Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 31 of 345
Found at i:9519603 original size:39 final size:38
Alignment explanation
Indices: 9519536--9519670 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
9519526 ACCAATATGG
* * *
9519536 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
9519575 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
9519613 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
9519654 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9519671 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:9519936 original size:18 final size:19
Alignment explanation
Indices: 9519910--9519948 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9519900 TTTCAATTCA
9519910 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
9519929 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
9519947 AT
1 AT
9519949 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:9521275 original size:5 final size:5
Alignment explanation
Indices: 9521265--9521316 Score: 70
Period size: 5 Copynumber: 10.0 Consensus size: 5
9521255 TTACTTATTT
9521265 ATATA ATATAA TATATA ATATA ATATA ATATA ATATA ATAATA AT-TA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
9521312 ATATA
1 ATATA
9521317 TATTTTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.09
5 28 0.65
6 7 0.16
7 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:9521919 original size:12 final size:12
Alignment explanation
Indices: 9521904--9521932 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9521894 TAAATGAATA
9521904 TTTAAAAGAAAG
1 TTTAAAAGAAAG
9521916 TTT-AAAGAAAG
1 TTTAAAAGAAAG
9521927 TTTAAA
1 TTTAAA
9521933 GAACAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (12 bp):
TTTAAAAGAAAG
Found at i:9521924 original size:11 final size:11
Alignment explanation
Indices: 9521908--9521935 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9521898 TGAATATTTA
9521908 AAAGAAAGTTT
1 AAAGAAAGTTT
9521919 AAAGAAAGTTT
1 AAAGAAAGTTT
9521930 AAAGAA
1 AAAGAA
9521936 CAAATGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (11 bp):
AAAGAAAGTTT
Found at i:9523219 original size:19 final size:19
Alignment explanation
Indices: 9523195--9523242 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
9523185 GGGAAAATCT
9523195 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
9523214 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
9523233 AATGCAAATG
1 AATGCAAATG
9523243 CATGGGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:9525067 original size:131 final size:131
Alignment explanation
Indices: 9524932--9525401 Score: 646
Period size: 131 Copynumber: 3.6 Consensus size: 131
9524922 TGAAATTTCG
* *
9524932 AAGGAA-ACTTCGATTGTTTTGAAAAAACAAGAAATCACAACCCAACACATTAGGGCACGATTCC
1 AAGGAATA-TTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCC
*
9524996 CGAATTATCAAACACCGAGTATTGTCTTTGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACC
65 CGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACC
9525061 TA
130 TA
9525063 AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCC
1 AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCC
9525128 GAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACCT
66 GAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACCT
9525193 A
131 A
* *
9525194 AAGGAATATTCAATTGTTTTGAACAAACGAGAAATCACAA-CCAAGCACGA-TAGGGCATGATTC
1 AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAA-CAC-ATTAGGGCACGATTC
* * * * *
9525257 TCGAATTATCAAACACCGAGTATTGCCTTCGTTTT-AAAGGATTTTTAGA-AGACATGAGTGAAA
64 CCGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGG-TTTTTA-ATAAACACGAGTGAAA
* * *
9525320 TCTTG
127 ACCTA
* * * * ** *
9525325 AAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAACACGTTAGGGCACGATTCC
1 AAGGAATATTCGATTGTTTTGAA-CAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCC
*
9525389 GCGAATTACCAAA
65 -CGAATTATCAAA
9525402 TATCGCATAT
Statistics
Matches: 306, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
130 10 0.03
131 278 0.91
132 18 0.06
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (131 bp):
AAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCC
GAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACCT
A
Found at i:9525424 original size:131 final size:130
Alignment explanation
Indices: 9524805--9525438 Score: 627
Period size: 131 Copynumber: 4.8 Consensus size: 130
9524795 TTCCAAAGTT
* * * * ** * * *
9524805 ATATTAGATTATTTTAAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACTATTCACCGAAT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACGTTAGGGCACGATTC-CCGAAT
** * ** * * * ** ** *
9524870 TGCCAAACATCGAACATTTCTTTCGTTTTAAAGGGTTTTTGGA-AAACTTGAGTG-AAATTTCGA
65 TATCAAACACCGAGTATTGCCTTCGTTTTAAA-GGTTTTT-AATAAACACGAGTGAAAACCT-AA
9524933 AGGA
127 AGGA
* * *
9524937 A-ACTTCGATTGTTTTGAAAAAACAAGAAATCACAACCCAACACATTAGGGCACGATTCCCGAAT
1 ATA-TTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACGTTAGGGCACGATTCCCGAAT
* * *
9525001 TATCAAACACCGAGTATTGTCTTTGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACCTAAAG
65 TATCAAACACCGAGTATTGCCTTCGTTTT-AAAGGTTTTTAATAAACACGAGTGAAAACCTAAAG
9525066 GA
129 GA
*
9525068 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACATTAGGGCACGATTCCCGAATT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACGTTAGGGCACGATTCCCGAATT
* *
9525133 ATCAAACACCGAGTATTGTCTTCGTTTTGGAAGGTTTTTAATAAACACGAGTGAAAACCTAAAGG
66 ATCAAACACCGAGTATTGCCTTCGTTTT-AAAGGTTTTTAATAAACACGAGTGAAAACCTAAAGG
9525198 A
130 A
* * * *
9525199 ATATTCAATTGTTTTGAACAAACGAGAAATCACAA-CCAAGCACGATAGGGCATGATTCTCGAAT
1 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAA-CACGTTAGGGCACGATTCCCGAAT
* * * * *
9525263 TATCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGA-AGACATGAGTGAAATCTTGAA
65 TATCAAACACCGAGTATTGCCTTCGTTTTAAAGG-TTTTTA-ATAAACACGAGTGAAAACCTAAA
*
9525327 GGG
128 GGA
* * * **
9525330 ATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAA
1 ATATTCGATTGTTTTGAA-CAAACGAGAAATCACAACCCAACACGTTAGGGCACGATTCC-CGAA
* * * * *
9525394 TTACCAAATATCGCA-TATCGCCTTCG-TTTAAGGGATTTTTAATAA
64 TTATCAAACACCG-AGTATTGCCTTCGTTTTAAAGG-TTTTTAATAA
9525439 TTGTGAAACT
Statistics
Matches: 430, Mismatches: 59, Indels: 27
0.83 0.11 0.05
Matches are distributed among these distances:
130 12 0.03
131 337 0.78
132 80 0.19
133 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACGTTAGGGCACGATTCCCGAATT
ATCAAACACCGAGTATTGCCTTCGTTTTAAAGGTTTTTAATAAACACGAGTGAAAACCTAAAGGA
Found at i:9525782 original size:21 final size:20
Alignment explanation
Indices: 9525732--9525782 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
9525722 ACGATAATGT
* *
9525732 ACATAGCATGATATAGAATA
1 ACATAGCAAGATATAAAATA
9525752 ACCA-ATGCAAGATATAAAAATA
1 A-CATA-GCAAGATAT-AAAATA
9525774 ACATAGCAA
1 ACATAGCAA
9525783 TTAGAAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATAGCAAGATATAAAATA
Found at i:9527002 original size:17 final size:16
Alignment explanation
Indices: 9526971--9527005 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9526961 ATTTTGGCTT
9526971 ATTTTTTTGTATTTTC
1 ATTTTTTTGTATTTTC
*
9526987 ATTTTGTTTTTATTTTC
1 ATTTT-TTTGTATTTTC
9527004 AT
1 AT
9527006 ACGGCCCGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (16 bp):
ATTTTTTTGTATTTTC
Found at i:9529303 original size:2 final size:2
Alignment explanation
Indices: 9529296--9529323 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9529286 TCTTTTTACA
9529296 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
9529324 TGCTTAATTG
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:9531070 original size:19 final size:19
Alignment explanation
Indices: 9531033--9531072 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9531023 GATCAATTAT
*
9531033 AATTATATAAATAATTAAA
1 AATTATATAAAAAATTAAA
9531052 AATTA-ATAAAAAATATAAA
1 AATTATATAAAAAAT-TAAA
9531071 AA
1 AA
9531073 AATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTATATAAAAAATTAAA
Found at i:9532830 original size:43 final size:43
Alignment explanation
Indices: 9532783--9532869 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
9532773 TTTTTAATAG
9532783 TTAAGTTAAGCAATACCTAATATTATTAAATTATTAGTTAATT
1 TTAAGTTAAGCAATACCTAATATTATTAAATTATTAGTTAATT
9532826 TTAAGTTAAGCAATACCTAATATTATTAAATTATTAGTTAATT
1 TTAAGTTAAGCAATACCTAATATTATTAAATTATTAGTTAATT
9532869 T
1 T
9532870 ATGTTTTAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (43 bp):
TTAAGTTAAGCAATACCTAATATTATTAAATTATTAGTTAATT
Found at i:9554085 original size:26 final size:26
Alignment explanation
Indices: 9554056--9554165 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
9554046 TGATACAAAT
9554056 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9554082 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9554108 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9554134 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9554160 TGATAA
1 TGATAA
9554166 GAATTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9555704 original size:26 final size:25
Alignment explanation
Indices: 9555652--9555704 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
9555642 TTTACAGTTT
9555652 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
9555678 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
9555704 T
1 T
9555705 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:9558819 original size:22 final size:23
Alignment explanation
Indices: 9558794--9558837 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9558784 TTTTTGATTT
*
9558794 CATGGAGAATTT-TGAAAGTTTC
1 CATGAAGAATTTCTGAAAGTTTC
*
9558816 CATGAATAATTTCTGAAAGTTT
1 CATGAAGAATTTCTGAAAGTTT
9558838 ATGATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (23 bp):
CATGAAGAATTTCTGAAAGTTTC
Found at i:9559449 original size:52 final size:51
Alignment explanation
Indices: 9559392--9559598 Score: 218
Period size: 52 Copynumber: 4.0 Consensus size: 51
9559382 GACGGAAAAG
*
9559392 ATGTGATATGTGCTTCAGTATAAGACCATAGTTGGGCAGTGGCATCGGTACA
1 ATGTGATATGTGCTTCAGTATAAGACCATAGCTGGGCA-TGGCATCGGTACA
* *
9559444 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTGCTTCAGTATAAGACCATAGCTGGGC-ATGGCATCGGTACA
* * * * **
9559496 ATGTGATACGTG-TTCCAGTATAAGACCATAGCTGGGCTTTGGCGTTGGTATG
1 ATGTGATATGTGCTT-CAGTATAAGACCATAGCTGGGC-ATGGCATCGGTACA
* ** * **
9559548 ATGTGATAATGTGATTTTGTATAAGACCATATCTGGATTATGGCATCGGTA
1 ATGTGAT-ATGTGCTTCAGTATAAGACCATAGCTGG-GCATGGCATCGGTA
9559599 TTATATGTGA
Statistics
Matches: 130, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
51 2 0.02
52 95 0.73
53 31 0.24
54 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (51 bp):
ATGTGATATGTGCTTCAGTATAAGACCATAGCTGGGCATGGCATCGGTACA
Found at i:9559520 original size:104 final size:105
Alignment explanation
Indices: 9559392--9559597 Score: 263
Period size: 104 Copynumber: 2.0 Consensus size: 105
9559382 GACGGAAAAG
* *
9559392 ATGTGATATGTGCTTCAGTATAAGACCATAGTTGGGCAGTGGCATCGGTACAATGTGAT-ATGTG
1 ATGTGATACGTGCTTCAGTATAAGACCATAGCTGGGCAGTGGCATCGGTACAATGTGATAATGTG
* *
9559456 CTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
66 ATTCCGTATAAGACCATAGCTGGACTATGGCATCGGTGCA
** * * **
9559496 ATGTGATACGTG-TTCCAGTATAAGACCATAGCTGGGCTTTGGCGTTGGTATGATGTGATAATGT
1 ATGTGATACGTGCTT-CAGTATAAGACCATAGCTGGGCAGTGGCATCGGTACAATGTGATAATGT
** * *
9559560 GATTTTGTATAAGACCATATCTGGATTATGGCATCGGT
65 GATTCCGTATAAGACCATAGCTGGACTATGGCATCGGT
9559598 ATTATATGTG
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 2 0.02
104 48 0.56
105 36 0.42
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (105 bp):
ATGTGATACGTGCTTCAGTATAAGACCATAGCTGGGCAGTGGCATCGGTACAATGTGATAATGTG
ATTCCGTATAAGACCATAGCTGGACTATGGCATCGGTGCA
Found at i:9562571 original size:3 final size:3
Alignment explanation
Indices: 9562558--9562688 Score: 60
Period size: 3 Copynumber: 44.0 Consensus size: 3
9562548 TTTAATTTCA
* * * *
9562558 TAT TGT TAT TAT TAG TAT TA- TAC TAT TA- TATT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * *
9562602 TAG TAT ATAT T-T TAT TA- TAT GTGT ATAT TGT TAT TAT TAG TAT TA-
1 TAT TAT -TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
9562647 TAC TAT TA- TATT TAT TAT TAA TAT TAG TAT ATAT T-T TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
9562689 ATGTGTATAT
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
2 14 0.15
3 67 0.71
4 14 0.15
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9562588 original size:69 final size:69
Alignment explanation
Indices: 9562557--9562698 Score: 248
Period size: 69 Copynumber: 2.1 Consensus size: 69
9562547 CTTTAATTTC
*
9562557 ATATTGTTATTATTAGTATTATACTATTATATTTATTATTAATATTAGTATATATTTTATTATAT
1 ATATTGTTATTATTAGTATTATACTATTATATATATTATTAATATTAGTATATATTTTATTATAT
*
9562622 GTGT
66 ATGT
*
9562626 ATATTGTTATTATTAGTATTATACTATTATATTTATTATTAATATTAGTATATATTTTATTATAT
1 ATATTGTTATTATTAGTATTATACTATTATATATATTATTAATATTAGTATATATTTTATTATAT
*
9562691 GTGT
66 ATGT
9562695 ATAT
1 ATAT
9562699 ATATATATAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (69 bp):
ATATTGTTATTATTAGTATTATACTATTATATATATTATTAATATTAGTATATATTTTATTATAT
ATGT
Found at i:9562602 original size:26 final size:23
Alignment explanation
Indices: 9562557--9562688 Score: 110
Period size: 26 Copynumber: 5.5 Consensus size: 23
9562547 CTTTAATTTC
*
9562557 ATATTGTTATTATTAGTATTATACT
1 ATATT-TTATTATTAATATTATA-T
9562582 ATTATATTTATTATTAATATTAGTAT
1 A-TAT-TTTATTATTAATATTA-TAT
* *
9562608 ATATTTTATTA-T-AT-GTGTAT
1 ATATTTTATTATTAATATTATAT
* *
9562628 AT-TGTTATTATTAGTATTATACT
1 ATATTTTATTATTAATATTATA-T
9562651 ATTATATTTATTATTAATATTAGTAT
1 A-TAT-TTTATTATTAATATTA-TAT
9562677 ATATTTTATTAT
1 ATATTTTATTAT
9562689 ATGTGTATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.08
20 6 0.07
21 2 0.02
22 5 0.06
23 3 0.03
24 16 0.18
25 8 0.09
26 35 0.40
27 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
ATATTTTATTATTAATATTATAT
Found at i:9562662 original size:17 final size:17
Alignment explanation
Indices: 9562573--9562664 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
9562563 TTATTATTAG
9562573 TATTATACTATTATATT
1 TATTATACTATTATATT
* *
9562590 TATTATTAATATTAGTATA
1 TATTA-TACTATTA-TATT
*
9562609 TATT-T--TATTATATG
1 TATTATACTATTATATT
* * *
9562623 T-GTATATTGTTATTATT
1 TATTATACTATTA-TATT
9562640 AGTATTATACTATTATATT
1 --TATTATACTATTATATT
9562659 TATTAT
1 TATTAT
9562665 TAATATTAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.02
14 5 0.09
15 5 0.09
16 4 0.07
17 15 0.26
18 7 0.12
19 12 0.21
20 8 0.14
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (17 bp):
TATTATACTATTATATT
Found at i:9562696 original size:20 final size:21
Alignment explanation
Indices: 9562604--9562700 Score: 65
Period size: 23 Copynumber: 4.4 Consensus size: 21
9562594 ATTAATATTA
9562604 GTATATATTTTATTA-TATGT
1 GTATATATTTTATTAGTATGT
*
9562624 GTATATTGTTATTATTAGTAT-T
1 GTATA-TATT-TTATTAGTATGT
* * *
9562646 ATACTATTATATTTATTATTAATATT
1 GTA-TA-TAT-TTTATTAGT-AT-GT
9562672 AGTATATATTTTATTA-TATGT
1 -GTATATATTTTATTAGTATGT
9562693 GTATATAT
1 GTATATAT
9562701 ATATATACAG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
20 13 0.21
21 4 0.06
22 11 0.18
23 16 0.26
24 10 0.16
25 3 0.05
26 3 0.05
27 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (21 bp):
GTATATATTTTATTAGTATGT
Found at i:9562740 original size:69 final size:69
Alignment explanation
Indices: 9562570--9562714 Score: 218
Period size: 69 Copynumber: 2.1 Consensus size: 69
9562560 TTGTTATTAT
* *
9562570 TAGTATTATACTATTATATTTATTATTAATATTAGTATATATTTTATTATATGTGTATATTGTTA
1 TAGTATTATACTATTATATTCATTATTAATATTAGTATATATTTTATTATATGTGTATATTATTA
* *
9562635 TTAT
66 TCAG
*
9562639 TAGTATTATACTATTATATTTATTATTAATATTAGTATATATTTTATTATATGTGTATATATATA
1 TAGTATTATACTATTATATTCATTATTAATATTAGTATATATTTTATTATATGTGTATAT-TAT-
9562704 TATACAG
64 TAT-CAG
9562711 TAGT
1 TAGT
9562715 GTTTTTTATT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
69 60 0.86
70 2 0.03
71 3 0.04
72 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (69 bp):
TAGTATTATACTATTATATTCATTATTAATATTAGTATATATTTTATTATATGTGTATATTATTA
TCAG
Found at i:9562859 original size:13 final size:13
Alignment explanation
Indices: 9562837--9562875 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
9562827 ATAGCCTTAT
*
9562837 TTTTATTATTTTA
1 TTTTAATATTTTA
9562850 TTTTAATATTTTA
1 TTTTAATATTTTA
*
9562863 TTATACATATTTT
1 TTTTA-ATATTTT
9562876 TTTGTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAATATTTTA
Found at i:9562993 original size:116 final size:112
Alignment explanation
Indices: 9562659--9562994 Score: 272
Period size: 116 Copynumber: 2.9 Consensus size: 112
9562649 CTATTATATT
* * * *
9562659 TATTAT-TAATATTAGTATATATTTTATTATATGTGTATATATATATATACAGTAGT-GT-TTTT
1 TATTATATAATAGT-GTATAT-TTTTA-TATATATGTATATATAT-TTTACA-TAGTCTTATTTT
* * *
9562721 TATTACTTCATTTTAATATTTTGTTGTATTTGTTTTTTTGCATTACAGTATTAT
61 TATTACTTTATTTTAATATTTTGTTGTATTAG-TTTTTTG-ATTACAGTATTAA
* * *
9562775 TA-TATAT-ATGAGTGTATATGTTTCTTATGTACGTCCATGTATATATA-TTTATATAGCCTTAT
1 TATTATATAAT-AGTGTATA--TTT-TTATATA--T--ATGTATATATATTTTACATAGTCTTAT
* * * * * *
9562837 TTTTATTATTTTATTTTAATATTTTATTATACATATTTTTTTG-TTACTATTATTAA
58 TTTTATTACTTTATTTTAATATTTTGTTGTA-TTAGTTTTTTGATTAC-AGTATTAA
9562893 TATTATATAATAGTGTATACTTTTTATCATATATGTATATATATTTGTACATAGTCTTATTTTTA
1 TATTATATAATAGTGTATA-TTTTTAT-ATATATGTATATATATTT-TACATAGTCTTATTTTTA
* *
9562958 TTACTTTATTTCAATATTTTTGTTGTATTCGTTTTTT
63 TTACTTTATTTTAATA-TTTTGTTGTATTAGTTTTTT
9562995 CATATTTCAA
Statistics
Matches: 174, Mismatches: 27, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
114 11 0.06
115 12 0.07
116 48 0.28
117 23 0.13
118 19 0.11
119 48 0.28
120 13 0.07
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (112 bp):
TATTATATAATAGTGTATATTTTTATATATATGTATATATATTTTACATAGTCTTATTTTTATTA
CTTTATTTTAATATTTTGTTGTATTAGTTTTTTGATTACAGTATTAA
Found at i:9563040 original size:21 final size:20
Alignment explanation
Indices: 9563014--9563076 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
9563004 ATATTATTAT
9563014 TATATTTATTATATAGTAGTG
1 TATATTTATTATATA-TAGTG
9563035 TATATTT-TTAT-TACCTATGTG
1 TATATTTATTATATA--TA-GTG
*
9563056 TATATATATTATATATAGTG
1 TATATTTATTATATATAGTG
9563076 T
1 T
9563077 GATTTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 2 0.06
20 10 0.28
21 18 0.50
22 4 0.11
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (20 bp):
TATATTTATTATATATAGTG
Found at i:9563101 original size:18 final size:19
Alignment explanation
Indices: 9563078--9563117 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9563068 ATATAGTGTG
9563078 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
9563096 ATTTTTATTATATTTTATT
1 ATTTTTAATATACTTTATT
9563115 ATT
1 ATT
9563118 CTTTTTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:9563106 original size:3 final size:3
Alignment explanation
Indices: 9563091--9563160 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
9563081 TTTAATTACT
* * *
9563091 TTA TTA TTT TTA TTA -TA TT- TTA TTA TTC TT- TTT TGTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
9563133 ATA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9563161 CATTGTTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 8 0.15
3 44 0.81
4 2 0.04
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9563131 original size:20 final size:19
Alignment explanation
Indices: 9563090--9563158 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
9563080 TTTTAATTAC
9563090 TTTATTATTTTTATTATAT
1 TTTATTATTTTTATTATAT
* *
9563109 TTTATTATTCTTTTTTGTAT
1 TTTATTATT-TTTATTATAT
* * *
9563129 TTTAATATTATTACTATTAT
1 TTTATTATTTTTATTA-TAT
9563149 TATTATTATT
1 T-TTATTATT
9563159 ATCATTGTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.31
20 20 0.51
21 7 0.18
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTATTATTTTTATTATAT
Found at i:9575529 original size:73 final size:72
Alignment explanation
Indices: 9575436--9575591 Score: 240
Period size: 73 Copynumber: 2.2 Consensus size: 72
9575426 TGGTGTTTTT
*
9575436 ATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGT
9575501 AATTTCA
66 AATTTCA
** *
9575508 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGG
*
9575573 TATTTTCA
65 TAATTTCA
* *
9575581 ATGTCTATTTT
1 ATTTCTGTTTT
9575592 TCAATTTCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
72 10 0.13
73 66 0.87
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTAAGGT
AATTTCA
Found at i:9575810 original size:90 final size:87
Alignment explanation
Indices: 9575521--9576068 Score: 437
Period size: 88 Copynumber: 6.4 Consensus size: 87
9575511 TCTGTTTGTC
* *
9575521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATGTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
9575586 TATTTTTCAATTTCTTCATTTCAA
66 TGTTTTTCAATTT-AT-ATTTCAA
*
9575610 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
9575675 TATTTTTTTTAATTTATATTT-AA
66 --TGTTTTTCAATTTATATTTCAA
* * * *
9575698 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCAAT
*
9575762 TTCTGTTTTTCAATTTATGTTTCAAA
63 TTCTGTTTTTCAATTTATATTTC-AA
* *
9575788 AAAAATCAGCTCATATTGCGAGAGTTGAGTTGAGCCTCAGGTTACAC-C-GAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
* *
9575851 TCTGTTTGTCAA---A-A-ATC--
64 TCTGTTTTTCAATTTATATTTCAA
* * * * * * **
9575868 --AACTCATATTGCGAGA--G-GCGAGTTGAGCCTTG-G-CTC---ACATGCTGAGGTATCCTCA
1 AAAAATCA-ACT-C-ATATTGCGAGAGGTGAG--TTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * *
9575923 ATTTCT-ATTTTCAATTTCTGTTCGTC--
61 ATTTCTGTTTTTCAATTTATATT--TCAA
* * * *
9575949 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTTTTTTTAATTGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * ***
9576014 T-ATTTT-AATTTCTATTTTTC
66 TGTTTTTCAATTTATATTTCAA
9576034 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
9576069 ATGGGCTCAC
Statistics
Matches: 377, Mismatches: 48, Indels: 72
0.76 0.10 0.14
Matches are distributed among these distances:
73 3 0.01
74 7 0.02
75 16 0.04
78 17 0.05
79 3 0.01
80 6 0.02
81 8 0.02
82 4 0.01
83 19 0.05
85 45 0.12
86 25 0.07
88 81 0.21
89 67 0.18
90 65 0.17
91 11 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATATTTCAA
Found at i:9575956 original size:251 final size:244
Alignment explanation
Indices: 9575610--9576068 Score: 563
Period size: 251 Copynumber: 1.8 Consensus size: 244
9575600 TTCATTTCAA
* **
9575610 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGACACGCTGAGGTATCCTCAATTTC
* *
9575675 TATTTTTTTTAATTTATATTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT
66 TA--TTTTTCAATTTATATTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-
* *
9575740 TACATG-TCGAGGTATTTTCAACTT-CTGTTTTTCAA-TT-TATGTTTCAAAAAAAATCAGCTCA
128 -ACATGCT-GAGGTATTTTCAA-TTGCT-ATTTT-AATTTCTATGTTTC---AAAAATCAACTCA
*
9575801 TATTGCGAGAGTTGAGTTGAGCCTCAGGTTACACCGAGGTATTTTCAATTTCTGTTTGTC
185 TATTGCGAGAGGTGAGTTGAGCCTCAGGTTACACCGAGGTATTTTCAATTTCTGTTTGTC
* * *
9575861 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCT-TGGCTCACATGCTGAGGTATCCTCAAT
1 AAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG---ACACGCTGAGGTATCCTCAAT
* * * *
9575925 TTCTA-TTTTCAATTTCTGTTCGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
63 TTCTATTTTTCAATTTATATT--TAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCA
* * *
9575988 GGACATGCTGAGGTTTTTTTAATTGCTATTTTAATTTCTATTTTTCAAAAATCAACTCATATTGC
126 GGACATGCTGAGGTATTTTCAATTGCTATTTTAATTTCTATGTTTCAAAAATCAACTCATATTGC
9576053 GAGAGGTGAGTTGAGC
191 GAGAGGTGAGTTGAGC
9576069 ATGGGCTCAC
Statistics
Matches: 181, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
246 33 0.18
247 2 0.01
248 8 0.04
249 25 0.14
250 15 0.08
251 74 0.41
252 1 0.01
253 23 0.13
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (244 bp):
AAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGACACGCTGAGGTATCCTCAATTTC
TATTTTTCAATTTATATTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACA
TGCTGAGGTATTTTCAATTGCTATTTTAATTTCTATGTTTCAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGGTTACACCGAGGTATTTTCAATTTCTGTTTGTC
Found at i:9576055 original size:173 final size:176
Alignment explanation
Indices: 9575840--9576159 Score: 457
Period size: 173 Copynumber: 1.8 Consensus size: 176
9575830 TACACCGAGG
* * *
9575840 TATTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTGGCTCA
1 TATTTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCATGGGCTCA
* * *
9575905 CATGCTGAGGTATCCTCAATTTCTATTTTCAATTTCTG-TTCGTCAAA-AATCAACTCATATTGC
66 CATGCTGAGCTATCCTCAATTTCTATTTTCAATGTCTGTTTCGTCAAAGAATCAACTCACATTGC
*
9575968 GAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTTTTTTTAATTGC
131 GAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTTTTTTTAATTGC
* *
9576014 TATTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATGGGCTCA
1 TATTTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCATGGGCTCA
* ** * ** * *
9576078 CGTGCTGAGCTATTTTCAATTTCTATTTTTAATGTCTGTTTTTTTTAAAGAGTCAACTCACATTG
66 CATGCTGAGCTATCCTCAATTTCTATTTTCAATGTCTG-TTTCGTCAAAGAATCAACTCACATTG
9576143 CGAGAAGTGAGTTGAGC
130 CGAGAAGTGAGTTGAGC
9576160 TTAGGATCAC
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
173 85 0.67
174 6 0.05
175 6 0.05
176 29 0.23
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (176 bp):
TATTTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCATGGGCTCA
CATGCTGAGCTATCCTCAATTTCTATTTTCAATGTCTGTTTCGTCAAAGAATCAACTCACATTGC
GAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTTTTTTTAATTGC
Found at i:9576153 original size:91 final size:88
Alignment explanation
Indices: 9575840--9576177 Score: 357
Period size: 88 Copynumber: 3.8 Consensus size: 88
9575830 TACACCGAGG
* * * *
9575840 TATTTTCAATTTCTG-TTTGTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTGGCTC
1 TATTTTTAA-TTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTC
**
9575904 ACATGCTGAGGTATCCTCAATTTC
65 ACATGCTGAGGTATTTTCAATTTC
* **
9575928 TATTTTCAATTTCTG-TTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
1 TATTTTTAA-TTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCT
* * *
9575990 -ACATGCTGAGGTTTTTTTAATTGC
64 CACATGCTGAGGTATTTTCAATTTC
* * *
9576014 TA-TTTTAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATGGGCTC
1 TATTTTTAA-TTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTC
* *
9576077 ACGTGCTGAGCTATTTTCAATTTC
65 ACATGCTGAGGTATTTTCAATTTC
* * * * * *
9576101 TATTTTTAATGTCTGTTTTTTTTAAAGAGTCAACTCACATTGCGAGAAGTGAGTTGAGCTTAGGA
1 TATTTTTAAT-TCTG-TTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGC
9576166 TCACATGCTGAG
63 TCACATGCTGAG
9576178 TAAAGAATAA
Statistics
Matches: 213, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
84 2 0.01
85 50 0.23
86 21 0.10
87 22 0.10
88 65 0.31
89 2 0.01
90 8 0.04
91 43 0.20
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (88 bp):
TATTTTTAATTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTCA
CATGCTGAGGTATTTTCAATTTC
Found at i:9577679 original size:24 final size:24
Alignment explanation
Indices: 9577652--9577717 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
9577642 TTCTTTATTA
* *
9577652 AATATTATTATTATTATTTCTAAT
1 AATATTATCAATATTATTTCTAAT
9577676 AATATTATCAATATTATTTCTAAT
1 AATATTATCAATATTATTTCTAAT
*
9577700 ATTATTATCAATATTATT
1 AATATTATCAATATTATT
9577718 ATTATTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
AATATTATCAATATTATTTCTAAT
Found at i:9577718 original size:12 final size:12
Alignment explanation
Indices: 9577652--9577719 Score: 74
Period size: 12 Copynumber: 5.9 Consensus size: 12
9577642 TTCTTTATTA
9577652 AATATTATTAT-
1 AATATTATTATC
9577663 --TATTATT-TC
1 AATATTATTATC
*
9577672 TAATAATATTATC
1 -AATATTATTATC
9577685 AATATTATT-TC
1 AATATTATTATC
9577696 TAATATTATTATC
1 -AATATTATTATC
9577709 AATATTATTAT
1 AATATTATTAT
9577720 TATTTTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 7 0.15
11 2 0.04
12 34 0.71
13 4 0.08
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATTATTATC
Found at i:9577852 original size:26 final size:24
Alignment explanation
Indices: 9577807--9577869 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
9577797 CTTTAATTTC
*
9577807 ATATTGTTATTATTAGTATTA-TACT
1 ATATT-TTATTATTAATATTAGTA-T
9577832 ATTATATTTATTATTAATATTAGTAT
1 A-TAT-TTTATTATTAATATTAGTAT
9577858 ATATTTTATTAT
1 ATATTTTATTAT
9577870 ATGTGTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 19 0.56
27 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
ATATTTTATTATTAATATTAGTAT
Found at i:9578223 original size:21 final size:23
Alignment explanation
Indices: 9578198--9578255 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
9578188 ATATTATTAT
*
9578198 TATATTTATTATATA-GTA-GTG
1 TATATTTATTATATACCTATGTG
9578219 TATATTT-TTAT-TACCTATGTG
1 TATATTTATTATATACCTATGTG
*
9578240 TATATATATTTATATA
1 TATATTTA-TTATATA
9578256 TATAGTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.07
20 6 0.20
21 16 0.53
23 4 0.13
24 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (23 bp):
TATATTTATTATATACCTATGTG
Found at i:9578228 original size:23 final size:23
Alignment explanation
Indices: 9578198--9578262 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
9578188 ATATTATTAT
*
9578198 TATATTTATTATATAGTAGTGTA
1 TATATTTATTATATAGTAGTATA
*
9578221 TATTTTTATTACCTAT-GT-GTATA
1 TATATTTATTA--TATAGTAGTATA
9578244 TATATTTATATATATAGTA
1 TATATTTAT-TATATAGTA
9578263 TGATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 24 0.71
24 4 0.12
25 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (23 bp):
TATATTTATTATATAGTAGTATA
Found at i:9578263 original size:21 final size:21
Alignment explanation
Indices: 9578198--9578263 Score: 53
Period size: 25 Copynumber: 3.0 Consensus size: 21
9578188 ATATTATTAT
*
9578198 TATATTTAT-TATATAGTAGTG
1 TATATTTATATATATAGTA-TA
* *
9578219 TATATTTTTATTACCTATGTGTATA
1 TATATTTATA-TA--TAT-AGTATA
9578244 TATATTTATATATATAGTAT
1 TATATTTATATATATAGTAT
9578264 GATTTTTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
21 12 0.34
22 3 0.09
23 2 0.06
24 2 0.06
25 13 0.37
26 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (21 bp):
TATATTTATATATATAGTATA
Found at i:9578496 original size:3 final size:3
Alignment explanation
Indices: 9578482--9578512 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
9578472 TTAACTTAAT
9578482 TTA TTGA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
9578513 CAATTGCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9578657 original size:31 final size:33
Alignment explanation
Indices: 9578593--9578702 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 33
9578583 ATTATTATTA
** *
9578593 TTATTAGTATATATATAATATATATTTTTTATG
1 TTATTAGTATATATATAATATATATGGTATATG
*
9578626 TTATTAGTAT-T-TCTAATATATATGGTATATG
1 TTATTAGTATATATATAATATATATGGTATATG
* * *
9578657 TTCATT-TTATATATATTATGTATAT-GTATAT-
1 TT-ATTAGTATATATATAATATATATGGTATATG
*
9578688 TTAGTATGTATATAT
1 TTATTA-GTATATAT
9578703 TCAATATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
30 2 0.03
31 23 0.37
32 18 0.29
33 19 0.31
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (33 bp):
TTATTAGTATATATATAATATATATGGTATATG
Found at i:9587543 original size:2 final size:2
Alignment explanation
Indices: 9587538--9587576 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9587528 ACACACACAC
9587538 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
9587577 GCTAGGTTTT
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:9590338 original size:31 final size:32
Alignment explanation
Indices: 9590251--9590342 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
9590241 AAATTAAGTT
* * *
9590251 TTGAGGGGTCTAATTAAAATTTTTAAAAAATT
1 TTGAGAGGTCTAATTAAAATTTTCAAAAAATA
* * * *
9590283 TTGAGAGTTTTAATGAGAATTTTCAAAAAA-A
1 TTGAGAGGTCTAATTAAAATTTTCAAAAAATA
* *
9590314 TTGATAGGTCTAATTAAAACTTTCAAAAA
1 TTGAGAGGTCTAATTAAAATTTTCAAAAA
9590343 TTTTATAGAC
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 23 0.49
32 24 0.51
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.37
Consensus pattern (32 bp):
TTGAGAGGTCTAATTAAAATTTTCAAAAAATA
Found at i:9590464 original size:30 final size:29
Alignment explanation
Indices: 9590389--9590470 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
9590379 AAAATTGAAG
*
9590389 GGTCTAATTAAAATTTTGAAAATTTTAAAA
1 GGTCT-ATTAAAATTTTAAAAATTTTAAAA
* *
9590419 GGTTTAATAATAATTTTAAAAATTTT-AAA
1 GGTCTATTAA-AATTTTAAAAATTTTAAAA
*
9590448 GCGTCTAGTTAAAATTTAAAAAA
1 G-GTCTA-TTAAAATTTTAAAAA
9590471 GAATTAAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 8 0.19
30 32 0.74
31 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (29 bp):
GGTCTATTAAAATTTTAAAAATTTTAAAA
Found at i:9596532 original size:3 final size:3
Alignment explanation
Indices: 9596526--9596575 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9596516 TCAGCAAAAA
9596526 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9596574 AA
1 AA
9596576 AACTGGAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9606106 original size:44 final size:44
Alignment explanation
Indices: 9606025--9606111 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
9606015 TTATAATTTA
* * * * *
9606025 AATTCTAATTATTTTTAAATGGGTAATTATCACAACTTCTATTG
1 AATTATAAATATTTTTAAATAGATAATTATAACAACTTCTATTG
* * *
9606069 AATTATAAATATTTTTAAATATATAATTATAATAACTTTTATT
1 AATTATAAATATTTTTAAATAGATAATTATAACAACTTCTATT
9606112 TTATTTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (44 bp):
AATTATAAATATTTTTAAATAGATAATTATAACAACTTCTATTG
Found at i:9606471 original size:23 final size:20
Alignment explanation
Indices: 9606420--9606476 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
9606410 TTCAAATTTT
9606420 ATATATAAAATAATTCTAAAA
1 ATATATAAAA-AATTCTAAAA
*
9606441 AT-TCTAAAAAATTCCTTCAAAA
1 ATATATAAAAAATT-C-T-AAAA
9606463 ATATATAAAAAATT
1 ATATATAAAAAATT
9606477 TTATATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 3 0.10
22 6 0.20
23 10 0.33
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATATAAAAAATTCTAAAA
Found at i:9606696 original size:32 final size:32
Alignment explanation
Indices: 9606657--9606720 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
9606647 GACATGTTTA
*
9606657 ACTTTTTAAATTTAACTCGAATAATTTTACTC
1 ACTTTTTAAATTTAACTCGAATAATTTCACTC
9606689 ACTTTTTAAATTTAACTCGAATAATTTCACTC
1 ACTTTTTAAATTTAACTCGAATAATTTCACTC
9606721 GATTCAACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.45
Consensus pattern (32 bp):
ACTTTTTAAATTTAACTCGAATAATTTCACTC
Found at i:9615693 original size:2 final size:2
Alignment explanation
Indices: 9615686--9615719 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9615676 CTACTTAAGA
9615686 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
9615720 TTGGTGTTGT
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:9617290 original size:20 final size:20
Alignment explanation
Indices: 9617246--9617295 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
9617236 TATATTTGGC
9617246 AATTACTTT-AATAAATTTTT
1 AATTACTTTAAATAAA-TTTT
*
9617266 TATTACTTTAAATGAAA-TTT
1 AATTACTTTAAAT-AAATTTT
*
9617286 AATTATTTTA
1 AATTACTTTA
9617296 GTTATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 19 0.76
21 3 0.12
22 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTACTTTAAATAAATTTT
Found at i:9628504 original size:17 final size:18
Alignment explanation
Indices: 9628475--9628517 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
9628465 CATGCTAAGC
9628475 TTTTTT-TTT-TTTTGAA
1 TTTTTTATTTATTTTGAA
9628491 -TTTTTATTTATTTTGAA
1 TTTTTTATTTATTTTGAA
9628508 TTTTTTATTT
1 TTTTTTATTT
9628518 TTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.21
16 3 0.12
17 7 0.29
18 9 0.38
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTATTTTGAA
Found at i:9628512 original size:18 final size:17
Alignment explanation
Indices: 9628475--9628520 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
9628465 CATGCTAAGC
9628475 TTTTTT-TTTTTTTGAA
1 TTTTTTATTTTTTTGAA
9628491 -TTTTTATTTATTTTGAA
1 TTTTTTATTT-TTTTGAA
9628508 TTTTTTATTTTTT
1 TTTTTTATTTTTT
9628521 AAATATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 3 0.11
17 10 0.37
18 9 0.33
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTTATTTTTTTGAA
Found at i:9629306 original size:2 final size:2
Alignment explanation
Indices: 9629299--9629323 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9629289 CGTATAATTA
9629299 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 A
9629324 GTCAACCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9631304 original size:16 final size:16
Alignment explanation
Indices: 9631283--9631314 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9631273 CAAATTAATT
9631283 ATATTAGTCATTGCTC
1 ATATTAGTCATTGCTC
9631299 ATATTAGTCATTGCTC
1 ATATTAGTCATTGCTC
9631315 TTCAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATTAGTCATTGCTC
Found at i:9633895 original size:3 final size:3
Alignment explanation
Indices: 9633887--9633983 Score: 176
Period size: 3 Copynumber: 32.3 Consensus size: 3
9633877 CATAAGAAAT
9633887 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
9633935 AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG GAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9633983 A
1 A
9633984 GACTGTAAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9635489 original size:37 final size:37
Alignment explanation
Indices: 9635431--9635538 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
9635421 TAGCTCGAAT
* * *
9635431 AATCCCCACACGTAGTTATCGGGTCTTACTCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
9635468 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
9635505 AATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
9635539 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:9635731 original size:48 final size:48
Alignment explanation
Indices: 9635679--9636114 Score: 701
Period size: 48 Copynumber: 9.0 Consensus size: 48
9635669 ATATATACAC
9635679 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
9635727 ATCTCATACATATTTCATGTTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
9635775 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
9635823 ATCTCATACATATTTCACATTAGCCGTTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
9635871 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATATAT
** *
9635921 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
9635969 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
9636017 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
9636065 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
9636113 AT
1 AT
9636115 ATTTATCTTG
Statistics
Matches: 362, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 314 0.87
50 48 0.13
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:9636005 original size:194 final size:193
Alignment explanation
Indices: 9635671--9636116 Score: 768
Period size: 194 Copynumber: 2.3 Consensus size: 193
9635661 CGGCCACAAT
*
9635671 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC-ATATATATATCTCATA
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATATATATCTCATA
9635735 CATATTTCATGTTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
66 CATATTTCATGTTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
*
9635800 ATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCGTTCGGATTTACCAC
131 ATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
* **
9635863 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATATATATATCTCAT
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATATATATCTCAT
*
9635928 ACATATTTCATGTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
65 ACATATTTCATGTTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
* * * *
9635993 CATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
130 CATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
*
9636057 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATATAT
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATATATAT
9636117 TTATCTTGTA
Statistics
Matches: 237, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
192 44 0.19
194 193 0.81
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (193 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATATATATCTCATA
CATATTTCATGTTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
ATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
Found at i:9639876 original size:3 final size:3
Alignment explanation
Indices: 9639870--9639920 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
9639860 TTTTATAGTC
9639870 TCT TCT TCT TCT TCT TC- TCT TGCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT
*
9639915 TTT TCT
1 TCT TCT
9639921 CTGTTAAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9640301 original size:20 final size:20
Alignment explanation
Indices: 9640276--9640326 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9640266 AGGGGCACAT
*
9640276 GCCCGTATGGCCTGGAACAC
1 GCCCGTGTGGCCTGGAACAC
*
9640296 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
9640316 GCCCGTGTGGC
1 GCCCGTGTGGC
9640327 TGCCCATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.18
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:9641241 original size:52 final size:53
Alignment explanation
Indices: 9641119--9641278 Score: 168
Period size: 52 Copynumber: 3.1 Consensus size: 53
9641109 CGGATCATAT
* * *
9641119 ATCATACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCGAGCTATGGTCTTATACGGGAATCACA-TATCAC
* * *
9641172 ATCACACTGATGCCATAGCCGAGCTAAGGTCTTATACGGGAA-CACGA-ATCAC
1 ATCATACCGATGCCATAGCCGAGCTATGGTCTTATACGGGAATCAC-ATATCAC
** * *
9641224 ATTTTACCGATGCCATAGCCCG-TCTATGGTCTTATAC-GGAATCATATATCAC
1 ATCATACCGATGCCATAG-CCGAGCTATGGTCTTATACGGGAATCACATATCAC
9641276 ATC
1 ATC
9641279 TTTTCTGTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
51 5 0.06
52 41 0.47
53 37 0.42
54 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (53 bp):
ATCATACCGATGCCATAGCCGAGCTATGGTCTTATACGGGAATCACATATCAC
Found at i:9644203 original size:21 final size:21
Alignment explanation
Indices: 9644177--9644231 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9644167 CCCGTATGAC
*
9644177 TCACACGATCGTGTCACTAAA
1 TCACACGGTCGTGTCACTAAA
* * **
9644198 TCACACGGTCATGTCGCTAGG
1 TCACACGGTCGTGTCACTAAA
9644219 TCACACGGTCGTG
1 TCACACGGTCGTG
9644232 ATGAGAGCCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (21 bp):
TCACACGGTCGTGTCACTAAA
Found at i:9644566 original size:16 final size:16
Alignment explanation
Indices: 9644545--9644593 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9644535 CCATATACCA
9644545 TTACCAAATATAAAAT
1 TTACCAAATATAAAAT
**
9644561 TTACC--ATATACCA-
1 TTACCAAATATAAAAT
*
9644574 TTACCAAATCTAAAAT
1 TTACCAAATATAAAAT
9644590 TTAC
1 TTAC
9644594 TTATTTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 5 0.20
16 9 0.36
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (16 bp):
TTACCAAATATAAAAT
Found at i:9644566 original size:29 final size:29
Alignment explanation
Indices: 9644533--9644593 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
9644523 AGCCAATTCC
9644533 TACCATATACCATTACCAAATATAAAATT
1 TACCATATACCATTACCAAATATAAAATT
*
9644562 TACCATATACCATTACCAAATCTAAAATT
1 TACCATATACCATTACCAAATATAAAATT
9644591 TAC
1 TAC
9644594 TTATTTCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (29 bp):
TACCATATACCATTACCAAATATAAAATT
Found at i:9645328 original size:44 final size:44
Alignment explanation
Indices: 9645274--9645365 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
9645264 CGAAGTAAAC
* * *
9645274 AGTAGCAGTACGACACACA-AGGTGCCTTATCGACTCGAA-GTCGA
1 AGTAACAGTACGAAACACATA-GTGCCTCATCGACTC-AAGGTCGA
**
9645318 AGTAACAGTACGAAACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGAAACACATAGTGCCTCATCGACTCAAGGTCGA
9645362 AGTA
1 AGTA
9645366 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 38 0.93
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGAAACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:9646406 original size:2 final size:2
Alignment explanation
Indices: 9646399--9646445 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9646389 TTATATCTTT
9646399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9646441 TA TA T
1 TA TA T
9646446 TAGTTAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9646475 original size:9 final size:9
Alignment explanation
Indices: 9646450--9646483 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9646440 ATATATTAGT
*
9646450 TAATAATGA
1 TAATAATTA
9646459 TAATAATTA
1 TAATAATTA
9646468 TAATAATTA
1 TAATAATTA
*
9646477 TTATAAT
1 TAATAAT
9646484 AAATATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:9649303 original size:18 final size:19
Alignment explanation
Indices: 9649265--9649303 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9649255 AAGGTCTATT
* *
9649265 TTATTTTGTATCATTTTTA
1 TTATTTTGTAGCATTTATA
9649284 TTATTTTGT-GCATTTATA
1 TTATTTTGTAGCATTTATA
9649302 TT
1 TT
9649304 TATATTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (19 bp):
TTATTTTGTAGCATTTATA
Found at i:9649306 original size:19 final size:20
Alignment explanation
Indices: 9649264--9649306 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9649254 AAAGGTCTAT
* *
9649264 TTTATTTTGTATCATTTTTA
1 TTTATTTTGTAGCATTTATA
9649284 -TTATTTTGT-GCATTTATA
1 TTTATTTTGTAGCATTTATA
9649302 TTTAT
1 TTTAT
9649307 ATTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTATTTTGTAGCATTTATA
Found at i:9650088 original size:3 final size:3
Alignment explanation
Indices: 9650080--9650231 Score: 76
Period size: 3 Copynumber: 50.3 Consensus size: 3
9650070 TTAATTTTAA
* * **
9650080 TAT TAT TAT TAT TAGT AAT TAAT T-T TAA TAT TAT TAT TGC TAT TAT
1 TAT TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *** * * *
9650126 TGT TGC TAT TAT CTTT TAT TAT TAT CCC TAT TAT TAT AAA CA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
9650171 TAT TAT TCT TCC TAT TAT TAT T-T ATAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
*
9650216 TAT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT T
9650232 TTTGTTATCT
Statistics
Matches: 110, Mismatches: 32, Indels: 14
0.71 0.21 0.09
Matches are distributed among these distances:
2 4 0.04
3 98 0.89
4 8 0.07
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9654391 original size:32 final size:32
Alignment explanation
Indices: 9654353--9654417 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9654343 TGGCAACCTG
9654353 ATATGAAATGTGTAAGACCACGGTTGAAAGAT
1 ATATGAAATGTGTAAGACCACGGTTGAAAGAT
*
9654385 ATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ATATGAAATGTGTAAGACCACGGTTGAAAGAT
9654417 A
1 A
9654418 CCATGGCAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.26
Consensus pattern (32 bp):
ATATGAAATGTGTAAGACCACGGTTGAAAGAT
Found at i:9654436 original size:78 final size:78
Alignment explanation
Indices: 9654307--9654459 Score: 270
Period size: 78 Copynumber: 2.0 Consensus size: 78
9654297 GTGCTCTCTG
*
9654307 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACC
9654372 ACGGTTGAAAGAT
66 ACGGTTGAAAGAT
* *
9654385 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAGGACC
1 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACC
*
9654450 ATGGTTGAAA
66 ACGGTTGAAA
9654460 TATACCATGG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (78 bp):
ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACC
ACGGTTGAAAGAT
Found at i:9654451 original size:46 final size:46
Alignment explanation
Indices: 9654385--9654707 Score: 398
Period size: 46 Copynumber: 7.0 Consensus size: 46
9654375 GTTGAAAGAT
*
9654385 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
9654431 ATATGAAATGTGTAGGACCATGGTTGAAATATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
9654477 ATATGAAATGTGTAGGACCATGGTTGAAATATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
9654523 ATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTG
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
9654569 ACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** * * *
9654615 ACGGGAAAATGAATAAAAACATGGTTGAAAGATACCATGGCAACATG
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * *
9654662 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
9654708 TCAAAAATAA
Statistics
Matches: 251, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 208 0.83
47 42 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:9654458 original size:21 final size:21
Alignment explanation
Indices: 9654434--9654506 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
9654424 CAACATGATA
9654434 TGAAATGTGTAGGACCATGGT
1 TGAAATGTGTAGGACCATGGT
* ** * *
9654455 TGAAATATACCATGGCAACATGAT
1 TGAAATGT-GTA-GG-ACCATGGT
9654479 ATGAAATGTGTAGGACCATGGT
1 -TGAAATGTGTAGGACCATGGT
9654501 TGAAAT
1 TGAAAT
9654507 ATACCATGGC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
21 13 0.34
22 7 0.18
23 4 0.11
24 7 0.18
25 7 0.18
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (21 bp):
TGAAATGTGTAGGACCATGGT
Found at i:9655007 original size:16 final size:17
Alignment explanation
Indices: 9654988--9655020 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9654978 ATGATGGAGT
9654988 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
9655004 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
9655021 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:9656042 original size:28 final size:28
Alignment explanation
Indices: 9656002--9656057 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9655992 TATTTCTTGC
9656002 TTGCTTTAATTTCATATGAATTGTACTA
1 TTGCTTTAATTTCATATGAATTGTACTA
9656030 TTGCTTTAATTTCATATGAATTGTACTA
1 TTGCTTTAATTTCATATGAATTGTACTA
9656058 ACCTGTATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (28 bp):
TTGCTTTAATTTCATATGAATTGTACTA
Found at i:9658550 original size:46 final size:46
Alignment explanation
Indices: 9658490--9658850 Score: 544
Period size: 46 Copynumber: 7.8 Consensus size: 46
9658480 TTCGACATGA
* * * * *
9658490 TGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
***** *
9658536 TGCCATGGTATCTTTCAACCATGGTCTTTTTTTTTTAATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
*
9658582 TGCCATGGTATCTTTCAACCATGGTCATACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
*
9658628 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
9658674 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATGACACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
9658720 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* * *
9658766 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
9658812 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
9658851 TTTAGAGAGC
Statistics
Matches: 287, Mismatches: 27, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 3 0.01
46 284 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:9661000 original size:11 final size:11
Alignment explanation
Indices: 9660984--9661036 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
9660974 TATACTAAAT
9660984 AAATAATAATA
1 AAATAATAATA
9660995 AAATAATAAT-
1 AAATAATAATA
* *
9661005 AAATATCTCATTA
1 AAATA-AT-AATA
*
9661018 AAATATTAATA
1 AAATAATAATA
9661029 AAATAATA
1 AAATAATA
9661037 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:9661043 original size:31 final size:33
Alignment explanation
Indices: 9660984--9661049 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
9660974 TATACTAAAT
*
9660984 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
9661018 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
9661049 A
1 A
9661050 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Found at i:9670420 original size:44 final size:44
Alignment explanation
Indices: 9670233--9670721 Score: 199
Period size: 44 Copynumber: 10.7 Consensus size: 44
9670223 CGGTGAATTC
* * *
9670233 ACAAATCTCATCTCCCTAAAGTAGCAGTGGAGCAAATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
** * * * * *
9670277 GTAGATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCGAA-TAT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGT-T
* * * * * * **
9670321 GGCGAATCTTATCTTCTTGAAGTTACAGTGGAGCAGATTGAAGCC
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* ** *
9670366 ACCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * * * * *
9670410 ACAAGTCTTAT-TTCCTAGAAGTTACAGCGAAACAGACTAAAGAT
1 ACAAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
9670454 AGCAAATCCTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTACAAAT
1 A-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-T-----T
* * * * * *
9670505 CACAAACCTTATCTCACTGAAGTTGCAATGGAACAGGTTGAAGTT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * * * *** *
9670550 ACAAGTTTTATTTCCCTAGAGTTACAGCGGAGTAGACCAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * *
9670594 AGCAAATCTTATCTCTCTGAAGTTGTAATGGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
9670639 ACAAATCATAAACCTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTT
1 AC-AA--AT----CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
* * *
9670690 ACAAGTCTTATTTCCACTAAAGTTACAGTGGA
1 ACAAATCTTATCTCC-CTAAAGTTGCAGTGGA
9670722 TTGGAATGAG
Statistics
Matches: 319, Mismatches: 104, Indels: 43
0.68 0.22 0.09
Matches are distributed among these distances:
43 6 0.02
44 129 0.40
45 106 0.33
46 5 0.02
47 2 0.01
48 1 0.00
50 3 0.01
51 66 0.21
52 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTT
Found at i:9670553 original size:140 final size:141
Alignment explanation
Indices: 9670371--9670717 Score: 529
Period size: 140 Copynumber: 2.5 Consensus size: 141
9670361 AAGCCACCAG
*
9670371 CCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTT-CCTAGAAGTTAC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTTCCCTAGAAGTTAC
*
9670435 AGCGAAACAGACTAAAGATAGCAAATCCTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTA
66 AGCGAAACAGACCAAAGATAGCAAATCCTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTA
9670500 CAAATCACAAA
131 CAAATCACAAA
* * * *
9670511 CCTTATCTCACTGAAGTTGCAATGGAACAGGTTGAAGTTACAAGTTTTATTTCCCTAG-AGTTAC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTTCCCTAGAAGTTAC
* ** * * *
9670575 AGCGGAGTAGACCAAAGATAGCAAATCTTATCTCTCTGAAGTTGTAATGGAGCAGATTAAAGCTA
66 AGCGAAACAGACCAAAGATAGCAAATCCTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTA
*
9670640 CAAATCATAAA
131 CAAATCACAAA
* *
9670651 CCTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATTTCCACTA-AAGTTA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTTCC-CTAGAAGTTA
9670715 CAG
65 CAG
9670718 TGGATTGGAA
Statistics
Matches: 185, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
140 169 0.91
141 16 0.09
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (141 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTTCCCTAGAAGTTAC
AGCGAAACAGACCAAAGATAGCAAATCCTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTA
CAAATCACAAA
Found at i:9672051 original size:3 final size:3
Alignment explanation
Indices: 9672032--9672182 Score: 187
Period size: 3 Copynumber: 49.7 Consensus size: 3
9672022 CATTAAATTA
* * * *
9672032 ATT ATT TTT AAT ATT ATT ATT ATT AGTA ATT AATT -TT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT ATT ATT
** * * *
9672078 ATT GCT ATT ATT ATT ATT ACT GTT ATCT TTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
9672124 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9672172 ATT ATT ATT AT
1 ATT ATT ATT AT
9672183 CATCTTTTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.02
3 117 0.93
4 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9678291 original size:18 final size:18
Alignment explanation
Indices: 9678265--9678316 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 18
9678255 AGGATGGAGT
*
9678265 TAAAGATATAATTATATA
1 TAAATATATAATTATATA
9678283 TAAATATAT-ATTAT-TA
1 TAAATATATAATTATATA
*
9678299 -AAATA-ATAAATATATA
1 TAAATATATAATTATATA
9678315 TA
1 TA
9678317 TACAGACAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 4 0.14
17 6 0.21
18 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATATATAATTATATA
Found at i:9684293 original size:3 final size:3
Alignment explanation
Indices: 9684285--9684311 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9684275 GATTGTTTTC
9684285 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
9684312 GTTTTACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9693572 original size:30 final size:31
Alignment explanation
Indices: 9693516--9693573 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9693506 ATATGAGAAA
*
9693516 TTTAAAAACTGATATAAATATGTAAATTATT
1 TTTAAAAAATGATATAAATATGTAAATTATT
*
9693547 TTTAAAAAATTAT-TAAATTAT-TAAATT
1 TTTAAAAAATGATATAAA-TATGTAAATT
9693574 TTGTCATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTAAAAAATGATATAAATATGTAAATTATT
Found at i:9694548 original size:20 final size:19
Alignment explanation
Indices: 9694515--9694585 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 19
9694505 CCGAGTTAAT
9694515 TTTTTTATATAATTATGCTTA
1 TTTTTT-TA-AATTATGCTTA
* *
9694536 TTTTCTTTAAATTAAGAGTTA
1 TTTT-TTTAAATTATG-CTTA
*
9694557 TTTTTTTAATTTAATGCATTA
1 TTTTTTTAAATT-ATGC-TTA
*
9694578 TTTATTTA
1 TTTTTTTA
9694586 TTTTATTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 13 0.32
21 25 0.62
22 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTTTAAATTATGCTTA
Found at i:9694578 original size:21 final size:21
Alignment explanation
Indices: 9694529--9694590 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
9694519 TTATATAATT
*
9694529 ATGC-TTATTTTCTTTAAATTA
1 ATGCATTATTTT-TTTAATTTA
9694550 A-G-AGTTATTTTTTTAATTTA
1 ATGCA-TTATTTTTTTAATTTA
* *
9694570 ATGCATTATTTATTTATTTTA
1 ATGCATTATTTTTTTAATTTA
9694591 TTATTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 10 0.29
21 23 0.68
22 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (21 bp):
ATGCATTATTTTTTTAATTTA
Found at i:9694832 original size:14 final size:14
Alignment explanation
Indices: 9694813--9694839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9694803 CGTCATTAAA
9694813 CATATTTTTAATTG
1 CATATTTTTAATTG
9694827 CATATTTTTAATT
1 CATATTTTTAATT
9694840 ATTTACTTTC
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:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
CATATTTTTAATTG
Found at i:9702069 original size:14 final size:14
Alignment explanation
Indices: 9702050--9702078 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9702040 AGCTTAATAG
9702050 TATATTTTAAAAAA
1 TATATTTTAAAAAA
9702064 TATATTTTAAAAAA
1 TATATTTTAAAAAA
9702078 T
1 T
9702079 CCGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:9702288 original size:147 final size:148
Alignment explanation
Indices: 9702074--9702515 Score: 656
Period size: 147 Copynumber: 3.0 Consensus size: 148
9702064 TATATTTTAA
9702074 AAAATCCGAAAATAAAAT-AAAAA-AAA-GGCCAAAATCA-AG-TTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* * *
9702134 TATATTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAAAATA-GAAAAA
66 AAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAA
*
9702198 ATAGTATATTTTGAAAAT
131 ATAGTATATTTTAAAAAT
* *
9702216 AAAATCCGAAAATAAAATAAAAAACAAACTGCCAAAATCAGGGTTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
*
9702281 AAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATATG--AAA
66 AAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAA
9702343 ATAGTATATTTTAAAAAAT
131 ATAGTATATTTT-AAAAAT
* *
9702362 AAAATCCGAAAATAAAATAAAAAAACAAACGGCAAAAATCAGAGTTTTTTACTAAATTAGTA-AA
1 AAAATCCGAAAATAAAAT-AAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAA
*
9702426 AAAAATATAAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAAAATACGAA
65 AAAAAT-T-AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAA
*
9702491 AATAATA-TAT-TTTAAAAAAT
128 AA-AATAGTATATTTTAAAAAT
9702511 AAAAT
1 AAAAT
9702516 AAATATCAAA
Statistics
Matches: 273, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
142 18 0.07
143 5 0.02
144 3 0.01
145 25 0.09
146 44 0.16
147 104 0.38
148 38 0.14
149 24 0.09
150 3 0.01
151 5 0.02
152 4 0.01
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (148 bp):
AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
AAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAA
ATAGTATATTTTAAAAAT
Found at i:9708884 original size:21 final size:22
Alignment explanation
Indices: 9708849--9708889 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9708839 AAAATTACTT
*
9708849 TTTCTTTTCTTTCTTCTTCTCC
1 TTTCTTTTCTATCTTCTTCTCC
9708871 TTTC-TTTCTATCTTCTTCT
1 TTTCTTTTCTATCTTCTTCT
9708890 TCTGTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCTTTTCTATCTTCTTCTCC
Found at i:9708892 original size:17 final size:16
Alignment explanation
Indices: 9708850--9708892 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
9708840 AAATTACTTT
9708850 TTCTT-TTCTTTCTTC
1 TTCTTCTTCTTTCTTC
*
9708865 TTCTCCTTTCTTTCTATC
1 TTCTTC-TTCTTTCT-TC
9708883 TTCTTCTTCT
1 TTCTTCTTCT
9708893 GTAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTTCTTCTTTCTTC
Found at i:9710317 original size:31 final size:31
Alignment explanation
Indices: 9710282--9710355 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
9710272 CTAAAATGTT
**
9710282 ACGTTTTAGTCACTTGTATTATCCTATTGCA
1 ACGTTTTAGTCACTTACATTATCCTATTGCA
* * *
9710313 ACGTTTTAGTCACTTACGTTATCCTGTTGTA
1 ACGTTTTAGTCACTTACATTATCCTATTGCA
*
9710344 ACATTTTAGTCA
1 ACGTTTTAGTCA
9710356 TTAGATCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (31 bp):
ACGTTTTAGTCACTTACATTATCCTATTGCA
Found at i:9710947 original size:33 final size:29
Alignment explanation
Indices: 9710902--9710965 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
9710892 TCAGCTTACC
*
9710902 GTTACACTATTAACGATTCAGTGACTAAAAT
1 GTTACACTATTAACG--TAAGTGACTAAAAT
9710933 GTTACAACGTATTAACGTAAGTGACTAAAAT
1 GTTAC-AC-TATTAACGTAAGTGACTAAAAT
9710964 GT
1 GT
9710966 AACATTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 20 0.67
32 2 0.07
33 8 0.27
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (29 bp):
GTTACACTATTAACGTAAGTGACTAAAAT
Found at i:9713246 original size:25 final size:26
Alignment explanation
Indices: 9713218--9713283 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
9713208 ATTGTTATCC
9713218 ATAAATATTATAAAATTTTCTT-C-AA
1 ATAAATATTATAAAATTTT-TTACTAA
** *
9713243 ATAAATAAAATAATATTTTTTAACTAA
1 ATAAATATTATAAAATTTTTT-ACTAA
9713270 ATAAA-ATTATAAAA
1 ATAAATATTATAAAA
9713284 AACTAAACGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.50
26 7 0.22
27 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAATATTATAAAATTTTTTACTAA
Found at i:9714011 original size:19 final size:20
Alignment explanation
Indices: 9713968--9714011 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
9713958 ACTCGTCGCA
9713968 AATATAATGTATGCATATAT
1 AATATAATGTATGCATATAT
*
9713988 CATAT-ATG-ATGCATTATAT
1 AATATAATGTATGCA-TATAT
9714007 AATAT
1 AATAT
9714012 GATATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (20 bp):
AATATAATGTATGCATATAT
Found at i:9723259 original size:48 final size:49
Alignment explanation
Indices: 9723174--9723273 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 49
9723164 GGAAAATCCA
*
9723174 GGGGAGCATGAAGCAATGCGGAAGATGAGAAATGAATTTATGGTGAACT
1 GGGGAGCATGAAGCAATGCAGAAGATGAGAAATGAATTTATGGTGAACT
9723223 GGGGAGCATGAAGCAATG-AGAAGATGAGAAATGAATTTATGGTGAACT
1 GGGGAGCATGAAGCAATGCAGAAGATGAGAAATGAATTTATGGTGAACT
9723271 GGG
1 GGG
9723274 ATGGTCTGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 32 0.64
49 18 0.36
ACGTcount: A:0.37, C:0.07, G:0.36, T:0.20
Consensus pattern (49 bp):
GGGGAGCATGAAGCAATGCAGAAGATGAGAAATGAATTTATGGTGAACT
Found at i:9730485 original size:48 final size:48
Alignment explanation
Indices: 9730414--9730510 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
9730404 GTAAAGAATG
*
9730414 ATAGATTTTTTTTTCCTTTTTGGCTTTTGGGGTTAATGCGTTTACTAC
1 ATAGATTTTTTTTTCCTTTTTGGCTTTTGGAGTTAATGCGTTTACTAC
9730462 ATAGATTTTTTTTTCCTTTTTGGCTTTTGGAGTTAATGCGTTTACTAC
1 ATAGATTTTTTTTTCCTTTTTGGCTTTTGGAGTTAATGCGTTTACTAC
9730510 A
1 A
9730511 CCCACATGGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.54
Consensus pattern (48 bp):
ATAGATTTTTTTTTCCTTTTTGGCTTTTGGAGTTAATGCGTTTACTAC
Found at i:9732449 original size:16 final size:17
Alignment explanation
Indices: 9732423--9732454 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9732413 TATTGACTTG
9732423 ATTTTTAAAAATTTTTA
1 ATTTTTAAAAATTTTTA
9732440 ATTTTT-AAAATTTTT
1 ATTTTTAAAAATTTTT
9732455 GCTAATGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTAAAAATTTTTA
Found at i:9741181 original size:46 final size:44
Alignment explanation
Indices: 9741122--9741236 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
9741112 ACAGGACAGA
* *
9741122 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
9741168 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
9741212 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
9741237 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:9741217 original size:44 final size:45
Alignment explanation
Indices: 9741122--9741255 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
9741112 ACAGGACAGA
* *
9741122 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
9741168 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
9741212 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9741256 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:9747122 original size:46 final size:44
Alignment explanation
Indices: 9747063--9747177 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
9747053 ACAGGACAGA
* *
9747063 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
9747109 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
9747153 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
9747178 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:9747158 original size:44 final size:45
Alignment explanation
Indices: 9747063--9747196 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
9747053 ACAGGACAGA
* *
9747063 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
9747109 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
9747153 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9747197 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:9748596 original size:39 final size:39
Alignment explanation
Indices: 9748538--9748624 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
9748528 TTCAGTGATG
* * *
9748538 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
9748577 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
*
9748616 TATGTCCGG
1 TATATCCGG
9748625 GCTAAAGTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
Found at i:9758654 original size:40 final size:43
Alignment explanation
Indices: 9758610--9758693 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
9758600 TTTTAACATT
9758610 AATAAAATA-TTTT-T-ATAATAATAATTTAATATTAAATGTC
1 AATAAAATATTTTTATAATAATAATAATTTAATATTAAATGTC
9758650 AATAAAATATTTTTATAATAATAATAATTTAATATTAAATGTC
1 AATAAAATATTTTTATAATAATAATAATTTAATATTAAATGTC
9758693 A
1 A
9758694 CACTTGTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
40 9 0.22
41 4 0.10
42 1 0.02
43 27 0.66
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (43 bp):
AATAAAATATTTTTATAATAATAATAATTTAATATTAAATGTC
Found at i:9761480 original size:15 final size:17
Alignment explanation
Indices: 9761455--9761486 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9761445 TGTTCATTCG
9761455 ATTACTCTAA-TTCATT
1 ATTACTCTAATTTCATT
9761471 ATTA-TCTAATTTCATT
1 ATTACTCTAATTTCATT
9761487 GAAATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTACTCTAATTTCATT
Found at i:9761788 original size:16 final size:16
Alignment explanation
Indices: 9761767--9761798 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9761757 TATGGAAAAG
9761767 AAAGTTGTTGCATAAA
1 AAAGTTGTTGCATAAA
9761783 AAAGTTGTTGCATAAA
1 AAAGTTGTTGCATAAA
9761799 TATTCTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AAAGTTGTTGCATAAA
Found at i:9777458 original size:50 final size:50
Alignment explanation
Indices: 9777383--9777559 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
9777373 CCATGGAAAC
9777383 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
9777433 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTATGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
9777483 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
9777533 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
9777560 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:9777745 original size:31 final size:31
Alignment explanation
Indices: 9777537--9777738 Score: 287
Period size: 31 Copynumber: 6.5 Consensus size: 31
9777527 AAATGACAAC
9777537 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
9777568 TGAAAAGTGGTAGTTTCAGCTACTTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
9777599 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
9777630 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
9777661 TGAAAAGTGGTAGCTCCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
9777692 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
9777723 TGAATAGCGGTAGCTT
1 TGAAAAGTGGTAGCTT
9777739 TGGCTACAAG
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 152 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:9777756 original size:7 final size:7
Alignment explanation
Indices: 9777744--9777772 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9777734 AGCTTTGGCT
9777744 ACAAGTG
1 ACAAGTG
9777751 ACAAGTG
1 ACAAGTG
9777758 ACAAGTG
1 ACAAGTG
9777765 ACAAGTG
1 ACAAGTG
9777772 A
1 A
9777773 TTTCTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:9779718 original size:21 final size:21
Alignment explanation
Indices: 9779677--9779748 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
9779667 AGGCACTTTA
9779677 TGTGTCGTATC-GGCACATCG
1 TGTGTCGTATCAGGCACATCG
*
9779697 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACATCG
* * * **
9779718 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACATCG
9779739 TGTGTCGTAT
1 TGTGTCGTAT
9779749 ACTGATCAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 11 0.25
21 33 0.75
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACATCG
Found at i:9780906 original size:47 final size:48
Alignment explanation
Indices: 9780852--9780977 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
9780842 GTTACAATTT
* *
9780852 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
9780899 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
9780947 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
9780978 TTGTGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 66 0.96
48 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:9783549 original size:19 final size:18
Alignment explanation
Indices: 9783508--9783555 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
9783498 TAATTTAAAA
9783508 TAATTTAAAATTTATATT
1 TAATTTAAAATTTATATT
*
9783526 AAATTTAAACAATTT-TATT
1 TAATTT-AA-AATTTATATT
*
9783545 TAATTAAAAAT
1 TAATTTAAAAT
9783556 GGCACAAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 10 0.40
20 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTTAAAATTTATATT
Found at i:9786182 original size:15 final size:16
Alignment explanation
Indices: 9786158--9786192 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9786148 GAAAAAAAAA
*
9786158 TTATATAAAAATGTAT
1 TTATATAAAAATATAT
9786174 TTATA-AAAAATATAT
1 TTATATAAAAATATAT
9786189 TTAT
1 TTAT
9786193 CTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTATATAAAAATATAT
Found at i:9786262 original size:35 final size:32
Alignment explanation
Indices: 9786195--9786262 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 32
9786185 ATATTTATCT
* *
9786195 TTTAAATTAATAATAGTTTTTTTTATGGATGG
1 TTTAAATTAATAATAGTTTTTTTAAAGGATGG
9786227 TTTAAATTAATAATAGTTTTGTTTCAAAGGAATGG
1 TTTAAATTAATAATAGTTTT-TTT-AAAGG-ATGG
9786262 T
1 T
9786263 GATATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 20 0.65
33 3 0.10
34 3 0.10
35 5 0.16
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (32 bp):
TTTAAATTAATAATAGTTTTTTTAAAGGATGG
Found at i:9789469 original size:22 final size:22
Alignment explanation
Indices: 9789430--9789488 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
9789420 GTTTTAAGAA
*
9789430 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
9789451 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
9789473 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
9789489 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:9789505 original size:26 final size:24
Alignment explanation
Indices: 9789459--9789518 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
9789449 ATTTGTTTTA
*
9789459 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
9789483 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
9789509 TTTTTTATTT
1 ATATTTATTT
9789519 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:9789690 original size:11 final size:11
Alignment explanation
Indices: 9789674--9789712 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
9789664 TACTTGGGCT
9789674 CGGCCCGAACC
1 CGGCCCGAACC
*
9789685 CGGCCCG-GCC
1 CGGCCCGAACC
9789695 CGGCCCGAACC
1 CGGCCCGAACC
9789706 CGGCCCG
1 CGGCCCG
9789713 GCCCATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.10, C:0.56, G:0.33, T:0.00
Consensus pattern (11 bp):
CGGCCCGAACC
Done.