Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 142 of 205
Found at i:43185099 original size:132 final size:132
Alignment explanation
Indices: 43184862--43185234 Score: 498
Period size: 132 Copynumber: 2.8 Consensus size: 132
43184852 CAGATCGGTG
* * * * * * *
43184862 AAACCACCAGTCTTATCTCCCTT-AGCAGCAGTGGAGTAGGTCAAAAATTATAGATCCTGTCTCC
1 AAACCACCAGTCCTATCT-CCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCC
* * * * * **
43184926 CTAAGCAGTAGTACAACAAATCGAATACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGA
65 CTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGA
43184991 TTT
130 TTT
* *
43184994 AAACCACCACTCCTATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
1 AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
* *
43185059 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
66 TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
43185124 TT
131 TT
* * * * *
43185126 GAACCATCAGTCCTATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTATCTCCC
1 AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
* *
43185191 TAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTA-CTTCCC
66 TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCC
43185235 TGGCGGTCTA
Statistics
Matches: 211, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
131 9 0.04
132 202 0.96
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (132 bp):
AAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
TAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAACAGAT
TT
Found at i:43185226 original size:44 final size:44
Alignment explanation
Indices: 43185015--43185228 Score: 164
Period size: 44 Copynumber: 4.9 Consensus size: 44
43185005 CCTATCTTCT
* * ** * *
43185015 TAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTGTCTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
* *
43185059 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATC-TCCC
* * * * * * * *
43185104 AAAGTAGTAG-GGAAACAGATTTGAA-CCA-TCAGTCCTATCTCCC
1 TAAGCAGTAGTGG-AGCAGA-TCGAAGACAGTGAATCTTATCTCCC
* * * ** *
43185147 TAAACAGTAGTGGAGTAGGTCGAAGATTGTAAATCTTATCTCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
* *
43185191 TAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTA
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTA
43185229 CTTCCCTGGC
Statistics
Matches: 126, Mismatches: 38, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
42 4 0.03
43 14 0.11
44 87 0.69
45 18 0.14
46 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTCCC
Found at i:43185283 original size:50 final size:50
Alignment explanation
Indices: 43185221--43185732 Score: 340
Period size: 50 Copynumber: 10.3 Consensus size: 50
43185211 CGAAGACAGT
* *
43185221 GAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * * *
43185271 GAATCTTGCTTCCCCGACATTGCAATTA-AAAAGATTGAAGCCACAACAGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* *
43185321 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGAC
1 GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
** ** * * * *
43185371 GAATCTTACTT-CCTCAACATTGCAATTGAAAAGATTGAAGCTACAACAGC
1 GAATCTTACTTCCCT-GGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * *
43185421 GAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGC
1 GAATCTTAC-TTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * * * ** * ** *
43185472 TAATATTGCTTCCCCGACATTGCAATTA-AA-AGATTGTGGCCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * *
43185521 GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGC
1 GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * *
43185571 GAATCTTGCTTCCCCGACATTACAATTA-AA-AGATTGAAGCCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGC-AGTAGAACAGATTGAAGCTACAACGGC
* * * ** * * *
43185620 GAATCTTGCTTCCCCGACATTGCAGTTA-AAAAGATTGAAACCACAACGGC
1 GAATCTTACTTCCCTGGCGGTGCAG-TAGAACAGATTGAAGCTACAACGGC
* * * * * *
43185670 GGATCTTACTT-CCTATGCGATGCAGTGGAACAGATTGAAGCTACAACAGT
1 GAATCTTACTTCCCT-GGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
43185720 GAATCTTACTTCC
1 GAATCTTACTTCC
43185733 TCGACATTGC
Statistics
Matches: 349, Mismatches: 99, Indels: 27
0.73 0.21 0.06
Matches are distributed among these distances:
48 3 0.01
49 84 0.24
50 218 0.62
51 43 0.12
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCCCTGGCGGTGCAGTAGAACAGATTGAAGCTACAACGGC
Found at i:43185394 original size:100 final size:99
Alignment explanation
Indices: 43185216--43185633 Score: 595
Period size: 100 Copynumber: 4.2 Consensus size: 99
43185206 CAGATCGAAG
* * * *
43185216 ACAGTGAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCTGGCGGTGC-AGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
43185280 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATT-AAAAGATTGAAGCCACA
* *
43185316 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTACT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* * *
43185381 TCCTCAACATTGCAATTGAAAAGATTGAAGCTACA
66 TCCCCGACATTGCAATT-AAAAGATTGAAGCCACA
* * * * *
43185416 ACAGCGAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGCTAATATTGC
1 ACAGCGAATCTTAC-TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
**
43185481 TTCCCCGACATTGCAATTAAAAGATTGTGGCCACA
65 TTCCCCGACATTGCAATTAAAAGATTGAAGCCACA
* * *
43185516 ACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
1 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
*
43185581 TCCCCGACATTACAATTAAAAGATTGAAGCCACA
66 TCCCCGACATTGCAATTAAAAGATTGAAGCCACA
* *
43185615 ACGGCGAATCTTGCTTCCC
1 ACAGCGAATCTTACTTCCC
43185634 CGACATTGCA
Statistics
Matches: 282, Mismatches: 34, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
99 93 0.33
100 129 0.46
101 60 0.21
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (99 bp):
ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
TCCCCGACATTGCAATTAAAAGATTGAAGCCACA
Found at i:43185655 original size:99 final size:100
Alignment explanation
Indices: 43185216--43185682 Score: 546
Period size: 100 Copynumber: 4.7 Consensus size: 100
43185206 CAGATCGAAG
* * * * * *
43185216 ACAGTGAATCTTACTTCCCTGGCGGT-CTAGTAGAACAGATTGAAGCTATAATGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCCGACGGTGC-AGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
43185280 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * *
43185316 ACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTACT
1 ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* * * *
43185381 TCCTCAACATTGCAATTGAAAAGATTGAAGCTACA
66 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * ** * *
43185416 ACAGCGAATCTTACTTTCTCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGCTAATATTGC
1 ACAGCGAATCTTAC-TTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
**
43185481 TTCCCCGACATTGCAATT-AAAAGATTGTGGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * *
43185516 ACGGCGAATCTTACTT-CCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
1 ACAGCGAATCTTACTTCCCCGA-CGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGC
*
43185580 TTCCCCGACATTACAATT-AAAAGATTGAAGCCACA
65 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * ** ** * * * * *
43185615 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAACCACAACGGCGGATCTTACT
1 ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
43185680 TCC
66 TCC
43185683 TATGCGATGC
Statistics
Matches: 317, Mismatches: 46, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
98 1 0.00
99 123 0.39
100 133 0.42
101 60 0.19
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (100 bp):
ACAGCGAATCTTACTTCCCCGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
TCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
Found at i:43185881 original size:44 final size:45
Alignment explanation
Indices: 43185772--43185884 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
43185762 TAGTAAACCT
* *
43185772 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAACCAATCT
1 TATCT-CCTGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
* * * * *
43185818 TATCTCCTTGAAGTTGCAGTGGAGTAGATT-GAAGT-TACTAGTCC
1 TATCTCC-TGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
43185862 TATCTCTCTGAAGTTGCAGTGGA
1 TATCTC-CTGAAGTTGCAGTGGA
43185885 ACGGATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 26 0.45
45 6 0.10
46 26 0.45
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
TATCTCCTGAAGTTGCAGTGGAGTAGATTAAAAATAAACCAATCC
Found at i:43186129 original size:45 final size:45
Alignment explanation
Indices: 43186068--43186231 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 45
43186058 CATAATAAGT
* * ***
43186068 CTTATCTCCCTAAAGTTGCAGTGAAGCAGACCGAAGATAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
* * *
43186113 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGATACCTCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA--ACAAAC
* * **
43186160 CTTATCACCCTGAAGTTGCAGTGGAGTAGGTTGAAGAT-ACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
*
43186204 CTTATCTCCCTGACGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
43186232 AACTAAAACT
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 28 0.28
45 32 0.32
47 39 0.39
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAAC
Found at i:43188058 original size:12 final size:12
Alignment explanation
Indices: 43188041--43188107 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
43188031 TTTTATACCT
*
43188041 TATATATGTACA
1 TATATATATACA
43188053 TATATATATACA
1 TATATATATACA
* *
43188065 CATATACATACA
1 TATATATATACA
* * **
43188077 TATTTTTATTTA
1 TATATATATACA
*
43188089 TACATATATACA
1 TATATATATACA
*
43188101 TACATAT
1 TATATAT
43188108 TTATTTCTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:43191357 original size:31 final size:33
Alignment explanation
Indices: 43191322--43191392 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 33
43191312 ATTTTTTAAA
*
43191322 CGGGCCTAAATTTTTTCCCAAA-C-CCATATTT
1 CGGGCCTAAATTTTTACCCAAACCTCCATATTT
*
43191353 CGGGCCTATATTTTTACCCAAATCCTTCCATATTT
1 CGGGCCTAAATTTTTACCCAAA-CC-TCCATATTT
43191388 CGGGC
1 CGGGC
43191393 GGGCCATCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 20 0.59
33 1 0.03
35 13 0.38
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.35
Consensus pattern (33 bp):
CGGGCCTAAATTTTTACCCAAACCTCCATATTT
Found at i:43193655 original size:23 final size:23
Alignment explanation
Indices: 43193625--43193672 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
43193615 TTCAAGTGAG
*
43193625 TCGGCCTCCATAACACTACCTTA
1 TCGGCCTCCATAACACCACCTTA
43193648 TCGGCCTCCATAACACCACCTTA
1 TCGGCCTCCATAACACCACCTTA
43193671 TC
1 TC
43193673 CTTCTCCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (23 bp):
TCGGCCTCCATAACACCACCTTA
Found at i:43193771 original size:23 final size:23
Alignment explanation
Indices: 43193741--43193784 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43193731 AAAAATTGAA
*
43193741 TAATTAATGGTTTTATTTATTTT
1 TAATTAATGGTTTTAATTATTTT
43193764 TAATTAATGGTTTTAATTATT
1 TAATTAATGGTTTTAATTATT
43193785 GTCAATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TAATTAATGGTTTTAATTATTTT
Found at i:43193779 original size:13 final size:13
Alignment explanation
Indices: 43193741--43193782 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
43193731 AAAAATTGAA
43193741 TAATTAATGGTTT
1 TAATTAATGGTTT
*
43193754 T-ATTTAT--TTT
1 TAATTAATGGTTT
43193764 TAATTAATGGTTT
1 TAATTAATGGTTT
43193777 TAATTA
1 TAATTA
43193783 TTGTCAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 4 0.17
11 5 0.21
12 5 0.21
13 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (13 bp):
TAATTAATGGTTT
Found at i:43193791 original size:23 final size:23
Alignment explanation
Indices: 43193742--43193791 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
43193732 AAAATTGAAT
* * *
43193742 AATTAATGGTTTTATTTATTTTT
1 AATTAATGGTTTTAATTATTGTC
43193765 AATTAATGGTTTTAATTATTGTC
1 AATTAATGGTTTTAATTATTGTC
43193788 AATT
1 AATT
43193792 TCCAATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (23 bp):
AATTAATGGTTTTAATTATTGTC
Found at i:43193864 original size:38 final size:38
Alignment explanation
Indices: 43193817--43193904 Score: 141
Period size: 33 Copynumber: 2.4 Consensus size: 38
43193807 AGCTTTTAGT
43193817 ATAAATATGTAAGGTAATTGTTCACTTTTATCAAATAA
1 ATAAATATGTAAGGTAATTGTTCACTTTTATCAAATAA
43193855 ATAAATA--T---GTAATTGTTCACTTTTATCAAATAA
1 ATAAATATGTAAGGTAATTGTTCACTTTTATCAAATAA
43193888 ATAAATATGTAAGGTAA
1 ATAAATATGTAAGGTAA
43193905 GATAATAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
33 32 0.71
35 1 0.02
36 1 0.02
38 11 0.24
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (38 bp):
ATAAATATGTAAGGTAATTGTTCACTTTTATCAAATAA
Found at i:43195137 original size:43 final size:43
Alignment explanation
Indices: 43194908--43195155 Score: 220
Period size: 43 Copynumber: 5.8 Consensus size: 43
43194898 GCGCCGCTAA
* *
43194908 CTTTAGCGGCGTTTTAGA--AAAAATGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGCTTT-GACCAAAAACGCCGCTAAAGACCCTGAT
* * *** *
43194950 CTTTAGCGGCGCATCTTG--CACAAACGCCGCTGAAGACTAAGAC
1 CTTTAGCGGCGC-T-TTGACCAAAAACGCCGCTAAAGACCCTGAT
**** *
43194993 CTTTAGCGGCGCTTT-AGTGGAAGCGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTGAT
* ** *
43195035 CTTTCGCGGCGCTTTCCCCTAAAACGCCGC-AATAGACCCTGAT
1 CTTTAGCGGCGCTTTGACCAAAAACGCCGCTAA-AGACCCTGAT
* *
43195078 CTATAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTTAT
1 CTTTAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTGAT
* * *
43195121 CTTTAGCGGCGTTTTGACCAAAAACTCCACTAAAG
1 CTTTAGCGGCGCTTTGACCAAAAACGCCGCTAAAG
43195156 GCCAACACCT
Statistics
Matches: 164, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.01
42 44 0.27
43 114 0.70
44 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTGAT
Found at i:43195168 original size:43 final size:43
Alignment explanation
Indices: 43195081--43195198 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
43195071 CCCTGATCTA
* * *** *
43195081 TAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
* *
43195124 TAGCGGCGTTTTGACCAAAAACTCCACTAAAGGCCAACACCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
* * **
43195167 TAGTGGCGTTTTTTAAGAAAAACGCCACTAAA
1 TAGCGGCG-TTTTGACCAAAAACGCCACTAAA
43195199 TTTGGCAGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
43 42 0.69
44 19 0.31
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
Found at i:43195318 original size:16 final size:17
Alignment explanation
Indices: 43195292--43195342 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
43195282 CAAAAGTAAT
*
43195292 AAATAAATATATTAAAC
1 AAATAAATATAATAAAC
*
43195309 AAAT-AATATAATAAAT
1 AAATAAATATAATAAAC
*
43195325 ATCAATAAATAAAATAAA
1 A--AATAAATATAATAAA
43195343 AATCGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 3 0.11
19 10 0.36
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATATAATAAAC
Found at i:43195333 original size:10 final size:9
Alignment explanation
Indices: 43195289--43195342 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
43195279 AGCCAAAAGT
43195289 AATA-AATA
1 AATATAATA
*
43195297 AATATATTA
1 AATATAATA
*
43195306 AACA-AAT-
1 AATATAATA
43195313 AATATAATA
1 AATATAATA
43195322 AATATCAATA
1 AATAT-AATA
*
43195332 AATAAAATA
1 AATATAATA
43195341 AA
1 AA
43195343 AATCGTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 3 0.08
8 9 0.24
9 17 0.46
10 8 0.22
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (9 bp):
AATATAATA
Found at i:43195531 original size:21 final size:21
Alignment explanation
Indices: 43195505--43195617 Score: 109
Period size: 21 Copynumber: 5.4 Consensus size: 21
43195495 TTTGACGCTG
43195505 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
43195526 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
43195547 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
43195568 CTGTACTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
43195589 CTTTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
43195610 ATCTGCTT
1 CTCTGCTT
43195618 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:43195678 original size:66 final size:66
Alignment explanation
Indices: 43195593--43195753 Score: 200
Period size: 66 Copynumber: 2.4 Consensus size: 66
43195583 TGCCGCCTTT
* *
43195593 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
43195656 TCA
64 TCA
* * * *
43195659 GCTTCTCTCGCTGCTGCATCTTCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
43195724 A
66 A
* * * *
43195725 GCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAG
43195754 TTGTGTAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 76 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:43201242 original size:25 final size:25
Alignment explanation
Indices: 43201211--43201315 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
43201201 TAATATATAT
*
43201211 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
43201236 TTATGTATGT--GTATAAGTTATGTAAG
1 TTATGTAT-TAAGTA-AA-TTATGTAAG
* *
43201262 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
43201287 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
43201312 TTAT
1 TTAT
43201316 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.04
25 43 0.64
26 18 0.27
27 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:43201261 original size:9 final size:9
Alignment explanation
Indices: 43201222--43201472 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
43201212 TATGTATTAA
*
43201222 GTAAATTAT
1 GTAAGTTAT
*
43201231 GTAGGTTAT
1 GTAAGTTAT
*
43201240 GTATGTGTA-
1 GTAAGT-TAT
43201249 -TAAGTTAT
1 GTAAGTTAT
*
43201257 GTAAGTTTT
1 GTAAGTTAT
*
43201266 GT-A-TTAA
1 GTAAGTTAT
**
43201273 GTAAACTAT
1 GTAAGTTAT
*
43201282 GTAAGTTGT
1 GTAAGTTAT
43201291 GT-A-TTAT
1 GTAAGTTAT
*
43201298 GTAACTTAT
1 GTAAGTTAT
43201307 GTAAGTTAT
1 GTAAGTTAT
** *
43201316 CAAAGTAAT
1 GTAAGTTAT
*
43201325 GTATGTTAT
1 GTAAGTTAT
43201334 GTAAG-T-T
1 GTAAGTTAT
43201341 GTAAGTTAT
1 GTAAGTTAT
*
43201350 -TATGTATTAT
1 GTAAG--TTAT
* * *
43201360 ATAACTTCT
1 GTAAGTTAT
43201369 GTAAGTTAT
1 GTAAGTTAT
43201378 GTAAGTTAT
1 GTAAGTTAT
*
43201387 GTAAGTTGT
1 GTAAGTTAT
*
43201396 GTAAGCTAT
1 GTAAGTTAT
* *
43201405 TTTAGTTAT
1 GTAAGTTAT
43201414 GTAAGCTT-T
1 GTAAG-TTAT
43201423 GT-A-TTAT
1 GTAAGTTAT
43201430 GTAAGTTAT
1 GTAAGTTAT
* *
43201439 GTAGGTTAA
1 GTAAGTTAT
*
43201448 GTAAGTTGT
1 GTAAGTTAT
*
43201457 GTAAATTAT
1 GTAAGTTAT
43201466 GTAAGTT
1 GTAAGTT
43201473 CTTGTACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 15 0.08
9 134 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43201274 original size:51 final size:50
Alignment explanation
Indices: 43201214--43201313 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
43201204 TATATATTTA
* * * *
43201214 TGTATTAAGTAAATTATGTAGGTTATGTATGTGTATAAGTTATGTAAGTTT
1 TGTATTAAGTAAACTATGTAAGTTATGTAT-TATATAACTTATGTAAGTTT
* *
43201265 TGTATTAAGTAAACTATGTAAGTTGTGTATTATGTAACTTATGTAAGTT
1 TGTATTAAGTAAACTATGTAAGTTATGTATTATATAACTTATGTAAGTT
43201314 ATCAAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 16 0.37
51 27 0.63
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (50 bp):
TGTATTAAGTAAACTATGTAAGTTATGTATTATATAACTTATGTAAGTTT
Found at i:43201516 original size:16 final size:16
Alignment explanation
Indices: 43201495--43201538 Score: 79
Period size: 16 Copynumber: 2.7 Consensus size: 16
43201485 AATTTTGGTT
43201495 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
43201511 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
43201527 ATGTAAGTATAT
1 ATGTAAG-ATAT
43201539 CAGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
ATGTAAGATATGTATG
Found at i:43201779 original size:100 final size:99
Alignment explanation
Indices: 43201708--43202029 Score: 520
Period size: 100 Copynumber: 3.2 Consensus size: 99
43201698 GTAAGACATC
**
43201708 TAAAATATACTTAAAAATATATATTTAAGTAATGTAATATATAAATTTTGAAAAACGATATTCGA
1 TAAAA-ATA-TTAAAAATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGA
43201773 ACAATATATGTATTAGTAATAAGTTAAATTAAATTG
64 ACAATATATGTATTAGTAATAAGTTAAATTAAATTG
* * *
43201809 TAAAAATATTAACATATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAA
1 TAAAAATATTAA-AAATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAA
43201874 CAATATATGTATTAGTAATAAGTTAAATTAAATTG
65 CAATATATGTATTAGTAATAAGTTAAATTAAATTG
* *
43201909 TAAAAATATT-AACATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAAC
1 TAAAAATATTAAAAATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAAC
*
43201973 AATATATGTATTAGTAATAAGTTAAATTATATTG
66 AATATATGTATTAGTAATAAGTTAAATTAAATTG
*
43202007 TAAAAATATTAACATATATATAT
1 TAAAAATATTAA-AAATATATAT
43202030 ATTTTTTTAA
Statistics
Matches: 207, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
98 92 0.44
99 6 0.03
100 104 0.50
101 5 0.02
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (99 bp):
TAAAAATATTAAAAATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAAC
AATATATGTATTAGTAATAAGTTAAATTAAATTG
Found at i:43201829 original size:98 final size:98
Alignment explanation
Indices: 43201724--43202027 Score: 536
Period size: 98 Copynumber: 3.1 Consensus size: 98
43201714 ATACTTAAAA
**
43201724 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAACGATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
43201789 TAATAAGTTAAATTAAATTGTAAAAATATTAAC
66 TAATAAGTTAAATTAAATTGTAAAAATATTAAC
* *
43201822 ATATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
1 --ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATT
43201887 AGTAATAAGTTAAATTAAATTGTAAAAATATTAAC
64 AGTAATAAGTTAAATTAAATTGTAAAAATATTAAC
*
43201922 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
*
43201987 TAATAAGTTAAATTATATTGTAAAAATATTAAC
66 TAATAAGTTAAATTAAATTGTAAAAATATTAAC
43202020 ATATATAT
1 ATATATAT
43202028 ATATTTTTTT
Statistics
Matches: 196, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
98 102 0.52
100 94 0.48
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (98 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAAC
Found at i:43202461 original size:7 final size:7
Alignment explanation
Indices: 43202436--43202522 Score: 111
Period size: 7 Copynumber: 12.3 Consensus size: 7
43202426 CACTTCATTC
43202436 AACAGAA
1 AACAGAA
*
43202443 AATAGCAA
1 AACAG-AA
43202451 AACAGAA
1 AACAGAA
*
43202458 AACAAAA
1 AACAGAA
*
43202465 AATAGAA
1 AACAGAA
43202472 AACAGAA
1 AACAGAA
43202479 AACAGAA
1 AACAGAA
** *
43202486 TGCAAAA
1 AACAGAA
43202493 AACAGAA
1 AACAGAA
43202500 AACAGAA
1 AACAGAA
43202507 AACAGAA
1 AACAGAA
43202514 AACAGAA
1 AACAGAA
43202521 AA
1 AA
43202523 TAAAGAAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
7 61 0.91
8 6 0.09
ACGTcount: A:0.71, C:0.13, G:0.13, T:0.03
Consensus pattern (7 bp):
AACAGAA
Found at i:43203336 original size:10 final size:10
Alignment explanation
Indices: 43203321--43203345 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43203311 TTCGACATGG
43203321 TTTTGAACAA
1 TTTTGAACAA
43203331 TTTTGAACAA
1 TTTTGAACAA
43203341 TTTTG
1 TTTTG
43203346 CAATTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Found at i:43204133 original size:198 final size:198
Alignment explanation
Indices: 43203793--43204204 Score: 641
Period size: 198 Copynumber: 2.1 Consensus size: 198
43203783 TAATTAACCC
43203793 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* ** * * * *
43203858 TAACTCTAAGTCATTGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
66 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
*
43203923 GGCGTTTACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 GGCGTGTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
43203987 TGT-A
195 T-TAA
* * *
43203991 CTTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCG-TTCCCTGATTAG
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCC-GATCAG
*
43204055 TAAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAATAATTTTG
65 TAAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTG
* *
43204120 CGGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTC
130 CGGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
43204185 TTAA
195 TTAA
*
43204189 AATTGCGGCGTTTATA
1 ATTTGCGGCGTTTATA
43204205 CATAAACGCC
Statistics
Matches: 195, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
197 6 0.03
198 188 0.96
199 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
TAA
Found at i:43204682 original size:47 final size:47
Alignment explanation
Indices: 43204594--43204685 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
43204584 GTTAATTTCG
* **
43204594 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
43204641 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
43204686 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:43204701 original size:18 final size:19
Alignment explanation
Indices: 43204673--43204721 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
43204663 AAAAATAAAA
43204673 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
43204692 TTTTTA-TTTTTTATTTTC
1 ATTTTATTTTTTTATTTTC
43204710 ATTTTATTTTTT
1 ATTTTATTTTTT
43204722 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 10 0.38
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:43204703 original size:17 final size:18
Alignment explanation
Indices: 43204681--43204721 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
43204671 AAATTTTAGT
*
43204681 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
43204698 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
43204716 TTTTTT
1 TTTTTT
43204722 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:43204787 original size:16 final size:14
Alignment explanation
Indices: 43204758--43204784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43204748 TTTACAATTC
43204758 CAAATTATTATATT
1 CAAATTATTATATT
43204772 CAAATTATTATAT
1 CAAATTATTATAT
43204785 ATTGCATATC
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:43204938 original size:7 final size:7
Alignment explanation
Indices: 43204919--43204954 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
43204909 CCCGACTCCA
*
43204919 AACCCAT
1 AACCCCT
43204926 AA-CCCT
1 AACCCCT
43204932 AACCCCT
1 AACCCCT
43204939 AACCCCT
1 AACCCCT
43204946 AACCCCT
1 AACCCCT
43204953 AA
1 AA
43204955 ACTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCCT
Found at i:43205045 original size:21 final size:20
Alignment explanation
Indices: 43204993--43205113 Score: 93
Period size: 21 Copynumber: 5.9 Consensus size: 20
43204983 ACTAATTAAT
* * *
43204993 CTAAACCTTAAACCATAACC
1 CTAACCCTTAACCCCTAACC
*
43205013 C-AATCCTTAACCCCTAACC
1 CTAACCCTTAACCCCTAACC
*
43205032 TCTAA-CCTCTAACCACTAACC
1 -CTAACCCT-TAACCCCTAACC
* *
43205053 CTTAACCCTTAATCCTTAACC
1 C-TAACCCTTAACCCCTAACC
* *
43205074 CTAAACCCTTAACCCATGACC
1 CT-AACCCTTAACCCCTAACC
*
43205095 TCTAACCCCTAACCCCTAA
1 -CTAACCCTTAACCCCTAA
43205114 AACTTATTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.19
20 7 0.09
21 54 0.67
22 5 0.06
ACGTcount: A:0.34, C:0.42, G:0.01, T:0.23
Consensus pattern (20 bp):
CTAACCCTTAACCCCTAACC
Found at i:43205106 original size:7 final size:7
Alignment explanation
Indices: 43205020--43205113 Score: 73
Period size: 7 Copynumber: 13.4 Consensus size: 7
43205010 ACCCAATCCT
43205020 TAACCCC
1 TAACCCC
*
43205027 TAACCTC
1 TAACCCC
*
43205034 TAACCTC
1 TAACCCC
*
43205041 TAACCAC
1 TAACCCC
*
43205048 TAACCCT
1 TAACCCC
*
43205055 TAACCCT
1 TAACCCC
* *
43205062 TAATCCT
1 TAACCCC
43205069 TAA-CCC
1 TAACCCC
*
43205075 TAAACCCT
1 T-AACCCC
*
43205083 TAACCCA
1 TAACCCC
* *
43205090 TGACCTC
1 TAACCCC
43205097 TAACCCC
1 TAACCCC
43205104 TAACCCC
1 TAACCCC
43205111 TAA
1 TAA
43205114 AACTTATTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
6 3 0.04
7 66 0.92
8 3 0.04
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:43205179 original size:7 final size:7
Alignment explanation
Indices: 43205169--43205222 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
43205159 GAAACTCTAA
43205169 CCTAACC
1 CCTAACC
43205176 CCTAACC
1 CCTAACC
*
43205183 CATAACC
1 CCTAACC
43205190 CCTAACC
1 CCTAACC
43205197 CCTAACC
1 CCTAACC
*
43205204 CATAACC
1 CCTAACC
43205211 CCTAACC
1 CCTAACC
43205218 CCTAA
1 CCTAA
43205223 TCCATAAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAACC
Found at i:43205190 original size:14 final size:14
Alignment explanation
Indices: 43205171--43205229 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
43205161 AACTCTAACC
43205171 TAACCCCTAACCCA
1 TAACCCCTAACCCA
*
43205185 TAACCCCTAACCCC
1 TAACCCCTAACCCA
* *
43205199 TAACCCATAACCCC
1 TAACCCCTAACCCA
*
43205213 TAACCCCTAATCCA
1 TAACCCCTAACCCA
43205227 TAA
1 TAA
43205230 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (14 bp):
TAACCCCTAACCCA
Found at i:43205194 original size:21 final size:21
Alignment explanation
Indices: 43205169--43205229 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
43205159 GAAACTCTAA
43205169 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
43205190 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
43205211 CCTAACCCCTAATCCATAA
1 CCTAACCCCTAACCCATAA
43205230 ACCTTAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAACCCCTAACCCATAACC
Found at i:43205202 original size:158 final size:158
Alignment explanation
Indices: 43204918--43205225 Score: 401
Period size: 158 Copynumber: 1.9 Consensus size: 158
43204908 ACCCGACTCC
43204918 AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
1 AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
* * * * * *
43204983 ACTAATTAATCTAAACCTTAAACCATAACCCAATCCTTAACCCCTAACCTCTAACCTCTAA-CCA
66 ACTAATTAATCTAAACCTGAAACCATAACCCAACCCCTAACCCATAACCCCTAACCCCTAACCCA
* *
43205047 CTAACCCTTAACCCTTAATCCTTAACCCT
131 -TAACCCCTAACCCCTAATCCTTAACCCT
* * * ** *
43205076 AAACCCTTAACCCATGACCTCTAACCCCTAACCCCTAAAAC-TTATTTAATATAT-ACTTAAAAC
1 AAACCCATAACCC-TAACCCCTAACCCCTAACCCCT-AAACTTTATTTAATATATAAAATAAAAA
*
43205139 ACACTAATTAATCTAAA-CTCGAAACTC-TAACCTAACCCCTAACCCATAACCCCTAACCCCTAA
64 ACACTAATTAATCTAAACCT-GAAAC-CATAACCCAACCCCTAACCCATAACCCCTAACCCCTAA
43205202 CCCATAACCCCTAACCCCTAATCC
127 CCCATAACCCCTAACCCCTAATCC
43205226 ATAAACCTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
157 2 0.02
158 87 0.67
159 37 0.28
160 4 0.03
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (158 bp):
AAACCCATAACCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAAATAAAAAAC
ACTAATTAATCTAAACCTGAAACCATAACCCAACCCCTAACCCATAACCCCTAACCCCTAACCCA
TAACCCCTAACCCCTAATCCTTAACCCT
Found at i:43205843 original size:74 final size:75
Alignment explanation
Indices: 43205764--43205903 Score: 196
Period size: 74 Copynumber: 1.9 Consensus size: 75
43205754 GTTTTTTTAA
* * **
43205764 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAA-G-ATGTTTGCG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTAT-TTTGCG
43205826 GCGTTTTATCGT
64 GCGTTTTATCGT
*
43205838 AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTATTTTGCGGC
43205903 G
66 G
43205904 AATAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
73 1 0.02
74 45 0.78
75 10 0.17
76 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTCGTTAAGGTATTTTGCGGC
GTTTTATCGT
Found at i:43205955 original size:188 final size:188
Alignment explanation
Indices: 43205638--43206032 Score: 619
Period size: 188 Copynumber: 2.1 Consensus size: 188
43205628 TTCTTTAGCA
*
43205638 GCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
** ** * *
43205703 GCATTTTGCGCCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGTGTTTTTTTAAAAAC
66 GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
* * * *
43205768 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATGTTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
43205826 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
* * *
43205891 GTATTTTGCGGCGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
66 GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
*
43205956 GCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
43206014 GCGCTTTACCGAAAACGCC
1 GCGTTTTACCGTAAACGCC
43206033 GCGAATACTA
Statistics
Matches: 187, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (188 bp):
GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
GCATTTTGCGCCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
Found at i:43206240 original size:114 final size:115
Alignment explanation
Indices: 43205838--43206416 Score: 422
Period size: 114 Copynumber: 5.1 Consensus size: 115
43205828 GTTTTATCGT
* * *
43205838 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAGGTATTTTGCGG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* ** * *
43205902 CGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
66 CGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * * *
43205952 AAACGCCACTAATA-CTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATA-TTTGCGG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* * * * * * *
43206015 CGCTTTACC-GA-AAACGCCGCGAA-TACTATTCTTCTGCGGCG-TTTTATAGA
66 CGC-AT-CCAAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTATA-A
* * * * *
43206065 AAACGCCAC-AATGTCTAATATACAACT-GA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
1 AAACGCCACTAATATCTAATATAC--CTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGC
*
43206127 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTAA
64 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCG-TTTTTATAA
* ** ** * *
43206180 AAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATA-TTTGCAG
1 AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
* ***** * * * *
43206243 CGCTTTTTGTTAACCGCCGCTAA-TACTATTC-TTTAGCGGTGTTTTTATAAA
66 CGCATCCAAATAAACGCCACTAATTA-TGTTCTTTTA-CGGCGTTTTTAT-AA
* * ** * *
43206294 AAACGCCACAAAT-TCTAATATACAATTGA-ACC-AACGCTGCGTTTTGGTTAA-AGTATTTTGC
1 AAACGCCACTAATATCTAATATAC-CTCAAGACCAAACACTGCGTTTTCGTTAAGA-TATTTTGC
* * * * * * *
43206355 AGCGCTTAC-AATAAATGCCACTAATTATGTTCTTTTACTGCGTTTTTTTAG
64 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
43206406 AAACGCCACTA
1 AAACGCCACTA
43206417 GTTCTTCAGG
Statistics
Matches: 359, Mismatches: 80, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
112 25 0.07
113 127 0.35
114 153 0.43
115 44 0.12
116 10 0.03
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (115 bp):
AAACGCCACTAATATCTAATATACCTCAAGACCAAACACTGCGTTTTCGTTAAGATATTTTGCGG
CGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
Found at i:43206332 original size:228 final size:226
Alignment explanation
Indices: 43205822--43206416 Score: 804
Period size: 227 Copynumber: 2.6 Consensus size: 226
43205812 TTAAGATGTT
*** * ** *
43205822 TGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACACTGCGTTTTGG
1 TGCGGCGTTTTATAAAAAACGCCAC-AATTCTAATATACAAT-TGAACCAAACGCTGCGTTTTGG
* * *
43205886 TTAAGGTATTTTGCGGCGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTA
64 TTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTA
* *
43205951 AAAACGCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCGGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGC
43206016 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
194 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
* *
43206049 TGCGGCGTTTTATAGAAAACGCCACAATGTCTAATATACAACTGAACCAAACGCTGCGTTTTGGT
1 TGCGGCGTTTTATAAAAAACGCCACAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTTGGT
* *
43206114 TAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTA
65 TAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCG-TTTTTTTA
* * * *
43206179 AAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCAGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGC
** * * *
43206244 GCTTT-TTGTTAACCGCCGCTAATACTATTCTT-
194 GCTTTACCG-AAAACGCCGCGAATACTATTCTTC
*
43206276 TAGCGGTGTTTTTATAAAAAACGCCACAAATTCTAATATACAATTGAACC-AACGCTGCGTTTTG
1 T-GCGGCG-TTTTATAAAAAACGCCAC-AATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
* * * *
43206340 GTTAAAGTATTTTGCAGCGCTTAC-AATAAATGCCACTAATTATGTTCTTTTACTGCGTTTTTTT
63 GTTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
*
43206404 AGAAACGCCACTA
128 AAAAACGCCACTA
43206417 GTTCTTCAGG
Statistics
Matches: 328, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
226 22 0.07
227 138 0.42
228 130 0.40
229 35 0.11
230 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (226 bp):
TGCGGCGTTTTATAAAAAACGCCACAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTT
AAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAA
AACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCAGCGC
TTTACCGAAAACGCCGCGAATACTATTCTTC
Found at i:43211616 original size:16 final size:16
Alignment explanation
Indices: 43211592--43211645 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
43211582 TTTGGTTCGC
* *
43211592 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
43211608 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
43211624 TGTAATGGAATAGAAG
1 TGTAATGGAATAGAGG
43211640 TGTAAT
1 TGTAAT
43211646 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:43211690 original size:45 final size:44
Alignment explanation
Indices: 43211624--43211714 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
43211614 GGAATAGAGG
*
43211624 TGTAATGGAATAGAAGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
43211669 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
43211713 TG
1 TG
43211715 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:43213589 original size:20 final size:20
Alignment explanation
Indices: 43213566--43213604 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43213556 CATTGAGATT
43213566 TCGAAACATCTTGCATCAGG
1 TCGAAACATCTTGCATCAGG
43213586 TCGAAACATCTTGCATCAG
1 TCGAAACATCTTGCATCAG
43213605 AACCAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGAAACATCTTGCATCAGG
Found at i:43221838 original size:25 final size:25
Alignment explanation
Indices: 43221818--43221868 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
43221808 CATAAAAATC
43221818 TAAAAAAA-TGTAATATTTAAAAAAA
1 TAAAAAAATTGTAAT-TTTAAAAAAA
*
43221843 TAAAAAAATTGTACTTTTAAAAAAA
1 TAAAAAAATTGTAATTTTAAAAAAA
43221868 T
1 T
43221869 TATGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAAAATTGTAATTTTAAAAAAA
Found at i:43222317 original size:25 final size:24
Alignment explanation
Indices: 43222289--43222336 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
43222279 ATTTTGGATT
* *
43222289 TTTTATATTTTTAAAATGGTTTTTA
1 TTTTATAATTTT-AAATAGTTTTTA
*
43222314 TTTTTTAATTTTAAATAGTTTTT
1 TTTTATAATTTTAAATAGTTTTT
43222337 TACTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTATAATTTTAAATAGTTTTTA
Found at i:43222337 original size:25 final size:26
Alignment explanation
Indices: 43222286--43222346 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
43222276 TGAATTTTGG
43222286 ATTTTTTATATTTTTAAAATGGTTTTT
1 ATTTTTTA-ATTTTTAAAATGGTTTTT
*
43222313 ATTTTTTAA-TTTT-AAATAGTTTTTT
1 ATTTTTTAATTTTTAAAAT-GGTTTTT
*
43222338 ACTTTTTAA
1 ATTTTTTAA
43222347 AAAACTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 4 0.13
25 18 0.58
26 1 0.03
27 8 0.26
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATTTTTAAAATGGTTTTT
Found at i:43222582 original size:8 final size:8
Alignment explanation
Indices: 43222569--43222600 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
43222559 TTGAAATAGC
43222569 TTTTTTAA
1 TTTTTTAA
43222577 TTTTTTAA
1 TTTTTTAA
43222585 -TTTTTAA
1 TTTTTTAA
43222592 TTTTTTAA
1 TTTTTTAA
43222600 T
1 T
43222601 AATTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAA
Found at i:43222590 original size:15 final size:15
Alignment explanation
Indices: 43222570--43222600 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43222560 TGAAATAGCT
43222570 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
43222585 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
43222600 T
1 T
43222601 AATTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:43222606 original size:15 final size:15
Alignment explanation
Indices: 43222573--43222609 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
43222563 AATAGCTTTT
**
43222573 TTAATTTTTTAATTT
1 TTAATTTTTTAATAA
43222588 TTAATTTTTTAATAA
1 TTAATTTTTTAATAA
43222603 TTAATTT
1 TTAATTT
43222610 ACTTTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTTAATAA
Found at i:43228651 original size:13 final size:13
Alignment explanation
Indices: 43228633--43228658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43228623 GAACCTGTTT
43228633 GAACAACTTATAC
1 GAACAACTTATAC
43228646 GAACAACTTATAC
1 GAACAACTTATAC
43228659 CGAGATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
GAACAACTTATAC
Found at i:43230893 original size:76 final size:76
Alignment explanation
Indices: 43230808--43230960 Score: 252
Period size: 76 Copynumber: 2.0 Consensus size: 76
43230798 ACAAGTTGTC
* * * *
43230808 AATTATATATATTTGATAGCTATGAATATAATTGATTATATGTCATATTATTATGAGTCGGTTAT
1 AATTATATATATTTGATAGCTATAAATATAATTGATTATATGTCATATTATAATGACTCGATTAT
43230873 AACAAATTAAA
66 AACAAATTAAA
43230884 AATTATATATATTTGATAGCTATAAATATAATTGATTATATGTCATATTATAATGACTCGATTAT
1 AATTATATATATTTGATAGCTATAAATATAATTGATTATATGTCATATTATAATGACTCGATTAT
**
43230949 AATTAATTAAA
66 AACAAATTAAA
43230960 A
1 A
43230961 GCTCGCAACT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (76 bp):
AATTATATATATTTGATAGCTATAAATATAATTGATTATATGTCATATTATAATGACTCGATTAT
AACAAATTAAA
Found at i:43247785 original size:21 final size:21
Alignment explanation
Indices: 43247756--43247812 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
43247746 ATTTTCGAGG
43247756 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
43247777 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
43247798 ATATACAATCTTAGA
1 ATATACAATCTTAGA
43247813 AGATAAGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:43252528 original size:24 final size:24
Alignment explanation
Indices: 43252501--43252546 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
43252491 AGAACAATCC
* *
43252501 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
43252525 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
43252547 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:43256343 original size:44 final size:44
Alignment explanation
Indices: 43256295--43256621 Score: 125
Period size: 44 Copynumber: 7.4 Consensus size: 44
43256285 GAGTAGGCTG
*
43256295 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* * * **
43256339 AAGA-TGAAAAATCTTATCTTTCC-AAG-A-TAGTGAGAAGAAGATTT
1 AAGATTG-TAAATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGATCA
*** ** * * * * * * *
43256383 AAGACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-GCTG
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-A
* *
43256427 AAGATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* * **
43256471 AAGA-TGACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTG-TAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCA
*** ** * * * * * * *
43256515 AAGACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-CCTG
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-A
* * *
43256559 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGTAGCCGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* *
43256603 AAGATGGCAAATCTTATCT
1 AAGATTGTAAATCTTATCT
43256622 TTCCAAGATA
Statistics
Matches: 191, Mismatches: 72, Indels: 40
0.63 0.24 0.13
Matches are distributed among these distances:
42 9 0.05
43 15 0.08
44 150 0.79
45 12 0.06
46 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
Found at i:43256491 original size:132 final size:132
Alignment explanation
Indices: 43256254--43256909 Score: 1060
Period size: 132 Copynumber: 5.0 Consensus size: 132
43256244 AACCGGTGAA
* *
43256254 ACACTAAGCCTTGTCTCCCTGAGTACCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
1 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
* * *
43256319 AGCAGTAGTGGAGCAGATCAAAGATGAAAAATCTTATCTTTCCAAGATAGTGAGAAGAAGATTTA
66 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
43256384 AG
131 AG
*
43256386 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCTTA
1 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
43256451 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
43256516 AG
131 AG
*
43256518 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGCCTGAAGATTGTAGATCTTATCTCCCTA
1 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
* * * *
43256583 AGCAGTAGTGTAGCCGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAACCAGATTTA
66 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
43256648 AG
131 AG
* * * * * * * **
43256650 CCACCAAGCATTGTCTCCCTGAGCAGCAACGGAATAGGTTGAAAATTGTAGATCTTATCTCTTTA
1 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
* *
43256715 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
43256780 AG
131 AG
* * * *
43256782 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
1 ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
* *
43256847 AGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
66 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
43256910 AAAGCCAATA
Statistics
Matches: 491, Mismatches: 33, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 491 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
ACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
AG
Found at i:43257019 original size:40 final size:40
Alignment explanation
Indices: 43256967--43257107 Score: 149
Period size: 40 Copynumber: 3.4 Consensus size: 40
43256957 ACTTTGGATT
*
43256967 TTATCTCTCTGAAGTTGTAGAGAGCAAATCGCATCTAGTC
1 TTATCTCCCTGAAGTTGTAGAGAGCAAATCGCATCTAGTC
* * * * * * * *
43257007 TTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTG
1 TTATCTCCCTGAAGTTGTAG-AGAGCA-AAT-CG-CATCTAGTC
43257051 TTATC-CTCCTGAAGTTGTAGAGAGCAAATCGCATCTAGTC
1 TTATCTC-CCTGAAGTTGTAGAGAGCAAATCGCATCTAGTC
43257091 TTATCTCCCTGAAGTTG
1 TTATCTCCCTGAAGTTG
43257108 CAGTGGAGCA
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
40 38 0.49
41 7 0.09
42 4 0.05
43 7 0.09
44 22 0.28
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
TTATCTCCCTGAAGTTGTAGAGAGCAAATCGCATCTAGTC
Found at i:43257020 original size:84 final size:83
Alignment explanation
Indices: 43256924--43257151 Score: 318
Period size: 84 Copynumber: 2.7 Consensus size: 83
43256914 CCAATAATCC
* * ** *
43256924 TATCTCCCTGAAGTTACAGTGGAGCAGATTAA-AA-CTTTGGATTTTAT-CTCTCTGAAGTTGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--AAG-TGTTATCCTC-CTGAAGTTGTA
43256986 GAGAGCAAATCGCATCTAGTCT
62 GAGAGCAAATCGCATCTAGTCT
*
43257008 TATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTGTTATCCTCCTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTGTTATCCTCCTGAAGTTGTAGAG
43257073 AGCAAATCGCATCTAGTCT
65 AGCAAATCGCATCTAGTCT
*
43257092 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTGTTATCCTCCTGAAGTTG
43257152 CAGTGAGGCA
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
84 125 0.95
85 4 0.03
86 2 0.02
87 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTGTTATCCTCCTGAAGTTGTAGAGA
GCAAATCGCATCTAGTCT
Found at i:43257062 original size:44 final size:41
Alignment explanation
Indices: 43257003--43257601 Score: 245
Period size: 44 Copynumber: 13.9 Consensus size: 41
43256993 AATCGCATCT
43257003 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* * * * * * * *
43257047 AGTGTTATCCTCCTGAAGTTGTAGAGAGCA-AAT-CGCATCT
1 AGTCTTAT-CTCCTGAAGTTGCAGGGAGCAGACTAAGAAGCA
43257087 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* *
43257131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTCA
1 AGTCTTAT-CTCCTGAAGTTGCAGGGA-GCAGACT-AAGAAG-CA
* *
43257176 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTA-AAGTCGA
1 AGTCTTATCTCC-TGAAGTTGCAG-GGAGCAGACTAAGAAG-C-A
* * * * * * * *
43257219 TAATCCTATCTTCTTGAAGTTGCAGTTGAGCGGATTAA-AACCTT
1 -AGTCTTATC-TCCTGAAGTTGCAG-GGAGCAGACTAAGAAGC-A
* * * * * *
43257263 GGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-T-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGGGAGCAGACTAAGAAGCA
* *
43257304 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAGCAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* * * *
43257348 AGTCTTATCCTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGGGA-GCAGACT-AAGA-AGCA
* * * *
43257393 AATCTTATCTCCCTGACGTTGTAGTGGAGCAGA-TTAG-AGTCGA
1 AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACTAAGAAG-C-A
* * * * *
43257436 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TCAA-AACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACT-AAGAAGC-A
* * * * * *
43257480 GGATCTTATCTCTCTGAAGTTGCAGAGAACAGA-T-CG-CGTCT
1 AG-TCTTATCTC-CTGAAGTTGCAGGGAGCAGACTAAGAAG-CA
* *
43257521 AGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCT-CCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
*
43257565 AGTCTTATCCTCCTGAAGTTGCAGTGAGACAGACTAA
1 AGTCTTAT-CTCCTGAAGTTGCAGGGAG-CAGACTAA
43257602 ATAAACAAAT
Statistics
Matches: 425, Mismatches: 83, Indels: 94
0.71 0.14 0.16
Matches are distributed among these distances:
39 2 0.00
40 60 0.14
41 25 0.06
42 15 0.04
43 35 0.08
44 212 0.50
45 72 0.17
46 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
AGTCTTATCTCCTGAAGTTGCAGGGAGCAGACTAAGAAGCA
Found at i:43257397 original size:217 final size:217
Alignment explanation
Indices: 43257051--43257599 Score: 893
Period size: 217 Copynumber: 2.5 Consensus size: 217
43257041 TAAGCAAGTG
* *
43257051 TTATC-CTCCTGAAGTTGTAGAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCT-CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
*
43257115 GCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTCAAATC
65 GCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATC
* * *
43257180 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTTCTTGAAGTTGCAGT
130 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGT
* *
43257245 TGAGCGGATTAAAACCTTGGATC
195 GGAGCGGATCAAAACCTTGGATC
43257268 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
43257333 TAGACTCAGCAAGCAAGTCTTATCCTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGCAAATCT
66 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCT
* * *
43257398 TATCTCCCTGACGTTGTAGTGGAGCAGATTAGAGTCGATAATCCTATCTCCCTGAAGTTGCAGTG
131 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTG
43257463 GAGCGGATCAAAACCTTGGATC
196 GAGCGGATCAAAACCTTGGATC
* * *
43257485 TTATCTCTCTGAAGTTGCAGAGAACAGATCGCGTCTAGTCTTATCTCCCTGAAGTTTCAGTGGAG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
43257550 CAGACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGACAGACT
66 CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
43257600 AAATAAACAA
Statistics
Matches: 305, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
217 303 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (217 bp):
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCT
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATCAAAACCTTGGATC
Found at i:43257571 original size:84 final size:85
Alignment explanation
Indices: 43256967--43257599 Score: 354
Period size: 84 Copynumber: 7.4 Consensus size: 85
43256957 ACTTTGGATT
* * * *
43256967 TTATCTCTCTGAAGTTGTAGAGAGCA-AATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGA
1 TTATCTCTCTGAAGTTGCAGAGAGCAGACTCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
*
43257031 GCAGACTAAGTAAGCAAGTG
66 GCAGACTAAGTAAGCAAGTC
* * *
43257051 TTATC-CTCCTGAAGTTGTAGAGAGCA-AATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
1 TTATCTCT-CTGAAGTTGCAGAGAGCAGACTCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGG
43257114 AGCAGACTAAGTAAGCAAGTC
65 AGCAGACTAAGTAAGCAAGTC
* * * * * *
43257135 TTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTCAAATCTTATCTCCTTGAAGTTGCA
1 TTATCTCT-CTGAAGTTGCAGAGA-GCAGACT--CG-CGTCTAGTCTTATCTCCCTGAAGTTGCA
* * *
43257199 GTGGAGCAGATTAAAGT-CG-ATAATC
61 GTGGAGCAGACT-AAGTAAGCA-AGTC
* * * * ** * * *
43257224 CTATCT-TCTTGAAGTTGCAGTTGAGCGGATTAAAACCT-TGGATCTTATCTCTCTGAAGTTGCA
1 TTATCTCTC-TGAAGTTGCAG-AGAGCAGACT--CGCGTCTAG-TCTTATCTCCCTGAAGTTGCA
* * * * *
43257287 G-AGAGCAGA-T-CG-CATCTAGTC
61 GTGGAGCAGACTAAGTAAGCAAGTC
* * * * *
43257308 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAGCAAG-CAAGTCTTATC-CTCCTGAAGTTGTA
1 TTATCTCTCTGAAGTTGCAG-AGAGCAGACTC-GC--GTCTAGTCTTATCTC-CCTGAAGTTGCA
* * *
43257371 GT-GAGGTAGACTGAAG-ATGGCAAATC
61 GTGGA-GCAGACT-AAGTA-AGCAAGTC
* * * * * * * * *
43257397 TTATCTCCCTGACGTTGTAGTGGAGCAGATTAGAGTCGATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCTCTGAAGTTGCAG-AGAGCAGACTCGCGTC--TAGTCTTATCTCCCTGAAGTTGCAGT
* * **
43257462 GGAGCGGA-TCAA--AACCTTGGATC
63 GGAGCAGACT-AAGTAAGC-AAG-TC
* *
43257485 TTATCTCTCTGAAGTTGCAGAGAACAGA-TCGCGTCTAGTCTTATCTCCCTGAAGTTTCAGTGGA
1 TTATCTCTCTGAAGTTGCAGAGAGCAGACTCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
*
43257549 GCAGACTAAGTAAACAAGTC
66 GCAGACTAAGTAAGCAAGTC
*
43257569 TTATC-CTCCTGAAGTTGCAGTGAGACAGACT
1 TTATCTCT-CTGAAGTTGCAGAGAG-CAGACT
43257600 AAATAAACAA
Statistics
Matches: 424, Mismatches: 86, Indels: 76
0.72 0.15 0.13
Matches are distributed among these distances:
83 6 0.01
84 200 0.47
85 15 0.04
86 15 0.04
87 15 0.04
88 48 0.11
89 115 0.27
90 10 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (85 bp):
TTATCTCTCTGAAGTTGCAGAGAGCAGACTCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
GCAGACTAAGTAAGCAAGTC
Found at i:43257780 original size:44 final size:43
Alignment explanation
Indices: 43257694--43257780 Score: 97
Period size: 44 Copynumber: 2.0 Consensus size: 43
43257684 TTAAAAGTTA
* * * *
43257694 CGAGTCACCAATCCTATCTCTCTGATGTTGCGGTGGAGTGGAT
1 CGAGACACCAATCCTATCTCTCTGAAGGTGCAGTGGAGTGGAT
43257737 CGAGACACCAATTCCTATAC-CTCTGAAGGTGCAGTAGGA-TGGAT
1 CGAGACACCAA-TCCTAT-CTCTCTGAAGGTGCAGT-GGAGTGGAT
43257781 GTGGCTGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
43 10 0.27
44 23 0.62
45 4 0.11
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (43 bp):
CGAGACACCAATCCTATCTCTCTGAAGGTGCAGTGGAGTGGAT
Found at i:43257969 original size:19 final size:19
Alignment explanation
Indices: 43257945--43257985 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
43257935 AATCTTCAAG
*
43257945 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43257964 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43257983 GAT
1 GAT
43257986 NCTTACTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43261768 original size:50 final size:49
Alignment explanation
Indices: 43261708--43261820 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
43261698 AAAGCCTGAG
* * * *
43261708 GTCTCGAGACAATGATCCTTTAAAGCAAACCTTAGCTTTGCTGTTGGCTA
1 GTCTCGAGACAAGGATCCCTTAAAGC-AACCTTAGCTTTGATGTAGGCTA
* * ** * *
43261758 GTCTCGAGACAAGGTTCCCTTGAAGCAATTTTAGCTTTGATGTAGGTTT
1 GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTGATGTAGGCTA
43261807 GTCTCGAGACAAGG
1 GTCTCGAGACAAGG
43261821 TTGGGAACCT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
49 31 0.58
50 22 0.42
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (49 bp):
GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTGATGTAGGCTA
Found at i:43269938 original size:13 final size:13
Alignment explanation
Indices: 43269920--43269944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43269910 ATGTCCATTT
43269920 CAGATACAAATAA
1 CAGATACAAATAA
43269933 CAGATACAAATA
1 CAGATACAAATA
43269945 TGCAGATCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
CAGATACAAATAA
Found at i:43273110 original size:18 final size:18
Alignment explanation
Indices: 43273087--43273122 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43273077 CGAAAAATAC
43273087 AGAAAAAATATGAAAAAA
1 AGAAAAAATATGAAAAAA
*
43273105 AGAAAAAATATTAAAAAA
1 AGAAAAAATATGAAAAAA
43273123 TTATGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AGAAAAAATATGAAAAAA
Found at i:43278340 original size:20 final size:20
Alignment explanation
Indices: 43278315--43278352 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43278305 GTCTATTTAT
43278315 TTATTT-TTATATTGTTATTA
1 TTATTTGTTATA-TGTTATTA
43278335 TTATTTGTTATATGTTAT
1 TTATTTGTTATATGTTAT
43278353 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TTATTTGTTATATGTTATTA
Found at i:43284369 original size:21 final size:21
Alignment explanation
Indices: 43284345--43284384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43284335 CCCTAAGTCA
*
43284345 TAAAACATAAACCTTAACCTT
1 TAAAACATAAACCCTAACCTT
* *
43284366 TAAACCTTAAACCCTAACC
1 TAAAACATAAACCCTAACC
43284385 CCTAACCCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACATAAACCCTAACCTT
Found at i:43284469 original size:14 final size:14
Alignment explanation
Indices: 43284450--43284503 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
43284440 AATAGTAACT
*
43284450 CCTAAACTTTAAAC
1 CCTAAACTATAAAC
*
43284464 CCTAAACTATATAC
1 CCTAAACTATAAAC
43284478 CCTAAA-TCATAAAC
1 CCTAAACT-ATAAAC
*
43284492 CTTAAACTATAA
1 CCTAAACTATAA
43284504 TGATAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 32 0.94
15 1 0.03
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:43284870 original size:40 final size:40
Alignment explanation
Indices: 43284820--43284988 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 40
43284810 CATTTTTGGT
* *
43284820 AAAGCACCGCTAAAGCTCGATCTATAGTGGCGTTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
*
43284860 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
* * * * *
43284900 AAATCGCCGCTAATGCTTGATCTATAGCAGCATTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
* * * *
43284940 AAATCG-CGCT--A-CTCGATTTATAGTGGCGTTTTTCGA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
43284976 AAAGCGCCGCTAA
1 AAAGCGCCGCTAA
43284989 TGCTACTAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
36 24 0.22
37 4 0.04
39 4 0.04
40 79 0.71
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
Found at i:43284985 original size:76 final size:79
Alignment explanation
Indices: 43284820--43284992 Score: 217
Period size: 76 Copynumber: 2.2 Consensus size: 79
43284810 CATTTTTGGT
* * ** *
43284820 AAAGCACCGCTAAAGCTCGATCTATAGTGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTAT
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAA-GCTCGATCTAT
43284885 AGCGGCGTTTTTCAA
65 AGCGGCGTTTTTCAA
* * * *
43284900 AAATCGCCGCTAATGCTTGATCTATAGCAGCATTTTTCAAAAATCG-CGCT-A-CTCGATTTATA
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAAGCTCGATCTATA
* *
43284962 GTGGCGTTTTTCGA
66 GCGGCGTTTTTCAA
43284976 AAAGCGCCGCTAATGCT
1 AAAGCGCCGCTAATGCT
43284993 ACTAAAGCTC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
76 38 0.47
78 1 0.01
79 4 0.05
80 38 0.47
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (79 bp):
AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAAGCTCGATCTATA
GCGGCGTTTTTCAA
Found at i:43285143 original size:40 final size:40
Alignment explanation
Indices: 43285045--43285165 Score: 156
Period size: 39 Copynumber: 3.1 Consensus size: 40
43285035 TTGCAGCATA
* * *
43285045 TTTCAAGAAGCGCCGCTAATGGTCGACCTATAGCGGCGTT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
* *
43285085 TTT-AAAAAGCGCTGCTAATGATCGATCTATAGCGGTGTT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
* * *
43285124 TTTCAAAAAGCGCCGCTAATGCT-TATCTATAGCGGCATT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
43285163 TTT
1 TTT
43285166 TATCCAAACG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 50 0.71
40 20 0.29
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (40 bp):
TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
Found at i:43286133 original size:19 final size:19
Alignment explanation
Indices: 43286111--43286147 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43286101 CCAATGTCCT
43286111 CCACCGTAATCAAATTTGC
1 CCACCGTAATCAAATTTGC
*
43286130 CCACGGTAATCAAATTTG
1 CCACCGTAATCAAATTTG
43286148 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGC
Found at i:43296108 original size:108 final size:108
Alignment explanation
Indices: 43295870--43296493 Score: 977
Period size: 108 Copynumber: 5.8 Consensus size: 108
43295860 AATTTGGCTA
* * * *
43295870 AACGTGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
43295935 TTATTTTTGAAAAGTTTTT-AAAAGGATATTCAG-CTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
*
43295979 AACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
43296044 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* * * *
43296087 AACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCGTCGAATTTCCAAACGCAAAACATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
43296152 TTATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
*
43296196 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACACAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
43296261 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* * * *
43296304 AACGAGAAATTGAAACCTAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
43296369 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* * *
43296412 AACGAGAAATCGAAATCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
43296477 TTATTTTGAAATATTTT
66 TTATTTTGAAA-ATTTT
43296494 CCTTTTTTTA
Statistics
Matches: 479, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
107 10 0.02
108 301 0.63
109 163 0.34
110 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
Found at i:43296230 original size:217 final size:217
Alignment explanation
Indices: 43295870--43296493 Score: 1029
Period size: 217 Copynumber: 2.9 Consensus size: 217
43295860 AATTTGGCTA
* * *
43295870 AACGTGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
43295935 TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
43296000 ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
131 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
*
43296065 AGGATATTAAGTCATTTGGTGG
196 AGGATATTAAGTCATTTGGTCG
* * *
43296087 AACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCGTCGAATTTCCAAACGCAAAACATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
43296152 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
43296217 ACCTTAGGGCACGTTCCTCGAATTTCCAAACACAAAATATTGCCTTATTTTGAAAATTTTTGAAA
131 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
43296282 AGGATATTAAGTCATTTGGTCG
196 AGGATATTAAGTCATTTGGTCG
* * * * *
43296304 AACGAGAAATTGAAACCTAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
43296369 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAATCCA
66 TTATTTTTGAAAAGTTTTT-AAAAGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCA
* *
43296431 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCCTTATTTTGAAATATTTT
129 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTTT
43296494 CCTTTTTTTA
Statistics
Matches: 381, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
215 6 0.02
216 103 0.27
217 272 0.71
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (217 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
AGGATATTAAGTCATTTGGTCG
Found at i:43296439 original size:325 final size:325
Alignment explanation
Indices: 43295848--43296487 Score: 1027
Period size: 325 Copynumber: 2.0 Consensus size: 325
43295838 AAAATTCAAG
*
43295848 AGGATATTTAGCAATTTGGCTAAACGTGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGCTAAACGAGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
* *
43295913 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTC
66 TTTCCAAACACAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTC
43295978 GAACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
131 GAACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
* *
43296043 CTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGT
196 CTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCAGT
*
43296108 ACCTTAGGGCACGTTCGTCGAATTTCCAAACGCAAAACATTACCTTATTTTTGAAAAGTTTTTAA
261 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTA-TTTTGAAAAGTTTTTAA
43296173 A
325 A
* * * *
43296174 AGGATATTTAGCTATTTGG-TCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCAATTTGGCT-AAACGAGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGA
*
43296238 ATTTCCAAACACAAAATATTGCCTTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTG
65 ATTTCCAAACACAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTAAGCT-ATTTG
* * * * *
43296300 GTCGAACGAGAAATTGAAACCTAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATAT
128 GTCGAACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATAT
*
43296365 TGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAATCC
193 TGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCC
* * * *
43296430 AGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCCTTATTTTGAAA
258 AGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA
43296488 TATTTTCCTT
Statistics
Matches: 290, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
324 14 0.05
325 195 0.67
326 81 0.28
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (325 bp):
AGGATATTTAGCAATTTGGCTAAACGAGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACACAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTC
GAACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGC
CTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAAAGTTTTTAAA
Found at i:43296709 original size:108 final size:107
Alignment explanation
Indices: 43296509--43296726 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 107
43296499 TTTTAAAAAA
43296509 CATGATATTCACGTGCATGATGGAATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATA
1 CATGATATTCACGTGCATGATGGAATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATA
43296574 ATAAATCAATCATGCATTCCATAGAAAATAAATAAATTAAAG
66 ATAAATCAATCATGCATTCCATAGAAAATAAATAAATTAAAG
43296616 CATGATATTCACGTGCATGATGGAATAATAAACATGATTATGTAAAAAAAATGAACAAAACGAAT
1 CATGATATTCACGTGCATGATGGAATAATAAACATGATTATGT-AAAAAAATGAACAAAACGAAT
43296681 AATAAATCAATCATGCATTCCATAGAAAATAAATAAATTAAAG
65 AATAAATCAATCATGCATTCCATAGAAAATAAATAAATTAAAG
43296724 CAT
1 CAT
43296727 AAAAATGAAC
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 43 0.39
108 67 0.61
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.25
Consensus pattern (107 bp):
CATGATATTCACGTGCATGATGGAATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATA
ATAAATCAATCATGCATTCCATAGAAAATAAATAAATTAAAG
Found at i:43296755 original size:108 final size:106
Alignment explanation
Indices: 43296532--43296755 Score: 324
Period size: 108 Copynumber: 2.1 Consensus size: 106
43296522 TGCATGATGG
43296532 AATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATAATAAATCAATCATGCATTCCATA
1 AATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATAATAAATCAATCATGCATTCCATA
* * ** * * ***
43296597 GAAAATAAATAAATTAAAGCATGATATTCACGTGCATGATGG
66 GAAAATAAATAAATTAAAGCATAAAATGAACAT-CATAAACA
43296639 AATAATAAACATGATTATGTAAAAAAAATGAACAAAACGAATAATAAATCAATCATGCATTCCAT
1 AATAATAAACATGATTATGT-AAAAAAATGAACAAAACGAATAATAAATCAATCATGCATTCCAT
43296704 AGAAAATAAATAAATTAAAGCATAAAAATGAACAT-ATAAACA
65 AGAAAATAAATAAATTAAAGCAT-AAAATGAACATCATAAACA
43296746 AATATATAAA
1 AATA-ATAAA
43296756 TGAACATAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
107 27 0.26
108 72 0.69
109 6 0.06
ACGTcount: A:0.56, C:0.10, G:0.09, T:0.24
Consensus pattern (106 bp):
AATAATAAACATGATTATGTAAAAAAATGAACAAAACGAATAATAAATCAATCATGCATTCCATA
GAAAATAAATAAATTAAAGCATAAAATGAACATCATAAACA
Found at i:43296784 original size:20 final size:18
Alignment explanation
Indices: 43296761--43296805 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
43296751 ATAAATGAAC
43296761 ATAAAAATAAAGAAAATTAT
1 ATAAAAAT-AAGAAAA-TAT
* *
43296781 ATAAAAATCATAAAATAT
1 ATAAAAATAAGAAAATAT
43296799 ATAAAAA
1 ATAAAAA
43296806 AACGTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAGAAAATAT
Found at i:43297092 original size:3 final size:3
Alignment explanation
Indices: 43297018--43297073 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
43297008 TTAATATTAC
* * *
43297018 ATA ATA ATTA TTA ATGA ATA TATA ATG ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA A-TA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
43297066 ATA ATA AT
1 ATA ATA AT
43297074 GGTAACGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 36 0.82
4 8 0.18
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:43298792 original size:44 final size:43
Alignment explanation
Indices: 43298708--43298826 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 43
43298698 GATGTGATCT
* * *
43298708 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCC
* * *
43298752 GCTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-CTA-CTTCAATCC
* *
43298796 ACTCCGCTGTAA-TCTCAGGGAGATAAGATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT
43298827 GCAATTCTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.02
43 3 0.05
44 56 0.92
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ACTCCACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCC
Found at i:43298986 original size:124 final size:124
Alignment explanation
Indices: 43298797--43299613 Score: 1553
Period size: 124 Copynumber: 6.6 Consensus size: 124
43298787 CTTCAATCTA
* * * * * * *
43298797 CTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCGCTGTAATCTCAGGG
1 CTCCACTGTAATCTCAAGGAGATAGGAT-TACTA-TCTTTGATCTGCTCCGCTGTAATCTCAGGG
43298862 AGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
64 AGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43298923 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43298988 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
66 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43299047 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43299112 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
66 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43299171 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43299236 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
66 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43299295 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43299360 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
66 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43299419 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43299484 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
66 ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
43299543 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
43299608 ATAAGA
66 ATAAGA
43299614 TCTGCAATTC
Statistics
Matches: 684, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
124 656 0.96
125 3 0.00
126 25 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (124 bp):
CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCG
Found at i:43299646 original size:46 final size:46
Alignment explanation
Indices: 43299542--43300481 Score: 673
Period size: 46 Copynumber: 21.4 Consensus size: 46
43299532 CCTTTAATTC
* * * * **
43299542 GCTCCACTGTAATCTCAAGGAGATAGGAT-TACTA-TCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* *
43299586 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * * *
43299632 GTTCCACTGTAATCTCAGGGAAATAAGACCTG--ATGCGATCCA-CT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTC-TTCAATCT
*
43299676 -CT--ACTGTAA-CTTCAGAGAGATAAGATC--C---T-TT-AATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * **
43299712 GCTCCACTGTAATATCAGGGAGATAGGAT-TACTA-TCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * **
43299756 GCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * *
43299802 GCTCCGCTGTAATCTCAAGGAGATAAGACCTG--A--C-GCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* ** * *
43299843 ACTCTGCTGTAA-CTTCAGAGAGATAAGATC--C---T-TT-AATTT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * **
43299882 GCTCCACTGTAATCTCAAGGAGATAGGAT-TACTA-TCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43299926 GCTCCGCTGTAATCTCAGGGAGATAATATCTGTAATTCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43299972 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300018 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300064 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300110 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300156 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300202 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * *
43300248 GTTCCACTGTAATCTCAGGGAGCTAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * * *
43300294 GTTCCACTGTAATCTCAGGGAAATAAGACCTG--ATGCGATCCA-CT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTC-TTCAATCT
* *
43300338 -CT--ACTGTAA-CTTCAGAGAGATAAGATC--C---T-TT-AATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * * * **
43300374 GCTCCACTGTAATCTCAGAGAGATATGAT-TACTA-TCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
* * *
43300418 GCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
*
43300464 GTTCCACTGTAATCTCAG
1 GCTCCACTGTAATCTCAG
43300482 AGAAATAATA
Statistics
Matches: 753, Mismatches: 96, Indels: 92
0.80 0.10 0.10
Matches are distributed among these distances:
35 2 0.00
36 5 0.01
37 4 0.01
39 65 0.09
40 8 0.01
41 68 0.09
42 4 0.01
43 8 0.01
44 123 0.16
45 16 0.02
46 450 0.60
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCAATCT
Found at i:43299660 original size:170 final size:170
Alignment explanation
Indices: 43298922--43299999 Score: 912
Period size: 170 Copynumber: 6.4 Consensus size: 170
43298912 CCTTTAATTC
* * * * * * *
43298922 GCTCCACTGTAATCTCAAGGAGATAGGAT-TACTA-TCTTTGATCTGCTCCGCTGTAATCTCAGG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAGG
* *
43298985 GAGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTC
66 GAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTC
43299050 CACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
131 CACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
* * * ** **
43299090 GCTCCGCTGTAATCTCAGGGAGATAAGACCTG--A--C-GCAATCTATTCTGCTGTAA-CTTCAG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATC-TCAG
* * * ** *
43299149 AGAGATAAGATCCTTTA----AT-TCGCTCCACTGTAA-TCTCA-AGGAGATAGGATTACTATCT
65 GGAGATAAGA-CC-TGACGCGATCT-ACTCTGCTGTAACT-TCAGA-GAGATAAGA-T-C---CT
* * * * * ***
43299207 TTGA-TCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCTGA-C-GCAATCT
120 TTAATTC-GCTCCACTGTAATCTCAAGGAGATAGGATTACT-ATCTTTGATCT
** * * *
43299255 ATTCTGCTGTAA-CTTCAGAGAGATAAGATC--C---T-TT-AAT-TCGCTCCACTGTAATCTCA
1 GCTCCGCTGTAATC-TCAGGGAGATAAGATCTGCAATTCTTCGATCT-GCTCCACTGTAATCTCA
* * * ** * * * *
43299311 AGGAGATAGGATTACT-ATCTTTGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CC-TGAC
64 GGGAGATAAGA--CCTGA-C-GCGATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCCTTTA-
* ** ** * *
43299372 GCAATCTATTCTGCTGTAA-CTTC-AGAGAGATAAGA-T-C---CTTTAAT-T
123 --ATTC-GCTCCACTGTAATC-TCAAG-GAGATAGGATTACTATCTTTGATCT
* * * * * * *
43299417 CGCTCCACTGTAATCTCAAGGAGATAGGAT-TACTA-TCTTTGATCTGCTCCGCTGTAATCTCAG
1 -GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAG
* *
43299480 GGAGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCT
65 GGAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCT
43299545 CCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
130 CCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
*
43299586 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTGTAATCTCAGG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAGG
* * * *
43299651 GAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAA-TCTGCT
66 GAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTC-GCT
* *
43299715 CCACTGTAATATCAGGGAGATAGGATTACTATCTTTGATCT
130 CCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
* * * *
43299756 GCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCGCTGTAATCTCAAG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAGG
*
43299821 GAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTTGCTC
66 GAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTC
43299886 CACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
131 CACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
* * *
43299926 GCTCCGCTGTAATCTCAGGGAGATAATATCTGTAATTCTTCGATCTGTTCCACTGTAATCTCAGG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAGG
*
43299991 GAGCTAAGA
66 GAGATAAGA
43300000 TTTGAAATTC
Statistics
Matches: 734, Mismatches: 114, Indels: 122
0.76 0.12 0.13
Matches are distributed among these distances:
161 1 0.00
162 8 0.01
163 85 0.12
164 18 0.02
165 106 0.14
166 13 0.02
167 11 0.01
168 140 0.19
169 9 0.01
170 342 0.47
171 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (170 bp):
GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATCTCAGG
GAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTC
CACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
Found at i:43299702 original size:87 final size:87
Alignment explanation
Indices: 43299581--43299999 Score: 304
Period size: 80 Copynumber: 4.9 Consensus size: 87
43299571 TACTATCTTT
* * * *
43299581 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTGTAAT
1 GATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAAT
*
43299645 CTCAGGGAAATAAGACCTGATGC
65 CTCAGGGAGATAAGACCTGATGC
* * * *
43299668 GATCCACTCTACTGTAACTTCAGAGAGATAAGATC--C---T-TT-AATCTGCTCCACTGTAATA
1 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATC
* *
43299726 TCAGGGAGATAGGATTACT-AT-C
66 TCAGGGAGATAAGA--CCTGATGC
* * * * *
43299748 TTTGATCTGCTCCGCTGTAATCTT-AGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCGCTGT
1 ---GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGT
* *
43299812 AATCTCAAGGAGATAAGACCTGACGC
62 AATCTCAGGGAGATAAGACCTGATGC
* *
43299838 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATC--C---T-TT-AATTTGCTCCACTGTAATC
1 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATC
* * *
43299896 TCAAGGAGATAGGATTACT-AT-C
66 TCAGGGAGATAAGA--CCTGATGC
* * * * * *
43299918 TTTGATCTGCTCCGCTGTAA-TCTCAGGGAGATAATATCTGTAATTCTTCGATCTGTTCCACTGT
1 ---GATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGT
*
43299982 AATCTCAGGGAGCTAAGA
62 AATCTCAGGGAGATAAGA
43300000 TTTGAAATTC
Statistics
Matches: 257, Mismatches: 45, Indels: 57
0.72 0.13 0.16
Matches are distributed among these distances:
80 58 0.23
81 7 0.03
82 7 0.03
83 55 0.21
84 3 0.01
85 3 0.01
86 3 0.01
87 56 0.22
88 5 0.02
89 5 0.02
90 55 0.21
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGATCTGCTCCACTGTAATC
TCAGGGAGATAAGACCTGATGC
Found at i:43299940 original size:294 final size:288
Alignment explanation
Indices: 43299210--43299951 Score: 917
Period size: 294 Copynumber: 2.5 Consensus size: 288
43299200 ACTATCTTTG
* *
43299210 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAG
1 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGC-ATCTACTCTGCTGTAACTTCAGAG
*
43299275 AGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
65 AGATAAGATCCTTTAATTTGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
* * *
43299340 TCCGCTGTAATCTCAGGGAGATAAGACCTGACGCAATCTATTCTGCTGTAACTTCAGAGAGATAA
130 TCCGCTGTAATCTCAGGGAGATAAGACCTGACGCAATCCACTCTACTGTAACTTCAGAGAGATAA
*
43299405 GATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCT
195 GATCCTTTAATTCGCTCCACTGTAATATCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCT
43299470 GTAATCTCAGGGAGATAAGACCTGACGCA
260 GTAATCTCAGGGAGATAAGACCTGACGCA
** * * * **
43299499 ATCTATTCTGCTGTAA-CTTC-AGAGAGATAAGATCCTTTA---AT-TCGCTCCACTGTAA-TCT
1 ATCTGCTCCGCTGTAATC-TCAAG-GAGATAAGA-CC-TGACGCATCT-ACTCTGCTGTAACT-T
* * * * * * * *
43299557 CA-AGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAA
60 CAGA-GAGATAAGA-T-C---CTTTAATTTGCTCCACTGTAATCTCAAGGAGATAGGAT-TACTA
* * * * * *
43299621 TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAAC
118 -TCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGACGCAATCCACTCTACTGTAAC
*
43299686 TTCAGAGAGATAAGATCCTTTAA-TCTGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTT
182 TTCAGAGAGATAAGATCCTTTAATTC-GCTCCACTGTAATATCAAGGAGATAGGATTACTATCTT
* * * *
43299750 TGATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCG
246 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTG--A--C-GCA
*
43299798 GTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAG
1 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGC-ATCTACTCTGCTGTAACTTCAGAG
43299863 AGATAAGATCCTTTAATTTGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
65 AGATAAGATCCTTTAATTTGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
43299928 TCCGCTGTAATCTCAGGGAGATAA
130 TCCGCTGTAATCTCAGGGAGATAA
43299952 TATCTGTAAT
Statistics
Matches: 371, Mismatches: 53, Indels: 53
0.78 0.11 0.11
Matches are distributed among these distances:
286 3 0.01
287 21 0.06
288 3 0.01
289 25 0.07
290 2 0.01
291 2 0.01
292 32 0.09
293 5 0.01
294 182 0.49
295 3 0.01
296 34 0.09
297 2 0.01
298 3 0.01
299 25 0.07
300 4 0.01
301 22 0.06
302 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (288 bp):
ATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCATCTACTCTGCTGTAACTTCAGAGA
GATAAGATCCTTTAATTTGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCT
CCGCTGTAATCTCAGGGAGATAAGACCTGACGCAATCCACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTTAATTCGCTCCACTGTAATATCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTG
TAATCTCAGGGAGATAAGACCTGACGCA
Found at i:43300392 original size:39 final size:39
Alignment explanation
Indices: 43300296--43300446 Score: 117
Period size: 44 Copynumber: 3.7 Consensus size: 39
43300286 TTCAATCTGT
* * * *
43300296 TCCACTGTAATCTCAGGGAAATAAGA-CCTGATGCGATCCAC
1 TCCACTGTAATCTCAGAGAGATAAGATCCT--T-TGATCCGC
* *
43300337 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATCCGC
1 TCCACTGTAATC-TCAGAGAGATAAGATCCTTTGATCCGC
* *
43300376 TCCACTGTAATCTCAGAGAGATATGATTACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGAGAGATAAGA-T-C---CTTTGATCCGC
* *
43300420 TCCGCTGTAATCTCAGGGAGATAAGAT
1 TCCACTGTAATCTCAGAGAGATAAGAT
43300447 TTGAAATTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
39 27 0.30
40 4 0.04
41 22 0.25
42 3 0.03
43 1 0.01
44 32 0.36
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (39 bp):
TCCACTGTAATCTCAGAGAGATAAGATCCTTTGATCCGC
Found at i:43300422 original size:44 final size:46
Alignment explanation
Indices: 43300365--43300489 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 46
43300355 AGATAAGATC
* * *
43300365 CTTTAATCCGCTCCACTGTAATCTCAGAGAGATATGA-TT--ACTAT
1 CTTTAATCTGCTCCACTGTAATCTCAGAGAGATAAGATTTGAAAT-T
* * *
43300409 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATT
1 CTTTAATCTGCTCCACTGTAATCTCAGAGAGATAAGATTTGAAATT
* * *
43300455 CTTCAATCTGTTCCACTGTAATCTCAGAGAAATAA
1 CTTTAATCTGCTCCACTGTAATCTCAGAGAGATAA
43300490 TACTTGTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 32 0.48
45 2 0.03
46 30 0.45
47 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (46 bp):
CTTTAATCTGCTCCACTGTAATCTCAGAGAGATAAGATTTGAAATT
Found at i:43311894 original size:55 final size:55
Alignment explanation
Indices: 43311810--43311921 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
43311800 AATCCAAAAA
43311810 AACGGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCC
1 AACGGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCC
43311865 AACGGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCC
1 AACGGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCC
43311920 AA
1 AA
43311922 AATTGGTACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.18
Consensus pattern (55 bp):
AACGGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCC
Found at i:43312139 original size:76 final size:76
Alignment explanation
Indices: 43312013--43312163 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
43312003 CCAAAAAAAT
43312013 GGGTTCGGGAGTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCT
1 GGGTTCGGGAGTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCT
43312078 AGTTGATTACC
66 AGTTGATTACC
*
43312089 GGGTTCGGGATTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCT
1 GGGTTCGGGAGTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCT
43312154 AGTTGATTAC
66 AGTTGATTAC
43312164 TTAATGTCTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (76 bp):
GGGTTCGGGAGTCGGTTACGCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCT
AGTTGATTACC
Found at i:43312458 original size:59 final size:59
Alignment explanation
Indices: 43312362--43312479 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
43312352 AGTTTTTAAA
*
43312362 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
1 AGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
* *
43312421 AGGATATTCAGCTATTTGGTCGAACGGGAAATTGAAACCCAGTACCTTAGGGCACGTTC
1 AGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
43312480 CTCGAATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (59 bp):
AGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
Found at i:43312586 original size:167 final size:168
Alignment explanation
Indices: 43312253--43312587 Score: 489
Period size: 168 Copynumber: 2.0 Consensus size: 168
43312243 AAAATTCAAG
* * *
43312253 AGGATATTTAGCAATTTGGCTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAA
1 AGGATATTCAGCAATTTGGCTAAACGGGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
*
43312318 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTC
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTC
43312383 GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
131 GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
* * * *
43312421 AGGATATTCAGCTATTTGG-TCGAACGGGAAATTGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTCAGCAATTTGGCT-AAACGGGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGA
* * * *
43312485 ATTTTCAAACGTAAAATATTGCCTTA-TTTTGGAAA-TTTTTGAAAAGGATATTAAG-TCATTTG
65 ATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTAAGCT-ATTTG
* *
43312547 GTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTC
128 GTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
43312588 CTCGAATTTT
Statistics
Matches: 150, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
166 6 0.04
167 66 0.44
168 78 0.52
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (168 bp):
AGGATATTCAGCAATTTGGCTAAACGGGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTAAGCTATTTGGTC
GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTC
Found at i:43312610 original size:108 final size:108
Alignment explanation
Indices: 43312421--43312969 Score: 976
Period size: 108 Copynumber: 5.1 Consensus size: 108
43312411 GGGCACGTTC
* * * * *
43312421 AGGATATTCAG-CTATTTGGTCGAACGGGAAATTGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGTC-ATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
43312485 ATTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
65 ATTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
43312529 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
43312594 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
66 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
43312637 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
43312702 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
66 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
43312745 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
43312810 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
66 TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
43312853 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* * * *
43312918 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAA
66 TTTTCAAACGTAAAATATTGCCTTA-TTTTGGAAA-TTTTTGAAA
43312962 AGGATATT
1 AGGATATT
43312970 TAGCTATTTG
Statistics
Matches: 429, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
108 404 0.94
109 20 0.05
110 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (108 bp):
AGGATATTAAGTCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTTCAAACGTAAAATATTGCCTTATTTTGGAAATTTTTGAAA
Found at i:43314661 original size:31 final size:31
Alignment explanation
Indices: 43314625--43314686 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43314615 AGATAATTTT
43314625 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
43314656 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
43314687 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:43317099 original size:11 final size:11
Alignment explanation
Indices: 43317067--43317109 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
43317057 TTAACTCCCT
43317067 TTTTTTAAATAA
1 TTTTTTAAAT-A
**
43317079 TTTTAAAAATA
1 TTTTTTAAATA
*
43317090 TTTTTTAAATT
1 TTTTTTAAATA
43317101 TTTTTTAAA
1 TTTTTTAAA
43317110 CCGTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:43319647 original size:124 final size:124
Alignment explanation
Indices: 43319489--43319864 Score: 637
Period size: 124 Copynumber: 3.0 Consensus size: 124
43319479 CCCAAACATG
43319489 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
43319554 TAGAAGCAATTTTATACTATTTACTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCAATTTTATACTATTTACTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
43319613 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
43319678 TAGAAGCAATTTTATACTATTTACTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCAATTTTATACTATTTACTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
* *
43319737 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
* * * * *** *
43319802 TAGAAGCGATTTTGTATTATTTGA-TCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCAATTTTATACTATTT-ACTCAAAAACGT-AAAAAAAAATTATTTCTTCCATGAC
43319862 CTA
1 CTA
43319865 AAAACCCTAA
Statistics
Matches: 240, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
124 215 0.90
125 25 0.10
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
TAGAAGCAATTTTATACTATTTACTCAAAAACGTAAAAAAAAATTATTTCTTCCATGAC
Found at i:43323130 original size:256 final size:255
Alignment explanation
Indices: 43322676--43323185 Score: 894
Period size: 256 Copynumber: 2.0 Consensus size: 255
43322666 AAACTATCAT
* *
43322676 TTCATATCTTTCAGTGATTTTTTACAATCTTTGGATTTTGCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* *
43322741 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTGATGCCCTGAGTGTAGTATTTTTGTTTGTAA
66 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTAA
*
43322806 ACTTGTAATTTTTTTGAATATATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
131 ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
* * *
43322871 TATAATTGTCCTTATGTGGTTTTTGCATGCAAAGCAAAATAGAAGTAAATGTTGGCTTAC
196 TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
*
43322931 TTCATATTTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* *
43322996 TATAGAAATGGTAAGAGGTTTCTAGTGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTA
66 GATAGAAATGGTAAGAAGTTTCTA-TGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTA
* *
43323061 AACTTGTAATTTTTTTGAATAGGTTGGTTAATAAAATAATTCATGGATTACATTAATTATACTTT
130 AACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTT
43323126 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTA
195 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTA
43323186 TTGGTTGTCT
Statistics
Matches: 241, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
255 84 0.35
256 157 0.65
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (255 bp):
TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTAA
ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
Found at i:43324409 original size:13 final size:13
Alignment explanation
Indices: 43324387--43324450 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
43324377 CATTTCAAAC
43324387 ATAA-CATTTCAT
1 ATAACCATTTCAT
* *
43324399 GTAATCATTTCAT
1 ATAACCATTTCAT
**
43324412 ATAACCATTTTGT
1 ATAACCATTTCAT
43324425 ATAACCATTTCAT
1 ATAACCATTTCAT
* *
43324438 CTAAACATTTCAT
1 ATAACCATTTCAT
43324451 TTTATCATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 3 0.07
13 39 0.93
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
ATAACCATTTCAT
Found at i:43324459 original size:26 final size:26
Alignment explanation
Indices: 43324389--43324473 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 26
43324379 TTTCAAACAT
*
43324389 AACATTTCATGTAATCATTTCATATA
1 AACATTTCATATAATCATTTCATATA
* ** * *
43324415 ACCATTTTGTATAACCATTTCATCTA
1 AACATTTCATATAATCATTTCATATA
* * *
43324441 AACATTTCATTTTATCATTTCATTTA
1 AACATTTCATATAATCATTTCATATA
*
43324467 CACATTT
1 AACATTT
43324474 AGCACAGAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTTCATATAATCATTTCATATA
Found at i:43324472 original size:13 final size:12
Alignment explanation
Indices: 43324388--43324473 Score: 55
Period size: 13 Copynumber: 6.7 Consensus size: 12
43324378 ATTTCAAACA
*
43324388 TAACATTTCATG
1 TAACATTTCATT
*
43324400 TAATCATTTCATA
1 TAA-CATTTCATT
** *
43324413 TAACCATTTTGTA
1 TAA-CATTTCATT
43324426 TAACCATTTCATCT
1 TAA-CATTTCAT-T
*
43324440 AAACATTTCATTT
1 TAACATTTCA-TT
*
43324453 TATCATTTCATT
1 TAACATTTCATT
43324465 TACACATTT
1 TA-ACATTT
43324474 AGCACAGAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
12 7 0.12
13 49 0.83
14 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (12 bp):
TAACATTTCATT
Found at i:43324697 original size:25 final size:25
Alignment explanation
Indices: 43324636--43324697 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
43324626 GGGAAAGATT
* *
43324636 CTCACACAAGCTGTAACTGTAATTG
1 CTCACACAAGCTATAACTGTAAATG
* ** **
43324661 CTCTCATGAGCTATATTTGTAAATG
1 CTCACACAAGCTATAACTGTAAATG
43324686 CTCACACAAGCT
1 CTCACACAAGCT
43324698 GTGAAATGGG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (25 bp):
CTCACACAAGCTATAACTGTAAATG
Found at i:43326047 original size:14 final size:14
Alignment explanation
Indices: 43326030--43326061 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
43326020 TATGGACCAA
43326030 ATTTAAATAAAAAT
1 ATTTAAATAAAAAT
43326044 ATTT-AATAAAAAT
1 ATTTAAATAAAAAT
43326057 ATTTA
1 ATTTA
43326062 CGGGCTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAATAAAAAT
Found at i:43333212 original size:25 final size:25
Alignment explanation
Indices: 43333184--43333231 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43333174 ATAGTCTATC
*
43333184 TATAGTAGTCTCAGCATATACTACA
1 TATAGCAGTCTCAGCATATACTACA
* *
43333209 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGCATATACTA
43333232 TCAAAGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (25 bp):
TATAGCAGTCTCAGCATATACTACA
Found at i:43338537 original size:21 final size:22
Alignment explanation
Indices: 43338496--43338538 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
43338486 GCTTGGAGCT
* *
43338496 ATTTTGACTTATTTTAAAAAAA
1 ATTTTGACTTAGTTGAAAAAAA
43338518 ATTTTGAC-TAGTTGAAAAAAA
1 ATTTTGACTTAGTTGAAAAAAA
43338539 TTCGTACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTTTGACTTAGTTGAAAAAAA
Found at i:43355375 original size:43 final size:43
Alignment explanation
Indices: 43355143--43355372 Score: 257
Period size: 43 Copynumber: 5.3 Consensus size: 43
43355133 TATGAGAAAA
* * *
43355143 AAACGTCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGTCAC
* * * * * *
43355186 AAACACTGCTAAATAACATGACCTTTAGCGACGCTTTTTTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGTCAC
* * * *
43355229 AAACGCCGCTAAAGATCGTGATCTTTAGCGGCACTTTAGAT-AC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTG-TCAC
* * * *
43355272 AAACGCCGCTAAAGATCGTGAGCTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGTCAC
* *
43355315 AAACGCCGCTAAAGAAT-ATGATCTTTAACGGCGCTTTTGTCAC
1 AAACGCCGCTAAAG-ATCATGACCTTTAGCGGCGCTTTTGTCAC
43355358 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
43355373 ATAAACCTTT
Statistics
Matches: 158, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 154 0.97
44 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGTCAC
Found at i:43358606 original size:19 final size:19
Alignment explanation
Indices: 43358580--43358626 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
43358570 CTGAAACCAA
43358580 AATTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
*
43358599 AGTTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
43358618 AATTTATAA
1 AATTTATAA
43358627 CAGATTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTTATAATAGGCATTCT
Found at i:43360039 original size:29 final size:29
Alignment explanation
Indices: 43359997--43360055 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
43359987 TGGAATAAAA
*
43359997 CGACACTGTTTTGCTGTGATAAAAAGGTG
1 CGACACTGTTTTGCTGTGATAAAAAAGTG
43360026 CGACACTGTTTTGCTGTGATAAAAAAGTG
1 CGACACTGTTTTGCTGTGATAAAAAAGTG
43360055 C
1 C
43360056 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (29 bp):
CGACACTGTTTTGCTGTGATAAAAAAGTG
Found at i:43360826 original size:89 final size:89
Alignment explanation
Indices: 43360725--43360889 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 89
43360715 ACCCTAAACT
* * * *
43360725 CCTAACCACTAACCCTTAAACCCTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCC
1 CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAA-CC
43360790 -TAAACCCTAACCCAACCCCAAATC
65 ATAAACCCTAACCCAACCCCAAATC
* * * *
43360814 CCTAACCCCTAACCCCTAAACATTATTCAATATATAAATTAAAACACACTAATCAATTTAAACCA
1 CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAACCA
43360879 TAAACCCTAAC
66 TAAACCCTAAC
43360890 TAGACATCGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 65 0.97
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (89 bp):
CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAACCA
TAAACCCTAACCCAACCCCAAATC
Found at i:43361381 original size:20 final size:19
Alignment explanation
Indices: 43361348--43361393 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
43361338 ATTGAATTTT
43361348 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
43361366 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
43361386 AATAAAAT
1 AATTAAAT
43361394 GTTTTTGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:43361466 original size:41 final size:41
Alignment explanation
Indices: 43361421--43361663 Score: 312
Period size: 41 Copynumber: 5.9 Consensus size: 41
43361411 CAAAAAACCC
*
43361421 GAGCATTAGCGGCG-TTTTCCAAGAAACGCCGCTAAAGATCT
1 GAGCATTAGCGGCGCTTTTCTAA-AAACGCCGCTAAAGATCT
*
43361462 GAGCATTAGCGACGCTTTTCTAAAAACGCCGCTAAAGATCT
1 GAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCT
* * *
43361503 GAGCATTAGCGACGCTTTTCCAAAAACACCGCTAAAGATCT
1 GAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCT
* * *
43361544 GAGAATTAGCGGCACGTTTT-AAAAAACGCCGCTAAAGATCT
1 GAGCATTAGCGGCGC-TTTTCTAAAAACGCCGCTAAAGATCT
** *
43361585 GATAATTAGCGGCGCTTTT-TAAAAAACGCCGCTAAAGAACT
1 GAGCATTAGCGGCGCTTTTCT-AAAAACGCCGCTAAAGATCT
* *
43361626 GAGCATTAGTGGCGCTTTTCTTAAAATCGCCGCTAAAG
1 GAGCATTAGCGGCGCTTTTC-TAAAAACGCCGCTAAAG
43361664 CCCCGAAAGG
Statistics
Matches: 180, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
40 4 0.02
41 149 0.83
42 26 0.14
43 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCT
Found at i:43362662 original size:20 final size:20
Alignment explanation
Indices: 43362639--43362685 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
43362629 TTTTAAAATT
43362639 AAATATTATTGAAAAATATA
1 AAATATTATTGAAAAATATA
* * * *
43362659 AAATTTTTTTTAAAAATTTA
1 AAATATTATTGAAAAATATA
43362679 AAA-ATTA
1 AAATATTA
43362686 ATTAATTGTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATATTATTGAAAAATATA
Found at i:43364670 original size:5 final size:5
Alignment explanation
Indices: 43364654--43364693 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
43364644 TGTATTAAGG
*
43364654 ATATA ATGTA ATATA ATATA ATATA ATATA A-A-A ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
43364694 TAAATTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 27 0.87
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:43364691 original size:13 final size:14
Alignment explanation
Indices: 43364656--43364698 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
43364646 TATTAAGGAT
*
43364656 ATAATGTAATATAA
1 ATAATATAATATAA
43364670 TATAATATAATATAA
1 -ATAATATAATATAA
43364685 A-AATATAAT-TAA
1 ATAATATAATATAA
43364697 AT
1 AT
43364699 TGATAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 1 0.04
15 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:43364852 original size:14 final size:14
Alignment explanation
Indices: 43364833--43364872 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43364823 TTGATTGGCA
43364833 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
43364847 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
43364861 GGAAAATGTTTT
1 GTAAAATGTTTT
43364873 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:43364881 original size:20 final size:20
Alignment explanation
Indices: 43364856--43364895 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43364846 CGTAAAATGA
*
43364856 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
* *
43364876 TTTCTGTAAGATGATTTACT
1 TTTCTGGAAAATGATTTACT
43364896 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:43364890 original size:34 final size:35
Alignment explanation
Indices: 43364841--43364907 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43364831 CAGTAAAATG
*
43364841 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
43364875 TTTTCTGTAAGATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
43364908 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:43365019 original size:20 final size:20
Alignment explanation
Indices: 43364994--43365032 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43364984 GTTTTTACAT
43364994 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
43365014 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
43365033 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Done.