Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 19 of 106
Found at i:8465758 original size:2 final size:2
Alignment explanation
Indices: 8465746--8465784 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8465736 GTAAGGCAAG
*
8465746 AT AT AT GT 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
8465785 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8471060 original size:2 final size:2
Alignment explanation
Indices: 8471053--8471098 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
8471043 TATCATCTAC
*
8471053 AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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 AT AT
8471095 AT AT
1 AT AT
8471099 GAAACGATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8471197 original size:2 final size:2
Alignment explanation
Indices: 8471192--8471222 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8471182 AGATATATTG
*
8471192 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8471223 CACAGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8471199 original size:10 final size:9
Alignment explanation
Indices: 8471183--8471222 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
8471173 TAATTCATGA
8471183 GATATAT-T
1 GATATATAT
8471191 GATATATAT
1 GATATATAT
8471200 -ATATATAT
1 GATATATAT
8471208 G-TATATAT
1 GATATATAT
8471216 -ATATATA
1 GATATATA
8471223 CACAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 28 0.97
9 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (9 bp):
GATATATAT
Found at i:8472963 original size:18 final size:16
Alignment explanation
Indices: 8472922--8472965 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
8472912 ACTAATTAAA
*
8472922 TTTTATATGATTTTAT
1 TTTTATATAATTTTAT
8472938 TTTCTATATAATTTATAT
1 TTT-TATATAATTT-TAT
8472956 TTATTATATA
1 TT-TTATATA
8472966 TATATTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 9 0.38
18 11 0.46
19 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTATATAATTTTAT
Found at i:8474333 original size:46 final size:46
Alignment explanation
Indices: 8474283--8474378 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
8474273 TTTTTATAAG
*
8474283 TTATTTTTAGACATATAATCTATTTGACTAATAATATGAATCTCAT
1 TTATTTTTAGACATATAATATATTTGACTAATAATATGAATCTCAT
* *
8474329 TTATTTTTAGACCTATAATATATTTGACTAATAATATTAATCTCAT
1 TTATTTTTAGACATATAATATATTTGACTAATAATATGAATCTCAT
8474375 TTAT
1 TTAT
8474379 GTACAGATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (46 bp):
TTATTTTTAGACATATAATATATTTGACTAATAATATGAATCTCAT
Found at i:8483578 original size:5 final size:6
Alignment explanation
Indices: 8483563--8483617 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
8483553 CCTATTTTAA
* ** *
8483563 AAAAAT AAAAAT AAAAAAT AAAAGT AAGAAAT AAATTT AAAAAT AATAAT
1 AAAAAT AAAAAT -AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT
8483613 AAAAA
1 AAAAA
8483618 ATGGATGAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 28 0.72
7 11 0.28
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:8483580 original size:13 final size:13
Alignment explanation
Indices: 8483562--8483619 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
8483552 ACCTATTTTA
8483562 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
8483575 AAAAAATAAAAGT
1 AAAAAATAAAAAT
* *
8483588 AAGAAAT-AAATT
1 AAAAAATAAAAAT
* *
8483600 TAAAAATAATAAT
1 AAAAAATAAAAAT
8483613 AAAAAAT
1 AAAAAAT
8483620 GGATGAACAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
12 9 0.25
13 27 0.75
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:8496723 original size:18 final size:17
Alignment explanation
Indices: 8496681--8496727 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
8496671 TACTACGCTT
*
8496681 AAAAAAAA-CAAACAAC
1 AAAAAAAATAAAACAAC
8496697 AAAAAAAATAAAACAA-
1 AAAAAAAATAAAACAAC
8496713 AAAATATAAATAAAA
1 AAAA-A-AAATAAAA
8496728 GGAAGGGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 12 0.44
17 7 0.26
18 8 0.30
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAAAATAAAACAAC
Found at i:8497699 original size:60 final size:59
Alignment explanation
Indices: 8497627--8498106 Score: 636
Period size: 60 Copynumber: 8.0 Consensus size: 59
8497617 CATTAAAGAA
* * * *
8497627 TTAAATCAAACCTGTTTTGAGATAGGTAGAGCCTAGATTAAGTCTAGGAATTTCGTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCATTT-T
*
8497687 TTAAATCGAACCTGTTGTGAGATAGGTTGAGCCTAGATTAAGTCTAGGAATTTCAATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTC-ATTTT
** *
8497747 TTAAATCGAACCTGTTGTGAGATAGGTTAAGCCTATATTAAGTCTAGGAATTTCAATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTC-ATTTT
* * *
8497807 TTAAATCGAACATGTTGTGAGATAAGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCATTTT
* * * *
8497866 TTAAATCAAACCTGTTGTGAGATAGGTCGAACCTAGATAAAGTCTAGGAATTTTAATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAA-TTTCATTTT
* * * * *
8497926 TTAAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAAGAATTTTAATTT
1 TT-AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCATTTT
* * *
8497986 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATTAAGTTTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCATTTT
* * * * * * *
8498045 TTAAGTCGAACTTGTTTTGAGATAGGTCGAGTCTAGATCAAGTCTAGAAATTTTTATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAA-TTTCATTTT
8498105 TT
1 TT
8498107 TTATTGAACT
Statistics
Matches: 377, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
59 142 0.38
60 186 0.49
61 49 0.13
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (59 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCATTTT
Found at i:8497928 original size:179 final size:179
Alignment explanation
Indices: 8497627--8498106 Score: 683
Period size: 179 Copynumber: 2.7 Consensus size: 179
8497617 CATTAAAGAA
* * * **
8497627 TTAAATCAAACCTGTTTTGAGATAGGTAGAGCCTAGATTAAGTCTAGGAATTTCGTTTGTTTAAA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATT-TTTAAA
* * * *
8497692 TCGAACCTGTTGTGAGATAGGTTGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTT-AAATCGA
65 TCGAACCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAGGAATTTTAATTTTTTAAAATCAA
* * * *
8497756 ACCTGTTGTGAGATAGGTTAAGCCTATATTAAGTCTAGGAATTTCAATTTT
130 ACCTGTTGTGAGATAGGTCAAGCCTAGATAAAGTCTAAGAATTTCAA-TTT
* *
8497807 TTAAATCGAACATGTTGTGAGATAAGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTAAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTAAAT
* *
8497872 CAAACCTGTTGTGAGATAGGTCGAACCTAGATAAAGTCTAGGAATTTTAATTTTTTAAAATCAAA
66 CGAACCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAGGAATTTTAATTTTTTAAAATCAAA
* *
8497937 CCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAAGAATTTTAATTT
131 CCTGTTGTGAGATAGGTCAAGCCTAGATAAAGTCTAAGAATTTCAATTT
* * *
8497986 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATTAAGTTTAGGAATTTCAATTTTTAAGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTAAAT
* * * * * *
8498051 CGAACTTGTTTTGAGATAGGTCGAGTCTAGATCAAGTCTAGAAATTTTTATTTTTT
66 CGAACCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAGGAATTTTAATTTTTT
8498107 TTATTGAACT
Statistics
Matches: 267, Mismatches: 32, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
179 169 0.63
180 98 0.37
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (179 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTAAAT
CGAACCTGTTGTGAGATAGGTCGAGCCTAGATAAAGTCTAGGAATTTTAATTTTTTAAAATCAAA
CCTGTTGTGAGATAGGTCAAGCCTAGATAAAGTCTAAGAATTTCAATTT
Found at i:8498421 original size:10 final size:10
Alignment explanation
Indices: 8498355--8498423 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
8498345 CTATTTTAAA
8498355 AAAATAATAAT
1 AAAA-AATAAT
*
8498366 AAATAATAAT
1 AAAAAATAAT
*
8498376 AAAATATAAT
1 AAAAAATAAT
*
8498386 AAAAAAGTAAG
1 AAAAAA-TAAT
*
8498397 AAATAAAT-TT
1 AAA-AAATAAT
8498407 AAAAAAATAAT
1 -AAAAAATAAT
8498418 AAAAAA
1 AAAAAA
8498424 ATAGATGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
10 29 0.63
11 14 0.30
12 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:8499854 original size:21 final size:19
Alignment explanation
Indices: 8499822--8499869 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
8499812 AATGGTTAAT
* *
8499822 AAATAAACAAGTACAATAA
1 AAATAAACAAGTAAAAGAA
8499841 AAATATAACAAAGTAAAAGAA
1 AAATA-AAC-AAGTAAAAGAA
8499862 AAAGTAAA
1 AAA-TAAA
8499870 TGTTTGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 14 0.58
22 2 0.08
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (19 bp):
AAATAAACAAGTAAAAGAA
Found at i:8511212 original size:22 final size:22
Alignment explanation
Indices: 8511187--8511230 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8511177 AAATAAAAAA
*
8511187 AATTACTTTTA-ATTAATTTTAT
1 AATTACTATTATA-TAATTTTAT
8511209 AATTACTATTATATAATTTTAT
1 AATTACTATTATATAATTTTAT
8511231 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTACTATTATATAATTTTAT
Found at i:8515668 original size:18 final size:18
Alignment explanation
Indices: 8515626--8515670 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8515616 CCGATGCTGT
*
8515626 AGCAAATGAAACCAAAGAT
1 AGCAAA-GAAACCAAAGAG
* *
8515645 AACAAAGAAAGCAAAGAG
1 AGCAAAGAAACCAAAGAG
8515663 AGCAAAGA
1 AGCAAAGA
8515671 TAAAGGTTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.62, C:0.13, G:0.20, T:0.04
Consensus pattern (18 bp):
AGCAAAGAAACCAAAGAG
Found at i:8517972 original size:2 final size:2
Alignment explanation
Indices: 8517961--8518002 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
8517951 TACATAATAC
8517961 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8518001 AT
1 AT
8518003 CGACAATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8537120 original size:29 final size:29
Alignment explanation
Indices: 8537087--8537171 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
8537077 TTTAAAAAAA
*
8537087 TTCAAATAAGCCCTTATTCTTTTATTACG
1 TTCAAATAAGCCCTTATACTTTTATTACG
* **
8537116 TTC-AATCAAGCCCTTGTACTTTTATTTTGG
1 TTCAAAT-AAGCCCTTATACTTTTA-TTACG
*
8537146 ATCAAATAAGCCCTTATACTTTTATT
1 TTCAAATAAGCCCTTATACTTTTATT
8537172 TTGAGCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.06
29 20 0.43
30 21 0.45
31 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (29 bp):
TTCAAATAAGCCCTTATACTTTTATTACG
Found at i:8537159 original size:30 final size:30
Alignment explanation
Indices: 8537088--8537222 Score: 134
Period size: 29 Copynumber: 4.6 Consensus size: 30
8537078 TTAAAAAAAT
* ** *
8537088 TCAAATAAGCCCTTATTCTTTTATTACG-T
1 TCAAATAAGCCCTTATACTTTTATTTTGAG
*
8537117 TC-AATCAAGCCCTTGTACTTTTATTTTG-G
1 TCAAAT-AAGCCCTTATACTTTTATTTTGAG
8537146 ATCAAATAAGCCCTTATACTTTTATTTTGAG
1 -TCAAATAAGCCCTTATACTTTTATTTTGAG
* * *
8537177 CCAAAAAAGCCTTTATAC-TTTATTTTGAG
1 TCAAATAAGCCCTTATACTTTTATTTTGAG
* *
8537206 TCAAAGAAGCCTTTATA
1 TCAAATAAGCCCTTATA
8537223 ACTAATGGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.03
29 46 0.51
30 38 0.42
31 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (30 bp):
TCAAATAAGCCCTTATACTTTTATTTTGAG
Found at i:8537199 original size:29 final size:30
Alignment explanation
Indices: 8537123--8537222 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
8537113 ACGTTCAATC
* * * *
8537123 AAGCCCTTGTACTTTTATTTTG-GATCAAAT
1 AAGCCTTTATACTTTTATTTTGAG-CCAAAA
*
8537153 AAGCCCTTATACTTTTATTTTGAGCCAAAA
1 AAGCCTTTATACTTTTATTTTGAGCCAAAA
* *
8537183 AAGCCTTTATAC-TTTATTTTGAGTCAAAG
1 AAGCCTTTATACTTTTATTTTGAGCCAAAA
8537212 AAGCCTTTATA
1 AAGCCTTTATA
8537223 ACTAATGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
29 26 0.41
30 36 0.57
31 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (30 bp):
AAGCCTTTATACTTTTATTTTGAGCCAAAA
Found at i:8540244 original size:42 final size:42
Alignment explanation
Indices: 8540185--8540268 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
8540175 TAAAGCCTGG
8540185 AAAGAACATCATAGTGAGAAATTGATAACAGAAAATACCTCA
1 AAAGAACATCATAGTGAGAAATTGATAACAGAAAATACCTCA
8540227 AAAGAACATCATAGTGAGAAATTGATAACAGAAAATACCTCA
1 AAAGAACATCATAGTGAGAAATTGATAACAGAAAATACCTCA
8540269 GGAGACACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (42 bp):
AAAGAACATCATAGTGAGAAATTGATAACAGAAAATACCTCA
Found at i:8555033 original size:31 final size:29
Alignment explanation
Indices: 8554933--8555104 Score: 82
Period size: 29 Copynumber: 6.1 Consensus size: 29
8554923 ATGCACATGA
*
8554933 TATTACACGTCATATT-TAAAAAATATTAT
1 TATTACAC-TCATATTGAAAAAAATATTAT
* *
8554962 TGTTACA-TGC-TATGGTTAAAAAAA-ATTAT
1 TATTACACT-CATAT--TGAAAAAAATATTAT
*
8554991 TA-TAC-GTCATATTGAAAAAAAATATTAT
1 TATTACACTCATATTG-AAAAAAATATTAT
* ** *
8555019 TATTACACTACATA-T--ATAGGA-A-CA-
1 TATTACACT-CATATTGAAAAAAATATTAT
*
8555043 TGTTACACTACATATTGAAAAAAAATATTAT
1 TATTACACT-CATATTG-AAAAAAATATTAT
*
8555074 TGTTACACGTCATATTG-AAAAAATATTAT
1 TATTACAC-TCATATTGAAAAAAATATTAT
8555103 TA
1 TA
8555105 CATTTTAATG
Statistics
Matches: 109, Mismatches: 15, Indels: 38
0.67 0.09 0.23
Matches are distributed among these distances:
24 13 0.12
25 2 0.02
26 2 0.02
27 15 0.14
28 18 0.17
29 30 0.28
30 9 0.08
31 19 0.17
32 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (29 bp):
TATTACACTCATATTGAAAAAAATATTAT
Found at i:8556232 original size:2 final size:2
Alignment explanation
Indices: 8556225--8556263 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8556215 AGTATTAATC
8556225 TA TA 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 TA TA T
8556264 GTTTGTCTAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8561336 original size:12 final size:12
Alignment explanation
Indices: 8561298--8561353 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
8561288 CACCACCATC
*
8561298 CCTTCCCCCACT
1 CCTTCCACCACT
* *
8561310 CCATCCCCCACT
1 CCTTCCACCACT
8561322 CCTTCCACCACT
1 CCTTCCACCACT
*
8561334 CCTGCCACCAC-
1 CCTTCCACCACT
8561345 CTCTTCCAC
1 C-CTTCCAC
8561354 TGCCTGGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
11 1 0.03
12 37 0.97
ACGTcount: A:0.14, C:0.62, G:0.02, T:0.21
Consensus pattern (12 bp):
CCTTCCACCACT
Found at i:8561344 original size:24 final size:24
Alignment explanation
Indices: 8561290--8561353 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
8561280 ACCACGGCCA
*
8561290 CCACCA-TCCCTTCCCCCACTCCAT
1 CCACCACT-CCTTCCACCACTCCAT
*
8561314 CCCCCACTCCTTCCACCACTCC-T
1 CCACCACTCCTTCCACCACTCCAT
8561337 GCCACCAC-CTCTTCCAC
1 -CCACCACTC-CTTCCAC
8561354 TGCCTGGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.06
24 31 0.91
25 1 0.03
ACGTcount: A:0.16, C:0.62, G:0.02, T:0.20
Consensus pattern (24 bp):
CCACCACTCCTTCCACCACTCCAT
Found at i:8563780 original size:12 final size:12
Alignment explanation
Indices: 8563763--8563796 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8563753 CTGCAGGTTG
*
8563763 TTCATCCTCACT
1 TTCATCATCACT
8563775 TTCATCATCACT
1 TTCATCATCACT
*
8563787 ATCATCATCA
1 TTCATCATCA
8563797 TCACTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (12 bp):
TTCATCATCACT
Found at i:8563794 original size:15 final size:15
Alignment explanation
Indices: 8563776--8563808 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8563766 ATCCTCACTT
8563776 TCATCATCACTATCA
1 TCATCATCACTATCA
8563791 TCATCATCACTATCA
1 TCATCATCACTATCA
8563806 TCA
1 TCA
8563809 CTTTCCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
TCATCATCACTATCA
Found at i:8564435 original size:26 final size:26
Alignment explanation
Indices: 8564400--8564460 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
8564390 ACAGGAGTAG
* *
8564400 CCTCCTCCTTAGAGGAATTGTTCAGT
1 CCTCATCCTTAGAGGAATTGCTCAGT
* *
8564426 CCTCATCCTTGGAGGAATTGCTCATT
1 CCTCATCCTTAGAGGAATTGCTCAGT
8564452 CCTCATCCT
1 CCTCATCCT
8564461 CAGTATCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (26 bp):
CCTCATCCTTAGAGGAATTGCTCAGT
Found at i:8571366 original size:74 final size:74
Alignment explanation
Indices: 8571239--8571377 Score: 206
Period size: 74 Copynumber: 1.9 Consensus size: 74
8571229 GCATGAAGCA
8571239 CATAAGTATGACGATAGAAGGAGAGGAAGATAAGTCCAAAGCAAATAGCGACTGCACATAATCAA
1 CATAAGTATGACGATAGAAGGAGAGGAAGATAAGTCCAAAGCAAATAGCGACTGCACATAATCAA
8571304 GTATAAACG
66 GTATAAACG
* * * * * * * *
8571313 CATAAGTGTGACGATGGAAGGAGAGGAAGATAAGTTCAATGCAAATTGTGACTGTATATAATCAA
1 CATAAGTATGACGATAGAAGGAGAGGAAGATAAGTCCAAAGCAAATAGCGACTGCACATAATCAA
8571378 ATAAAACTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.20
Consensus pattern (74 bp):
CATAAGTATGACGATAGAAGGAGAGGAAGATAAGTCCAAAGCAAATAGCGACTGCACATAATCAA
GTATAAACG
Found at i:8581022 original size:14 final size:14
Alignment explanation
Indices: 8580997--8581035 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8580987 ATGTTTTCTA
*
8580997 TATTTCTCATTTTTT
1 TATTT-TCATTTTTG
*
8581012 TTTTTTCATTTTTG
1 TATTTTCATTTTTG
8581026 TATTTTCATT
1 TATTTTCATT
8581036 ATTCATCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (14 bp):
TATTTTCATTTTTG
Found at i:8581075 original size:28 final size:28
Alignment explanation
Indices: 8581033--8581103 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
8581023 TTGTATTTTC
* *
8581033 ATTATTCATCCACTTATGGTGAGTTGAA
1 ATTATCCATCAACTTATGGTGAGTTGAA
* * *
8581061 ATTATCCATCAACTTTTTGTGGGTTGAA
1 ATTATCCATCAACTTATGGTGAGTTGAA
*
8581089 ATTATCCATTAACTT
1 ATTATCCATCAACTT
8581104 CTGTTGGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (28 bp):
ATTATCCATCAACTTATGGTGAGTTGAA
Found at i:8583929 original size:18 final size:18
Alignment explanation
Indices: 8583907--8583970 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
8583897 TTTATTTATT
8583907 AATTTATATAAATAA-TAA
1 AATTTATAT-AATAATTAA
* *
8583925 TATTTTTATAATAATTAA
1 AATTTATATAATAATTAA
*
8583943 AATTTAT-TGAT-ATT-A
1 AATTTATATAATAATTAA
*
8583958 AATTTAGATAATA
1 AATTTATATAATA
8583971 GAATCATGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.19
16 6 0.17
17 8 0.22
18 15 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTTATATAATAATTAA
Found at i:8586020 original size:31 final size:30
Alignment explanation
Indices: 8585996--8586054 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
8585986 TTCAATGGAA
*
8585996 AATGAAATC-AGAAAAATCCGATTCAAAAT
1 AATGAAATCAAGAAAAAACCGATTCAAAAT
*
8586025 AATGAAATCAAG-AAAAACTCTATTCAAAAT
1 AATGAAATCAAGAAAAAAC-CGATTCAAAAT
8586055 GACCTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.22
Consensus pattern (30 bp):
AATGAAATCAAGAAAAAACCGATTCAAAAT
Found at i:8586029 original size:29 final size:30
Alignment explanation
Indices: 8585996--8586054 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8585986 TTCAATGGAA
8585996 AATGAAATC-AGAAAAA-TCCGATTCAAAAT
1 AATGAAATCAAGAAAAACT-CGATTCAAAAT
*
8586025 AATGAAATCAAGAAAAACTCTATTCAAAAT
1 AATGAAATCAAGAAAAACTCGATTCAAAAT
8586055 GACCTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.33
30 17 0.63
31 1 0.04
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.22
Consensus pattern (30 bp):
AATGAAATCAAGAAAAACTCGATTCAAAAT
Found at i:8597738 original size:142 final size:139
Alignment explanation
Indices: 8597482--8597769 Score: 549
Period size: 142 Copynumber: 2.1 Consensus size: 139
8597472 TGCATGAGTT
8597482 GAATTTGCTTGAGCACGTGAGTTTATCTGCCAAGGAAATTACTTATCAGAAGAGAGAGATAATAT
1 GAATTTGCTTGAGCACGTGAGTTTATCTGCCAAGGAAATTACTTATCAGAAGAGAGAGATAATAT
8597547 AAAGCAAAGATGAATGTTGTATTATCACACCCCGCAGGCCCGCAACCCCCCTCCCCCCCCAAAAA
66 AAAGCAAAGATGAATGTTGTATTATCACACCCCGCAGGCCCGCAACCCCCCT-CCCCCCC-AAAA
8597612 AAAAAAAAAAA
129 AAAAAAAAAAA
8597623 NGAATTTGCTTGAGCACGTGAGTTTATCTGCCAAGGAAATTACTTATCAGAAGAGAGAGATAATA
1 -GAATTTGCTTGAGCACGTGAGTTTATCTGCCAAGGAAATTACTTATCAGAAGAGAGAGATAATA
8597688 TAAAGCAAAGATGAATGTTGTATTATCACACCCCGCAGGCCCGCAACCCCCCTCCCCCCCAAAAA
65 TAAAGCAAAGATGAATGTTGTATTATCACACCCCGCAGGCCCGCAACCCCCCTCCCCCCCAAAAA
8597753 AAAAAAAAAA
130 AAAAAAAAAA
8597763 GAATTTG
1 GAATTTG
8597770 ATGATGGACA
Statistics
Matches: 146, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
139 7 0.05
140 15 0.10
141 7 0.05
142 117 0.80
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (139 bp):
GAATTTGCTTGAGCACGTGAGTTTATCTGCCAAGGAAATTACTTATCAGAAGAGAGAGATAATAT
AAAGCAAAGATGAATGTTGTATTATCACACCCCGCAGGCCCGCAACCCCCCTCCCCCCCAAAAAA
AAAAAAAAA
Found at i:8599231 original size:16 final size:18
Alignment explanation
Indices: 8599210--8599243 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8599200 TTTGCCTGGT
8599210 AGGATGG-A-GAAGTGGG
1 AGGATGGAAGGAAGTGGG
8599226 AGGATGGAAGGAAGTGGG
1 AGGATGGAAGGAAGTGGG
8599244 TGGAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.56, T:0.12
Consensus pattern (18 bp):
AGGATGGAAGGAAGTGGG
Found at i:8600063 original size:3 final size:3
Alignment explanation
Indices: 8600055--8600080 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8600045 TTTTGCTTAT
8600055 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8600081 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8600088 original size:2 final size:2
Alignment explanation
Indices: 8600081--8600142 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
8600071 TATTATTATT
8600081 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8600123 GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA
8600143 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8606771 original size:17 final size:18
Alignment explanation
Indices: 8606737--8606774 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8606727 TCTATCGTAT
*
8606737 AAAATAAATGGCAGAAAG
1 AAAATAAATGGAAGAAAG
8606755 AAAATAAAT-GAAGAAAG
1 AAAATAAATGGAAGAAAG
8606772 AAA
1 AAA
8606775 CAATGACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.68, C:0.03, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAATAAATGGAAGAAAG
Found at i:8610621 original size:6 final size:6
Alignment explanation
Indices: 8610610--8610662 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
8610600 TGGTCCTCCC
*
8610610 TTCTCT TTCTCT TTCTCT TTCT-T TTCTTT TTCT-T TTC-CT TTCTTCT
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT TTC-TCT
8610656 TT-TCT TT
1 TTCTCT TT
8610663 GCCTCGCAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
5 18 0.42
6 21 0.49
7 4 0.09
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (6 bp):
TTCTCT
Found at i:8610627 original size:12 final size:11
Alignment explanation
Indices: 8610610--8610653 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
8610600 TGGTCCTCCC
8610610 TTCTCTTTCTCT
1 TTCTCTTTCT-T
8610622 TTCTCTTTCTT
1 TTCTCTTTCTT
*
8610633 TTCTTTTTCTT
1 TTCTCTTTCTT
8610644 TTC-CTTTCTT
1 TTCTCTTTCTT
8610654 CTTTTCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 6 0.20
11 14 0.47
12 10 0.33
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTCTCTTTCTT
Found at i:8610637 original size:21 final size:21
Alignment explanation
Indices: 8610613--8610653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8610603 TCCTCCCTTC
8610613 TCTTTCTC-TTTCTCTTTCTTT
1 TCTTTCTCTTTTC-CTTTCTTT
*
8610634 TCTTTTTCTTTTCCTTTCTT
1 TCTTTCTCTTTTCCTTTCTT
8610654 CTTTTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TCTTTCTCTTTTCCTTTCTTT
Found at i:8614478 original size:105 final size:105
Alignment explanation
Indices: 8614307--8614497 Score: 269
Period size: 105 Copynumber: 1.8 Consensus size: 105
8614297 ATTATTTACA
* * * *
8614307 AGACATGCTTGGTTTTAAACAGACATAATAGTCTTAGTTATTAGCAAGGAAAGTTCTATACTGAT
1 AGACATGCTTGGTTTTAAACAGACAGAACAGTCATAGTTATTAGCAAGGAAAATTCTATACTGAT
8614372 GGCAATGAGACTTGTGTTGATGATGAGTTTATTATCCATT
66 GGCAATGAGACTTGTGTTGATGATGAGTTTATTATCCATT
* ** *
8614412 AGACATGCTTGGTTTTGAATGGACAGAACAGTCATAGTTATTAGCTAGGAAATATCTCTAT-C-G
1 AGACATGCTTGGTTTTAAACAGACAGAACAGTCATAGTTATTAGCAAGGAAA-AT-TCTATACTG
*
8614475 ATGGTAATGAGACTTGTGTTGAT
64 ATGGCAATGAGACTTGTGTTGAT
8614498 CTTATAACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
105 68 0.91
106 2 0.03
107 5 0.07
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (105 bp):
AGACATGCTTGGTTTTAAACAGACAGAACAGTCATAGTTATTAGCAAGGAAAATTCTATACTGAT
GGCAATGAGACTTGTGTTGATGATGAGTTTATTATCCATT
Found at i:8634331 original size:2 final size:2
Alignment explanation
Indices: 8634324--8634352 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8634314 AAAAATGTAT
8634324 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 A
8634353 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8634357 original size:2 final size:2
Alignment explanation
Indices: 8634352--8634381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8634342 ACACACACAC
8634352 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
8634382 GTTGGCCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8634783 original size:14 final size:14
Alignment explanation
Indices: 8634756--8634816 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
8634746 GAGGGCATAG
*
8634756 GAAA-AAAAAAAAA
1 GAAAGAAAAAGAAA
8634769 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
** *
8634783 GGTAGAAAGAGAAA
1 GAAAGAAAAAGAAA
*
8634797 GAAA-AAAACAGATA
1 GAAAGAAAA-AGAAA
8634811 GAAAGA
1 GAAAGA
8634817 GACCCGTGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 7 0.19
14 29 0.78
15 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.03
Consensus pattern (14 bp):
GAAAGAAAAAGAAA
Found at i:8634796 original size:24 final size:24
Alignment explanation
Indices: 8634768--8634818 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
8634758 AAAAAAAAAA
*
8634768 AGAAAGAAAAAGAA-AGGTAGAAAG
1 AGAAAGAAAAA-AACAGATAGAAAG
8634792 AGAAAGAAAAAAACAGATAGAAAG
1 AGAAAGAAAAAAACAGATAGAAAG
8634816 AGA
1 AGA
8634819 CCCGTGTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (24 bp):
AGAAAGAAAAAAACAGATAGAAAG
Found at i:8637406 original size:2 final size:2
Alignment explanation
Indices: 8637399--8637487 Score: 162
Period size: 2 Copynumber: 45.0 Consensus size: 2
8637389 GATTTCAACA
8637399 AT AT 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 AT AT
*
8637441 A- AT AT NT 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 AT AT
8637482 AT AT AT
1 AT AT AT
8637488 TAAATAAGTG
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8643033 original size:25 final size:26
Alignment explanation
Indices: 8642967--8643033 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 26
8642957 ATTTTATATA
* *
8642967 TTATCAATGAATTAAATGTTACCATT
1 TTATTAATGAAATAAATGTTACCATT
* * * *
8642993 TTTTTGATGAAA-AAATGTTATCGTT
1 TTATTAATGAAATAAATGTTACCATT
8643018 TTATTAAT-AAATAAAT
1 TTATTAATGAAATAAAT
8643034 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.09
25 21 0.66
26 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (26 bp):
TTATTAATGAAATAAATGTTACCATT
Found at i:8651123 original size:14 final size:16
Alignment explanation
Indices: 8651088--8651122 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8651078 AAATTATAAA
*
8651088 TAAAAAATTAATATTT
1 TAAAATATTAATATTT
8651104 TAAAATATTAAT-TTT
1 TAAAATATTAATATTT
8651119 TAAA
1 TAAA
8651123 TTACTAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:8651322 original size:27 final size:27
Alignment explanation
Indices: 8651292--8651344 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8651282 TTATAAATTA
* *
8651292 AATTACCAATTATTAATATTTTAAATC
1 AATTACAAATTATTAATATTTAAAATC
*
8651319 AATTATAAATTATTAATATTTAAAAT
1 AATTACAAATTATTAATATTTAAAAT
8651345 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (27 bp):
AATTACAAATTATTAATATTTAAAATC
Found at i:8651353 original size:27 final size:27
Alignment explanation
Indices: 8651299--8651354 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8651289 TTAAATTACC
* **
8651299 AATTATTAATATTTTAAATCAATTATA
1 AATTATTAATATTTAAAATCAAAAATA
8651326 AATTATTAATATTTAAAAT-ATAAAATA
1 AATTATTAATATTTAAAATCA-AAAATA
8651353 AA
1 AA
8651355 AACAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTATTAATATTTAAAATCAAAAATA
Found at i:8651463 original size:22 final size:23
Alignment explanation
Indices: 8651429--8651621 Score: 127
Period size: 22 Copynumber: 8.3 Consensus size: 23
8651419 TAAATTATAA
* * *
8651429 ATAAAATATTAATACTTAAATA-
1 ATAAATTATTAATATTTAAAAAT
*
8651451 ATCAATTATTAATATTTAAAAAAT
1 ATAAATTATTAATATTT-AAAAAT
*
8651475 ATAAATTATTAATATTT-AAAAG
1 ATAAATTATTAATATTTAAAAAT
8651497 ATAAA--ATTAA-A--TAAAAAT
1 ATAAATTATTAATATTTAAAAAT
* * * *
8651515 AAATAATCATAATAAAATTTAAATTATAA
1 ATA-AAT--TATTAATATTTAAA--A-AT
8651544 ATAAATTATTAATATTT--AAAT
1 ATAAATTATTAATATTTAAAAAT
8651565 GATAAATTATTAATATTATAAATAAAAT
1 -ATAAATTATTAATATT-T--A-AAAAT
8651593 ATAAATTATTAATATTTAAAAA-
1 ATAAATTATTAATATTTAAAAAT
8651615 ATAAATT
1 ATAAATT
8651622 GAAATAAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 42
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.01
18 6 0.04
19 3 0.02
20 5 0.04
21 1 0.01
22 47 0.35
23 13 0.10
24 19 0.14
26 14 0.10
27 16 0.12
28 8 0.06
29 3 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.39
Consensus pattern (23 bp):
ATAAATTATTAATATTTAAAAAT
Found at i:8651535 original size:157 final size:154
Alignment explanation
Indices: 8651289--8651594 Score: 404
Period size: 157 Copynumber: 2.0 Consensus size: 154
8651279 AAATTATAAA
* *
8651289 TTAAATTACCAATTATTAATATTTTAAATCAATTATAAATTATTAATATTTAAAATATAAAATAA
1 TTAAATAACCAATTATTAATATTTTAAA-CAAATATAAATTATTAATATTTAAAATATAAAATAA
* * * *
8651354 AAACAAATAATCATAATAACATTTAAATTATAGATAAAATAGTAGTATTTTATAAT-ATTAATGA
65 AAACAAATAATCATAATAAAATTTAAATTATAAATAAAATAGTAATA-TTTA-AATGATAAATGA
8651418 TTAA-ATTATAAATAAAATATTAATAC
128 TTAATATTATAAATAAAATATTAATAC
* *
8651444 TTAAATAATCAATTATTAATA-TTTAAA-AAATATAAATTATTAATATTTAAAAGATAAAATTAA
1 TTAAATAACCAATTATTAATATTTTAAACAAATATAAATTATTAATATTT-AAA-AT---ATAAA
* * *
8651507 ATAAAAATAAATAATCATAATAAAATTTAAATTATAAATAAATTATTAATATTTAAATGATAAAT
61 ATAAAAACAAATAATCATAATAAAATTTAAATTATAAATAAAATAGTAATATTTAAATGATAAAT
*
8651572 TATTAATATTATAAATAAAATAT
126 GATTAATATTATAAATAAAATAT
8651595 AAATTATTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
152 20 0.15
153 3 0.02
154 8 0.06
155 22 0.17
156 14 0.11
157 65 0.49
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (154 bp):
TTAAATAACCAATTATTAATATTTTAAACAAATATAAATTATTAATATTTAAAATATAAAATAAA
AACAAATAATCATAATAAAATTTAAATTATAAATAAAATAGTAATATTTAAATGATAAATGATTA
ATATTATAAATAAAATATTAATAC
Found at i:8651543 original size:115 final size:118
Alignment explanation
Indices: 8651418--8651659 Score: 384
Period size: 118 Copynumber: 2.1 Consensus size: 118
8651408 ATATTAATGA
*
8651418 TTAAATTATAAATAAAATATTAATACTTAAATAATCAATTATTAATATT-T-AA-AAAATATAAA
1 TTAAATTATAAATAAAATATTAATACTTAAATAATAAATTATTAATATTATAAATAAAATATAAA
*
8651480 TTATTAATATTTAAAAGATAAAATT-AAATAAAAATAAATAATCATAATAAAAT
66 TTATTAATATTTAAAAAAT-AAATTGAAATAAAAATAAATAATCATAATAAAAT
* * *
8651533 TTAAATTATAAATAAATTATTAATATTTAAATGATAAATTATTAATATTATAAATAAAATATAAA
1 TTAAATTATAAATAAAATATTAATACTTAAATAATAAATTATTAATATTATAAATAAAATATAAA
*
8651598 TTATTAATATTTAAAAAATAAATTGAAATAAAAATAAATAATCATAATAACAT
66 TTATTAATATTTAAAAAATAAATTGAAATAAAAATAAATAATCATAATAAAAT
8651651 TTAATATTA
1 TTAA-ATTA
8651660 ATGATTAAAG
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
115 45 0.39
116 1 0.01
117 7 0.06
118 59 0.51
119 4 0.03
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (118 bp):
TTAAATTATAAATAAAATATTAATACTTAAATAATAAATTATTAATATTATAAATAAAATATAAA
TTATTAATATTTAAAAAATAAATTGAAATAAAAATAAATAATCATAATAAAAT
Found at i:8651586 original size:69 final size:68
Alignment explanation
Indices: 8651432--8651589 Score: 173
Period size: 69 Copynumber: 2.3 Consensus size: 68
8651422 ATTATAAATA
* * *
8651432 AAATATTAATACT-TAAATAATCAATTATTAATATTTAAAAAATATAAATTATTAATATTTAAAA
1 AAATATTAATAATATAAATAATCAATTAATAAAATTTAAAAAATATAAATTATTAATATTTAAAA
8651496 GAT
66 GAT
*
8651499 AAA-ATTAAATAAAAATAAATAATC-A-TAATAAAATTTAAATTATAA-ATAAATTATTAATATT
1 AAATATT-AAT-AATATAAATAATCAATTAATAAAATTTAAA--A-AATATAAATTATTAATATT
*
8651560 TAAATGAT
61 TAAAAGAT
*
8651568 AAATTATTAATATTATAAATAA
1 AAA-TATTAATAATATAAATAA
8651590 AATATAAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
66 3 0.04
67 18 0.24
68 2 0.03
69 45 0.59
70 5 0.07
71 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (68 bp):
AAATATTAATAATATAAATAATCAATTAATAAAATTTAAAAAATATAAATTATTAATATTTAAAA
GAT
Found at i:8651597 original size:27 final size:27
Alignment explanation
Indices: 8651561--8651612 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
8651551 ATTAATATTT
8651561 AAATGATAAATTATTAATATTATAAATA
1 AAATGATAAATTATTAATATT-TAAATA
8651589 AAAT-ATAAATTATTAATATTTAAA
1 AAATGATAAATTATTAATATTTAAA
8651613 AAATAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 4 0.17
27 16 0.67
28 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATGATAAATTATTAATATTTAAATA
Found at i:8651804 original size:20 final size:20
Alignment explanation
Indices: 8651776--8651845 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
8651766 TTAAATTATG
*
8651776 AATAAAATATTAATATTTTT
1 AATAAAATATTAATATTTTA
* * *
8651796 AATATAATAATT-AGATTATA
1 AATAAAAT-ATTAATATTTTA
*
8651816 AATAAAATATTAATATTTAAA
1 AATAAAATATTAATATTT-TA
8651837 AATAAAATA
1 AATAAAATA
8651846 AAATAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.08
20 23 0.59
21 13 0.33
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
AATAAAATATTAATATTTTA
Found at i:8660630 original size:2 final size:2
Alignment explanation
Indices: 8660625--8660685 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
8660615 AGAGAGGGGT
8660625 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
* *
8660667 TA TA TA CA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA T
8660686 GTATGTATGT
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:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8660832 original size:28 final size:26
Alignment explanation
Indices: 8660782--8660834 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
8660772 TGAATGCATA
*
8660782 AAAAATTTATTTACAAATTAAAAATT
1 AAAAATTTATTTACAAAATAAAAATT
*
8660808 AAAAATATTATTTATTAAAATAAAAAT
1 AAAAAT-TTATTTA-CAAAATAAAAAT
8660835 GCACAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 7 0.30
28 10 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAAATTTATTTACAAAATAAAAATT
Found at i:8661238 original size:29 final size:30
Alignment explanation
Indices: 8661171--8661238 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
8661161 TTAAAAATAT
*
8661171 TCAAATAAA-TCTTTATTCTTTTATTGTGT
1 TCAAATAAACTCTTTATTCTTTTATTGTGA
*
8661200 TC-AATCAAACTCTTTA-T-TTTTATTTTGGA
1 TCAAAT-AAACTCTTTATTCTTTTATTGT-GA
8661229 TCAAATAAAC
1 TCAAATAAAC
8661239 CCTTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
28 11 0.33
29 13 0.39
30 9 0.27
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (30 bp):
TCAAATAAACTCTTTATTCTTTTATTGTGA
Found at i:8661608 original size:29 final size:29
Alignment explanation
Indices: 8661555--8661610 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
8661545 TTTGGTTCAA
*
8661555 AATAAAAGTATAAAAATTTGATTGAATAC
1 AATAAAAGTATAAAAACTTGATTGAATAC
*
8661584 AATAAAAGTATAGAAACTT-ATTTGAAT
1 AATAAAAGTATAAAAACTTGA-TTGAAT
8661611 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (29 bp):
AATAAAAGTATAAAAACTTGATTGAATAC
Found at i:8662247 original size:86 final size:86
Alignment explanation
Indices: 8662154--8662311 Score: 262
Period size: 86 Copynumber: 1.8 Consensus size: 86
8662144 GTGTTTGAAA
* * *
8662154 GACTGATTCGTTTCTTTTCTTCTGCTTGGATTCCCTTTGTCGAAAGCATGCAGAGGCTATCTTGT
1 GACTGATTCGTCTCTTTTCTTCTGCTTGGATTCCCTTTGTCCAAAACATGCAGAGGCTATCTTGT
8662219 CTTCTTTATTTTTGAAAGATT
66 CTTCTTTATTTTTGAAAGATT
* * *
8662240 GACTGATTCGTCTCTTTTCTTCTGCTTTGATTCCCTTTGTCCAAAACATGCAGAGGTTGTCTTGT
1 GACTGATTCGTCTCTTTTCTTCTGCTTGGATTCCCTTTGTCCAAAACATGCAGAGGCTATCTTGT
8662305 CTTCTTT
66 CTTCTTT
8662312 TCATTTTCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (86 bp):
GACTGATTCGTCTCTTTTCTTCTGCTTGGATTCCCTTTGTCCAAAACATGCAGAGGCTATCTTGT
CTTCTTTATTTTTGAAAGATT
Found at i:8677905 original size:10 final size:11
Alignment explanation
Indices: 8677880--8677906 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8677870 ATTATAAATT
8677880 TTTTTATAAAA
1 TTTTTATAAAA
8677891 TTTTTATAAAA
1 TTTTTATAAAA
8677902 TTTTT
1 TTTTT
8677907 TAGAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTATAAAA
Found at i:8677979 original size:3 final size:3
Alignment explanation
Indices: 8677971--8677998 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8677961 TTTTATATCT
8677971 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8677999 GATTTAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8691358 original size:49 final size:50
Alignment explanation
Indices: 8691297--8691394 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
8691287 TTTTGTAGTT
* * *
8691297 AAAAAAAGTTTGGATTAGATGCTTTCATATTTATTTTTACTTGCGCATCC
1 AAAAAAAGTTTGGATTAAATACTTTCATATTTATTTTTACTTGCACATCC
*
8691347 AAAAAAA-TTTGGATTAAATATTTTCATATTTATTTTTACTTGCACATC
1 AAAAAAAGTTTGGATTAAATACTTTCATATTTATTTTTACTTGCACATC
8691395 AAGTTTAGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 37 0.84
50 7 0.16
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (50 bp):
AAAAAAAGTTTGGATTAAATACTTTCATATTTATTTTTACTTGCACATCC
Found at i:8692935 original size:43 final size:43
Alignment explanation
Indices: 8692882--8692964 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
8692872 TTTCTTACCT
* *
8692882 TTTGTTTCTTTTCACCTATTTTTCCTCTTCCACCTACATAATC
1 TTTGCTTCTTTTCACCTATTTTTCCTCTTCCACCCACATAATC
8692925 TTTGCTTCTTTTCACCTATTTTTCCTCTTCCACCCACATA
1 TTTGCTTCTTTTCACCTATTTTTCCTCTTCCACCCACATA
8692965 GTGGTATGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.16, C:0.33, G:0.02, T:0.49
Consensus pattern (43 bp):
TTTGCTTCTTTTCACCTATTTTTCCTCTTCCACCCACATAATC
Found at i:8697035 original size:26 final size:24
Alignment explanation
Indices: 8696989--8697043 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
8696979 AATTATTTTA
*
8696989 TAAAAATATTAATTAATTTAATTAGT
1 TAAAAACATTAATTAATTTAA-TA-T
*
8697015 TAAAAACAGTTAATTGA-TTAATAT
1 TAAAAACA-TTAATTAATTTAATAT
8697039 TAAAA
1 TAAAA
8697044 GTGTAGCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 6 0.23
25 2 0.08
26 11 0.42
27 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (24 bp):
TAAAAACATTAATTAATTTAATAT
Found at i:8697711 original size:20 final size:19
Alignment explanation
Indices: 8697666--8697713 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
8697656 GAACTTATTT
8697666 AAATATTTTTAAATAGTTTA
1 AAAT-TTTTTAAATAGTTTA
8697686 AGAATTTTTTAAAATA-TTATA
1 A-AATTTTTT-AAATAGTT-TA
8697707 AAATTTT
1 AAATTTT
8697714 ATGTGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
AAATTTTTTAAATAGTTTA
Found at i:8697713 original size:19 final size:17
Alignment explanation
Indices: 8697661--8697713 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
8697651 AATAAGAACT
8697661 TATTTAAATATTTTTAAA
1 TATTTAAA-ATTTTTAAA
8697679 TAGTTTAAGAATTTTTTAAAA
1 TA-TTTAA-AA-TTTTT-AAA
8697700 TATTATAAAATTTT
1 TATT-TAAAATTTT
8697714 ATGTGAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 10 0.33
21 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTTAAAATTTTTAAA
Found at i:8698967 original size:20 final size:21
Alignment explanation
Indices: 8698942--8698985 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
8698932 TTGAAGTTTA
8698942 TTTTTATTTTATT-ATTAT-GT
1 TTTTTATTTT-TTCATTATAGT
8698962 TTTTTATTTTTTCATTATAGT
1 TTTTTATTTTTTCATTATAGT
8698983 TTT
1 TTT
8698986 ATTTATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTTCATTATAGT
Found at i:8703864 original size:21 final size:21
Alignment explanation
Indices: 8703838--8703886 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
8703828 TTTGACCTTA
* *
8703838 TATAGTCGACTATGCTTCCTC
1 TATAGTCCACTATGCGTCCTC
8703859 TATAGTCCACTATGCGTCCTC
1 TATAGTCCACTATGCGTCCTC
*
8703880 GATAGTC
1 TATAGTC
8703887 AATTATGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (21 bp):
TATAGTCCACTATGCGTCCTC
Found at i:8703893 original size:21 final size:21
Alignment explanation
Indices: 8703839--8703893 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
8703829 TTGACCTTAT
* * *
8703839 ATAGTCGACTATGCTTCCTCT
1 ATAGTCAACTATGCGTCCTCG
*
8703860 ATAGTCCACTATGCGTCCTCG
1 ATAGTCAACTATGCGTCCTCG
*
8703881 ATAGTCAATTATG
1 ATAGTCAACTATG
8703894 ACTGTATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (21 bp):
ATAGTCAACTATGCGTCCTCG
Found at i:8705531 original size:16 final size:15
Alignment explanation
Indices: 8705498--8705538 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8705488 TTTTTCTCCC
8705498 AAATAAAAAAATAGT
1 AAATAAAAAAATAGT
8705513 AAATAACAAATAA-AGT
1 AAATAA-AAA-AATAGT
8705529 AAA-AAAAAAA
1 AAATAAAAAAA
8705539 AACTGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 8 0.33
16 9 0.38
17 2 0.08
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (15 bp):
AAATAAAAAAATAGT
Found at i:8710930 original size:84 final size:83
Alignment explanation
Indices: 8710748--8710938 Score: 206
Period size: 86 Copynumber: 2.3 Consensus size: 83
8710738 TATGAATTTG
* * * *
8710748 TATTTAATACATCAAAAGACATAATTTACATTTTTTTTAGGAAAAAATTGAAAGCCATCTTTCTA
1 TATTTAATATATCAAAAGACATAACTTACATTTTTTTTAGAAAAAAATGGAAAGCCATCTTTCTA
* *
8710813 TTTTCAAAGATATGATTTTC
66 ATTTCAAAGATAAGA--TTC
** * *
8710833 TATTTAATATATCAAAAGACATAACTTATTTTTTTTTTTAGAAAAAAATGG-AAGACTATCTTTT
1 TATTTAATATATCAAAAGACATAACTTA-CATTTTTTTTAGAAAAAAATGGAAAG-CCATCTTTC
* *
8710897 TAATTTCACATATAAGCA-TC
64 TAATTTCAAAGATAAG-ATTC
*
8710917 TATTTAATATATCAAAAAACAT
1 TATTTAATATATCAAAAGACAT
8710939 GATTTTCTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 23 0.26
85 29 0.32
86 37 0.41
87 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (83 bp):
TATTTAATATATCAAAAGACATAACTTACATTTTTTTTAGAAAAAAATGGAAAGCCATCTTTCTA
ATTTCAAAGATAAGATTC
Found at i:8711544 original size:13 final size:14
Alignment explanation
Indices: 8711526--8711558 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
8711516 GCTGCATAAC
8711526 CACAACCA-GATAT
1 CACAACCAGGATAT
8711539 CACAA-CAGGATAT
1 CACAACCAGGATAT
8711552 CACAACC
1 CACAACC
8711559 GAAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.45, C:0.33, G:0.09, T:0.12
Consensus pattern (14 bp):
CACAACCAGGATAT
Found at i:8712465 original size:24 final size:24
Alignment explanation
Indices: 8712437--8712524 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 24
8712427 GAAAGTATAT
*
8712437 CTATATATGAAAATGGACATAAGA
1 CTATATAAGAAAATGGACATAAGA
*
8712461 CTATATAAG-AAA-GGAAAGTATAGTATA
1 CTATATAAGAAAATGGACA-TA-AG---A
* *
8712488 TCTATGTATGAAAATGGACATAAGA
1 -CTATATAAGAAAATGGACATAAGA
8712513 CTATATAAGAAA
1 CTATATAAGAAA
8712525 GGAAAAAGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
22 4 0.08
23 5 0.10
24 20 0.41
25 1 0.02
27 1 0.02
28 9 0.18
29 5 0.10
30 4 0.08
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (24 bp):
CTATATAAGAAAATGGACATAAGA
Found at i:8712500 original size:52 final size:52
Alignment explanation
Indices: 8712430--8712529 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
8712420 ATGAATAGAA
8712430 AGTATATCTATATATGAAAATGGACATAAGACTATATAAGAAAGGAAAGTAT
1 AGTATATCTATATATGAAAATGGACATAAGACTATATAAGAAAGGAAAGTAT
*
8712482 AGTATATCTATGTATGAAAATGGACATAAGACTATATAAGAAAGGAAA
1 AGTATATCTATATATGAAAATGGACATAAGACTATATAAGAAAGGAAA
8712530 AAGTGAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (52 bp):
AGTATATCTATATATGAAAATGGACATAAGACTATATAAGAAAGGAAAGTAT
Found at i:8713217 original size:21 final size:20
Alignment explanation
Indices: 8713166--8713219 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
8713156 ATGAGAAAAG
*
8713166 ATAAAAAAATTA-GTTGGGCA
1 ATAAAAAAA-TAGGTTAGGCA
8713186 A-AAAGAAAATAGGTTAGGCTA
1 ATAAA-AAAATAGGTTAGGC-A
8713207 ATAAAAAAATAGG
1 ATAAAAAAATAGG
8713220 AAAGAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.17
20 11 0.38
21 10 0.34
22 3 0.10
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (20 bp):
ATAAAAAAATAGGTTAGGCA
Found at i:8722112 original size:26 final size:26
Alignment explanation
Indices: 8722083--8722136 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
8722073 ATTTAGCTAT
*
8722083 GTGAGGTTATAGTCGATAACTTGTTG
1 GTGAGGTCATAGTCGATAACTTGTTG
* *
8722109 GTGAGGTCATATTTGATAACTTGTTG
1 GTGAGGTCATAGTCGATAACTTGTTG
8722135 GT
1 GT
8722137 TGTATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (26 bp):
GTGAGGTCATAGTCGATAACTTGTTG
Found at i:8736167 original size:2 final size:2
Alignment explanation
Indices: 8736160--8736197 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
8736150 TGTTACAAGA
*
8736160 AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
8736198 GGCTCTACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8749301 original size:15 final size:15
Alignment explanation
Indices: 8749281--8749324 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8749271 TTAACATTAC
8749281 AAAATTATAACTTAT
1 AAAATTATAACTTAT
8749296 AAAATTATTAA-TTAT
1 AAAATTA-TAACTTAT
*
8749311 AATATATATAACTT
1 AAAAT-TATAACTT
8749325 TATTTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTATAACTTAT
Found at i:8749475 original size:336 final size:349
Alignment explanation
Indices: 8748886--8749736 Score: 1058
Period size: 336 Copynumber: 2.4 Consensus size: 349
8748876 TACCACTATA
* * * *
8748886 TATATATATA-TTT-AATATAAATATATTTGCTTTCTATTTTGTTTTAACATTACAAAAATTATG
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTACAAAAATTATA
* * * * *
8748949 AGTTATAAAATTATTAATTATAATATATATACCATTGTTTATATAATCTTATAATATATATACTT
66 ACTTATAAAATTATTAATTATAATATATATAACTTTGTTTATATAAACTTATAATATA-A-ACCT
* * * * **
8749014 AAAGA-AAGTTTTTAAAATTAGAATAGTTTTTGAACCTAAATATTTTTTTTAATTTCATGAAATT
129 AAAGAGAAG-TTATGAGATTAGAATAGTTCTAAAACCTAAATATTTTTTTTAATTTCATGAAATT
* *
8749078 AAGAACAAATCCTTATAATTAATTAAATTAATTCATGAAACTATTATTATTAATTAACTTGTAAT
193 AAGAACAAATCCGTATAATTAATTAAATTAATTCATGAAACTATAATTATTAATTAACTTGTAAT
*** *
8749143 GTCTTTTAATATATAT-CGTT-TATATATTGTGTTAATTTATAAGAAATATAATTACTA-TTATA
258 GTCTTTTAATATATATACGTTATATATATTAAATTAATGTATAAGAAATATAATTACTACTT-TA
*
8749205 TATATACT-AA-A-A-TAT-T-TTTG-G
322 TATATACTCAAGATAGTATGTGTGTGTG
8749226 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTAC-AAAATTATA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTACAAAAATTATA
*
8749290 ACTTATAAAATTATTAATTATAATATATATAACTTTATTTATATAAAC-T-T-ATATAAACCTAA
66 ACTTATAAAATTATTAATTATAATATATATAACTTTGTTTATATAAACTTATAATATAAACCTAA
* ** * *
8749352 AGAGAAGTTGTGAGATTAGAATAGTTCTAAAACCTAGTTATTTTTTTTAATTTTATGTAATTAAG
131 AGAGAAGTTATGAGATTAGAATAGTTCTAAAACCTAAATATTTTTTTTAATTTCATGAAATTAAG
* *
8749417 GACAAA-CTCGTATAGTTAATTAAATTAATTCATGAAACTATAATTATTAATTAACTTGTAATGT
196 AACAAATC-CGTATAATTAATTAAATTAATTCATGAAACTATAATTATTAATTAACTTGTAATGT
* * *
8749481 CTTTTAATATATATACTTTATATATATTAAATTCATGTATAAGGAATATAATTACTACTTTATAT
260 CTTTTAATATATATACGTTATATATATTAAATTAATGTATAAGAAATATAATTACTACTTTATAT
*
8749546 ATATTCAAGTATTTTTTATGTATGCGTGTGTGTG
325 ATACTCAAG-A-----TA-GTAT--GTGTGTGTG
*
8749580 TATATATGTACTTTAAATATAAACATATTTACTTTCTA-TTTGTATTAACATTACAAAAATTATA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTACAAAAATTATA
* * *
8749644 TCTTATAAAATTATTAATTACAATATATAT-ACTTTTGTTTATATAAACTTATAACATATAAATC
66 ACTTATAAAATTATTAATTATAATATATATAAC-TTTGTTTATATAAACTTAT-A-ATATAAACC
*
8749708 TAAAGGGAAGTTATGAGATTAGAATAGTT
128 TAAAGAGAAGTTATGAGATTAGAATAGTT
8749737 AATTGGGTAA
Statistics
Matches: 441, Mismatches: 40, Indels: 41
0.84 0.08 0.08
Matches are distributed among these distances:
335 1 0.00
336 128 0.29
337 7 0.02
338 45 0.10
339 5 0.01
340 11 0.02
341 55 0.12
342 37 0.08
347 1 0.00
349 3 0.01
352 1 0.00
353 21 0.05
354 89 0.20
355 1 0.00
356 1 0.00
359 35 0.08
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (349 bp):
TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTATTAACATTACAAAAATTATA
ACTTATAAAATTATTAATTATAATATATATAACTTTGTTTATATAAACTTATAATATAAACCTAA
AGAGAAGTTATGAGATTAGAATAGTTCTAAAACCTAAATATTTTTTTTAATTTCATGAAATTAAG
AACAAATCCGTATAATTAATTAAATTAATTCATGAAACTATAATTATTAATTAACTTGTAATGTC
TTTTAATATATATACGTTATATATATTAAATTAATGTATAAGAAATATAATTACTACTTTATATA
TACTCAAGATAGTATGTGTGTGTG
Found at i:8759479 original size:42 final size:42
Alignment explanation
Indices: 8759432--8759516 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
8759422 ATAATAAAGA
8759432 TCATATTAAGAAATAGAAGAATTTAAAAACGAAAAACATAGG
1 TCATATTAAGAAATAGAAGAATTTAAAAACGAAAAACATAGG
8759474 TCATATTAAGAAATAGAAGAATTTAAAAACGAAAAACATAGG
1 TCATATTAAGAAATAGAAGAATTTAAAAACGAAAAACATAGG
8759516 T
1 T
8759517 GTGGGAGACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.22
Consensus pattern (42 bp):
TCATATTAAGAAATAGAAGAATTTAAAAACGAAAAACATAGG
Found at i:8759898 original size:34 final size:35
Alignment explanation
Indices: 8759859--8759941 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
8759849 GTAATCCAAC
* *
8759859 CTATATGATTTATTTTTAAT-AATAT-AATTAAACA
1 CTATATAATTTATTTTTAATAAAAATCAA-TAAACA
*
8759893 CTATATAATTT-TTTTTAGTAAAAATCAATAAACA
1 CTATATAATTTATTTTTAATAAAAATCAATAAACA
* *
8759927 CCATATTATTTATTT
1 CTATATAATTTATTT
8759942 ATAAGAATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 7 0.17
34 29 0.71
35 5 0.12
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (35 bp):
CTATATAATTTATTTTTAATAAAAATCAATAAACA
Found at i:8763389 original size:31 final size:31
Alignment explanation
Indices: 8763345--8763406 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
8763335 TGCAAGCATC
*
8763345 AATTTGGCCAATGATAGTATGTTATGAATTA
1 AATTTGGCCAATGATAGTACGTTATGAATTA
**
8763376 AATTTGGTTAATGATAGTACGTTATGAATTA
1 AATTTGGCCAATGATAGTACGTTATGAATTA
8763407 TATAGAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (31 bp):
AATTTGGCCAATGATAGTACGTTATGAATTA
Found at i:8764731 original size:32 final size:32
Alignment explanation
Indices: 8764687--8764760 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
8764677 AGTGATAACG
*
8764687 AAAAATATTTTTTATAGAATGATTCAAATAATA
1 AAAAATATTTTTAATA-AATGATTCAAATAATA
*
8764720 AAAAATATTTTTAATAAATTATTCAAATAATA
1 AAAAATATTTTTAATAAATGATTCAAATAATA
8764752 AAAAATATT
1 AAAAATATT
8764761 AAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 24 0.62
33 15 0.38
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (32 bp):
AAAAATATTTTTAATAAATGATTCAAATAATA
Found at i:8766629 original size:42 final size:42
Alignment explanation
Indices: 8766570--8766655 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
8766560 TGAGGTACTA
* * *
8766570 GTTAGGAGGAGTATTTTGGTCAGGTAATGAGGTCAAAGGAGG
1 GTTAGGAGGAGTATTTTGGTAAGATAATAAGGTCAAAGGAGG
* *
8766612 GTTAGGAGGTGTATTTTGGTAAGATAATAAGGTCAGAGGAGG
1 GTTAGGAGGAGTATTTTGGTAAGATAATAAGGTCAAAGGAGG
8766654 GT
1 GT
8766656 AGTATGGAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.03, G:0.40, T:0.28
Consensus pattern (42 bp):
GTTAGGAGGAGTATTTTGGTAAGATAATAAGGTCAAAGGAGG
Found at i:8774934 original size:25 final size:23
Alignment explanation
Indices: 8774889--8774936 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
8774879 TAATAGGTTT
*
8774889 TTTAATTTTATAATAATAATATA
1 TTTAATTTTATAATAAAAATATA
*
8774912 TTTAATTATATATATTAAAAATATA
1 TTTAATT-T-TATAATAAAAATATA
8774937 CAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATTTTATAATAAAAATATA
Found at i:8778944 original size:21 final size:21
Alignment explanation
Indices: 8778920--8778959 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8778910 AAGAAAACAC
8778920 GGACAAGAATCAAGGAGCAGT
1 GGACAAGAATCAAGGAGCAGT
8778941 GGACAAGAATCAAGGAGCA
1 GGACAAGAATCAAGGAGCA
8778960 AGAATTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.33, T:0.07
Consensus pattern (21 bp):
GGACAAGAATCAAGGAGCAGT
Found at i:8778961 original size:14 final size:14
Alignment explanation
Indices: 8778944--8779016 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 14
8778934 GAGCAGTGGA
8778944 CAAGAATCAAGGAG
1 CAAGAATCAAGGAG
*
8778958 CAAGAATTAAGGAG
1 CAAGAATCAAGGAG
* *
8778972 CAAAAATCAAGACCAAATG
1 CAAGAATCAAG----GA-G
8778991 ACAAGAATCAAGGAG
1 -CAAGAATCAAGGAG
8779006 CAAGAATCAAG
1 CAAGAATCAAG
8779017 ACCAAATGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
14 33 0.70
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.21
ACGTcount: A:0.53, C:0.15, G:0.22, T:0.10
Consensus pattern (14 bp):
CAAGAATCAAGGAG
Found at i:8779001 original size:20 final size:20
Alignment explanation
Indices: 8778976--8779036 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
8778966 AAGGAGCAAA
8778976 AATCAAGACCAAATGACAAG
1 AATCAAGACCAAATGACAAG
*
8778996 AATCAAG----GA-G-CAAG
1 AATCAAGACCAAATGACAAG
*
8779010 AATCAAGACCAAATGATAAG
1 AATCAAGACCAAATGACAAG
8779030 AATCAAG
1 AATCAAG
8779037 GAGTTGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
16 1 0.03
18 1 0.03
19 1 0.03
20 17 0.53
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.11
Consensus pattern (20 bp):
AATCAAGACCAAATGACAAG
Found at i:8779004 original size:34 final size:34
Alignment explanation
Indices: 8778958--8779039 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
8778948 AATCAAGGAG
*
8778958 CAAGAATTAAGGAGCAAAAATCAAGACCAAATGA
1 CAAGAATCAAGGAGCAAAAATCAAGACCAAATGA
*
8778992 CAAGAATCAAGGAGCAAGAATCAAGACCAAATGA
1 CAAGAATCAAGGAGCAAAAATCAAGACCAAATGA
*
8779026 TAAGAATCAAGGAG
1 CAAGAATCAAGGAG
8779040 TTGAAATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.11
Consensus pattern (34 bp):
CAAGAATCAAGGAGCAAAAATCAAGACCAAATGA
Found at i:8784930 original size:12 final size:13
Alignment explanation
Indices: 8784905--8784935 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
8784895 ATAAGAATAG
8784905 AAAATATGATAAT
1 AAAATATGATAAT
8784918 AAAATAT-ATAAT
1 AAAATATGATAAT
8784930 AAAATA
1 AAAATA
8784936 AAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATATGATAAT
Found at i:8784941 original size:18 final size:19
Alignment explanation
Indices: 8784918--8784969 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
8784908 ATATGATAAT
*
8784918 AAAATATATAATAA-AATA
1 AAAATATATAATAATAACA
8784936 AAAATA-ATTAATAATAACA
1 AAAATATA-TAATAATAACA
8784955 AAAA-ATATAGATAAT
1 AAAATATATA-ATAAT
8784970 TGCATTAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.03
18 15 0.52
19 13 0.45
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATATATAATAATAACA
Found at i:8786600 original size:153 final size:154
Alignment explanation
Indices: 8786322--8786627 Score: 560
Period size: 153 Copynumber: 2.0 Consensus size: 154
8786312 AGGAGTAGTG
*
8786322 GACAAGAATCAAAGAGCAAGAATCAAGACCAAATGACAAGAATCAAGGAGTTGAAATATGAAATC
1 GACAAGAATCAAAGAGCAAGAATCAAGACCAAATGACAAGAATCAAGGAGTTGAAATATAAAATC
8786387 AAGTCTTAATTCTTGTCTGCAATTAATTGTACTCCTGTATATATATCTCAACTCATCAAAT-AAA
66 AAGTCTTAATTCTTGTCTGCAATTAATTGTACTCCTGTATATATATCTCAACTCATCAAATAAAA
8786451 AAAAAAACATTATCAGCTTCCCAT
131 AAAAAAACATTATCAGCTTCCCAT
*
8786475 GACAAGAATCAAGGAGCAAGAATCAAGACCAAATGACAAGAATCAAGGAGTTGAAATATAAAATC
1 GACAAGAATCAAAGAGCAAGAATCAAGACCAAATGACAAGAATCAAGGAGTTGAAATATAAAATC
* *
8786540 AAGTCTTAATTCTTGTTTGCAATTAATTGTACTCTTGTATATATATCTCAACTCATCAAATAAAA
66 AAGTCTTAATTCTTGTCTGCAATTAATTGTACTCCTGTATATATATCTCAACTCATCAAAT-AAA
8786605 AAAAAAAACATTATCAGCTTCCC
130 AAAAAAAACATTATCAGCTTCCC
8786628 TCAATTCTGT
Statistics
Matches: 147, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
153 122 0.83
155 25 0.17
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (154 bp):
GACAAGAATCAAAGAGCAAGAATCAAGACCAAATGACAAGAATCAAGGAGTTGAAATATAAAATC
AAGTCTTAATTCTTGTCTGCAATTAATTGTACTCCTGTATATATATCTCAACTCATCAAATAAAA
AAAAAAACATTATCAGCTTCCCAT
Found at i:8789959 original size:59 final size:60
Alignment explanation
Indices: 8789841--8789981 Score: 171
Period size: 59 Copynumber: 2.4 Consensus size: 60
8789831 AACCCAAATT
* * *
8789841 AGTTGGCCTTGAGATTATTTAAACCTAATTTAGCTAGCACCAAAATTTTAAGCTTAGTTA
1 AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACCAAAATTTTAAGCTCAGTTA
* * *
8789901 AGTTGTCCTTGAGA-TCTTTAAACCTAATCTAGCAAGCA-CAAAGATTTTAA-ATCCAGTTA
1 AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACCAAA-ATTTTAAGCT-CAGTTA
* *
8789960 AGTTGGTCATGAGATTATTTAA
1 AGTTGGCCTTGAGATTATTTAA
8789982 CTCAATCTAG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 5 0.07
59 44 0.65
60 19 0.28
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (60 bp):
AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACCAAAATTTTAAGCTCAGTTA
Found at i:8792631 original size:85 final size:85
Alignment explanation
Indices: 8792513--8792683 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 85
8792503 CTTTACATTC
* *
8792513 AATCAAGTTCCTATATTTGTATTTTCGATCAAATAGGTTTTTATGATCAAAGGTTAACTGCTTAT
1 AATCAAGTTCCTATATTTGTATTTTCGATCAAATAGATTTTTATGATCAAAGATTAACTGCTTAT
*
8792578 CATTAATTAAAATATTACTT
66 CATTAATTAAAATATCACTT
* * * *
8792598 AATCAAGTTCTTGTATTTGTATTTTGGGTCAAATAGATTTTTATGATCAAAGATTAACTGCTTAT
1 AATCAAGTTCCTATATTTGTATTTTCGATCAAATAGATTTTTATGATCAAAGATTAACTGCTTAT
*
8792663 CATTAATTAAACTATCACTT
66 CATTAATTAAAATATCACTT
8792683 A
1 A
8792684 TCATTTTATA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (85 bp):
AATCAAGTTCCTATATTTGTATTTTCGATCAAATAGATTTTTATGATCAAAGATTAACTGCTTAT
CATTAATTAAAATATCACTT
Found at i:8802885 original size:13 final size:14
Alignment explanation
Indices: 8802869--8802901 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8802859 AAAAGAAACT
8802869 GAAAAAG-GAAAAA
1 GAAAAAGAGAAAAA
*
8802882 GAAAAAGAGAGAAA
1 GAAAAAGAGAAAAA
8802896 GAAAAA
1 GAAAAA
8802902 CAAAATGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAAAGAGAAAAA
Found at i:8821465 original size:15 final size:15
Alignment explanation
Indices: 8821441--8821482 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8821431 TACAACCTAC
*
8821441 AAATAGAAAATAAA-A
1 AAATA-AAAAAAAATA
8821456 AAATAAAAAAAAATTA
1 AAATAAAAAAAAA-TA
8821472 AAATAAAAAAA
1 AAATAAAAAAA
8821483 TATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 12 0.50
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (15 bp):
AAATAAAAAAAAATA
Found at i:8821466 original size:9 final size:8
Alignment explanation
Indices: 8821447--8821484 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
8821437 CTACAAATAG
8821447 AAAATAAA
1 AAAATAAA
8821455 AAAATAAA
1 AAAATAAA
*
8821463 AAAA-AATT
1 AAAATAA-A
8821471 AAAATAAA
1 AAAATAAA
8821479 AAAATA
1 AAAATA
8821485 TTAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 2 0.08
8 22 0.85
9 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:8821474 original size:16 final size:16
Alignment explanation
Indices: 8821455--8821488 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8821445 AGAAAATAAA
8821455 AAAATAAAAAAAAATT
1 AAAATAAAAAAAAATT
*
8821471 AAAATAAAAAAATATT
1 AAAATAAAAAAAAATT
8821487 AA
1 AA
8821489 TAATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAAAAAAATT
Found at i:8821627 original size:119 final size:117
Alignment explanation
Indices: 8821458--8821671 Score: 340
Period size: 119 Copynumber: 1.8 Consensus size: 117
8821448 AAATAAAAAA
* *
8821458 ATAAAAAAAAATTAAAATAAAAAAATATTAATAATTTAATAATAAATTATTAATGTTTT-AATTT
1 ATAAAAAAAAATTAAAATAAAAAAATATTAATAATTTAATAATAAATTATTAATATTTTAAAATT
*
8821522 TTAATGAAAATAGAAATTAAAAGATTAAAAATGAAAATACAAATAGAGACAAG
66 TTAATAAAAATA-AAATTAAAAGATTAAAAATGAAAATACAAATAGAGACAAG
* * *
8821575 ATAAAAAGAAATTGAAATAAAAAATCATATTAATAATTTAATAATAATTTATTAATATTTTAAAA
1 ATAAAAAAAAATTAAAATAAAAAA--ATATTAATAATTTAATAATAAATTATTAATATTTTAAAA
8821640 TTTTAATAAAAATAAAATTAAAAGATTAAAAA
64 TTTTAATAAAAATAAAATTAAAAGATTAAAAA
8821672 AGGAAAAATA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
117 22 0.25
119 51 0.58
120 15 0.17
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (117 bp):
ATAAAAAAAAATTAAAATAAAAAAATATTAATAATTTAATAATAAATTATTAATATTTTAAAATT
TTAATAAAAATAAAATTAAAAGATTAAAAATGAAAATACAAATAGAGACAAG
Found at i:8822324 original size:15 final size:15
Alignment explanation
Indices: 8822289--8822328 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
8822279 ATATTATATA
*
8822289 TATTTAATAATTTTT
1 TATTAAATAATTTTT
8822304 TA--AAATAATTTTT
1 TATTAAATAATTTTT
8822317 TATTAAATAATT
1 TATTAAATAATT
8822329 AATATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTAAATAATTTTT
Found at i:8823315 original size:18 final size:18
Alignment explanation
Indices: 8823294--8823328 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8823284 TCCCAAAAGG
*
8823294 AAAAAGAAA-CAAAAAAA
1 AAAAAAAAACCAAAAAAA
8823311 AAAAAAAAACCAAAAAAA
1 AAAAAAAAACCAAAAAAA
8823329 CCAAAGATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACCAAAAAAA
Found at i:8833486 original size:23 final size:23
Alignment explanation
Indices: 8833460--8833505 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8833450 ATATAATAAC
* *
8833460 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAGAATTAAGAAT
8833483 CTTATCCTAATAGAATTAAGAAT
1 CTTATCCTAATAGAATTAAGAAT
8833506 TATTATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (23 bp):
CTTATCCTAATAGAATTAAGAAT
Found at i:8837108 original size:22 final size:22
Alignment explanation
Indices: 8837083--8837126 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8837073 TTTTAATATC
8837083 TCATATTATTAAGGTACAAAAA
1 TCATATTATTAAGGTACAAAAA
*
8837105 TCATATTGTTAAGGTACAAAAA
1 TCATATTATTAAGGTACAAAAA
8837127 GAGGTGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (22 bp):
TCATATTATTAAGGTACAAAAA
Found at i:8837432 original size:44 final size:44
Alignment explanation
Indices: 8837369--8837461 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
8837359 TAGGCCCAAA
* *
8837369 TGAAATTTTGTATCTTGGTTTTATTTACTTTTTACCTCAGCCTT
1 TGAAATTTTGTATCTTGGTTTTATTAACTTTTTACCTCAACCTT
*
8837413 TGAAATTTTGTA-CTTTGGTTTTATTAATTTTTTACCTCAACCTT
1 TGAAATTTTGTATC-TTGGTTTTATTAACTTTTTACCTCAACCTT
8837457 TGAAA
1 TGAAA
8837462 CAATCTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 1 0.02
44 44 0.98
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.53
Consensus pattern (44 bp):
TGAAATTTTGTATCTTGGTTTTATTAACTTTTTACCTCAACCTT
Found at i:8837566 original size:132 final size:132
Alignment explanation
Indices: 8837296--8837570 Score: 378
Period size: 132 Copynumber: 2.1 Consensus size: 132
8837286 TTTTCTATTT
* * *
8837296 TGGTTTTATTTATTTTTTACCTCAGCCTTTGAAACAGTCTCAAACACTATCTTACACATGGGCTA
1 TGGTTTTATTAATTTTTTACCTCAACCTTTGAAACAATCTCAAACACTATCTTACACATGGGCTA
* * * ***
8837361 GGCCCAAATGAAATTTTGTATCTTGGTTTTATTTACTTTTTACCTCAGCCTTTGAAATTTTGTAC
66 GGCCCAAATGAAATTTTATATCTTGGTTTTATATACTTTTTACCTCAGCCTTTGAAATCTCAAAC
**
8837426 TT
131 AC
*
8837428 TGGTTTTATTAATTTTTTACCTCAACCTTTGAAACAATCTCAAATACTATCTTACACATGGGCTA
1 TGGTTTTATTAATTTTTTACCTCAACCTTTGAAACAATCTCAAACACTATCTTACACATGGGCTA
*
8837493 GGCCCAAATGAAATTTTATATCTT-G-TTTATATACTTTTTACCTTAGCCTTTGAAGTAGTCTCA
66 GGCCCAAATGAAATTTTATATCTTGGTTTTATATACTTTTTACCTCAGCCTTTGAA--A-TCTCA
8837556 AACAC
128 AACAC
8837561 T-GTTTT-TTAA
1 TGGTTTTATTAA
8837571 CTAGTTCAAG
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
130 27 0.21
131 5 0.04
132 90 0.71
133 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (132 bp):
TGGTTTTATTAATTTTTTACCTCAACCTTTGAAACAATCTCAAACACTATCTTACACATGGGCTA
GGCCCAAATGAAATTTTATATCTTGGTTTTATATACTTTTTACCTCAGCCTTTGAAATCTCAAAC
AC
Found at i:8837621 original size:82 final size:80
Alignment explanation
Indices: 8837501--8837655 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
8837491 TAGGCCCAAA
* ** * *
8837501 TGAAATTTTATATCTTGTTTATATACTTTTTACCTTAGCCTTTGAAGTAGTCTCAAACACTGTTT
1 TGAAATTTTATATCTTGTTTATATACATTTTACCTTAGCCTTTGAAACAATATCAAACACTGTTT
8837566 TTTAACTAGTTCAAG
66 TTTAACTAGTTCAAG
* **
8837581 TGAAATTTTGTATCTTGGTTT-TATTGACATTTTACCTTAGCCTTTGAAACAATATCAAACGTTG
1 TGAAATTTTATATCTT-GTTTATA-T-ACATTTTACCTTAGCCTTTGAAACAATATCAAACACTG
8837645 TTTTTTAACTA
63 TTTTTTAACTA
8837656 AGTTTTATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 17 0.27
81 5 0.08
82 42 0.66
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (80 bp):
TGAAATTTTATATCTTGTTTATATACATTTTACCTTAGCCTTTGAAACAATATCAAACACTGTTT
TTTAACTAGTTCAAG
Found at i:8837824 original size:143 final size:143
Alignment explanation
Indices: 8837566--8837842 Score: 455
Period size: 143 Copynumber: 1.9 Consensus size: 143
8837556 AACACTGTTT
** *
8837566 TTTAACTAGTTCAAGTGAAATTTTGTATCTTGGTTTTATTGACATTTTACCTTAGCCTTTGAAAC
1 TTTAACTAGCCCAAGTGAAATTTTGTATCTTGGTTTTATTGACATTTTACCTCAGCCTTTGAAAC
* * * *
8837631 AATATCAAACGTTGTTTTTTAACTAAGTTTTATAACTGCTAATGTAATTTGAGATTTTAATTTTG
66 AATATCAAACATTGTCTTTTAACTAAGTTTTATAACTGCTAACGTAATTTGAGATTTTAATGTTG
8837696 AATTTTAACTGAG
131 AATTTTAACTGAG
* *
8837709 TTTAACTAGCCCAAGTGAAATTTTGTATCTTGGTTTTATTTACTTTTTACCTCAGCCTTTGAAAC
1 TTTAACTAGCCCAAGTGAAATTTTGTATCTTGGTTTTATTGACATTTTACCTCAGCCTTTGAAAC
* *
8837774 AATTTCAAACATTGTCTTTTAACTGAGTTTTATAACTGCTAACGTAATTTGAGATTTTAATGTTG
66 AATATCAAACATTGTCTTTTAACTAAGTTTTATAACTGCTAACGTAATTTGAGATTTTAATGTTG
8837839 AATT
131 AATT
8837843 GTGAATGAGT
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 123 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (143 bp):
TTTAACTAGCCCAAGTGAAATTTTGTATCTTGGTTTTATTGACATTTTACCTCAGCCTTTGAAAC
AATATCAAACATTGTCTTTTAACTAAGTTTTATAACTGCTAACGTAATTTGAGATTTTAATGTTG
AATTTTAACTGAG
Found at i:8838867 original size:23 final size:23
Alignment explanation
Indices: 8838837--8838890 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
8838827 AAGAAGCAAA
8838837 GCAAATATCGGATTTAATGGTTG
1 GCAAATATCGGATTTAATGGTTG
*
8838860 GCAAATATGGGATTTAATGGTTG
1 GCAAATATCGGATTTAATGGTTG
*
8838883 TCAAATAT
1 GCAAATAT
8838891 ACTACTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (23 bp):
GCAAATATCGGATTTAATGGTTG
Found at i:8843535 original size:21 final size:21
Alignment explanation
Indices: 8843511--8843568 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
8843501 GTTCCTTGTT
8843511 GCCACCAACATCATCCCCATC
1 GCCACCAACATCATCCCCATC
**
8843532 GCCACCAACATCATCCCTGTC
1 GCCACCAACATCATCCCCATC
* *
8843553 GACATCAACATCATCC
1 GCCACCAACATCATCC
8843569 TCGCGGCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.47, G:0.07, T:0.17
Consensus pattern (21 bp):
GCCACCAACATCATCCCCATC
Found at i:8843953 original size:29 final size:29
Alignment explanation
Indices: 8843900--8843968 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
8843890 CATTATGTTG
* *
8843900 CTACATGCCATGCCTAACCATCTAAGTTA
1 CTACATGCCATGCCTAACAATCTAAGATA
8843929 CTACA-GCCATGCCT-ACAAATACTAAGATA
1 CTACATGCCATGCCTAAC-AAT-CTAAGATA
8843958 CTACATGCCAT
1 CTACATGCCAT
8843969 TCTATCACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 2 0.06
28 11 0.31
29 17 0.49
30 5 0.14
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (29 bp):
CTACATGCCATGCCTAACAATCTAAGATA
Found at i:8846460 original size:87 final size:88
Alignment explanation
Indices: 8846302--8846512 Score: 257
Period size: 87 Copynumber: 2.4 Consensus size: 88
8846292 ATTACACGTT
* * * * * ** *
8846302 ATGCCTACTAACTAAGTTATTACACGCTATGCTTAAAAATCCATGGTTGCTACGTGCTATGTCTA
1 ATGCCTAATGACTAAGTTGTTACACACTATGCCTAAAAATCCATGGTTGCTACACGCTATGCCTA
8846367 AAAATTCTTAATTGCTACATGCC
66 AAAATTCTTAATTGCTACATGCC
*
8846390 ATGCCTAATGACTAAGTTGTTACATACTA-GCCTAAAAAT-CATTGGTTGCTACACGCTATGCCT
1 ATGCCTAATGACTAAGTTGTTACACACTATGCCTAAAAATCCA-TGGTTGCTACACGCTATGCCT
* * *
8846453 AAGAATTCTTAGTTGTTACATGCC
65 AAAAATTCTTAATTGCTACATGCC
* *
8846477 ATGCCTAATGATTACA-TTGTTACACGCTATGCCTAA
1 ATGCCTAATGACTA-AGTTGTTACACACTATGCCTAA
8846513 GCTGCTACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
86 2 0.02
87 72 0.69
88 31 0.30
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (88 bp):
ATGCCTAATGACTAAGTTGTTACACACTATGCCTAAAAATCCATGGTTGCTACACGCTATGCCTA
AAAATTCTTAATTGCTACATGCC
Found at i:8846481 original size:30 final size:30
Alignment explanation
Indices: 8846347--8846484 Score: 97
Period size: 30 Copynumber: 4.7 Consensus size: 30
8846337 AAAATCCATG
* * * *
8846347 GTTGCTACGTGCTATGTCTAAAAATTCTTA
1 GTTGCTACATGCCATGCCTAAGAATTCTTA
* *
8846377 ATTGCTACATGCCATGCCTAATG-A--CTAA
1 GTTGCTACATGCCATGCCTAA-GAATTCTTA
* * * * *
8846405 GTTGTTACATACTA-GCCTAA-AAATCATTG
1 GTTGCTACATGCCATGCCTAAGAATTC-TTA
* *
8846434 GTTGCTACACGCTATGCCTAAGAATTCTTA
1 GTTGCTACATGCCATGCCTAAGAATTCTTA
*
8846464 GTTGTTACATGCCATGCCTAA
1 GTTGCTACATGCCATGCCTAA
8846485 TGATTACATT
Statistics
Matches: 81, Mismatches: 20, Indels: 14
0.70 0.17 0.12
Matches are distributed among these distances:
26 1 0.01
27 6 0.07
28 14 0.17
29 12 0.15
30 44 0.54
31 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (30 bp):
GTTGCTACATGCCATGCCTAAGAATTCTTA
Found at i:8846640 original size:30 final size:30
Alignment explanation
Indices: 8846606--8846728 Score: 122
Period size: 30 Copynumber: 4.1 Consensus size: 30
8846596 ACTAAGTTAT
* *
8846606 TACATGCCAAGCTTAAAAATCCTAAATTGC
1 TACATGCCATGCCTAAAAATCCTAAATTGC
* * *
8846636 TACATGCCATGCCTAAAAATCTTAAGTTGT
1 TACATGCCATGCCTAAAAATCCTAAATTGC
* * * * * *
8846666 TGCACGTCATGTCTAAAAATTCTAAGTTGC
1 TACATGCCATGCCTAAAAATCCTAAATTGC
* *
8846696 TAAATGCCATGCCTAACAAT-CTAAATTGC
1 TACATGCCATGCCTAAAAATCCTAAATTGC
8846725 TACA
1 TACA
8846729 CACCATGTTG
Statistics
Matches: 73, Mismatches: 20, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
29 11 0.15
30 62 0.85
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (30 bp):
TACATGCCATGCCTAAAAATCCTAAATTGC
Found at i:8849198 original size:16 final size:16
Alignment explanation
Indices: 8849172--8849204 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8849162 TATAACAATA
8849172 TAACTTATATTAATAAT
1 TAACTTATATT-ATAAT
8849189 TAAC-TATATTATAAT
1 TAACTTATATTATAAT
8849204 T
1 T
8849205 TAAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TAACTTATATTATAAT
Found at i:8849207 original size:16 final size:17
Alignment explanation
Indices: 8849120--8849204 Score: 54
Period size: 18 Copynumber: 5.1 Consensus size: 17
8849110 TACTATAGTA
* *
8849120 TAACTTATATTACTAAAA
1 TAACTTATATTAAT-AAT
*
8849138 CAACTTATATTAAT-AT
1 TAACTTATATTAATAAT
* *
8849154 TAA--TATCCTATAACAAT
1 TAACTTAT-AT-TAATAAT
8849171 ATAACTTATATTAATAAT
1 -TAACTTATATTAATAAT
8849189 TAAC-TATATT-ATAAT
1 TAACTTATATTAATAAT
8849204 T
1 T
8849205 TAAAACAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
14 3 0.06
15 7 0.13
16 12 0.23
17 6 0.11
18 21 0.40
19 1 0.02
20 3 0.06
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
TAACTTATATTAATAAT
Found at i:8849284 original size:20 final size:20
Alignment explanation
Indices: 8849259--8849299 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8849249 TAATTAGTCA
*
8849259 ATAACAATTTACTAATATAT
1 ATAACAATATACTAATATAT
*
8849279 ATAACAATATACTATTATAT
1 ATAACAATATACTAATATAT
8849299 A
1 A
8849300 GTATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAACAATATACTAATATAT
Found at i:8849697 original size:9 final size:9
Alignment explanation
Indices: 8849679--8849715 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
8849669 AATATATTAT
*
8849679 TTAAATAAA
1 TTAAAAAAA
8849688 TTAAAAAAA
1 TTAAAAAAA
8849697 TTAAAAAAA
1 TTAAAAAAA
8849706 GTTAAAAAAA
1 -TTAAAAAAA
8849716 ATTTGGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Done.