAAAAATATTTTTCTTATCTA
Found at i:22718230 original size:26 final size:27
Alignment explanation
Indices: 22718136--22718236 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
22718126 TTTTACCCTA
*
22718136 TCTAAATTAAAACAAATATGTTTTCTTG
1 TCTAAATTAAGACAAATAT-TTTTCTTG
* *
22718164 TCTAGATTAAGACAAAAAATATTTTTCTTA
1 TCTAAATTAAGAC---AAATATTTTTCTTG
*
22718194 TCTTAAATTAAGACACATATTTTT-TTG
1 TC-TAAATTAAGACAAATATTTTTCTTG
22718221 TCTAAATTAAGACAAA
1 TCTAAATTAAGACAAA
22718237 CATGTTAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 13 0.21
27 4 0.06
28 20 0.32
30 9 0.15
31 16 0.26
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.41
Consensus pattern (27 bp):
TCTAAATTAAGACAAATATTTTTCTTG
Found at i:22721889 original size:38 final size:40
Alignment explanation
Indices: 22721847--22721949 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
22721837 ATAGTGCCCG
* * *
22721847 TGTGCATGATGTGGGAGGATGTACACAATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
* * *
22721885 TGTGCACGATGTGGGGGGATGCACACGATGGCGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
*
22721925 TGTGCACAATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
22721950 TGAGCCTGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
Found at i:22728548 original size:20 final size:20
Alignment explanation
Indices: 22728523--22728568 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
22728513 TTTTGACCCC
22728523 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
22728543 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
22728563 ATTTGA
1 ATTTGA
22728569 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:22742159 original size:28 final size:29
Alignment explanation
Indices: 22742118--22742177 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
22742108 GTCTATGGGC
*
22742118 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
22742146 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
22742176 AA
1 AA
22742178 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:22747834 original size:28 final size:27
Alignment explanation
Indices: 22747798--22747850 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
22747788 ATATCCTGGT
*
22747798 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
22747825 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
22747851 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:22747918 original size:20 final size:20
Alignment explanation
Indices: 22747895--22747940 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
22747885 CTTCTAAACC
22747895 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
22747915 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
22747935 TCAAAT
1 TCAAAT
22747941 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:22748816 original size:3 final size:3
Alignment explanation
Indices: 22748808--22748832 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22748798 TCTAGTATAT
22748808 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22748833 GCCACATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22749510 original size:34 final size:33
Alignment explanation
Indices: 22749429--22749500 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
22749419 TAATAGAATT
*
22749429 TTAATATAAGAAAAACTCTTTTTCTTAAAAAAA
1 TTAATACAAGAAAAACTCTTTTTCTTAAAAAAA
*
22749462 TTGATACAAGAAAAACTCTTTTTTCTT-AAAAAA
1 TTAATACAAGAAAAACTC-TTTTTCTTAAAAAAA
22749495 TTAATA
1 TTAATA
22749501 GTCATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (33 bp):
TTAATACAAGAAAAACTCTTTTTCTTAAAAAAA
Found at i:22750835 original size:59 final size:57
Alignment explanation
Indices: 22750734--22750907 Score: 197
Period size: 59 Copynumber: 3.0 Consensus size: 57
22750724 TTAAGATAAC
* * * *
22750734 TCTTGTCTTTAATTAAGACAAAAATATTTTATCTGGTCTAAATTGAGACAAATATGTTT
1 TCTTGTC-TAAATTAAGACAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTT
* * *
22750793 TCTTGTCTAGATTAAGACAAAAAATATTTTTCTTGTCTTAAATTAAGACTAACATATTT
1 TCTTGTCTAAATTAAGAC-AAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTT
* * * *
22750852 TCTTGTCTAAACTACGACTAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGAC-AAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTT
22750908 AAAGCTGTCA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
57 18 0.18
58 25 0.26
59 55 0.56
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTT
Found at i:22750856 original size:29 final size:28
Alignment explanation
Indices: 22750734--22750904 Score: 171
Period size: 29 Copynumber: 5.9 Consensus size: 28
22750724 TTAAGATAAC
* *
22750734 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAACATA-TTT
* * * *
22750764 ATCTGGTCTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
* *
22750793 TCTTGTCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATA-TTT
*
22750823 TCTTGTCTTAAATTAAGACTAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* * *
22750852 TCTTGTCTAAACTACGACTAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATATTT
22750881 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
22750905 GTTAAAGCTG
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
28 30 0.26
29 42 0.36
30 29 0.25
31 16 0.14
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:22756312 original size:14 final size:14
Alignment explanation
Indices: 22756293--22756319 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22756283 CAAAATTTAT
22756293 TAATTAACTAAAAC
1 TAATTAACTAAAAC
22756307 TAATTAACTAAAA
1 TAATTAACTAAAA
22756320 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:22757786 original size:2 final size:2
Alignment explanation
Indices: 22757775--22757829 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
22757765 TGGTTGAAAG
22757775 TA TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22757813 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
22757830 TGCTTCTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22757813 original size:27 final size:26
Alignment explanation
Indices: 22757775--22757829 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
22757765 TGGTTGAAAG
22757775 TATATAAT-ATATATATATATATAT-
1 TATATAATAATATATATATATATATA
22757799 TATATAATAATATATATATATATATA
1 TATATAATAATATATATATATATATA
22757825 TATAT
1 TATAT
22757830 TGCTTCTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.28
25 16 0.55
26 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATAATAATATATATATATATATA
Found at i:22759385 original size:36 final size:35
Alignment explanation
Indices: 22759345--22759476 Score: 133
Period size: 36 Copynumber: 3.7 Consensus size: 35
22759335 TACTATGACA
22759345 GTTATCGCTTGATCCCT-TTAAAAAGTCAGTGTAAGG
1 GTTATCGCTTGAT-CCTATTAAAAA-TCAGTGTAAGG
* *
22759381 GTTATCGCTTGATCCTATTAAAAAACAAGTGTAGGG
1 GTTATCGCTTGATCCTATTAAAAATC-AGTGTAAGG
* * * * *
22759417 GTTATTGCTTAATCCTATGTCAAAA-CCGTTGTGAGG
1 GTTATCGCTTGATCCTAT-TAAAAATCAG-TGTAAGG
*
22759453 GTTATCGCTTGATCCCATTAAAAA
1 GTTATCGCTTGATCCTATTAAAAA
22759477 GTAAGAATCC
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
35 10 0.12
36 65 0.81
37 5 0.06
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (35 bp):
GTTATCGCTTGATCCTATTAAAAATCAGTGTAAGG
Found at i:22762542 original size:43 final size:42
Alignment explanation
Indices: 22762477--22762603 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 42
22762467 TGTGATAATA
* *
22762477 ATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAACTGATG
1 ATGACCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTGATG
*
22762520 ATGACCCAGCTATGTGCTGTGTGGGAGTGCACATGAGTTGATG
1 ATGACCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTGATG
* *
22762563 ATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCTGA
1 ATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTGA
22762604 GTGTGGCGGG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 3 0.04
43 73 0.96
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
ATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGATG
Done.