Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 148 of 199
Found at i:44418926 original size:24 final size:24
Alignment explanation
Indices: 44418882--44418929 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
44418872 TCAAAGAAAA
* *
44418882 GATAGAGTTTCTTCTCAAAGCATC
1 GATAGACTTTCTACTCAAAGCATC
44418906 GATAGACTTTCTACTCAAAGCATC
1 GATAGACTTTCTACTCAAAGCATC
44418930 AGCAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
GATAGACTTTCTACTCAAAGCATC
Found at i:44423460 original size:23 final size:23
Alignment explanation
Indices: 44423371--44423461 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
44423361 CCACACCGAT
*
44423371 ATGTAGCCAAAGCTACCACT-AA
1 ATGTAGCCGAAGCTACCACTGAA
*
44423393 TATGTAGCCGAAGCTACCACTGTA
1 -ATGTAGCCGAAGCTACCACTGAA
*
44423417 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
*
44423440 ATGTAGTCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
44423462 TCAATAACAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 60 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:44434007 original size:15 final size:15
Alignment explanation
Indices: 44433984--44434020 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
44433974 TTTCTATACA
*
44433984 TTTACATCTGCATAT
1 TTTATATCTGCATAT
44433999 TTTATATCTGCATAT
1 TTTATATCTGCATAT
*
44434014 TTAATAT
1 TTTATAT
44434021 ATATATATAT
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:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (15 bp):
TTTATATCTGCATAT
Found at i:44435896 original size:15 final size:16
Alignment explanation
Indices: 44435851--44435896 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
44435841 GAAAAGAAAC
44435851 TAAAAATAAA-TATTA
1 TAAAAATAAATTATTA
*
44435866 TAAAATATTAACTTATTA
1 TAAAA-A-TAAATTATTA
44435884 TAAAAA-AAATTAT
1 TAAAAATAAATTAT
44435897 AGAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 11 0.42
16 1 0.04
17 4 0.15
18 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAAATAAATTATTA
Found at i:44435897 original size:12 final size:13
Alignment explanation
Indices: 44435880--44435908 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44435870 ATATTAACTT
44435880 ATTATA-AAAAAA
1 ATTATAGAAAAAA
44435892 ATTATAGAAAAAA
1 ATTATAGAAAAAA
44435905 ATTA
1 ATTA
44435909 AAAGTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
ATTATAGAAAAAA
Found at i:44437163 original size:228 final size:228
Alignment explanation
Indices: 44436752--44438088 Score: 1453
Period size: 228 Copynumber: 5.9 Consensus size: 228
44436742 CAGGTGCAAA
* * * ** * * *
44436752 GTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCTTCAAGTTGCTTCCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTTCCAGCAAA
* * * * *
44436817 AATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
66 GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
* * * * * * * * * *
44436882 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
131 TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
* * * *
44436947 ATCCCACCACGGAGACGGAGAACCAAGTGGAGG
196 ATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * ** * *
44436980 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCTAGCTGCTTTCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTTCCAGCAAA
* * * * * * * *
44437045 TATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATTTTGGCCTTAACATTATCGA
66 GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
* * * * * * * * * *
44437110 TTGTGTCAGAGCTCTCAACTTCCAGGGTGATGGTCTTCCCGGTAAGTGTCTTCACAAAAATCTGC
131 TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
* * *
44437175 ATACCACCACGAAGACGAAGCACCAAGTGGAGG
196 ATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * * * *
44437208 GTGGACTCCTTCTGGATATTATAGTCAGCCAGGGTACGGCCATCCTCCAGTTGCTTACCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTTCCAGCAAA
* * * * *
44437273 AATCAGCCTCTGTTGGTCTGGGGGGATTCCC-TCCTTGTCCTGAATTTTTGCCTTAACATTGTCA
66 GATCAGCCTCTGCTGGTCTGGTGGGA-TCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * ** * * ** *
44437337 ATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * * *
44437402 CATTCCTCCACGGAGGCGAAGCACCAAGTGGAGT
195 CATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * * * *
44437436 GTGGACTCCTTCTGGATGTTGTAATCAGCCAA-TGTGCGGCCATCCTCAAGTTGCTTACCAGCGA
1 GTGGACTCCTTCTGGATGTTGTAATCAG-CAAGGGTACGGCCATCCTCCAGTTGCTTTCCAGCAA
* * * *
44437500 AGATCAGCCTTTGCTGGTCTGGGGGGATGCCTTCCTTGTCCTGAATCTTGGCCTTGACATTGTCA
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* ** * *
44437565 ATCGTATCAGAACTCTCCACCTCCAATGTGATGGTCTTTCCGGTGAGGGTCTTGACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * *
44437630 CATACCACCCCTCA-ATCGGAGGACCAAATGGAGT
195 CATACCACCACGCAGA-CGGAGCACCAAGTGGAGT
* *
44437664 GTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGTTG-TTTACCAGCAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTT-CCAGCAA
* * * * * *
44437728 AGATAAGCCTCTGCTGGTCTGGTGGGATCCCTTCTTTGTCTTGGATCTTGGCCTTTACATTGTCG
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * *
44437793 ATGGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTCCCGGTGAGGGTCTTGACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * *
44437858 CATACCACCCCTCA-ATCGGAGGACCAAATGGAGT
195 CATACCACCACGCAGA-CGGAGCACCAAGTGGAGT
* * *
44437892 GTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGCTG-TTTACCAGCAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTT-CCAGCAA
* * * * * * *
44437956 AGATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGTCTTTACATTGTCG
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * * *
44438021 ATGGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTGCCAGTGAGGGTCTTGACGAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
44438086 CAT
195 CAT
44438089 CTATTTTGAA
Statistics
Matches: 976, Mismatches: 127, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
227 8 0.01
228 963 0.99
229 5 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (228 bp):
GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGTTGCTTTCCAGCAAA
GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
ATACCACCACGCAGACGGAGCACCAAGTGGAGT
Found at i:44438057 original size:684 final size:684
Alignment explanation
Indices: 44436728--44438088 Score: 1699
Period size: 684 Copynumber: 2.0 Consensus size: 684
44436718 AAAGCCACCG
* * * * *
44436728 CGGAGGCGAAGGACCAGGTGCAAAGTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCC
1 CGGAGGCGAAGCACCAAGTGCAAAGTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTCCGCCC
* * * *
44436793 ATCTTCAAGTTGCTTCCCAGCAAAAATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCTTATCCT
66 ATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCCT
* * * * * *
44436858 GGATCTTGGCCTTAACATTATCAATCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCA
131 GAATCTTGGCCTTAACATTATCAATCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCCA
* * * *
44436923 GTCAGGGTCTTCACGAAAATTTGCATCCCACCACGGAGACGGAGAACCAAGTGGAGGGTGGACTC
196 GTCAGGGTCTTCACAAAAATTTGCATACCACCACGCAGACGGAGAACCAAATGGAGGGTGGACTC
* * * * * *
44436988 CTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCTAGCTGCTTTCCAGCAAATATCAGCC
261 CTTCTGGATGTTGTAATCAGCAAGGGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAGATAAGCC
* * *
44437053 TCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATTTTGGCCTTAACATTATCGATTGTGTCA
326 TCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTATCA
* * * *
44437118 GAGCTCTCAACTTCCAGGGTGATGGTCTTCCCGGTAAGTGTCTTCACAAAAATCTGCATACCACC
391 GAACTCTCAACCTCAAGGGTGATGGTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACCACC
* * *
44437183 ACGAAGACGAAGCACCAAGTGGAGGGTGGACTCCTTCTGGATATTATAGTCAGCCAGGGTACGGC
456 ACCAAGACGAAGCACCAAATGGAGGGTGGACTCCTTCTGGATATTATAGTCAGCAAGGGTACGGC
* *
44437248 CATCCTCCAGTTGCTTACCAGCAAAAATCAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCC
521 CATCCTCCAGCTGCTTACCAGCAAAAATAAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCC
* * * * *
44437313 TGAATTTTTGCCTTAACATTGTCAATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTTCCC
586 TGAATCTTGGCCTTAACATTGTCAATGGTATCAGAACTCTCCACCTCCAAGGTAATGGTCTTCCC
44437378 AGTCAAAGTCTTAACAAAAATTTGCATTCCTCCA
651 AGTCAAAGTCTTAACAAAAATTTGCATTCCTCCA
* ** * * *
44437412 CGGAGGCGAAGCACCAAGTGGAGTGTGGACTCCTTCTGGATGTTGTAATCAGCCAA-TGTGCGGC
1 CGGAGGCGAAGCACCAAGTGCAAAGTGGACTCCTTCTGGATGTTGTAATCAG-CAAGGGTCCGCC
* * * *
44437476 CATCCTCAAGTTGCTTACCAGCGAAGATCAGCCTTTGCTGGTCTGGGGGGATGCCTTCCTTGTCC
65 CATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCC
* * * *
44437541 TGAATCTTGGCCTTGACATTGTCAATCGTATCAGAACTCTCCACCTCCAATGTGATGGTCTTTCC
130 TGAATCTTGGCCTTAACATTATCAATCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCC
* * * * * * * *
44437606 GGTGAGGGTCTTGACAAAAATTTGCATACCACCCCTCA-ATCGGAGGACCAAATGGAGTGTGGAT
195 AGTCAGGGTCTTCACAAAAATTTGCATACCACCACGCAGA-CGGAGAACCAAATGGAGGGTGGAC
* * *
44437670 TCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGTTG-TTTACCAGCAAAGATAA
259 TCCTTCTGGATGTTGTAATCAGCAAGGGTACGCCCATCCTCCAGCTGCTTT-CCAGCAAAGATAA
* * * * * * *
44437734 GCCTCTGCTGGTCTGGTGGGATCCCTTCTTTGTCTTGGATCTTGGCCTTTACATTGTCGATGGTA
323 GCCTCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTA
* * * * *
44437799 TCAGAACTTTCCACCTCAAGGGTGATGGTCTTCCCGGTGAGGGTCTTGACAAAAATTTGCATACC
388 TCAGAACTCTCAACCTCAAGGGTGATGGTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACC
* * * * * * * *
44437864 ACCCCTCAA-TCGGAGGACCAAATGGAGTGTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTA
453 ACCAC-CAAGACGAAGCACCAAATGGAGGGTGGACTCCTTCTGGATATTATAGTCAGCAAGGGTA
* * *
44437928 CGGCCATCCTCCAGCTGTTTACCAGCAAAGATAAGCCTCTGTTGGTCTGGTGGGA-TCCCTTCCT
517 CGGCCATCCTCCAGCTGCTTACCAGCAAAAATAAGCCTCTGTTGGTCTGGGGGGATTCCC-TCCT
* * * * * * *
44437992 TGTCTTGGATCTTGGTCTTTACATTGTCGATGGTATCAGAACTTTCCACCT-CAAGGGTGATGGT
581 TGTCCTGAATCTTGGCCTTAACATTGTCAATGGTATCAGAACTCTCCACCTCCAA-GGTAATGGT
* * ** * *
44438056 CTTGCCAGTGAGGGTCTTGACGAAAATTTGCAT
645 CTTCCCAGTCAAAGTCTTAACAAAAATTTGCAT
44438089 CTATTTTGAA
Statistics
Matches: 568, Mismatches: 103, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
683 11 0.02
684 552 0.97
685 5 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (684 bp):
CGGAGGCGAAGCACCAAGTGCAAAGTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTCCGCCC
ATCCTCAAGTTGCTTACCAGCAAAAATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCCT
GAATCTTGGCCTTAACATTATCAATCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCCA
GTCAGGGTCTTCACAAAAATTTGCATACCACCACGCAGACGGAGAACCAAATGGAGGGTGGACTC
CTTCTGGATGTTGTAATCAGCAAGGGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAGATAAGCC
TCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTATCA
GAACTCTCAACCTCAAGGGTGATGGTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACCACC
ACCAAGACGAAGCACCAAATGGAGGGTGGACTCCTTCTGGATATTATAGTCAGCAAGGGTACGGC
CATCCTCCAGCTGCTTACCAGCAAAAATAAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCC
TGAATCTTGGCCTTAACATTGTCAATGGTATCAGAACTCTCCACCTCCAAGGTAATGGTCTTCCC
AGTCAAAGTCTTAACAAAAATTTGCATTCCTCCA
Found at i:44439628 original size:27 final size:27
Alignment explanation
Indices: 44439598--44439654 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
44439588 GGCCAATCAC
*
44439598 ATTGG-CGGCACCAAAGGTGCCAAAGTG
1 ATTGGCCGG-ACCAAAGGTGCCAAAGAG
*
44439625 ATTGGCCTGACCAAAGGTGCCAAAGAG
1 ATTGGCCGGACCAAAGGTGCCAAAGAG
44439652 ATT
1 ATT
44439655 AGCTTGACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.18
Consensus pattern (27 bp):
ATTGGCCGGACCAAAGGTGCCAAAGAG
Found at i:44439662 original size:27 final size:27
Alignment explanation
Indices: 44439607--44439663 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
44439597 CATTGGCGGC
* *
44439607 ACCAAAGGTGCCAAAGTGATTGGCCTG
1 ACCAAAGGTGCCAAAGAGATTAGCCTG
*
44439634 ACCAAAGGTGCCAAAGAGATTAGCTTG
1 ACCAAAGGTGCCAAAGAGATTAGCCTG
44439661 ACC
1 ACC
44439664 GGACTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGAGATTAGCCTG
Found at i:44440012 original size:14 final size:14
Alignment explanation
Indices: 44439960--44440015 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
44439950 TTACTTCTCC
44439960 TAAATTTTTACTCA
1 TAAATTTTTACTCA
* *
44439974 TAAAAGTTCTTAATC-
1 T-AAA-TTTTTACTCA
*
44439989 TATGATTTTTACTCA
1 TA-AATTTTTACTCA
44440004 TAAATTTTTACT
1 TAAATTTTTACT
44440016 TCTCCTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 18 0.56
15 7 0.22
16 7 0.22
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (14 bp):
TAAATTTTTACTCA
Found at i:44440111 original size:19 final size:19
Alignment explanation
Indices: 44440087--44440149 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
44440077 AAGCAATAGT
44440087 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
44440106 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
44440125 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
44440144 TTATTA
1 TTATTA
44440150 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:44440849 original size:27 final size:26
Alignment explanation
Indices: 44440811--44440903 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 26
44440801 ATTTTAGTCC
*
44440811 GGTCAGGCCAATCTCTTTGGCACCTTT
1 GGTCA-GCCAATCACTTTGGCACCTTT
44440838 GGTCAGACCAATCACTTTGGCACCTTT
1 GGTCAG-CCAATCACTTTGGCACCTTT
*
44440865 GGTGCCGCCAATCACTTTGGCACCTTT
1 GGT-CAGCCAATCACTTTGGCACCTTT
*
44440892 GGTGCCGCCAAT
1 GGT-CAGCCAAT
44440904 GTGATTGGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.02
27 59 0.95
28 2 0.03
ACGTcount: A:0.17, C:0.31, G:0.23, T:0.29
Consensus pattern (26 bp):
GGTCAGCCAATCACTTTGGCACCTTT
Found at i:44440951 original size:12 final size:13
Alignment explanation
Indices: 44440929--44440953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44440919 AGGCTGTTGT
44440929 CAGGTTTTTTTTA
1 CAGGTTTTTTTTA
44440942 CAGGTTTTTTTT
1 CAGGTTTTTTTT
44440954 GGTATATTTT
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:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
CAGGTTTTTTTTA
Found at i:44441009 original size:27 final size:25
Alignment explanation
Indices: 44440957--44441015 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
44440947 TTTTTTTGGT
* **
44440957 ATATTTTGGTAAAAAAAAAATTATA
1 ATATTTTAGTAAAAAAAAAAGGATA
44440982 ATATTTTAGTAAATAAAAAAAGGGATA
1 ATATTTTAGTAAA-AAAAAAA-GGATA
*
44441009 ACATTTT
1 ATATTTT
44441016 GGTTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 12 0.43
26 7 0.25
27 9 0.32
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.36
Consensus pattern (25 bp):
ATATTTTAGTAAAAAAAAAAGGATA
Found at i:44445262 original size:141 final size:141
Alignment explanation
Indices: 44445076--44445357 Score: 431
Period size: 141 Copynumber: 2.0 Consensus size: 141
44445066 TGAATTTTTC
*
44445076 TTTGCCCATGGTTTTTATCCTCTTCGAAGGAGTTTTTTACGTAAAATATTTGTGTTCGATC-TCT
1 TTTGCCCATGGTTTTTATCCTCTTCGAAGGAGTTTTTCACGTAAAATATTTGTGTTCGATCTTCT
** * * * *
44445140 CTACCTTTTTCTATTTCGTTATTTATATGGGTCGGTCCCCAACACATCATATCCTACGATATGAT
66 CTACCTTTTTCTATTTCACTATTTATACGAGTCGAT-CCCAACACATCATATCCTACAATATGAT
*
44445205 ACCATTTGAGAG
130 ACCATTTAAGAG
* *
44445217 TTTGTCCATGGTTTTTATCCTCTTCGGAGGAGTTTTTCACGTAAAATATTTGTGTTCGATCTTCT
1 TTTGCCCATGGTTTTTATCCTCTTCGAAGGAGTTTTTCACGTAAAATATTTGTGTTCGATCTTCT
* * *
44445282 TTACCTTTTTCTATTTCACTGTTTATACGAGTTGATCCCAACACATCATATCCTACAATATGATA
66 CTACCTTTTTCTATTTCACTATTTATACGAGTCGATCCCAACACATCATATCCTACAATATGATA
44445347 CCATTTAAGAG
131 CCATTTAAGAG
44445358 AATGAAGTCA
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
141 96 0.76
142 31 0.24
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (141 bp):
TTTGCCCATGGTTTTTATCCTCTTCGAAGGAGTTTTTCACGTAAAATATTTGTGTTCGATCTTCT
CTACCTTTTTCTATTTCACTATTTATACGAGTCGATCCCAACACATCATATCCTACAATATGATA
CCATTTAAGAG
Found at i:44452250 original size:21 final size:21
Alignment explanation
Indices: 44452220--44452264 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
44452210 GTGGCTCAGT
* *
44452220 ACATGGTCGTGTGGCTATTTC
1 ACATGCTCGTGTGACTATTTC
44452241 ACATGCTCGTGTGACTATTTC
1 ACATGCTCGTGTGACTATTTC
44452262 ACA
1 ACA
44452265 CGCCTGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (21 bp):
ACATGCTCGTGTGACTATTTC
Found at i:44456646 original size:46 final size:46
Alignment explanation
Indices: 44456593--44456732 Score: 219
Period size: 46 Copynumber: 3.0 Consensus size: 46
44456583 ACAATGCTAT
* *
44456593 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
44456639 AACTCAGTATGGTTTTCC-TCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGG-TTTCCTTCACTGAAACACCATACCTACTTTTCAC
* *
44456685 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAATTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
44456731 AA
1 AA
44456733 TTTGCCATGG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
45 4 0.05
46 77 0.90
47 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:44460979 original size:27 final size:26
Alignment explanation
Indices: 44460949--44461007 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
44460939 ATAGATGGAC
*
44460949 TAAAAGTAAGTAAAAAGATTAACATTT
1 TAAAAGTAAGTAAAAAGACTAA-ATTT
* * *
44460976 TAAAATTAAGTCAATAGACTAAATTT
1 TAAAAGTAAGTAAAAAGACTAAATTT
44461002 TAAAAG
1 TAAAAG
44461008 ATTGAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAAAGTAAGTAAAAAGACTAAATTT
Found at i:44461283 original size:12 final size:13
Alignment explanation
Indices: 44461267--44461301 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
44461257 TTTTTAACAA
44461267 CTTTTTTTTATAT
1 CTTTTTTTTATAT
*
44461280 -TTTTTATTATAT
1 CTTTTTTTTATAT
44461292 CTTTTTTTTA
1 CTTTTTTTTA
44461302 ATACATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTTTTTATAT
Found at i:44465645 original size:90 final size:90
Alignment explanation
Indices: 44465570--44465877 Score: 476
Period size: 90 Copynumber: 3.4 Consensus size: 90
44465560 TTTGTATTTG
*
44465570 TAAATTTAATTTAGT-TCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACC
1 TAAATTTAATTTAGTCT-GTATTATATGTAGTTTGAATTTAAAATATTCGTGTATTAATTTTACC
*
44465634 AATCTGCTTGTAGTTTGTTGGGTGTT
65 AATCTGTTTGTAGTTTGTTGGGTGTT
* * *
44465660 TAAATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAAATATTCGTGCATTAATTTTACCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATATTCGTGTATTAATTTTACCA
*
44465725 ATCTGTTTGTAGTTTGTCGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* *
44465750 TAAATTTATTTTAGTCTGTATTATATGTAGTTTGAATTTAAAATATTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATATTCGTGTATTAATTTTACCA
* *
44465815 ATCTGGTTGTAGCTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * *
44465840 TAAATTTAATTTAGTCCGTATTAT-TTTTGTTTGAATTT
1 TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTT
44465878 TATATTTTTT
Statistics
Matches: 201, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
89 12 0.06
90 188 0.94
91 1 0.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (90 bp):
TAAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATATTCGTGTATTAATTTTACCA
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:44469219 original size:25 final size:25
Alignment explanation
Indices: 44469152--44469240 Score: 110
Period size: 24 Copynumber: 3.6 Consensus size: 25
44469142 GTCATTAGGG
*
44469152 TTACCGAT-TTTAGCTCTTATGAGC
1 TTACCGATATTCAGCTCTTATGAGC
* *
44469176 TTACCAAT-TTCAGATCTTATGAGC
1 TTACCGATATTCAGCTCTTATGAGC
* *
44469200 TTACCGATACTCAGCTCTTATAAGC
1 TTACCGATATTCAGCTCTTATGAGC
*
44469225 TTACCGTTATTCAGCT
1 TTACCGATATTCAGCT
44469241 TAGAGGAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
24 28 0.51
25 27 0.49
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (25 bp):
TTACCGATATTCAGCTCTTATGAGC
Found at i:44469274 original size:25 final size:25
Alignment explanation
Indices: 44469222--44469274 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
44469212 AGCTCTTATA
* * * *
44469222 AGCTTACCGTTATTCAGCTTAGAGG
1 AGCTTACCATTATTCAACTCAGAAG
*
44469247 AGCTTACTATTATTCAACTCAGAAG
1 AGCTTACCATTATTCAACTCAGAAG
44469272 AGC
1 AGC
44469275 ATACATGTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (25 bp):
AGCTTACCATTATTCAACTCAGAAG
Found at i:44470182 original size:57 final size:57
Alignment explanation
Indices: 44470104--44470217 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
44470094 GGAAAGTAAG
44470104 TTAAGTAACATGAAACAATGCAAAATGATTTACCTTGTGAATTGATATTTTGGGTAC
1 TTAAGTAACATGAAACAATGCAAAATGATTTACCTTGTGAATTGATATTTTGGGTAC
44470161 TTAAGTAACATGAAACAATGCAAAATGATTTACCTTGTGAATTGATATTTTGGGTAC
1 TTAAGTAACATGAAACAATGCAAAATGATTTACCTTGTGAATTGATATTTTGGGTAC
44470218 CAAATTGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (57 bp):
TTAAGTAACATGAAACAATGCAAAATGATTTACCTTGTGAATTGATATTTTGGGTAC
Found at i:44471510 original size:11 final size:11
Alignment explanation
Indices: 44471496--44471549 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
44471486 TTTTTTTTTT
44471496 ATTTTCATTTC
1 ATTTTCATTTC
*
44471507 ATTTCCATTTCC
1 ATTTTCATTT-C
44471519 ATTTTCATTTC
1 ATTTTCATTTC
**
44471530 ATTTAAATTTC
1 ATTTTCATTTC
44471541 A-TTTCATTT
1 ATTTTCATTT
44471550 AAATTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 6 0.17
11 20 0.56
12 10 0.28
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTCATTTC
Found at i:44471515 original size:6 final size:5
Alignment explanation
Indices: 44471498--44471549 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
44471488 TTTTTTTTAT
*
44471498 TTTCA TTTCA TTTCCA TTTCCA TTTTCA TTTCA TTTAAA TTTCA TTTCA
1 TTTCA TTTCA TTT-CA TTT-CA -TTTCA TTTCA TTT-CA TTTCA TTTCA
44471547 TTT
1 TTT
44471550 AAATTTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 25 0.60
6 14 0.33
7 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:44471573 original size:20 final size:21
Alignment explanation
Indices: 44471544--44471589 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44471534 AAATTTCATT
* **
44471544 TCATTTAAATTTTCTTTTTTC
1 TCATTAAAATTTAATTTTTTC
44471565 -CATTAAAATTTAATTTTTTC
1 TCATTAAAATTTAATTTTTTC
44471585 TCATT
1 TCATT
44471590 TCAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (21 bp):
TCATTAAAATTTAATTTTTTC
Found at i:44471661 original size:17 final size:17
Alignment explanation
Indices: 44471633--44471684 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
44471623 ATTAAAAAAA
44471633 TCATTTCAATTTATAATT
1 TCATTTC-ATTTATAATT
44471651 T-ATTTTCATTTA-AACTT
1 TCA-TTTCATTTATAA-TT
44471668 TCATTTCATTTCATAAT
1 TCATTTCATTT-ATAAT
44471685 CATTACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.07
17 17 0.59
18 8 0.28
19 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (17 bp):
TCATTTCATTTATAATT
Found at i:44471709 original size:39 final size:39
Alignment explanation
Indices: 44471655--44471740 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
44471645 ATAATTTATT
44471655 TTCATTTAAACTTTCATTTCATTTCATAATCATTACAAA
1 TTCATTTAAACTTTCATTTCATTTCATAATCATTACAAA
* *
44471694 TTCATTT-AACATTTCATTTTATTTCATATTCATTACAAA
1 TTCATTTAAAC-TTTCATTTCATTTCATAATCATTACAAA
44471733 TTACATTT
1 TT-CATTT
44471741 TATTTCATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 3 0.07
39 35 0.81
40 5 0.12
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (39 bp):
TTCATTTAAACTTTCATTTCATTTCATAATCATTACAAA
Found at i:44471739 original size:28 final size:28
Alignment explanation
Indices: 44471696--44471772 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
44471686 ATTACAAATT
* * *
44471696 CATTTAACATTTCATTTTATTTCATATT
1 CATTTAAAATTACATTTTATTTCATATG
44471724 CA-TTACAAATTACATTTTATTTCATATG
1 CATTTA-AAATTACATTTTATTTCATATG
* *
44471752 CATTTAACATTTCATTTTATT
1 CATTTAAAATTACATTTTATT
44471773 AATTTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.07
28 36 0.86
29 3 0.07
ACGTcount: A:0.31, C:0.14, G:0.01, T:0.53
Consensus pattern (28 bp):
CATTTAAAATTACATTTTATTTCATATG
Found at i:44471799 original size:20 final size:19
Alignment explanation
Indices: 44471761--44471800 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44471751 GCATTTAACA
*
44471761 TTTCATTTTATTAATTTTT
1 TTTCATTTAATTAATTTTT
*
44471780 TTTCATTTAAATTTATTTTT
1 TTTCATTT-AATTAATTTTT
44471800 T
1 T
44471801 CCCTAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCATTTAATTAATTTTT
Found at i:44471829 original size:19 final size:19
Alignment explanation
Indices: 44471775--44471831 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
44471765 ATTTTATTAA
44471775 TTTTTTTTCAT-TTAAATT
1 TTTTTTTTCATATTAAATT
* *
44471793 TATTTTTTCCCTAGTATTTAATT
1 T-TTTTTT-TC-A-TATTAAATT
44471816 TTTTTTTTCATATTAA
1 TTTTTTTTCATATTAA
44471832 TCACAAGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 2 0.07
21 2 0.07
22 7 0.23
23 7 0.23
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTCATATTAAATT
Found at i:44471906 original size:23 final size:21
Alignment explanation
Indices: 44471844--44471916 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
44471834 ACAAGTAGTC
44471844 TCATTTC-AATTTTTTT--TT
1 TCATTTCAAATTTTTTTCATT
*
44471862 TCAGTTCAAATTTTTTTCATT
1 TCATTTCAAATTTTTTTCATT
*
44471883 TCATTTCATATTTTTTCTCAATT
1 TCATTTCAAATTTTTT-TC-ATT
44471906 TCATTT-AAATT
1 TCATTTCAAATT
44471917 CAAAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.13
19 9 0.20
21 16 0.35
22 6 0.13
23 9 0.20
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.62
Consensus pattern (21 bp):
TCATTTCAAATTTTTTTCATT
Found at i:44472171 original size:12 final size:11
Alignment explanation
Indices: 44472096--44472177 Score: 67
Period size: 12 Copynumber: 6.9 Consensus size: 11
44472086 ATTTTTCTTT
44472096 TTTCATTTCAA
1 TTTCATTTCAA
44472107 TTTCAATTTCCAA
1 TTTC-ATTT-CAA
44472120 TTTCCATTTCTAA
1 TTT-CATTTC-AA
* *
44472133 ATTCATTTCAT
1 TTTCATTTCAA
*
44472144 TTTTATTGCTC-A
1 TTTCATT--TCAA
44472156 TTTCATTTCACA
1 TTTCATTTCA-A
44472168 TTTCATTTCA
1 TTTCATTTCA
44472178 TCTAAATTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
10 2 0.04
11 10 0.18
12 28 0.49
13 16 0.28
14 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.01, T:0.54
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:44472222 original size:22 final size:21
Alignment explanation
Indices: 44472167--44472230 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
44472157 TTCATTTCAC
*
44472167 ATTTCA-TTTCATCTAAATTT
1 ATTTCATTTTCATTTAAATTT
* **
44472187 GTTTTTTTTTCATTTAAATTT
1 ATTTCATTTTCATTTAAATTT
*
44472208 ATTTCATTTTCCATTTTAATTT
1 ATTTCATTTT-CATTTAAATTT
44472230 A
1 A
44472231 CGTTTTTTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 3 0.09
21 20 0.59
22 11 0.32
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTCATTTTCATTTAAATTT
Found at i:44472239 original size:22 final size:19
Alignment explanation
Indices: 44472190--44472311 Score: 59
Period size: 22 Copynumber: 6.0 Consensus size: 19
44472180 TAAATTTGTT
*
44472190 TTTTTTTCATTTAAATTTA
1 TTTTTTTCATTTTAATTTA
44472209 TTTCATTTTCCATTTTAATTTA
1 TTT--TTTT-CATTTTAATTTA
* *
44472231 CGTTTTTTTCATATTAA--TG
1 --TTTTTTTCATTTTAATTTA
* * *
44472250 TTTGTCTCATTGTAATTTA
1 TTTTTTTCATTTTAATTTA
* *
44472269 TTTCATTTCAATTTATACTTTA
1 TTT-TTTTC-ATTT-TAATTTA
*
44472291 TTTTCATTTCATATTAATTTA
1 TTTT--TTTCATTTTAATTTA
44472312 ATATTTCATT
Statistics
Matches: 76, Mismatches: 15, Indels: 22
0.67 0.13 0.19
Matches are distributed among these distances:
17 11 0.14
19 8 0.11
20 3 0.04
21 20 0.26
22 27 0.36
23 4 0.05
24 3 0.04
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTTTCATTTTAATTTA
Found at i:44472318 original size:23 final size:23
Alignment explanation
Indices: 44472267--44472350 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 23
44472257 CATTGTAATT
44472267 TATTTCATTTCA-ATTTATACTTT-A
1 TATTTCATTTCATA-TTA-A-TTTAA
44472291 T-TTTCATTTCATATTAATTTAA
1 TATTTCATTTCATATTAATTTAA
* *
44472313 TATTTCATTTCCTATTCATTTAAA
1 TATTTCATTTCATATTAATTT-AA
*
44472337 TATTTTAGTTTCAT
1 TATTTCA-TTTCAT
44472351 TTCAAATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 30 0.59
24 10 0.20
25 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.58
Consensus pattern (23 bp):
TATTTCATTTCATATTAATTTAA
Found at i:44472330 original size:11 final size:11
Alignment explanation
Indices: 44472293--44472394 Score: 58
Period size: 11 Copynumber: 9.8 Consensus size: 11
44472283 ATACTTTATT
44472293 TTCATTTCATA
1 TTCATTTCATA
* *
44472304 TTAATTTAATA
1 TTCATTTCATA
*
44472315 TTTCATTTCCTA
1 -TTCATTTCATA
44472327 TTCATTT-A-A
1 TTCATTTCATA
* *
44472336 AT-ATTTTAGT-
1 TTCATTTCA-TA
*
44472346 TTCATTTCAAA
1 TTCATTTCATA
*
44472357 TTCAATTCATA
1 TTCATTTCATA
*
44472368 -T--TTT-ATT
1 TTCATTTCATA
44472375 TTCATTTCATA
1 TTCATTTCATA
44472386 TTCATTTCA
1 TTCATTTCA
44472395 CTTTATTCAC
Statistics
Matches: 66, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
7 2 0.03
8 7 0.11
9 3 0.05
10 5 0.08
11 41 0.62
12 8 0.12
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (11 bp):
TTCATTTCATA
Found at i:44472378 original size:29 final size:29
Alignment explanation
Indices: 44472336--44472394 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
44472326 ATTCATTTAA
44472336 ATATTTTAGTTTCATTTCAAATTCAATTC
1 ATATTTTAGTTTCATTTCAAATTCAATTC
* * *
44472365 ATATTTTATTTTCATTTCATATTCATTTC
1 ATATTTTAGTTTCATTTCAAATTCAATTC
44472394 A
1 A
44472395 CTTTATTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.56
Consensus pattern (29 bp):
ATATTTTAGTTTCATTTCAAATTCAATTC
Found at i:44472856 original size:22 final size:22
Alignment explanation
Indices: 44472784--44472856 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
44472774 TTTTCAATTG
44472784 AATTAATATATTTAATGTGTTTTA
1 AATT-ATA-ATTTAATGTGTTTTA
* * *
44472808 AATTA-AATATGT-ATGTATATTG
1 AATTATAAT-T-TAATGTGTTTTA
*
44472830 TATTATAATTTAATGTGTTTTA
1 AATTATAATTTAATGTGTTTTA
44472852 AATTA
1 AATTA
44472857 GGAATAAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 3 0.08
22 25 0.68
23 5 0.14
24 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
AATTATAATTTAATGTGTTTTA
Found at i:44476011 original size:54 final size:54
Alignment explanation
Indices: 44475904--44476011 Score: 123
Period size: 54 Copynumber: 2.0 Consensus size: 54
44475894 AATTGGTGTC
* * **
44475904 GGCCATCGGTGTCCCAAAATAAAAAAAATTTTGGGACCCGAAAGAGGTGGTACT
1 GGCCATCAGTGTCCCAAAATAAAAAAAATTTTAGGACCCGAAAGAAATGGTACT
*
44475958 GGCCATCAGTGTCCCAAAGTAAAAAAAAATGTCTTAGGACCC-AAA-AAAT-GTACT
1 GGCCATCAGTGTCCCAAAAT-AAAAAAAAT-T-TTAGGACCCGAAAGAAATGGTACT
44476012 TGGTGCCGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
54 23 0.50
55 11 0.24
56 4 0.09
57 8 0.17
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
GGCCATCAGTGTCCCAAAATAAAAAAAATTTTAGGACCCGAAAGAAATGGTACT
Found at i:44478583 original size:12 final size:12
Alignment explanation
Indices: 44478566--44478596 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
44478556 ACGGAAATTT
44478566 GCTTCAAAGTTG
1 GCTTCAAAGTTG
44478578 GCTTCAAAGTTG
1 GCTTCAAAGTTG
44478590 GCTTCAA
1 GCTTCAA
44478597 TGGTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (12 bp):
GCTTCAAAGTTG
Found at i:44478837 original size:10 final size:11
Alignment explanation
Indices: 44478813--44478837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44478803 GATGCTCCAG
44478813 TTTTCACTCAT
1 TTTTCACTCAT
44478824 TTTTCACTCAT
1 TTTTCACTCAT
44478835 TTT
1 TTT
44478838 GCTCCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCACTCAT
Found at i:44479349 original size:23 final size:23
Alignment explanation
Indices: 44479323--44479388 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
44479313 TAAGTGCGCA
*
44479323 AGTGATAGTGGCACTACGGTACT
1 AGTGAAAGTGGCACTACGGTACT
** *
44479346 AGTGAAAGCAGCACTACAGTACT
1 AGTGAAAGTGGCACTACGGTACT
*
44479369 AGTGAAAGTGACACTACGGT
1 AGTGAAAGTGGCACTACGGT
44479389 CCAAGTGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.21
Consensus pattern (23 bp):
AGTGAAAGTGGCACTACGGTACT
Found at i:44479395 original size:23 final size:23
Alignment explanation
Indices: 44479321--44479395 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
44479311 ATTAAGTGCG
* *
44479321 CAAGTGATAGTGGCACTACGGTA
1 CAAGTGAAAGTGACACTACGGTA
* * *
44479344 CTAGTGAAAG-CAGCACTACAGTA
1 CAAGTGAAAGTGA-CACTACGGTA
* *
44479367 CTAGTGAAAGTGACACTACGGTC
1 CAAGTGAAAGTGACACTACGGTA
44479390 CAAGTG
1 CAAGTG
44479396 TATTGGCACT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
CAAGTGAAAGTGACACTACGGTA
Found at i:44481452 original size:27 final size:27
Alignment explanation
Indices: 44481414--44481470 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
44481404 AGACAATTCC
44481414 ACACCTAATTTTTTAGTTCTCTGTACA
1 ACACCTAATTTTTTAGTTCTCTGTACA
44481441 ACACCTAATTTTTTAGTTCTCTGTACA
1 ACACCTAATTTTTTAGTTCTCTGTACA
44481468 ACA
1 ACA
44481471 GAATTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (27 bp):
ACACCTAATTTTTTAGTTCTCTGTACA
Found at i:44481482 original size:27 final size:26
Alignment explanation
Indices: 44481420--44481477 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
44481410 TTCCACACCT
*
44481420 AATTTTTTAGTTCTCTGTACAACACCT
1 AATTTTTTAGTTCTCTGTACAACA-CG
44481447 AATTTTTTAGTTCTCTGTACAACA-G
1 AATTTTTTAGTTCTCTGTACAACACG
44481472 AATTTT
1 AATTTT
44481478 GTTTAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 6 0.20
27 24 0.80
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (26 bp):
AATTTTTTAGTTCTCTGTACAACACG
Found at i:44488241 original size:22 final size:22
Alignment explanation
Indices: 44488213--44488365 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
44488203 TGTTGATAGT
*
44488213 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
44488235 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
44488257 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
44488279 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
44488301 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
44488323 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
44488345 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
44488366 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:44500763 original size:21 final size:21
Alignment explanation
Indices: 44500738--44500815 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
44500728 ATCTTTAAGG
44500738 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
44500759 ATATGTAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
44500778 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
44500802 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
44500816 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
19 11 0.24
20 3 0.07
21 17 0.37
22 6 0.13
23 9 0.20
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:44500799 original size:17 final size:19
Alignment explanation
Indices: 44500737--44500792 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
44500727 AATCTTTAAG
*
44500737 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
*
44500756 GATATATGTAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
44500777 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
44500793 AGATATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:44504519 original size:41 final size:41
Alignment explanation
Indices: 44504461--44504634 Score: 267
Period size: 41 Copynumber: 4.2 Consensus size: 41
44504451 ACTGACACTT
*
44504461 AGCCTACTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
44504502 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
44504543 AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGACA
1 AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* ** * * *
44504584 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
44504625 AGCCTACTAG
1 AGCCTACTAG
44504635 GCACCGAGCC
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTACTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:44505336 original size:2 final size:2
Alignment explanation
Indices: 44505331--44505372 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
44505321 TCGAACCTTT
44505331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44505373 CACTATACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44509756 original size:14 final size:15
Alignment explanation
Indices: 44509730--44509762 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44509720 TCCCAAGCCG
*
44509730 GGAAGGATCTTATGT
1 GGAAGGATCTTATCT
44509745 GGAAGG-TCTTATCT
1 GGAAGGATCTTATCT
44509759 GGAA
1 GGAA
44509763 AAAACGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.30
Consensus pattern (15 bp):
GGAAGGATCTTATCT
Found at i:44511244 original size:88 final size:88
Alignment explanation
Indices: 44511078--44511559 Score: 741
Period size: 88 Copynumber: 5.5 Consensus size: 88
44511068 GAAATCACAA
* * * * * * * * *
44511078 AGCCTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGATATTTCCTTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-G
* * *
44511142 ACGGTGAAGTAGATCGAAGATACC
65 ACAGCGAAGCAGATCGAAGATACC
* * *
44511166 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTCGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
44511231 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
44511254 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
44511319 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
44511342 AGCTTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
44511407 CAACGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
*
44511430 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCATCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTG-AAGATAGCAGATCTTGCCTTCCTGCATCG
* *
44511495 ACAGCAAAGCAGATCGAAAATACC
65 ACAGCGAAGCAGATCGAAGATACC
*
44511519 AGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTTGAAGATA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
44511560 CCGGCCTTGC
Statistics
Matches: 364, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
88 280 0.77
89 84 0.23
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
CAGCGAAGCAGATCGAAGATACC
Found at i:44511249 original size:45 final size:45
Alignment explanation
Indices: 44511200--44511999 Score: 294
Period size: 43 Copynumber: 18.2 Consensus size: 45
44511190 GGAGCAGGTT
* *
44511200 GAAGATAGTAGATCTCGCCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * ** * * * * * *
44511245 GAAGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
44511288 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * * * * * * * *
44511333 GAAGATACCAGCT-TTGCCTCCCTAG-GTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGCGAAGCAGATC
*
44511376 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * ** * * * * * *
44511421 GAAGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* *
44511464 GAAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGCAGATC
1 G-AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * ** * * * * * *
44511510 GAAAATACCAG-CCTTGCC-TCTCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTC-CTGCATCGACAGCGAAGCAGATC
* ** * ** * * * * *
44511553 GAAGATA-CCGGCCTTGCCTCCCTGGGTCG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * *
44511596 GAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * ** * * * * * *
44511641 GAAGATACCAG-CCTTGCC-TCCTTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATC
* * * *
44511684 GAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * * ** * * * * * *
44511729 AAAGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
*
44511772 GAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * * * ** * * * * * *
44511817 GAAGATACCAG-CCTTGTCTCCCTGGGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* ** * * *
44511860 GAAGATAGCAGATCTTGCCTTCTTATACCAACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
* * ** * * * * *
44511905 GAAGATATCAG-CCTTGCC-TCCTTGGGTCG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATC
* * * * *
44511948 GAAGATAGCATATCTTGCCTTCTTGTACCGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
*
44511993 AAAGATA
1 GAAGATA
44512000 CCAGCCTTGC
Statistics
Matches: 530, Mismatches: 199, Indels: 52
0.68 0.25 0.07
Matches are distributed among these distances:
42 2 0.00
43 180 0.34
44 174 0.33
45 165 0.31
46 9 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
Found at i:44511598 original size:220 final size:219
Alignment explanation
Indices: 44511333--44511778 Score: 714
Period size: 220 Copynumber: 2.0 Consensus size: 219
44511323 GAAGCAGATC
* *
44511333 GAAGATACCAGCTTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* *
44511398 CTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
66 ATGCACCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
* *
44511463 TGAAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGCAGATCGAAA-ATACCAGCCTTGC
131 TG-AAGATAGCAGATCTTACCTTCATGCACCGACAGCAAAGCAGATC-AAAGATACCAGCCTTGC
*
44511527 CTCTCTGGGTTGTAGTGGAGCAGGTT
194 CTCCCTGGGTTGTAGTGGAGCAGGTT
* *
44511553 GAAGATACCGGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* ** *
44511618 ATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGT
66 ATGCACCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
* * **
44511683 TGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCT
131 TGAAGATAGCAGATCTTACCTTCATGCACCGACAGCAAAGCAGATCAAAGATACCAGCCTTGCCT
44511748 CCCTGGGTTGTAGTGGAGCAGGTT
196 CCCTGGGTTGTAGTGGAGCAGGTT
44511772 GAAGATA
1 GAAGATA
44511779 GTAGATCTTG
Statistics
Matches: 208, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
218 3 0.01
219 83 0.40
220 122 0.59
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (219 bp):
GAAGATACCAGCCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
ATGCACCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
TGAAGATAGCAGATCTTACCTTCATGCACCGACAGCAAAGCAGATCAAAGATACCAGCCTTGCCT
CCCTGGGTTGTAGTGGAGCAGGTT
Found at i:44511645 original size:88 final size:88
Alignment explanation
Indices: 44511553--44512022 Score: 751
Period size: 88 Copynumber: 5.3 Consensus size: 88
44511543 GGAGCAGGTT
* *
44511553 GAAGATACCGGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
44511618 ATGTACCGACAGTGAAGCAGATC
66 ATGTACCGACAGTGAAGCAGATC
*
44511641 GAAGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
44511706 ATGTACCGACAGTGAAGCAGATC
66 ATGTACCGACAGTGAAGCAGATC
* *
44511729 AAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* * * *
44511794 CTGCATCGACAGCGAAGCAGATC
66 ATGTACCGACAGTGAAGCAGATC
*
44511817 GAAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* * *
44511882 TTATACCAACAGTGAAGCAGATC
66 ATGTACCGACAGTGAAGCAGATC
* * * *
44511905 GAAGATATCAGCCTTGCCTCCTTGGGTCGTAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
*
44511970 TTGTACCGACAGTGAAGCAGATC
66 ATGTACCGACAGTGAAGCAGATC
* * *
44511993 AAAGATACCAGCCTTGCCTCTCTAGGTTGT
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGT
44512023 CGTGAAGTAG
Statistics
Matches: 350, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 350 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (88 bp):
GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
ATGTACCGACAGTGAAGCAGATC
Found at i:44511660 original size:308 final size:307
Alignment explanation
Indices: 44511245--44511866 Score: 1046
Period size: 308 Copynumber: 2.0 Consensus size: 307
44511235 GAAGCAGATC
*
44511245 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* * *
44511310 CTGCATCGACAGCGAAGCAGATCGAAGATACCAGCTTTGCCTCCCTAGGTTGTAGTGGAGCAGGT
66 ATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGT
* * *
44511375 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCT
131 TGAAGATAGCAGATCTTGCCTTCATGCACCGACAACGAAGCAGATCAAAGATACCAGCCTTGCCT
44511440 CCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGC
196 CCCTGGGTTGTAGTGGAGCAGGTTG-AAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGC
*
44511505 AGATCGAAAATACCAGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTT
260 AGATCGAAAATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTT
*
44511553 GAAGATACCGGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* * * *
44511618 ATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGT
66 ATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGT
* **
44511683 TGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCT
131 TGAAGATAGCAGATCTTGCCTTCATGCACCGACAACGAAGCAGATCAAAGATACCAGCCTTGCCT
* * *
44511748 CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCA
196 CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGCA
* *
44511813 GATCGAAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTT
261 GATCGAAAATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTT
44511860 GAAGATA
1 GAAGATA
44511867 GCAGATCTTG
Statistics
Matches: 293, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
307 88 0.30
308 205 0.70
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (307 bp):
GAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
ATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGT
TGAAGATAGCAGATCTTGCCTTCATGCACCGACAACGAAGCAGATCAAAGATACCAGCCTTGCCT
CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGCA
GATCGAAAATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTT
Found at i:44511967 original size:396 final size:396
Alignment explanation
Indices: 44511157--44511954 Score: 1269
Period size: 396 Copynumber: 2.0 Consensus size: 396
44511147 GAAGTAGATC
* *
44511157 GAAGATACCAG-CCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTCGCCTT
1 GAAGATA-CAGACCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTT
* *
44511221 CCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGG
65 CATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGG
* * * *
44511286 TTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCTTTGCC
130 TTGAAGATAGCAGATCTTGCCTTCATGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCC
44511351 TCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGC
195 TCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGC
44511416 AGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTT
260 AGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTT
* * * *
44511481 ACCTTCCTGCATCGACAGCAAAGCAGATCGAAAATACCAGCCTTGCCTCTCTGGGTTGTAGTGGA
325 ACCTTCCTACACCAACAGCAAAGCAGATCGAAAATACCAGCCTTGCCTCTCTGGGTCGTAGTGGA
44511546 GCAGGTT
390 GCAGGTT
* * * *
44511553 GAAGATACCGGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACAGACCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTTC
* * *
44511618 ATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGT
66 ATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
* *
44511683 TGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCT
131 TGAAGATAGCAGATCTTGCCTTCATGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCT
* * *
44511748 CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCA
196 CCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCA
* *
44511813 GATCGAAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTG-AAGATAGCAGATCTTG
261 GATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTA
* * ** * *
44511877 CCTTCTTATACCAACAGTGAAGCAGATCGAAGATATCAGCCTTGCCTC-CTTGGGTCGTAGTGGA
326 CCTTCCTACACCAACAGCAAAGCAGATCGAAAATACCAGCCTTGCCTCTC-TGGGTCGTAGTGGA
44511941 GCAGGTT
390 GCAGGTT
44511948 GAAGATA
1 GAAGATA
44511955 GCATATCTTG
Statistics
Matches: 369, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
394 1 0.00
395 83 0.22
396 285 0.77
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (396 bp):
GAAGATACAGACCTTGCCTCCCTAGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTTC
ATGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGT
TGAAGATAGCAGATCTTGCCTTCATGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCT
CCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCA
GATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTA
CCTTCCTACACCAACAGCAAAGCAGATCGAAAATACCAGCCTTGCCTCTCTGGGTCGTAGTGGAG
CAGGTT
Found at i:44512040 original size:88 final size:88
Alignment explanation
Indices: 44511554--44512086 Score: 744
Period size: 88 Copynumber: 6.1 Consensus size: 88
44511544 GAGCAGGTTG
* *
44511554 AAGATACCGGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
*
44511619 TGTACCGACAGTGAAGCAGATCG
66 TGTACCGACAGTGAAGCAGATCA
*
44511642 AAGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
44511707 TGTACCGACAGTGAAGCAGATCA
66 TGTACCGACAGTGAAGCAGATCA
* *
44511730 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCC
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
* * * *
44511795 TGCATCGACAGCGAAGCAGATCG
66 TGTACCGACAGTGAAGCAGATCA
* *
44511818 AAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCT
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
* * *
44511883 TATACCAACAGTGAAGCAGATCG
66 TGTACCGACAGTGAAGCAGATCA
* * * * *
44511906 AAGATATCAGCCTTGCCTCCTTGGGTCGTAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTCT
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
44511971 TGTACCGACAGTGAAGCAGATCA
66 TGTACCGACAGTGAAGCAGATCA
* * * * * * * * * * *
44511994 AAGATACCAGCCTTGCCTCTCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCAAATATTGTCTTCA
1 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
** * *
44512059 TGTATTGGC-GTGAAGTAGATCA
66 TGTACCGACAGTGAAGCAGATCA
44512081 AAGATA
1 AAGATA
44512087 GCAGATCTTG
Statistics
Matches: 399, Mismatches: 46, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
87 18 0.05
88 381 0.95
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (88 bp):
AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCA
TGTACCGACAGTGAAGCAGATCA
Found at i:44512073 original size:44 final size:44
Alignment explanation
Indices: 44512023--44512348 Score: 361
Period size: 44 Copynumber: 7.4 Consensus size: 44
44512013 TCTAGGTTGT
* *
44512023 CGTGAAGTAGATCGAAGAAAGCAAATATTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
44512067 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
44512111 CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGG
* * * *** *
44512155 CATGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
44512199 TGGCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
44512244 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * ** ** *
44512286 CATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
44512330 TGGCGAAGTAGATCGAAGA
1 -CGTGAAGTAGATCGAAGA
44512349 TACAAGTCTT
Statistics
Matches: 234, Mismatches: 42, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
42 39 0.17
43 1 0.00
44 148 0.63
45 46 0.20
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:44512087 original size:484 final size:484
Alignment explanation
Indices: 44511120--44512106 Score: 1384
Period size: 484 Copynumber: 2.0 Consensus size: 484
44511110 TTGAAAATAA
* * * * * *
44511120 CAGATATTTCCTTCCTGTACTGACGGTGAAGTAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
* * * *
44511185 GTAGTGGAGCAGGTTGAAGATAGTAGATCTCGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGA
66 GTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTTCATGCACCGACAGCGAAGCAGATCAAAGA
44511250 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
131 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
*
44511315 TCGACAGCGAAGCAGATCGAAGATACCAGCTTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAG
196 TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAG
* * *
44511380 ATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
261 ATAGCAGATCTTGCCTTCCTACACCAACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
* *
44511445 GGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCATCGACAGCAAAGCAGATC
326 GGTCGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCACCGACAGCAAAGCAGATC
* * * * * *** * *
44511510 GAAAATACCAGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTTGAAGATACCGGCCTTGCCTCCC
391 GAAAATACCAGCCTTGCCTCTCTAGGTTGTAGTGAAGCAGATCGAAGAAACAAACATTGCCTCCA
* * * * **
44511575 TGGGTCGTAGTGGAGCAGGTTGAAGATAG
456 TGGATCGGAGTGAAGCAGATCAAAGATAG
* *
44511604 CAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
* * *
44511669 GTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCAAAGA
66 GTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTTCATGCACCGACAGCGAAGCAGATCAAAGA
*
44511734 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCA
131 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
* *
44511799 TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAG
196 TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAG
* * ** * *
44511864 ATAGCAGATCTTGCCTTCTTATACCAACAGTGAAGCAGATCGAAGATATCAGCCTTGCCTCCTTG
261 ATAGCAGATCTTGCCTTCCTACACCAACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
* * * * **
44511929 GGTCGTAGTGGAGCAGGTTG-AAGATAGCATATCTTGCCTTCTTGTACCGACAGTGAAGCAGATC
326 GGTCGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCACCGACAGCAAAGCAGATC
* * * * *
44511993 -AAAGATACCAGCCTTGCCTCTCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCAAATATTGTCTT
391 GAAA-ATACCAGCCTTGCCTCTCTAGGTTGTAGTGAAGCAGATCGAAGAAA-CAAACATTGCCTC
* * * *
44512057 CATGTATTGGCGTGAAGTAGATCAAAGATAG
454 CATGGATCGGAGTGAAGCAGATCAAAGATAG
*
44512088 CAGATCTTGTCTTCATGTA
1 CAGATCTTGCCTTCATGTA
44512107 TTGGCGTGAA
Statistics
Matches: 439, Mismatches: 62, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
482 3 0.01
483 76 0.17
484 360 0.82
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (484 bp):
CAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTT
GTAGTGGAGCAGGTTGAAGATAGCAGATCTCGCCTTCATGCACCGACAGCGAAGCAGATCAAAGA
TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAG
ATAGCAGATCTTGCCTTCCTACACCAACAACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
GGTCGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTACCTTCCTGCACCGACAGCAAAGCAGATC
GAAAATACCAGCCTTGCCTCTCTAGGTTGTAGTGAAGCAGATCGAAGAAACAAACATTGCCTCCA
TGGATCGGAGTGAAGCAGATCAAAGATAG
Found at i:44512138 original size:264 final size:264
Alignment explanation
Indices: 44511597--44512147 Score: 717
Period size: 264 Copynumber: 2.1 Consensus size: 264
44511587 GAGCAGGTTG
* *
44511597 AAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCATATACCAACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
44511662 TTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGA
66 TTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGA
* * * * * * * *
44511727 TCAAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCT
131 TCAAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATATTGCCT
* * * * * *
44511792 TCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGGTTGTAGTGGAGCAG
196 TCATGCATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGTCTCCATGGATTGGAGTGAAGCAG
* **
44511857 GTTG
261 ATCA
* *
44511861 AAGATAGCAGATCTTGCCTTCTTATACCAACAGTGAAGCAGATCGAAGATATCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCATATACCAACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* *
44511926 TTGGGTCGTAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTCTTGTACCGACAGTGAAGCAGA
66 TTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGA
* * * *
44511991 TCAAAGATACCAGCCTTGCCTCTCTAGGTTGTCGTGAAGTAGATCGAAGAAAGCAAATATTGTCT
131 TCAAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATATTGCCT
* * * * * * * * * * *
44512056 TCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
196 TCATGCATCGACAGCGAAGCAGATCAAAGATACCAG-CCTTGTCTCCATGGATTGGAGTGAAGCA
44512120 GATCA
260 GATCA
* *
44512125 AAGATAACAGATCTTGTCTTCAT
1 AAGATAGCAGATCTTGCCTTCAT
44512148 GTATTGGCAT
Statistics
Matches: 244, Mismatches: 42, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
263 19 0.08
264 225 0.92
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (264 bp):
AAGATAGCAGATCTTGCCTTCATATACCAACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCC
TTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGA
TCAAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAGCAGATCGAAGAAAGCAAATATTGCCT
TCATGCATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGTCTCCATGGATTGGAGTGAAGCAG
ATCA
Found at i:44512288 original size:131 final size:133
Alignment explanation
Indices: 44512070--44512346 Score: 427
Period size: 131 Copynumber: 2.1 Consensus size: 133
44512060 GTATTGGCGT
*
44512070 GAAGTAGATC-AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
1 GAAGTAGATCGAAAGAAAGCAGATCTTGTCTTCATGTATTGGCG-GAAGTAGATCAAAGATAACA
* * *
44512134 GATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATACTGG
65 GATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAGCAGATCTTATCTTCCCATACTGG
44512199 TGGC
130 TGGC
* *
44512203 GAAGTAGATCGAAA-AAAGTAGATCTTGTCTTCATGTATTGGC-GAAGTAGATCGAAGA-AAGCA
1 GAAGTAGATCGAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGGAAGTAGATCAAAGATAA-CA
* * *
44512265 GATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACTGG
65 GATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAGCAGATCTTATCTTCCCATACTGG
44512330 TGGC
130 TGGC
44512334 GAAGTAGATCGAA
1 GAAGTAGATCGAA
44512347 GATACAAGTC
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
130 2 0.02
131 92 0.69
133 36 0.27
134 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (133 bp):
GAAGTAGATCGAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGGAAGTAGATCAAAGATAACAG
ATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAGCAGATCTTATCTTCCCATACTGGT
GGC
Found at i:44512386 original size:175 final size:175
Alignment explanation
Indices: 44512026--44512362 Score: 466
Period size: 175 Copynumber: 1.9 Consensus size: 175
44512016 AGGTTGTCGT
* *
44512026 GAAGTAGATCGAAGAAAGCAAATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAAAAAGCAAATATTGTCTTCATGTATTGGCG-GAAGTAGATCAAAGAAAGCAG
* * * *
44512091 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTATTGGC
65 ATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAACAGATCTTGTCTTCACGTATTGGC
*
44512156 ATGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATACTGGTGGC
130 A-GAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATACAGGTGGC
* * * *
44512203 GAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGC-GAAGTAGATCGAAGAAAGCAGA
1 GAAGTAGATCGAAAAAAGCAAATATTGTCTTCATGTATTGGCGGAAGTAGATCAAAGAAAGCAGA
* * *
44512267 TCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACTGGTG
66 TCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAACAGATCTTGTCTTCACGTA-T--TG
44512332 GC-GAAGTAGATCGAAGATA-CA-AGTCTTATCT
128 GCAGAAGTAGATCGAAGATAGCAGA-TCTTATCT
44512363 CCCTGAAGTT
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
174 1 0.01
175 82 0.57
176 18 0.13
177 38 0.27
178 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (175 bp):
GAAGTAGATCGAAAAAAGCAAATATTGTCTTCATGTATTGGCGGAAGTAGATCAAAGAAAGCAGA
TCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGATAACAGATCTTGTCTTCACGTATTGGCA
GAAGTAGATCGAAGATAGCAGATCTTATCTTCCCATACAGGTGGC
Found at i:44512745 original size:19 final size:19
Alignment explanation
Indices: 44512693--44512746 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
44512683 AATCTTCAAG
*
44512693 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
44512712 GATATGCAATCTTGGATAT
1 GATATGCAATCTTGGATAT
*
44512731 GATATGCAATTTTGGA
1 GATATGCAATCTTGGA
44512747 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:44515811 original size:65 final size:66
Alignment explanation
Indices: 44515690--44515812 Score: 144
Period size: 65 Copynumber: 1.9 Consensus size: 66
44515680 AGGAAATATC
* * *
44515690 AGGGACTAACTTAGACAAAAAAAGGTCAAAGTCCAGATGTGGGAACAATTGTCAAGTTTAGGCCT
1 AGGGACTAACTTAGACAAAAAAAGATCAAAGTCCAGATGTGAGAACAATTGCCAAGTTTAGGCCT
44515755 T
66 T
* * * *
44515756 AGGGTCTAACTTGGACCAAAAAAA-ATC-AAGTCTCA-ATGTGAGAATAGTTGCCAAGTT
1 AGGGACTAACTTAGA-CAAAAAAAGATCAAAGTC-CAGATGTGAGAACAATTGCCAAGTT
44515813 CAAGACAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
65 23 0.48
66 17 0.35
67 8 0.17
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (66 bp):
AGGGACTAACTTAGACAAAAAAAGATCAAAGTCCAGATGTGAGAACAATTGCCAAGTTTAGGCCT
T
Found at i:44515863 original size:14 final size:13
Alignment explanation
Indices: 44515834--44515873 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
44515824 AATTTAACCC
*
44515834 AATTTTTTAAAAT
1 AATTTATTAAAAT
44515847 AATTTATTAATAAT
1 AATTTATTAA-AAT
44515861 AATTTATTAAAAT
1 AATTTATTAAAAT
44515874 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:44516263 original size:2 final size:2
Alignment explanation
Indices: 44516256--44516285 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44516246 AAGTACAATG
*
44516256 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44516286 CTTGATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:44516455 original size:18 final size:18
Alignment explanation
Indices: 44516434--44516468 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44516424 TATCTTTCTT
44516434 TATTTTTAATGAAATTTC
1 TATTTTTAATGAAATTTC
**
44516452 TATTTTTTGTGAAATTT
1 TATTTTTAATGAAATTT
44516469 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
TATTTTTAATGAAATTTC
Found at i:44517787 original size:2 final size:2
Alignment explanation
Indices: 44517780--44517810 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
44517770 ATTGGATTGT
*
44517780 TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44517811 TCTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:44532619 original size:30 final size:30
Alignment explanation
Indices: 44532514--44532609 Score: 156
Period size: 30 Copynumber: 3.2 Consensus size: 30
44532504 CTAGGACCAC
*
44532514 CACCAGCTTTTGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
* *
44532544 CGCCAGCTTTAGAAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
*
44532574 CACCAGCTTTCGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
44532604 CACCAG
1 CACCAG
44532610 GAGGTGGAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.22, C:0.17, G:0.45, T:0.17
Consensus pattern (30 bp):
CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
Found at i:44539391 original size:24 final size:24
Alignment explanation
Indices: 44539357--44539419 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
44539347 ATGAAGGGGA
* * *
44539357 TGGAGACGAAG-TCGAAGCCAATGG
1 TGGAGATGAAGAT-GAAGACAATAG
*
44539381 TGGAGATGAAGATGAAGACGATAG
1 TGGAGATGAAGATGAAGACAATAG
44539405 TGGAGATGAAGATGA
1 TGGAGATGAAGATGA
44539420 GTACGAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.38, T:0.16
Consensus pattern (24 bp):
TGGAGATGAAGATGAAGACAATAG
Found at i:44544103 original size:12 final size:12
Alignment explanation
Indices: 44544086--44544124 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
44544076 TTTCTCACTC
*
44544086 TCACTTTCGTTT
1 TCACTTTCTTTT
44544098 TCACTTTCTTTT
1 TCACTTTCTTTT
*
44544110 TCATTTTCTTTT
1 TCACTTTCTTTT
44544122 TCA
1 TCA
44544125 TAATCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.23, G:0.03, T:0.64
Consensus pattern (12 bp):
TCACTTTCTTTT
Found at i:44544123 original size:18 final size:18
Alignment explanation
Indices: 44544090--44544192 Score: 59
Period size: 18 Copynumber: 5.7 Consensus size: 18
44544080 TCACTCTCAC
* *
44544090 TTTCGTTTTCACTTTCTT
1 TTTCTTTTTCATTTTCTT
* * *
44544108 TTTCATTTTCTTTTTCAT
1 TTTCTTTTTCATTTTCTT
**
44544126 AATCTTTTTCGA--TTCTT
1 TTTCTTTTTC-ATTTTCTT
*
44544143 TTCTCTCTTTCAATTTT-TT
1 TT-TCTTTTTC-ATTTTCTT
* * *
44544162 TCTCTTTTTCAATCTCTT
1 TTTCTTTTTCATTTTCTT
44544180 TTTCTTTTTCATT
1 TTTCTTTTTCATT
44544193 ACAACATGAG
Statistics
Matches: 61, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
17 7 0.11
18 49 0.80
19 3 0.05
20 2 0.03
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCATTTTCTT
Found at i:44544125 original size:12 final size:12
Alignment explanation
Indices: 44544090--44544135 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
44544080 TCACTCTCAC
* *
44544090 TTTCGTTTTCAC
1 TTTCTTTTTCAT
44544102 TTTCTTTTTCAT
1 TTTCTTTTTCAT
44544114 TTTCTTTTTCAT
1 TTTCTTTTTCAT
**
44544126 AATCTTTTTC
1 TTTCTTTTTC
44544136 GATTCTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:44545116 original size:17 final size:17
Alignment explanation
Indices: 44545076--44545110 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44545066 TATTTTCTTC
*
44545076 TTCTTCTTTTTTATAAT
1 TTCTTATTTTTTATAAT
44545093 TTCTTATTTTTTA-AAT
1 TTCTTATTTTTTATAAT
44545109 TT
1 TT
44545111 TTTTATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTATTTTTTATAAT
Found at i:44548201 original size:151 final size:151
Alignment explanation
Indices: 44547924--44548225 Score: 586
Period size: 151 Copynumber: 2.0 Consensus size: 151
44547914 CATAGGTAGA
*
44547924 ATTATGTTAGATATCAAGTTGAAGTCTAGCTTCGGATGGTCCTGACTTACACCTACAAATTACGA
1 ATTATGTTAGATATCAAGTTGAAGTCTAGCTTCAGATGGTCCTGACTTACACCTACAAATTACGA
*
44547989 TTTAAAGTTATGTAATTAGAAAAAACGAAGACCCTGATCAAGTTACATTATGTTAGGAATTTGGG
66 TTTAAAGTTATGTAATTAGAAAAAACGAAGACCCTGATCAAGTTACATTATGTTAGAAATTTGGG
44548054 TGATCACATTACACACCTGCT
131 TGATCACATTACACACCTGCT
44548075 ATTATGTTAGATATCAAGTTGAAGTCTAGCTTCAGATGGTCCTGACTTACACCTACAAATTACGA
1 ATTATGTTAGATATCAAGTTGAAGTCTAGCTTCAGATGGTCCTGACTTACACCTACAAATTACGA
44548140 TTTAAAGTTATGTAATTAGAAAAAACGAAGACCCTGATCAAGTTACATTATGTTAGAAATTTGGG
66 TTTAAAGTTATGTAATTAGAAAAAACGAAGACCCTGATCAAGTTACATTATGTTAGAAATTTGGG
44548205 TGATCACATTACACACCTGCT
131 TGATCACATTACACACCTGCT
44548226 GCAACACAAG
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 149 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (151 bp):
ATTATGTTAGATATCAAGTTGAAGTCTAGCTTCAGATGGTCCTGACTTACACCTACAAATTACGA
TTTAAAGTTATGTAATTAGAAAAAACGAAGACCCTGATCAAGTTACATTATGTTAGAAATTTGGG
TGATCACATTACACACCTGCT
Found at i:44548786 original size:18 final size:18
Alignment explanation
Indices: 44548754--44548788 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44548744 TCTGTTGCCC
**
44548754 CTTCTTCCTTGACTGCAT
1 CTTCTTCCTCAACTGCAT
44548772 CTTCTTCCTCAACTGCA
1 CTTCTTCCTCAACTGCA
44548789 CATTCATTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.37, G:0.09, T:0.40
Consensus pattern (18 bp):
CTTCTTCCTCAACTGCAT
Found at i:44570572 original size:49 final size:49
Alignment explanation
Indices: 44570500--44570600 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
44570490 TGATCTAGGC
* * *
44570500 TATACAATGCTAAACTTGGTCTTCTACTGTCTACACTCTTATCACTATT
1 TATACAATGCTAAACCTAGTCTTCCACTGTCTACACTCTTATCACTATT
* * *
44570549 TATACATTGCTAAACCTAGTCTTCCACTGTTTACATTCTTATCACTATT
1 TATACAATGCTAAACCTAGTCTTCCACTGTCTACACTCTTATCACTATT
44570598 TAT
1 TAT
44570601 CCCTTATTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (49 bp):
TATACAATGCTAAACCTAGTCTTCCACTGTCTACACTCTTATCACTATT
Found at i:44572750 original size:24 final size:24
Alignment explanation
Indices: 44572704--44572760 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
44572694 TTCCCAATTA
* *
44572704 ATTGGCTCTCTGAAGTTTCCCGAT
1 ATTGGCTCGCTGAACTTTCCCGAT
44572728 ATTGGCTCGCTTGAACTTT-CCGAT
1 ATTGGCTCGC-TGAACTTTCCCGAT
44572752 -TATGGCTCG
1 AT-TGGCTCG
44572761 GATGAGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 21 0.72
25 7 0.24
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.37
Consensus pattern (24 bp):
ATTGGCTCGCTGAACTTTCCCGAT
Found at i:44572784 original size:25 final size:25
Alignment explanation
Indices: 44572752--44572800 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
44572742 ACTTTCCGAT
* *
44572752 TATGGCTCGGATGAGCTTCCCGTTA
1 TATGGCTCGAAAGAGCTTCCCGTTA
44572777 TATGGCTCGAAAGAGCTTCCCGTT
1 TATGGCTCGAAAGAGCTTCCCGTT
44572801 TACATGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (25 bp):
TATGGCTCGAAAGAGCTTCCCGTTA
Found at i:44574607 original size:43 final size:43
Alignment explanation
Indices: 44574557--44574642 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
44574547 TCATATCTCA
44574557 TTTCTCATATCATAATCATTTCACATATTTGCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCACATATTTGCCATTTCAATAT
* * * * *
44574600 TTTCTCATCTCATATTCATTTCTCATCTTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCACATATTTGCCATTTCAATAT
44574643 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.01, T:0.50
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCACATATTTGCCATTTCAATAT
Found at i:44579510 original size:24 final size:24
Alignment explanation
Indices: 44579482--44579528 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44579472 GCTAACAAGC
* *
44579482 AAAAAGCGTGTTAAAAGACAGAGA
1 AAAAAACGTGTCAAAAGACAGAGA
44579506 AAAAAACGTGTCAAAAGACAGAG
1 AAAAAACGTGTCAAAAGACAGAG
44579529 TTACTCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.23, T:0.11
Consensus pattern (24 bp):
AAAAAACGTGTCAAAAGACAGAGA
Found at i:44579722 original size:15 final size:15
Alignment explanation
Indices: 44579704--44579732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44579694 GGGCCCATAC
44579704 CACCTAAACCCAAAT
1 CACCTAAACCCAAAT
44579719 CACCTAAACCCAAA
1 CACCTAAACCCAAA
44579733 ACTCAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.10
Consensus pattern (15 bp):
CACCTAAACCCAAAT
Found at i:44579771 original size:6 final size:6
Alignment explanation
Indices: 44579762--44579837 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
44579752 TTTGCCCGGG
* *
44579762 CCCAAA CCC--A CCTAAA CCTAAA CCCAAA CCCAAA CCC--A CCCAAA
1 CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA
* *
44579806 CCTAAA CTCAAAA CCCAATTA CCCCAAA CCCA
1 CCCAAA C-CCAAA CCCAA--A -CCCAAA CCCA
44579838 TTTCTATCAG
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
4 7 0.12
6 38 0.67
7 6 0.11
8 1 0.02
9 5 0.09
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.08
Consensus pattern (6 bp):
CCCAAA
Found at i:44579806 original size:28 final size:29
Alignment explanation
Indices: 44579762--44579823 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
44579752 TTTGCCCGGG
* *
44579762 CCCAAACCCACCTAAACCTAAAC-CCAAA
1 CCCAAACCCACCCAAACCTAAACTCAAAA
44579790 CCCAAACCCACCCAAACCTAAACTCAAAA
1 CCCAAACCCACCCAAACCTAAACTCAAAA
44579819 CCCAA
1 CCCAA
44579824 TTACCCCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (29 bp):
CCCAAACCCACCCAAACCTAAACTCAAAA
Found at i:44580224 original size:10 final size:11
Alignment explanation
Indices: 44580200--44580226 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44580190 TTTGTTTTCG
44580200 TTTTTATTTAT
1 TTTTTATTTAT
44580211 TTTTTATTTAT
1 TTTTTATTTAT
44580222 TTTTT
1 TTTTT
44580227 TCTTTCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:44580873 original size:3 final size:3
Alignment explanation
Indices: 44580865--44580902 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
44580855 ATTAACAAAT
44580865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44580903 TTCTCATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44583027 original size:29 final size:29
Alignment explanation
Indices: 44582987--44583103 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
44582977 ATTAAAGTCA
* * *
44582987 ATAAAAACTAT-AAATATTATTAAATTTT
1 ATAAAAAATATAAAAAATTATAAAATTTT
*
44583015 ACTAAAAAATATAAAAAATTGTAAAATTTT
1 A-TAAAAAATATAAAAAATTATAAAATTTT
* *
44583045 AT-AAAAATCGTAAAAATATTATAAAA-TAT
1 ATAAAAAAT-ATAAAAA-ATTATAAAATTTT
*
44583074 AT-AGAAATATAAAAAATTATAAAATTTT
1 ATAAAAAATATAAAAAATTATAAAATTTT
44583102 AT
1 AT
44583104 TAAGTCCTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
27 9 0.12
28 17 0.23
29 25 0.34
30 23 0.31
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
ATAAAAAATATAAAAAATTATAAAATTTT
Found at i:44583039 original size:10 final size:10
Alignment explanation
Indices: 44583017--44583097 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
44583007 TAAATTTTAC
44583017 TAAAAAA-TA
1 TAAAAAATTA
*
44583026 TAAAAAATTG
1 TAAAAAATTA
**
44583036 TAAAATTTTA
1 TAAAAAATTA
**
44583046 T-AAAAATCG
1 TAAAAAATTA
44583055 TAAAAATATTA
1 TAAAAA-ATTA
*
44583066 TAAAATA-TA
1 TAAAAAATTA
*
44583075 T-AGAAA-TA
1 TAAAAAATTA
44583083 TAAAAAATTA
1 TAAAAAATTA
44583093 TAAAA
1 TAAAA
44583098 TTTTATTAAG
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
8 6 0.11
9 19 0.36
10 21 0.40
11 7 0.13
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:44583049 original size:20 final size:20
Alignment explanation
Indices: 44583024--44583103 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
44583014 TACTAAAAAA
*
44583024 TATAAAAAATTGTAAAATTT
1 TATAAAAAATTATAAAATTT
*
44583044 TAT-AAAAATCGTA-AAAATAT
1 TATAAAAAAT--TATAAAATTT
*
44583064 TATAAAATA-TATAGAAA---
1 TATAAAAAATTATA-AAATTT
44583081 TATAAAAAATTATAAAATTT
1 TATAAAAAATTATAAAATTT
44583101 TAT
1 TAT
44583104 TAAGTCCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
17 11 0.23
18 6 0.13
19 7 0.15
20 18 0.38
21 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
TATAAAAAATTATAAAATTT
Found at i:44583128 original size:57 final size:58
Alignment explanation
Indices: 44583021--44583144 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 58
44583011 TTTTACTAAA
* * *
44583021 AAATATAAAAAATTGTAAAATTTTATAAAAATCGTAAAAATATTATAAAATATAT-AG
1 AAATATAAAAAATTATAAAATTTTATAAAAATCCTAAAAAAATTATAAAATATATAAG
* *
44583078 AAATATAAAAAATTATAAAATTTTAT-TAAGTCCTAAGAAAAA-TATAAAAATATATAAAG
1 AAATATAAAAAATTATAAAATTTTATAAAAATCCTAA-AAAAATTAT-AAAATATAT-AAG
44583137 AAATATAA
1 AAATATAA
44583145 TTTTTCTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 10 0.17
57 38 0.66
59 10 0.17
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (58 bp):
AAATATAAAAAATTATAAAATTTTATAAAAATCCTAAAAAAATTATAAAATATATAAG
Found at i:44583173 original size:29 final size:29
Alignment explanation
Indices: 44583140--44583206 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
44583130 TATAAAGAAA
44583140 TATAATTTTTCTATAACTTTTATTGATTT
1 TATAATTTTTCTATAACTTTTATTGATTT
44583169 TATAATTTTTCTATAACTTTTATTGATTT
1 TATAATTTTTCTATAACTTTTATTGATTT
*
44583198 T-TATTTTTT
1 TATAATTTTT
44583207 ATCATTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 7 0.19
29 30 0.81
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (29 bp):
TATAATTTTTCTATAACTTTTATTGATTT
Found at i:44583330 original size:20 final size:19
Alignment explanation
Indices: 44583307--44583367 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
44583297 TTATAAAATA
*
44583307 TTACAAATTTTTTTATTTTT
1 TTAC-AATTTTTTAATTTTT
*
44583327 TTACGATTTTTATAATTTTT
1 TTACAATTTTT-TAATTTTT
*
44583347 TTTCTAA-TTTTTAATTTTT
1 TTAC-AATTTTTTAATTTTT
44583366 TT
1 TT
44583368 TATATTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 16 0.46
20 18 0.51
21 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (19 bp):
TTACAATTTTTTAATTTTT
Found at i:44583368 original size:19 final size:19
Alignment explanation
Indices: 44583315--44583377 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
44583305 TATTACAAAT
* * * *
44583315 TTTTTTATTTTTTTACGAT
1 TTTTTAATTTTTTTTCTAA
44583334 TTTTATAATTTTTTTTCTAA
1 TTTT-TAATTTTTTTTCTAA
*
44583354 TTTTTAATTTTTTTTAT-A
1 TTTTTAATTTTTTTTCTAA
44583372 TTTTTA
1 TTTTTA
44583378 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 7 0.18
19 16 0.42
20 15 0.39
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTAATTTTTTTTCTAA
Found at i:44583387 original size:18 final size:17
Alignment explanation
Indices: 44583366--44583424 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
44583356 TTTAATTTTT
44583366 TTTATATTTTTATTAAAA
1 TTTATATTTTTA-TAAAA
*
44583384 TTTAATAATTTTTCTAAAA
1 TTT-AT-ATTTTTATAAAA
44583403 TTTATTATTTGTTATAAAA
1 TTTA-TATTT-TTATAAAA
44583422 TTT
1 TTT
44583425 TTTCTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTATATTTTTATAAAA
Found at i:44583568 original size:88 final size:90
Alignment explanation
Indices: 44583448--44583621 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 90
44583438 ATAAGAGCAT
* * * * * * *
44583448 GGGCTTAATTGTTTTTGTTTTGAAAAATTTTGAG-GGTCTTTTTGATACATTTTGAAACTTTAAG
1 GGGCTTAATTGCTTTTGTTTTGAAAAAGTTTGAGAGCTC-TTTTGATAAATTTTAAAACTTCAAA
44583512 TACCTAATTGAGTGAA-AAAAAGAAA
65 TACCTAATTGAGTGAAGAAAAAGAAA
* *
44583537 GGGCTTAATTGCTTTT-TTTTGAAGAAGTTTGAGAGCTCTTTTGATAAATTTTAAAAGTTCAAAT
1 GGGCTTAATTGCTTTTGTTTTGAAAAAGTTTGAGAGCTCTTTTGATAAATTTTAAAACTTCAAAT
* *
44583601 GCTTAATTGAGTGAAGAAAAA
66 ACCTAATTGAGTGAAGAAAAA
44583622 TGGAAAATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
88 49 0.68
89 23 0.32
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.40
Consensus pattern (90 bp):
GGGCTTAATTGCTTTTGTTTTGAAAAAGTTTGAGAGCTCTTTTGATAAATTTTAAAACTTCAAAT
ACCTAATTGAGTGAAGAAAAAGAAA
Found at i:44585359 original size:4 final size:4
Alignment explanation
Indices: 44585350--44585382 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
44585340 AAGCTTCTAC
44585350 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
44585383 TTTCTATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:44597570 original size:21 final size:21
Alignment explanation
Indices: 44597520--44597578 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
44597510 TTAACTTATA
44597520 TGAGTTTCAATTTAACCTTTC
1 TGAGTTTCAATTTAACCTTTC
* *
44597541 TGGGTTTCAATTTAGCTCTTT-
1 TGAGTTTCAATTTAAC-CTTTC
* *
44597562 TGAGCTTCAGTTTAACC
1 TGAGTTTCAATTTAACC
44597579 CTTATAGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.84
22 4 0.13
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (21 bp):
TGAGTTTCAATTTAACCTTTC
Found at i:44597589 original size:42 final size:42
Alignment explanation
Indices: 44597518--44597653 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
44597508 AGTTAACTTA
* * * *
44597518 TATGAGTTTCAATTTAACCTTTCTGGGTTTCAATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTTAGCTCT
* * ** *
44597560 TTTGAGCTTCAGTTTAACCCTTATAGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTTAGCTCT
* * * * *
44597602 TATGAGCTTCCGTTCAACCCTTACGGGTTTCTATTTAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTTAGCTCT
*
44597644 TATGTGCTTC
1 TATGAGCTTC
44597654 TGTGCAACCT
Statistics
Matches: 75, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTTAGCTCT
Found at i:44597624 original size:21 final size:21
Alignment explanation
Indices: 44597562--44597624 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
44597552 TTAGCTCTTT
* *
44597562 TGAGCTTCAGTTTAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
* * *
44597583 T-AGGTTTCCGTTCAGCTCTTA
1 TGA-GCTTCCGTTCAACCCTTA
44597604 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
44597625 CGGGTTTCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (21 bp):
TGAGCTTCCGTTCAACCCTTA
Found at i:44600515 original size:6 final size:6
Alignment explanation
Indices: 44600504--44600550 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
44600494 TAGTACAAAT
44600504 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAA
44600551 ATACTAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (6 bp):
AATAAG
Found at i:44600564 original size:6 final size:6
Alignment explanation
Indices: 44600504--44600618 Score: 58
Period size: 6 Copynumber: 19.3 Consensus size: 6
44600494 TAGTACAAAT
* * * * * * *
44600504 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* * * * *
44600552 TACTAAA AATAAA TAT-AA AAT--A AATCAA AATAAT AATAAA ATTAAA
1 -AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
44600598 TAATAAA TAA-AGA AATAAA AA
1 -AATAAA -AATAAA AATAAA AA
44600619 AATAAAAAGG
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
4 4 0.04
5 6 0.07
6 69 0.75
7 13 0.14
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:44600590 original size:40 final size:39
Alignment explanation
Indices: 44600540--44600623 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 39
44600530 TAAGAATAAG
*
44600540 AATAAGAATAAATACTAAA-AATAAATATA-AAATAAATCAA
1 AATAAGAATAAA-ACTAAATAATAAATAAAGAAATAAA--AA
* *
44600580 AATAATAATAAAATTAAATAATAAATAAAGAAATAAAAA
1 AATAAGAATAAAACTAAATAATAAATAAAGAAATAAAAA
44600619 AATAA
1 AATAA
44600624 AAAGGGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 12 0.31
40 20 0.51
41 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (39 bp):
AATAAGAATAAAACTAAATAATAAATAAAGAAATAAAAA
Found at i:44600599 original size:10 final size:10
Alignment explanation
Indices: 44600555--44600608 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
44600545 GAATAAATAC
44600555 TAAAAATAAA
1 TAAAAATAAA
44600565 TATAAAATAAA
1 TA-AAAATAAA
*
44600576 TCAAAATAATAA
1 TAAAAAT-A-AA
*
44600588 TAAAATTAAA
1 TAAAAATAAA
44600598 TAATAAATAAA
1 TAA-AAATAAA
44600609 GAAATAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 12 0.33
11 17 0.47
12 7 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:44601748 original size:93 final size:94
Alignment explanation
Indices: 44601573--44601758 Score: 214
Period size: 93 Copynumber: 2.0 Consensus size: 94
44601563 GAAACGCCTG
* * * * *
44601573 TGTGTCCAGGCCATGTGACCTACACGACCATGTCTACAAACCGTGTAACTCTCTATCATTTGCTC
1 TGTGTCCAGGCCATGTGACCTACACGACCATGTCTACAAACCGAGTAACTCTCTATAAATTACCC
* **
44601638 TAGAATGTACATGGCCTGGGACACGCCCA
66 CAGAATGTACACAGCCTGGGACACGCCCA
* * *
44601667 TGTGTCTAGGCCATGTGACCT-CACGGCCATGTCTTCAAACCGAGTAACTCAT-TATAAATTACC
1 TGTGTCCAGGCCATGTGACCTACACGACCATGTCTACAAACCGAGTAACTC-TCTATAAATTACC
*** *
44601730 CCATTGTGTACACAGCCTGGGACATGCCC
65 CCAGAATGTACACAGCCTGGGACACGCCC
44601759 GTTTGGTTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
93 55 0.72
94 21 0.28
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (94 bp):
TGTGTCCAGGCCATGTGACCTACACGACCATGTCTACAAACCGAGTAACTCTCTATAAATTACCC
CAGAATGTACACAGCCTGGGACACGCCCA
Found at i:44604593 original size:7 final size:7
Alignment explanation
Indices: 44604583--44604608 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44604573 AATTAAATAA
44604583 AAAAAAT
1 AAAAAAT
44604590 AAAAAAT
1 AAAAAAT
44604597 AAAAAAT
1 AAAAAAT
44604604 AAAAA
1 AAAAA
44604609 GACTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:44606307 original size:56 final size:56
Alignment explanation
Indices: 44606238--44606394 Score: 242
Period size: 56 Copynumber: 2.8 Consensus size: 56
44606228 GCTTATCTGT
** * *
44606238 TAGGATATTATTATGCAATATTATTTTTTAGCAATTTGATTCCTAATGGGATGTTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGGATATTA
* * *
44606294 TAGGATATTATTATGGGATATTCTCTCTTAGCAATTTGATTCCTAATGGGATATTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGGATATTA
*
44606350 TAGGATATTATTATGGGATATTATATTTTATCAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTA
44606395 CGTAACTACT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGGATATTA
Found at i:44609515 original size:56 final size:55
Alignment explanation
Indices: 44609423--44609576 Score: 202
Period size: 56 Copynumber: 2.8 Consensus size: 55
44609413 GGGGGAATGT
* * *
44609423 TAGGATATTATTATGAGATATTATCTTTTAGGAATTTGATTCCTAATGGGATGTTA
1 TAGGATATTATTATG-GATATTATCTTTTAGCAATTTGATTCCTAATGAGATATTA
* ** *
44609479 TAGGATATTATTATTGGATATTCTCTCCTAGCAATTTGATTCCTAATTAGATATTA
1 TAGGATATTATTA-TGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATATTA
* *
44609535 TAAGATATTATTAT-GATGTTATCTTTTAGCAATTTGATTCCT
1 TAGGATATTATTATGGATATTATCTTTTAGCAATTTGATTCCT
44609577 CGTATCTTCT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 24 0.28
55 1 0.01
56 58 0.68
57 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (55 bp):
TAGGATATTATTATGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATATTA
Found at i:44610192 original size:15 final size:16
Alignment explanation
Indices: 44610164--44610197 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44610154 TGAATTTTTC
*
44610164 TTTAAAAAATCCAATA
1 TTTAAAAAATCCAAAA
44610180 TTTAAAAAA-CCAAAA
1 TTTAAAAAATCCAAAA
44610195 TTT
1 TTT
44610198 TCATATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
TTTAAAAAATCCAAAA
Found at i:44618158 original size:26 final size:25
Alignment explanation
Indices: 44618129--44618177 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
44618119 TTACAATAGA
44618129 GGTCACTCAATTATTATTGTTTTAAT
1 GGTCACTCAATTA-TATTGTTTTAAT
* * *
44618155 GGTCATTTAATTATATTTTTTTA
1 GGTCACTCAATTATATTGTTTTA
44618178 GTTACCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (25 bp):
GGTCACTCAATTATATTGTTTTAAT
Found at i:44618637 original size:28 final size:28
Alignment explanation
Indices: 44618554--44618637 Score: 64
Period size: 31 Copynumber: 2.9 Consensus size: 28
44618544 AAAGTTAACT
* *
44618554 TGGAAGGTTTACTTA-A-ATAAATACACA
1 TGGAAGGCTT-CTTATATATAAATATACA
** * *
44618581 TAAAAGCCTTCTTATTATAGAAAAGTATACA
1 TGGAAGGCTTCTTA-TATA-TAAA-TATACA
44618612 TGGAAGGCTTCTTATATATAAATATA
1 TGGAAGGCTTCTTATATATAAATATA
44618638 TATATTATAG
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
26 4 0.10
27 6 0.14
28 5 0.12
29 4 0.10
30 7 0.17
31 16 0.38
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (28 bp):
TGGAAGGCTTCTTATATATAAATATACA
Found at i:44618853 original size:29 final size:31
Alignment explanation
Indices: 44618820--44618886 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
44618810 AATTTATAGA
*
44618820 TTTAGTCCCTATA-CTTTT-ATTTGATCAAT
1 TTTAGTCCCTATATCTTTTGAATTGATCAAT
* * *
44618849 TTTAGTCCTTATATTTTTTGAATTGGTCAAT
1 TTTAGTCCCTATATCTTTTGAATTGATCAAT
44618880 TTTAGTC
1 TTTAGTC
44618887 ATTGTACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 12 0.38
30 4 0.12
31 16 0.50
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTAGTCCCTATATCTTTTGAATTGATCAAT
Found at i:44618882 original size:31 final size:32
Alignment explanation
Indices: 44618844--44618917 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 32
44618834 TTTTATTTGA
* *
44618844 TCAATTTTAGTCCTTATA-TTTTTTGAATTGG
1 TCAATTTTAGTCATTATACTTTTTCGAATTGG
* *
44618875 TCAATTTTAGTCATTGTACTTTTTCGAATTTG
1 TCAATTTTAGTCATTATACTTTTTCGAATTGG
*
44618907 -AAATTTTAGTC
1 TCAATTTTAGTC
44618918 TTGACTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.53
Consensus pattern (32 bp):
TCAATTTTAGTCATTATACTTTTTCGAATTGG
Found at i:44623064 original size:21 final size:21
Alignment explanation
Indices: 44623025--44623064 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44623015 TTGACAAAAA
* *
44623025 ACAGATCAGACTTACCATATT
1 ACAGATCAGACTAAACATATT
*
44623046 ACAGATCATACTAAACATA
1 ACAGATCAGACTAAACATA
44623065 CAACATATTA
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:0.23, G:0.07, T:0.25
Consensus pattern (21 bp):
ACAGATCAGACTAAACATATT
Found at i:44627894 original size:11 final size:11
Alignment explanation
Indices: 44627850--44627894 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
44627840 CCTCTATCCT
*
44627850 CCGGCCATCGG
1 CCGGTCATCGG
*
44627861 TCGGTCATCGG
1 CCGGTCATCGG
44627872 -CGGTCATCGG
1 CCGGTCATCGG
*
44627882 CCGGTCGTCGG
1 CCGGTCATCGG
44627893 CC
1 CC
44627895 ACCGCGCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.07, C:0.38, G:0.38, T:0.18
Consensus pattern (11 bp):
CCGGTCATCGG
Found at i:44635206 original size:20 final size:19
Alignment explanation
Indices: 44635167--44635203 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
44635157 CACAAAAGAA
44635167 ACAATTAAAGTTTTGATTC
1 ACAATTAAAGTTTTGATTC
44635186 ACAATATAAA-TTTTGATT
1 ACAAT-TAAAGTTTTGATT
44635204 TCAAGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (19 bp):
ACAATTAAAGTTTTGATTC
Found at i:44635697 original size:21 final size:22
Alignment explanation
Indices: 44635654--44635698 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
44635644 ACATATTTTA
* *
44635654 TTTTATTTTATATTTATATATT
1 TTTTAATTTATATTTATACATT
*
44635676 TTTTAATTTAT-TTTGTACATT
1 TTTTAATTTATATTTATACATT
44635697 TT
1 TT
44635699 AATTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTAATTTATATTTATACATT
Found at i:44638706 original size:31 final size:31
Alignment explanation
Indices: 44638639--44638707 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
44638629 GTTATAAATG
* * *
44638639 TAAATATGACATAAAATATAATTAGATGTAT
1 TAAATATAAAATAAAATATAATTACATGTAT
* *
44638670 AAAATATAAAATAATAATATAA-TACATGTCT
1 TAAATATAAAATAA-AATATAATTACATGTAT
44638701 TAAATAT
1 TAAATAT
44638708 GTCATATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (31 bp):
TAAATATAAAATAAAATATAATTACATGTAT
Found at i:44645674 original size:30 final size:30
Alignment explanation
Indices: 44645640--44645697 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
44645630 GTACAAGCCC
44645640 TCTCATCGAAGACTCGTTGTGTATTCTCCA
1 TCTCATCGAAGACTCGTTGTGTATTCTCCA
44645670 TCTCATCGAAGACTCGTTGTGTATTCTC
1 TCTCATCGAAGACTCGTTGTGTATTCTC
44645698 TAACCAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (30 bp):
TCTCATCGAAGACTCGTTGTGTATTCTCCA
Done.