Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 155 of 279
Found at i:50643978 original size:40 final size:40
Alignment explanation
Indices: 50643923--50644008 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
50643913 TCTACATAAT
*
50643923 ATCTTTTCTTTATCCTGTTTTAGAATAATCTGCTGTGAGA
1 ATCTTTTCTTTATCCTGTTTTAGAATAATCTGCTATGAGA
50643963 ATCTTTTCTTTATCCTGTTTTAGAATAATCTGCTATGAGA
1 ATCTTTTCTTTATCCTGTTTTAGAATAATCTGCTATGAGA
50644003 ATCTTT
1 ATCTTT
50644009 CTCTGACTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (40 bp):
ATCTTTTCTTTATCCTGTTTTAGAATAATCTGCTATGAGA
Found at i:50662373 original size:33 final size:33
Alignment explanation
Indices: 50662311--50662373 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
50662301 ATGGTATAAT
* *
50662311 TATATACATAAAACTTTGATTGTGGTTCAAATA
1 TATATACATAAAACTTTAATTGTGATTCAAATA
* * *
50662344 TATATATATGAAACTTTAATTTTGATTCAA
1 TATATACATAAAACTTTAATTGTGATTCAA
50662374 TCATGCACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (33 bp):
TATATACATAAAACTTTAATTGTGATTCAAATA
Found at i:50668391 original size:60 final size:60
Alignment explanation
Indices: 50668251--50668369 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
50668241 GTCTCCGCCA
* *
50668251 AAACCATCATCTCCACCATCTCCAAAACCACCAGCTCCAGCGGCTCCAGCTCCAGCTCCG
1 AAACCATTATCTCCACCAGCTCCAAAACCACCAGCTCCAGCGGCTCCAGCTCCAGCTCCG
* * * *
50668311 AAAGCATTATTTCCACCAGCTCCAAAACCACTAGCTGCAGCGGCTCCAGCTCCAGCTCC
1 AAACCATTATCTCCACCAGCTCCAAAACCACCAGCTCCAGCGGCTCCAGCTCCAGCTCC
50668370 AGCTCCATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.27, C:0.43, G:0.13, T:0.17
Consensus pattern (60 bp):
AAACCATTATCTCCACCAGCTCCAAAACCACCAGCTCCAGCGGCTCCAGCTCCAGCTCCG
Found at i:50671368 original size:24 final size:24
Alignment explanation
Indices: 50671326--50671385 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
50671316 AAATATTATT
*
50671326 TTATTTTAGTACTTTTTTA-AAAA
1 TTATTTTATTACTTTTTTAGAAAA
*
50671349 TATATTTTATTA-TTTATTTAGTAAA
1 T-TATTTTATTACTTT-TTTAGAAAA
50671374 TTATTTTCATTA
1 TTATTTT-ATTA
50671386 AATTCACATC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 4 0.13
24 19 0.61
25 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (24 bp):
TTATTTTATTACTTTTTTAGAAAA
Found at i:50674716 original size:35 final size:35
Alignment explanation
Indices: 50674670--50674740 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50674660 AGAAAAGAGT
50674670 CAGGAAAGTGGGATATTAGGTCTTTTGATATCAAA
1 CAGGAAAGTGGGATATTAGGTCTTTTGATATCAAA
50674705 CAGGAAAGTGGGATATTAGGTCTTTTGATATCAAA
1 CAGGAAAGTGGGATATTAGGTCTTTTGATATCAAA
50674740 C
1 C
50674741 CTTGTTGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (35 bp):
CAGGAAAGTGGGATATTAGGTCTTTTGATATCAAA
Found at i:50675376 original size:20 final size:20
Alignment explanation
Indices: 50675345--50675397 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
50675335 GATGATATTT
*
50675345 TATA-ATTA-TTTAATTAGA
1 TATATATTATTTTAATGAGA
*
50675363 TATATATTATTTTAATGAGT
1 TATATATTATTTTAATGAGA
*
50675383 TATTTTATTATTTTA
1 TA-TATATTATTTTA
50675398 TTATTATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 10 0.34
21 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
TATATATTATTTTAATGAGA
Found at i:50675403 original size:11 final size:11
Alignment explanation
Indices: 50675387--50675421 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
50675377 ATGAGTTATT
50675387 TTATTATTTTA
1 TTATTATTTTA
*
50675398 TTATTATTTCA
1 TTATTATTTTA
50675409 TTATTATTTTA
1 TTATTATTTTA
50675420 TT
1 TT
50675422 GTTAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:50675421 original size:19 final size:19
Alignment explanation
Indices: 50675368--50675413 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
50675358 TTAGATATAT
* *
50675368 ATTATTTTAATGAGTTATTTT
1 ATTATTTT-ATTA-TTATTTC
50675389 ATTATTTTATTATTATTTC
1 ATTATTTTATTATTATTTC
50675408 ATTATT
1 ATTATT
50675414 ATTTTATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTATTTTATTATTATTTC
Found at i:50677562 original size:46 final size:46
Alignment explanation
Indices: 50677505--50677733 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
50677495 GTGTGCTCTT
* * *
50677505 TGATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAATC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
50677551 TGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATAGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * **
50677597 TGATATAAAATGTGTAAAACCATAGTTGAAAGATACCATAACAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * *
50677643 TAATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGACAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
****
50677689 TGATATGAAATAAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
50677734 ATGACAGAAA
Statistics
Matches: 159, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 159 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:50677718 original size:21 final size:22
Alignment explanation
Indices: 50677658--50677723 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
50677648 TGAAATGTGT
50677658 AAGACCATGGTTGAAAGATAAC
1 AAGACCATGGTTGAAAGATAAC
* * * *
50677680 ATGACAACGTGATATGAAATA-AAC
1 AAGAC--CATGGT-TGAAAGATAAC
50677704 AAGACCATGGTTGAAAGATA
1 AAGACCATGGTTGAAAGATA
50677724 CCATGGCAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
21 6 0.19
22 9 0.28
24 11 0.34
25 6 0.19
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (22 bp):
AAGACCATGGTTGAAAGATAAC
Found at i:50677746 original size:46 final size:46
Alignment explanation
Indices: 50677519--50677800 Score: 187
Period size: 46 Copynumber: 6.2 Consensus size: 46
50677509 ATAAAATGTG
* * ***
50677519 TAAGACCATGATTGAAAGATACCATGGCAATC-TGATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAA-CATGACA-GAAAATAAA
* * * * * ***
50677565 TAAGACCATGGTTGAAAGATATCATAGCAACCTGATATAAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAA
* * ** * * * ***
50677611 TAAAACCATAGTTGAAAGATACCATAACAACCTAATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAAA
* * * *
50677657 TAAGACCATGGTTGAAAGATAACATGACAACGTGATATG-AAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAAA
*
50677703 CAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAA
* * * * * *
50677749 TAAAACCATAGTTGAAAGACACTATGGCATCATGTCA-AAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAA
50677794 TAAGACC
1 TAAGACC
50677801 GTGAATAAGA
Statistics
Matches: 200, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
45 16 0.08
46 184 0.92
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAA
Found at i:50677760 original size:138 final size:138
Alignment explanation
Indices: 50677507--50677767 Score: 362
Period size: 138 Copynumber: 1.9 Consensus size: 138
50677497 GTGCTCTTTG
* * ****
50677507 ATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAATCTGATATGAAATGTGTAAGACC
1 ATATAAAATGTGTAAGACCATGATTGAAAGATAACATGACAATCTGATATGAAATAAACAAGACC
* * * * ***
50677572 ATGGTTGAAAGATATCATAGCAACCTGATATAAAATGTGTAAAACCATAGTTGAAAGATACCATA
66 ATGGTTGAAAGATACCATAGCAACATGACAGAAAATAAATAAAACCATAGTTGAAAGATACCATA
50677637 ACAACCTA
131 ACAACCTA
* *
50677645 ATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGACAA-CGTGATATGAAATAAACAAGAC
1 ATATAAAATGTGTAAGACCATGATTGAAAGATAACATGACAATC-TGATATGAAATAAACAAGAC
*
50677709 CATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAATAAAACCATAGTTGAAAGA
65 CATGGTTGAAAGATACCATAGCAACATGACAGAAAATAAATAAAACCATAGTTGAAAGA
50677768 CACTATGGCA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 105 0.99
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (138 bp):
ATATAAAATGTGTAAGACCATGATTGAAAGATAACATGACAATCTGATATGAAATAAACAAGACC
ATGGTTGAAAGATACCATAGCAACATGACAGAAAATAAATAAAACCATAGTTGAAAGATACCATA
ACAACCTA
Found at i:50692937 original size:68 final size:68
Alignment explanation
Indices: 50692828--50692966 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
50692818 TATGTAATTA
50692828 AAACAATTAAATTATCAACATATTAAAATATATATTCTATAAATATATTTGAATATTTAAAGTTT
1 AAACAATTAAATTATCAACATATTAAAATATATATTCTATAAATATATTTGAATATTTAAAGTTT
50692893 ATT
66 ATT
*
50692896 AAACAATTAAATTATCAACATATTAAAATGTATATTCTATAAATATATTTGAATATTTAAAGTTT
1 AAACAATTAAATTATCAACATATTAAAATATATATTCTATAAATATATTTGAATATTTAAAGTTT
50692961 ATT
66 ATT
50692964 AAA
1 AAA
50692967 TGTATAATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (68 bp):
AAACAATTAAATTATCAACATATTAAAATATATATTCTATAAATATATTTGAATATTTAAAGTTT
ATT
Found at i:50693955 original size:72 final size:70
Alignment explanation
Indices: 50693897--50694041 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 70
50693887 TTCACATGTA
50693897 TAAAATTTTTTATTTTTTATAAAATAAATAAAAAATAGACAAGATAAAACTTAAATTTAAAATAT
1 TAAAATTTTTTATTTTTTATAAAATAAATAAAAAATAGACAAGATAAAACTTAAATTT--AATAT
50693962 TATAATT
64 TATAATT
50693969 TAAAATTTTTTATTTTTTATAAAATAAATAAAAAATAGACAAGATAAAACTTAAATTTAAAATAT
1 TAAAATTTTTTATTTTTTATAAAATAAATAAAAAATAGACAAGATAAAACTTAAATTT--AATAT
50694034 TATAATT
64 TATAATT
50694041 T
1 T
50694042 TATAATTAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (70 bp):
TAAAATTTTTTATTTTTTATAAAATAAATAAAAAATAGACAAGATAAAACTTAAATTTAATATTA
TAATT
Found at i:50695650 original size:28 final size:28
Alignment explanation
Indices: 50695618--50695681 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
50695608 ATGAATTTTA
*
50695618 AAAAAATTGTAAAAATTATAACAGGTAT
1 AAAAAATTGTAAAAAATATAACAGGTAT
*
50695646 AAAAAATTGTAAAAAATATATCAGGTAT
1 AAAAAATTGTAAAAAATATAACAGGTAT
50695674 AAAAAATT
1 AAAAAATT
50695682 CTTAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (28 bp):
AAAAAATTGTAAAAAATATAACAGGTAT
Found at i:50706473 original size:40 final size:40
Alignment explanation
Indices: 50706418--50706498 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
50706408 AAAGAAAAGA
50706418 TGTTTAGCTTTTAACGTAGAAACCGCTCCCCCTTTTTTTC
1 TGTTTAGCTTTTAACGTAGAAACCGCTCCCCCTTTTTTTC
*
50706458 TGTTTAGCTTTTAACGTAGAAACCGCTCCTCCTTTTTTTC
1 TGTTTAGCTTTTAACGTAGAAACCGCTCCCCCTTTTTTTC
50706498 T
1 T
50706499 TTCTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.44
Consensus pattern (40 bp):
TGTTTAGCTTTTAACGTAGAAACCGCTCCCCCTTTTTTTC
Found at i:50707762 original size:20 final size:21
Alignment explanation
Indices: 50707737--50707799 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 21
50707727 ATATTTTTAT
*
50707737 TATTTTTTTATTATTTTCACC
1 TATTTTTTTATTATTTTAACC
50707758 T-TTTTATTACTATTATTATTAACC
1 TATTTT-TT--TATTATT-TTAACC
*
50707782 TATTATTATTATTATTTT
1 TATT-TTTTTATTATTTT
50707800 TATTAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 2 0.06
23 14 0.41
24 6 0.18
25 3 0.09
26 2 0.06
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTTTTATTATTTTAACC
Found at i:50707790 original size:26 final size:24
Alignment explanation
Indices: 50707745--50707805 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
50707735 ATTATTTTTT
*
50707745 TATTATT-TTCACCTTTTTATTAC
1 TATTATTATTAACCTTTTTATTAC
*
50707768 TATTATTATTAACCTATTATTATTAT
1 TATTATTATTAACCT-TT-TTATTAC
*
50707794 TATTTTTATTAA
1 TATTATTATTAA
50707806 TATAGTGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.22
24 6 0.19
25 2 0.06
26 17 0.53
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATTATTAACCTTTTTATTAC
Found at i:50712935 original size:9 final size:9
Alignment explanation
Indices: 50712910--50712948 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
50712900 TTTGAAAACA
50712910 AATTCGATTT
1 AATTCGA-TT
*
50712920 GATTCGATT
1 AATTCGATT
50712929 AATTCGATT
1 AATTCGATT
*
50712938 AACTCGATT
1 AATTCGATT
50712947 AA
1 AA
50712949 CTTGATTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (9 bp):
AATTCGATT
Found at i:50713537 original size:18 final size:18
Alignment explanation
Indices: 50713514--50713553 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50713504 AAAGACAGCC
50713514 AAAAAGAAAGAAAGAAA-A
1 AAAAAGAAAGAAA-AAATA
*
50713532 AAAAAGAACGAAAAAATA
1 AAAAAGAAAGAAAAAATA
50713550 AAAA
1 AAAA
50713554 CAAAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAATA
Found at i:50713558 original size:13 final size:14
Alignment explanation
Indices: 50713514--50713559 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50713504 AAAGACAGCC
* *
50713514 AAAAAGAAAGAAAG
1 AAAAAAAAAGAACG
50713528 AAAAAAAAAGAACG
1 AAAAAAAAAGAACG
50713542 AAAAAATAAA-AAC-
1 AAAAAA-AAAGAACG
50713555 AAAAA
1 AAAAA
50713560 CAACAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.72
15 3 0.10
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAGAACG
Found at i:50713568 original size:23 final size:22
Alignment explanation
Indices: 50713528--50713570 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
50713518 AGAAAGAAAG
* *
50713528 AAAAAAAAAGAACGAAAAAATA
1 AAAAAAAAACAACAAAAAAATA
50713550 AAAACAAAAACAACAAAAAAA
1 AAAA-AAAAACAACAAAAAAA
50713571 ATTGTGGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAACAAAAAAATA
Found at i:50715250 original size:64 final size:63
Alignment explanation
Indices: 50715162--50715285 Score: 194
Period size: 64 Copynumber: 2.0 Consensus size: 63
50715152 TCATTCATAA
*
50715162 CACATCTAGTTGGAGCATTGGATTCATTTCGATCATAGTATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
50715225 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATTCTAATTGTTTGGCATAAG
1 CACATCTAGTT-GGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAG
50715286 TACAGATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 11 0.20
64 44 0.80
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (63 bp):
CACATCTAGTTGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:50715539 original size:44 final size:44
Alignment explanation
Indices: 50715490--50715812 Score: 158
Period size: 44 Copynumber: 7.3 Consensus size: 44
50715480 ACCAACCTAT
50715490 CCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCC
1 CCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCC
* * * * * ** * * *
50715534 CCCTAAACAGTAAG-GAAACAG-GCTGAAGATGACAGACCACCCTATCT
1 CCCTAAGCAGT-AGTGGATCAGATC-GAAGACG-GTGA--GCCTTATCC
* * * *
50715581 CCCTAAGTAGTAGTGGAGT-AGGTTGAAGACGGTAAGCCTTATCC
1 CCCTAAGCAGTAGTGGA-TCAGATCGAAGACGGTGAGCCTTATCC
* * * * ***** ** *
50715625 CCCTGAGCAGTAG-GGAAACAG-GCTGAAAATTACAAATCTTATCT
1 CCCTAAGCAGTAGTGG-ATCAGATC-GAAGACGGTGAGCCTTATCC
* *
50715669 CCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAGCCTTATCC
1 CCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCC
* * * *** * *
50715713 CCCTAAGCAGTAG-GGAATAAGCT-GAAAATTAT-AGATCTTATCT
1 CCCTAAGCAGTAGTGG-ATCAGATCGAAGACGGTGAG-CCTTATCC
* *
50715756 CCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAGCCTTATCC
1 CCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCC
50715800 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
50715813 GGAAACAGGT
Statistics
Matches: 196, Mismatches: 65, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.01
43 34 0.17
44 123 0.63
45 9 0.05
46 3 0.02
47 25 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCC
Found at i:50715775 original size:87 final size:88
Alignment explanation
Indices: 50715489--50715831 Score: 474
Period size: 87 Copynumber: 3.9 Consensus size: 88
50715479 CACCAACCTA
* * *
50715489 TCCCTAAGCAGTAGTGGATCAGATCGAAGACGGTGAGCCTTATCCCCCTAAACAGTAAGGAAACA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
* * * *
50715554 GGCTGAAGATGACAGACCACCCTATC
66 GGCTGAAAATTACAG---ATCTTATC
* * * * * *
50715580 TCCCTAAGTAGTAGTGGAGTAGGTTGAAGACGGTAAGCCTTATCCCCCTGAGCAGTAGGGAAACA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
*
50715645 GGCTGAAAATTACAAATCTTATC
66 GGCTGAAAATTACAGATCTTATC
*
50715668 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAATA-
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAA-AC
*
50715732 A-GCTGAAAATTATAGATCTTATC
65 AGGCTGAAAATTACAGATCTTATC
*
50715755 TCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
*
50715820 GGTTGAAAATTA
66 GGCTGAAAATTA
50715832 TATATGTTTT
Statistics
Matches: 223, Mismatches: 26, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
86 1 0.00
87 81 0.36
88 72 0.32
89 1 0.00
91 68 0.30
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (88 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
GGCTGAAAATTACAGATCTTATC
Found at i:50716257 original size:17 final size:17
Alignment explanation
Indices: 50716235--50716286 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
50716225 CCCATTAAAC
50716235 CACCCCACTAACTCCAA
1 CACCCCACTAACTCCAA
*
50716252 CACCCCACTAA----AC
1 CACCCCACTAACTCCAA
*
50716265 CACCCCACTAACTCCAT
1 CACCCCACTAACTCCAA
50716282 CACCC
1 CACCC
50716287 TACTTGCCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 12 0.41
17 17 0.59
ACGTcount: A:0.33, C:0.56, G:0.00, T:0.12
Consensus pattern (17 bp):
CACCCCACTAACTCCAA
Found at i:50716258 original size:30 final size:30
Alignment explanation
Indices: 50716222--50716286 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
50716212 CCCATTATAC
*
50716222 CACCCCATTAAACCACCCCACTAACTCCAA
1 CACCCCACTAAACCACCCCACTAACTCCAA
*
50716252 CACCCCACTAAACCACCCCACTAACTCCAT
1 CACCCCACTAAACCACCCCACTAACTCCAA
50716282 CACCC
1 CACCC
50716287 TACTTGCCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.54, G:0.00, T:0.12
Consensus pattern (30 bp):
CACCCCACTAAACCACCCCACTAACTCCAA
Found at i:50716270 original size:13 final size:13
Alignment explanation
Indices: 50716207--50716275 Score: 66
Period size: 13 Copynumber: 5.0 Consensus size: 13
50716197 CAACCCAAAT
* *
50716207 ACCACCCCATTAT
1 ACCACCCCACTAA
*
50716220 ACCACCCCATTAA
1 ACCACCCCACTAA
50716233 ACCACCCCACTAA
1 ACCACCCCACTAA
*
50716246 CTCCAACACCCCACTAA
1 ----ACCACCCCACTAA
50716263 ACCACCCCACTAA
1 ACCACCCCACTAA
50716276 CTCCATCACC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
13 36 0.75
17 12 0.25
ACGTcount: A:0.36, C:0.51, G:0.00, T:0.13
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:50718131 original size:20 final size:20
Alignment explanation
Indices: 50718108--50718145 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50718098 TTCACCTTTT
50718108 TATTACTATTATTATTAACC
1 TATTACTATTATTATTAACC
* *
50718128 TATTATTATTTTTATTAA
1 TATTACTATTATTATTAA
50718146 TATTGTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTACTATTATTATTAACC
Found at i:50718143 original size:26 final size:25
Alignment explanation
Indices: 50718078--50718149 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
50718068 TAATTGTGTT
*
50718078 TTTATTA-TTTTATTATTATTTTCACC
1 TTTATTATTTTTATTATTA--TTAACC
**
50718104 TTT-TTATTACTATTATTATTAACC
1 TTTATTATTTTTATTATTATTAACC
*
50718128 TATTATTATTTTTATTAATATT
1 T-TTATTATTTTTATTATTATT
50718150 GTGTTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.16
25 5 0.14
26 26 0.70
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTATTATTTTTATTATTATTAACC
Found at i:50718399 original size:37 final size:36
Alignment explanation
Indices: 50718358--50718486 Score: 114
Period size: 37 Copynumber: 3.8 Consensus size: 36
50718348 ATTCATTTTT
50718358 TTTCATTTTTTTTACAAATTTCTATTTTATTTATTTA
1 TTTCA-TTTTTTTACAAATTTCTATTTTATTTATTTA
* * *
50718395 TTTCAGATTTTTT----A-TT-TA-TTCATTT-TAT-
1 TTTCA-TTTTTTTACAAATTTCTATTTTATTTATTTA
50718423 TTTCATTTTTTTACAAATTTCTATTTTATTTATTTA
1 TTTCATTTTTTTACAAATTTCTATTTTATTTATTTA
** *
50718459 TTTCAGATTTTTACATAATATCTATTTT
1 TTTCATTTTTTTACA-AATTTCTATTTT
50718487 CAACTCTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
27 6 0.08
28 5 0.07
29 2 0.03
30 6 0.08
31 3 0.04
32 4 0.06
33 3 0.04
34 6 0.08
35 2 0.03
36 13 0.18
37 22 0.31
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.65
Consensus pattern (36 bp):
TTTCATTTTTTTACAAATTTCTATTTTATTTATTTA
Found at i:50718432 original size:64 final size:64
Alignment explanation
Indices: 50718341--50718470 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
50718331 CCTTTTTGTA
50718341 TTTATTTATTCATTTTTTTTCATTTTTTTTACAAATTTCTATTTTATTTATTTATTTCAGATTT
1 TTTATTTATTCATTTTTTTTCATTTTTTTTACAAATTTCTATTTTATTTATTTATTTCAGATTT
50718405 TTTATTTATTCATTTTATTTTCA-TTTTTTTACAAATTTCTATTTTATTTATTTATTTCAGATTT
1 TTTATTTATTCATTTT-TTTTCATTTTTTTTACAAATTTCTATTTTATTTATTTATTTCAGATTT
50718469 TT
1 TT
50718471 ACATAATATC
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 59 0.91
65 6 0.09
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (64 bp):
TTTATTTATTCATTTTTTTTCATTTTTTTTACAAATTTCTATTTTATTTATTTATTTCAGATTT
Found at i:50718992 original size:22 final size:23
Alignment explanation
Indices: 50718967--50719012 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
50718957 CAACCAAATC
50718967 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
50718989 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
50719012 A
1 A
50719013 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:50719018 original size:23 final size:23
Alignment explanation
Indices: 50718974--50719018 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50718964 ATCAATTCAA
*
50718974 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
50718997 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
50719019 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:50726763 original size:22 final size:23
Alignment explanation
Indices: 50726738--50726783 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
50726728 CAACCAAATC
50726738 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
50726760 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
50726783 A
1 A
50726784 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:50726789 original size:23 final size:23
Alignment explanation
Indices: 50726745--50726789 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50726735 ATCAATTCAA
*
50726745 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
50726768 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
50726790 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:50730641 original size:59 final size:59
Alignment explanation
Indices: 50730575--50730686 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
50730565 TGAGGGATTA
*
50730575 AAAAATAAATTTACTAATAGTTAAGTGA-TCATCTTGTAACTTTTTATAATTAGTGACCT
1 AAAAATAAATTTACTAATAGTTAAGTGACT-ATCTTGTAACTTTTCATAATTAGTGACCT
* * ** *
50730634 AAAAATAAATTTATTAATATTTGGGTGACTATTTTGTAACTTTTCATAATTAG
1 AAAAATAAATTTACTAATAGTTAAGTGACTATCTTGTAACTTTTCATAATTAG
50730687 GTGATAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.98
60 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (59 bp):
AAAAATAAATTTACTAATAGTTAAGTGACTATCTTGTAACTTTTCATAATTAGTGACCT
Found at i:50730697 original size:59 final size:59
Alignment explanation
Indices: 50730573--50730702 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
50730563 GTTGAGGGAT
*
50730573 TAAAAAATAAATTTACTAATAGTTAAGTGATCATCTTGTAACTTTTTATAATTAGTGACC
1 TAAAAAATAAATTTACTAATAGTTAAGTGATCATCTTGTAACTTTTCATAATTAGTGA-C
* * ** *
50730633 T-AAAAATAAATTTATTAATATTTGGGTGA-CTATTTTGTAACTTTTCATAATTAGGTGA-
1 TAAAAAATAAATTTACTAATAGTTAAGTGATC-ATCTTGTAACTTTTCATAATTA-GTGAC
50730691 TAAAAAAATAAA
1 T-AAAAAATAAA
50730703 GTGGTGTAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.03
59 44 0.73
60 14 0.23
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (59 bp):
TAAAAAATAAATTTACTAATAGTTAAGTGATCATCTTGTAACTTTTCATAATTAGTGAC
Found at i:50734916 original size:74 final size:74
Alignment explanation
Indices: 50734795--50734943 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
50734785 TTTCGGGACC
* *
50734795 ACTATTTCGAGGCCAGATAAAATTATTTTATTATTATTTTATGTGTTATAATATAATTTTATAAG
1 ACTATTTCGAGGCCAGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAG
50734860 TGCATGTAA
66 TGCATGTAA
50734869 ACTATTTCGAGGCCAGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAG
1 ACTATTTCGAGGCCAGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAG
50734934 TGCATGTAA
66 TGCATGTAA
50734943 A
1 A
50734944 TTTTGGTAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (74 bp):
ACTATTTCGAGGCCAGAGAAAATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAG
TGCATGTAA
Found at i:50739116 original size:46 final size:46
Alignment explanation
Indices: 50738278--50739088 Score: 1468
Period size: 46 Copynumber: 17.6 Consensus size: 46
50738268 TGTAACCCGC
50738278 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
* *
50738324 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--G-C-A-TTCGCAT
* * * * * **
50738374 -C-TCA-CGAACTCGGCCTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738417 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738463 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738509 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738555 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738601 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738647 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738693 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738739 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738785 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738831 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738877 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738923 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50738969 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50739015 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
50739061 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
50739089 GAGTTCGGAT
Statistics
Matches: 740, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.01
44 2 0.00
45 2 0.00
46 694 0.94
47 25 0.03
48 3 0.00
49 2 0.00
50 4 0.01
51 2 0.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
Found at i:50742311 original size:39 final size:38
Alignment explanation
Indices: 50742192--50742301 Score: 170
Period size: 39 Copynumber: 2.9 Consensus size: 38
50742182 GCTCTGATGA
50742192 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCAC--TGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTTGT
* * *
50742228 GCTTCAGTTAGCCTTCAGGATTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTT-TGT
50742267 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTT
50742302 ATATACTTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
36 30 0.46
39 35 0.54
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (38 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTTGT
Found at i:50749150 original size:3 final size:3
Alignment explanation
Indices: 50749142--50749176 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
50749132 CAAGAACAAT
*
50749142 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
50749177 CGGGTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50749586 original size:16 final size:15
Alignment explanation
Indices: 50749540--50749589 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
50749530 AAAATTTTTG
*
50749540 GATTATTTTTGTTTA
1 GATTATTTTAGTTTA
* *
50749555 AATTAATTTGAGTTTA
1 GATT-ATTTTAGTTTA
50749571 GATTATTTTAGTTTTA
1 GATTATTTTAG-TTTA
50749587 GAT
1 GAT
50749590 CGTTTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (15 bp):
GATTATTTTAGTTTA
Found at i:50754697 original size:2 final size:2
Alignment explanation
Indices: 50754690--50754730 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
50754680 TGTTCTCAGC
50754690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50754731 CCAAAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50767436 original size:21 final size:21
Alignment explanation
Indices: 50767375--50767439 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
50767365 TAATTAAAAT
*
50767375 AATTTAAAAATTTAAAAA-T-
1 AATTTTAAAATTTAAAAAGTA
* *
50767394 AATCTTAACAATGTT-AATAGTA
1 AATTTTAA-AAT-TTAAAAAGTA
50767416 AATTTTAAAATTTAAAAAGTA
1 AATTTTAAAATTTAAAAAGTA
50767437 AAT
1 AAT
50767440 AGACTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 6 0.17
20 8 0.22
21 15 0.42
22 7 0.19
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTTTAAAATTTAAAAAGTA
Found at i:50797114 original size:2 final size:2
Alignment explanation
Indices: 50797109--50797133 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50797099 ATATATATAT
50797109 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
50797134 TTGACGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50798761 original size:19 final size:19
Alignment explanation
Indices: 50798737--50798775 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
50798727 TCACCCTTTT
50798737 AACATAACTATATAACCCA
1 AACATAACTATATAACCCA
50798756 AACATAACTATATAACCCA
1 AACATAACTATATAACCCA
50798775 A
1 A
50798776 GAAAAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.21
Consensus pattern (19 bp):
AACATAACTATATAACCCA
Found at i:50807158 original size:17 final size:17
Alignment explanation
Indices: 50807136--50807170 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50807126 ATTGAAACCG
50807136 TTAATTTAATCATTAAA
1 TTAATTTAATCATTAAA
50807153 TTAATTTAATCATTAAA
1 TTAATTTAATCATTAAA
50807170 T
1 T
50807171 GACATGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTTAATCATTAAA
Found at i:50809737 original size:16 final size:16
Alignment explanation
Indices: 50809716--50809761 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
50809706 ATTACACGTA
50809716 TAAAAATTATATTTAC
1 TAAAAATTATATTTAC
*
50809732 TAAAAAATAATATTTAC
1 T-AAAAATTATATTTAC
*
50809749 -AATAATTAT-TTTA
1 TAAAAATTATATTTA
50809762 TTTTATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 7 0.27
16 1 0.04
17 14 0.54
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAAATTATATTTAC
Found at i:50809780 original size:16 final size:16
Alignment explanation
Indices: 50809761--50809829 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
50809751 TAATTATTTT
50809761 ATTTTATAAATAAAAA
1 ATTTTATAAATAAAAA
*
50809777 A-TTTATTAATTAAAAA
1 ATTTTA-TAAATAAAAA
* *
50809793 GATAAATTAAAAATAAAAA
1 -AT--TTTATAAATAAAAA
50809812 ATTTTGA-AAATAAAAA
1 ATTTT-ATAAATAAAAA
50809828 AT
1 AT
50809830 AAAAAATGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
15 4 0.10
16 23 0.55
17 2 0.05
18 2 0.05
19 8 0.19
20 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
ATTTTATAAATAAAAA
Found at i:50812613 original size:38 final size:38
Alignment explanation
Indices: 50812494--50812613 Score: 168
Period size: 38 Copynumber: 3.1 Consensus size: 38
50812484 TCGAAATATG
*
50812494 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTATT
*
50812534 ATAACCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
50812572 ATATCCGGGTTAAATCCAGTAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
50812610 ATAT
1 ATAT
50812614 TTGGGCCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 63 0.86
39 2 0.03
40 8 0.11
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:50836396 original size:6 final size:7
Alignment explanation
Indices: 50836364--50836394 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50836354 ATGGAGTAAA
50836364 TTTTAAT
1 TTTTAAT
50836371 TTTTAAT
1 TTTTAAT
*
50836378 TTTTAAC
1 TTTTAAT
50836385 TTTTAAT
1 TTTTAAT
50836392 TTT
1 TTT
50836395 AAGAAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:50836665 original size:16 final size:15
Alignment explanation
Indices: 50836636--50836687 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 15
50836626 CTTTTAAAAG
50836636 TTATAAAAATATAAA
1 TTATAAAAATATAAA
*
50836651 TTATTAAAATAATAAAA
1 TTATAAAAAT-AT-AAA
50836668 TATAGTAAAAATATATAA
1 T-TA-TAAAAATATA-AA
50836686 TT
1 TT
50836688 TATTCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 9 0.30
16 2 0.07
17 6 0.20
18 7 0.23
19 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TTATAAAAATATAAA
Found at i:50842756 original size:15 final size:15
Alignment explanation
Indices: 50842736--50842767 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50842726 GGCATTGCTT
50842736 AAACAGGTACACTGG
1 AAACAGGTACACTGG
50842751 AAACAGGTACACTGG
1 AAACAGGTACACTGG
50842766 AA
1 AA
50842768 CAAGATTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (15 bp):
AAACAGGTACACTGG
Found at i:50849199 original size:21 final size:21
Alignment explanation
Indices: 50849173--50849239 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
50849163 CCTGATCAGT
*
50849173 ATACGACACATAAAGTGTCTG
1 ATACGACACATAAAGTGCCTG
** *
50849194 ATACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
50849215 AAATACGACACATAAAGTGCCTG
1 --ATACGACACATAAAGTGCCTG
50849238 AT
1 AT
50849240 CGATAAAGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 19 0.51
23 18 0.49
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:50849234 original size:23 final size:22
Alignment explanation
Indices: 50849173--50849238 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
50849163 CCTGATCAGT
*
50849173 ATACGACACATAAAGTGTCTG-
1 ATACGACACATAAAGTGCCTGA
** *
50849194 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
50849217 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
50849239 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.47
22 1 0.03
23 18 0.50
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:50849636 original size:15 final size:15
Alignment explanation
Indices: 50849611--50849664 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
50849601 TCATATATAT
50849611 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
50849627 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
50849642 AATAATTTCAATCAA
1 TATAAATTCAATCAA
50849657 TATAAATT
1 TATAAATT
50849665 TAATAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:50854666 original size:11 final size:11
Alignment explanation
Indices: 50854650--50854676 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50854640 TAGAAATTAG
50854650 TTTGTGAAACT
1 TTTGTGAAACT
50854661 TTTGTGAAACT
1 TTTGTGAAACT
50854672 TTTGT
1 TTTGT
50854677 ATTGATTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:50857507 original size:22 final size:23
Alignment explanation
Indices: 50857482--50857527 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50857472 CAACCAAATC
*
50857482 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAGATA
*
50857504 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
50857527 A
1 A
50857528 CGTCATCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:50857533 original size:23 final size:23
Alignment explanation
Indices: 50857489--50857533 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50857479 ATCAATTCAA
* *
50857489 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
50857512 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
50857534 CACATATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:50859316 original size:42 final size:41
Alignment explanation
Indices: 50859162--50859317 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
50859152 TATGTTATCG
*
50859162 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
50859204 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
50859248 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
50859290 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
50859318 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:50863899 original size:42 final size:42
Alignment explanation
Indices: 50863836--50863962 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
50863826 CTTCGTTTTC
** * *
50863836 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
50863879 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
50863920 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
50863961 TC
1 TC
50863963 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:50864112 original size:31 final size:31
Alignment explanation
Indices: 50864069--50864217 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
50864059 CCTGTCACTT
*
50864069 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
50864100 GTAGCCGGAGCTACCATTTTTCAATGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50864131 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
50864162 GTAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50864193 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
50864218 TGTCATTTAT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:50864299 original size:50 final size:51
Alignment explanation
Indices: 50864193--50864321 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
50864183 CACTGATCAA
* * * *
50864193 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTATCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAAT
*
50864244 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTATCATTGATCAGATAAAT
*
50864294 GTAGCCAAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
50864322 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAAT
Found at i:50867527 original size:41 final size:41
Alignment explanation
Indices: 50867476--50867576 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
50867466 TATTCGGGAT
*
50867476 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCCGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* * *
50867517 TTATTCCCTAGCAAGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
50867558 TTATTGCCTAGCAGGCTTT
1 TTATTGCCTAGCAGGCTTT
50867577 ATATGCCTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:50870826 original size:42 final size:43
Alignment explanation
Indices: 50870736--50870857 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 43
50870726 CTTCATTTTC
* * *
50870736 TCGATGCCATAG-TTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCT-AGCTATGGTCTTACACATATTCACATAA
*
50870779 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATAT-A
1 TCGATGCCATAGCCTAGCTATGGTCTTACACATATTCACATAA
* *
50870820 TCGATGCC----CCTAGCTATGGTCTTACACGTAATCACATA
1 TCGATGCCATAGCCTAGCTATGGTCTTACACATATTCACATA
50870858 TCACATATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
38 26 0.38
41 2 0.03
42 39 0.57
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (43 bp):
TCGATGCCATAGCCTAGCTATGGTCTTACACATATTCACATAA
Found at i:50871049 original size:31 final size:31
Alignment explanation
Indices: 50871014--50871129 Score: 198
Period size: 31 Copynumber: 3.7 Consensus size: 31
50871004 CTTGTCACTT
*
50871014 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
50871045 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
50871076 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
50871107 GTAGCCGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
50871130 GTTGTCATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
30 1 0.01
31 78 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:50875855 original size:11 final size:11
Alignment explanation
Indices: 50875839--50875864 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50875829 GGATATATAT
50875839 TTGGTTGTAAA
1 TTGGTTGTAAA
50875850 TTGGTTGTAAA
1 TTGGTTGTAAA
50875861 TTGG
1 TTGG
50875865 AAGTATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (11 bp):
TTGGTTGTAAA
Found at i:50878028 original size:57 final size:56
Alignment explanation
Indices: 50877933--50878051 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 56
50877923 AAGGGGTTTG
*
50877933 AAATCAGCAGGAAAATTGATGATTAAGGGAAAAATTGGAATATTGCAAAATTAACT
1 AAATAAGCAGGAAAATTGATGATTAAGGGAAAAATTGGAATATTGCAAAATTAACT
*
50877989 AAATAAGCAGGAAAATTGATGAATTAAGGGCAAAATTGGAATATTGCAAAATTAACT
1 AAATAAGCAGGAAAATTGATG-ATTAAGGGAAAAATTGGAATATTGCAAAATTAACT
50878046 AAATAA
1 AAATAA
50878052 AGCTAGGACT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 20 0.33
57 40 0.67
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.24
Consensus pattern (56 bp):
AAATAAGCAGGAAAATTGATGATTAAGGGAAAAATTGGAATATTGCAAAATTAACT
Found at i:50878667 original size:39 final size:39
Alignment explanation
Indices: 50878556--50878659 Score: 163
Period size: 39 Copynumber: 2.7 Consensus size: 39
50878546 TGGGGTTTCA
* * *
50878556 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
50878595 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
50878634 GTTTAGCACTTTTGTGTTTCAGTTAG
1 GTTTAGCACTTATGTGCTTCAGTTAG
50878660 ATTTCGGGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:50880319 original size:11 final size:11
Alignment explanation
Indices: 50880296--50880329 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50880286 ATGTTTAATC
*
50880296 ATCAAAAATAA
1 ATCAAAAACAA
*
50880307 ATCAAGAACAA
1 ATCAAAAACAA
50880318 ATCAAAAACAA
1 ATCAAAAACAA
50880329 A
1 A
50880330 ACTAAATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (11 bp):
ATCAAAAACAA
Found at i:50881928 original size:121 final size:120
Alignment explanation
Indices: 50881713--50881991 Score: 420
Period size: 121 Copynumber: 2.3 Consensus size: 120
50881703 CATCCATTGT
* * *
50881713 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAGAGTAAAGGCATTGGAAAAT
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
*
50881778 CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTTCCATAAATTAAATTCA
66 CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATT-A
* * *
50881834 TTTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGATAATGGACAAT
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
* * *
50881899 TAACATTGAAATTAA-TAGTTATAATTATTGTCAACTGTTCCCCTAAATTCAATTA
66 CAACATTGAAA-TAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATTA
*
50881954 ATTAGGAGAAAACAATTAATAAA-TTATA-TTATATTAAA
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAA
50881992 ATTAGATTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
118 10 0.07
119 4 0.03
120 23 0.16
121 105 0.72
122 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (120 bp):
ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATTA
Found at i:50903951 original size:22 final size:22
Alignment explanation
Indices: 50903921--50903963 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50903911 TAAAATGCTT
50903921 AAATAATAATT-TAATATAATTA
1 AAATAATAATTATAAT-TAATTA
*
50903943 AAATCATAATTATAATTAATT
1 AAATAATAATTATAATTAATT
50903964 CTCTAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAATAATTATAATTAATTA
Found at i:50911801 original size:18 final size:19
Alignment explanation
Indices: 50911775--50911812 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50911765 TTTAAAAATA
* *
50911775 TAAATTTTAGAAA-TATTT
1 TAAAATTTACAAATTATTT
50911793 TAAAATTTACAAATTATTT
1 TAAAATTTACAAATTATTT
50911812 T
1 T
50911813 GTAGTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
TAAAATTTACAAATTATTT
Found at i:50917071 original size:37 final size:37
Alignment explanation
Indices: 50917021--50917095 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
50917011 AAACATGACT
50917021 AAGATTACATCCTAATCATTCTTGAAAATACTTCTTC
1 AAGATTACATCCTAATCATTCTTGAAAATACTTCTTC
50917058 AAGATTACATCCTAATCATTCTTGAAAATACTTCTTC
1 AAGATTACATCCTAATCATTCTTGAAAATACTTCTTC
50917095 A
1 A
50917096 TTATCCTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.37
Consensus pattern (37 bp):
AAGATTACATCCTAATCATTCTTGAAAATACTTCTTC
Found at i:50923746 original size:29 final size:29
Alignment explanation
Indices: 50923704--50923761 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
50923694 TCATGTTGTT
*
50923704 GCAAAGAGTTCAAAATCTTATTAAGAGTC
1 GCAAAGAGTTCAAAATCTTATAAAGAGTC
50923733 GCAAAGAGTTCAAAATCTTATAAAGAGTC
1 GCAAAGAGTTCAAAATCTTATAAAGAGTC
50923762 ACAAGTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (29 bp):
GCAAAGAGTTCAAAATCTTATAAAGAGTC
Found at i:50941805 original size:5 final size:5
Alignment explanation
Indices: 50941804--50941834 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
50941794 TAATATATTA
*
50941804 TATAT TATAT TATAT TATAT TATAT AATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
50941835 GTATGTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:50943542 original size:22 final size:22
Alignment explanation
Indices: 50943517--50943595 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
50943507 AAGCAAAAAA
50943517 AAAAAAAAAGAATCAAATGAAG
1 AAAAAAAAAGAATCAAATGAAG
* ** *
50943539 AAAAAAAAAATTTGAA-AAGAAAAAAA
1 -AAAAAAAAA---GAATCA-AATGAAG
50943565 AAAAAAAAAGAATCAAATGAAG
1 AAAAAAAAAGAATCAAATGAAG
50943587 AAAAAAAAA
1 AAAAAAAAA
50943596 ATCCTAGAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
22 16 0.37
23 10 0.23
25 10 0.23
26 7 0.16
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAGAATCAAATGAAG
Found at i:50943542 original size:26 final size:26
Alignment explanation
Indices: 50943513--50943596 Score: 104
Period size: 26 Copynumber: 3.4 Consensus size: 26
50943503 GTCAAAGCAA
50943513 AAAAAAAAAAAAAGAATCAAATGAAG
1 AAAAAAAAAAAAAGAATCAAATGAAG
*** *
50943539 AAAAAAAAAATTTG-A--AAA-GAAA
1 AAAAAAAAAAAAAGAATCAAATGAAG
50943561 AAAAAAAAAAAAAGAATCAAATGAAG
1 AAAAAAAAAAAAAGAATCAAATGAAG
50943587 AAAAAAAAAA
1 AAAAAAAAAA
50943597 TCCTAGAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
22 14 0.30
23 4 0.09
25 4 0.09
26 24 0.52
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (26 bp):
AAAAAAAAAAAAAGAATCAAATGAAG
Found at i:50943564 original size:49 final size:49
Alignment explanation
Indices: 50943491--50943597 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 49
50943481 TGTTTGACGT
* *
50943491 AAAAAAAAATTTGTCAAAGCAAAAAAAAAAAAAAAGAATCAAATGAAGA
1 AAAAAAAAATTTGTAAAAGAAAAAAAAAAAAAAAAGAATCAAATGAAGA
50943540 AAAAAAAAATTTG-AAAAGAAAAAAAAAAAAAAAAGAATCAAATGAAGA
1 AAAAAAAAATTTGTAAAAGAAAAAAAAAAAAAAAAGAATCAAATGAAGA
50943588 AAAAAAAAAT
1 AAAAAAAAAT
50943598 CCTAGAACAT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
48 43 0.77
49 13 0.23
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (49 bp):
AAAAAAAAATTTGTAAAAGAAAAAAAAAAAAAAAAGAATCAAATGAAGA
Found at i:50945748 original size:150 final size:150
Alignment explanation
Indices: 50945477--50945758 Score: 555
Period size: 150 Copynumber: 1.9 Consensus size: 150
50945467 AATTCATATT
50945477 TTTAAACCGAATATACTGTGAATAATCATAAAAATAATTATTCCATTGAAACGTTCATTATTATA
1 TTTAAACCGAATATACTGTGAATAATCATAAAAATAATTATTCCATTGAAACGTTCATTATTATA
*
50945542 AACTATACCATACAAATAGACGAAAAATTAAAATATAATCCAATAAACACTACAGGAAAATGGGG
66 AACTATACCATACAAATAGACGAAAAATTAAAATATAATCCAATAAACACTACAGGAAAATAGGG
50945607 CTATTGCTCTGTTTTTAGCG
131 CTATTGCTCTGTTTTTAGCG
50945627 TTTAAACCGAATATACTGTGAATAATCATAAAAATAATTATTCCATTGAAACGTTCATTATTATA
1 TTTAAACCGAATATACTGTGAATAATCATAAAAATAATTATTCCATTGAAACGTTCATTATTATA
50945692 AACTATACCATACAAATAGACGAAAAATTAAAATATAATCCAATAAACACTACAGGAAAATAGGG
66 AACTATACCATACAAATAGACGAAAAATTAAAATATAATCCAATAAACACTACAGGAAAATAGGG
50945757 CT
131 CT
50945759 TTAGCGGCGT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 131 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (150 bp):
TTTAAACCGAATATACTGTGAATAATCATAAAAATAATTATTCCATTGAAACGTTCATTATTATA
AACTATACCATACAAATAGACGAAAAATTAAAATATAATCCAATAAACACTACAGGAAAATAGGG
CTATTGCTCTGTTTTTAGCG
Found at i:50945822 original size:18 final size:18
Alignment explanation
Indices: 50945799--50945834 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50945789 AAATGTCGCT
50945799 AAAAACGCCACTAAAAAC
1 AAAAACGCCACTAAAAAC
*
50945817 AAAAACGCCGCTAAAAAC
1 AAAAACGCCACTAAAAAC
50945835 CAGAGCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.28, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAACGCCACTAAAAAC
Found at i:50945863 original size:41 final size:41
Alignment explanation
Indices: 50945818--50946117 Score: 433
Period size: 41 Copynumber: 7.4 Consensus size: 41
50945808 ACTAAAAACA
* * *
50945818 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
50945859 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
* *
50945900 AAAACGCCGCTAAAAATCAGAGCATTAGC-GCACTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
* * * *
50945940 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
*
50945981 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
* * * * *
50946022 AAAACGCCTCTAGAAACCATAGAATTAGCGGCGCTTCCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
* *
50946063 -AAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
50946103 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
50946118 GTCATATACT
Statistics
Matches: 228, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 71 0.31
41 157 0.69
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
Found at i:50945967 original size:81 final size:82
Alignment explanation
Indices: 50945818--50946117 Score: 433
Period size: 81 Copynumber: 3.7 Consensus size: 82
50945808 ACTAAAAACA
* * *
50945818 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
50945883 TTAGCGGCGCTTTCGAT
66 TTAGCGGCGCTTTCGAT
* * *
50945900 AAAACGCCGCTAAAAATCAGAGCATTAGC-GCACTTTCGATAAAACGCCGCTAAAAACTAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
* * *
50945964 TTAGCGGCGTTTTTGGT
66 TTAGCGGCGCTTTCGAT
* * * * *
50945981 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTCGATAAAACGCCTCTAGAAACCATAGAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
*
50946046 TTAGCGGCGCTTCCGAT
66 TTAGCGGCGCTTTCGAT
* *
50946063 -AAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
50946118 GTCATATACT
Statistics
Matches: 193, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
81 124 0.64
82 69 0.36
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTCGAT
Found at i:50945978 original size:122 final size:123
Alignment explanation
Indices: 50945818--50946117 Score: 469
Period size: 122 Copynumber: 2.5 Consensus size: 123
50945808 ACTAAAAACA
*
50945818 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* * *
50945883 TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAATCAGAGCATTAGC-GCACTTTCGAT
66 TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGAATTAGCGGCACTTCCGAT
* * *
50945940 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAATCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* * * *
50946005 TTAGCGGCGCTTTCGATAAAACGCCTCTAGAAACCATAGAATTAGCGGCGCTTCCGAT
66 TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGAATTAGCGGCACTTCCGAT
* *
50946063 -AAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
50946118 GTCATATACT
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
122 153 0.94
123 9 0.06
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (123 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGAATTAGCGGCACTTCCGAT
Found at i:50948572 original size:54 final size:54
Alignment explanation
Indices: 50948503--50948611 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
50948493 TTAAGATCCG
50948503 TAAATTTTCCCTAAAACTAGACTCACATATCATTAGACCATAAAATTTTAAGAA
1 TAAATTTTCCCTAAAACTAGACTCACATATCATTAGACCATAAAATTTTAAGAA
*
50948557 TAAATTTTTCCTAAAACTAGACTCACATATCATTAGACCATAAAATTTTAAGAA
1 TAAATTTTCCCTAAAACTAGACTCACATATCATTAGACCATAAAATTTTAAGAA
50948611 T
1 T
50948612 TTTTGGTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (54 bp):
TAAATTTTCCCTAAAACTAGACTCACATATCATTAGACCATAAAATTTTAAGAA
Found at i:50958142 original size:26 final size:26
Alignment explanation
Indices: 50958106--50958157 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
50958096 AATAAACTCT
*
50958106 CAGAGCTAGCTAAAATTTATGGTTTA
1 CAGAGCTAGCTAAAATGTATGGTTTA
50958132 CAGAGCTAGCTAAAATGTATGGTTTA
1 CAGAGCTAGCTAAAATGTATGGTTTA
50958158 AAAACTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (26 bp):
CAGAGCTAGCTAAAATGTATGGTTTA
Found at i:50961784 original size:24 final size:24
Alignment explanation
Indices: 50961751--50961799 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50961741 TAACAGTTCA
*
50961751 GTTTAGTGTAAAGACTTCTAACTC
1 GTTTACTGTAAAGACTTCTAACTC
50961775 GTTTACTGTAAAGACTTCTAACTC
1 GTTTACTGTAAAGACTTCTAACTC
50961799 G
1 G
50961800 AAGAGTGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (24 bp):
GTTTACTGTAAAGACTTCTAACTC
Found at i:50966166 original size:13 final size:13
Alignment explanation
Indices: 50966148--50966176 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50966138 AATACCCAGA
50966148 AAGCGTACAAAGG
1 AAGCGTACAAAGG
50966161 AAGCGTACAAAGG
1 AAGCGTACAAAGG
50966174 AAG
1 AAG
50966177 AACCAGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.14, G:0.31, T:0.07
Consensus pattern (13 bp):
AAGCGTACAAAGG
Found at i:50971825 original size:56 final size:57
Alignment explanation
Indices: 50971739--50971852 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 57
50971729 AAGTAATGCA
*
50971739 TTCAAAACTACTATCTTTAATTGGTATAA-TTTTTATGAAAAGTAGCAAGTTTCGCT
1 TTCAAAACTACTATCTTTAACTGGTATAATTTTTTATGAAAAGTAGCAAGTTTCGCT
50971795 TTCAAAACTACTATCTTTAACTGGTATAATTTTTTATGAAAAGTAGCAAGTTTCGCT
1 TTCAAAACTACTATCTTTAACTGGTATAATTTTTTATGAAAAGTAGCAAGTTTCGCT
50971852 T
1 T
50971853 CTAATGTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 28 0.50
57 28 0.50
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (57 bp):
TTCAAAACTACTATCTTTAACTGGTATAATTTTTTATGAAAAGTAGCAAGTTTCGCT
Found at i:50972805 original size:4 final size:4
Alignment explanation
Indices: 50972796--50972821 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
50972786 CTTTCTAGTT
50972796 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
50972822 ACTTAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:50974612 original size:9 final size:9
Alignment explanation
Indices: 50974595--50974626 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
50974585 GCATCATCTT
50974595 CATCTTCCTC
1 CATC-TCCTC
50974605 CATCTCCTC
1 CATCTCCTC
50974614 CATCTCCTC
1 CATCTCCTC
50974623 CATC
1 CATC
50974627 ACATAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.12, C:0.53, G:0.00, T:0.34
Consensus pattern (9 bp):
CATCTCCTC
Found at i:50979887 original size:46 final size:46
Alignment explanation
Indices: 50979839--50980066 Score: 271
Period size: 46 Copynumber: 5.0 Consensus size: 46
50979829 GCTATCTGAT
* * * *
50979839 ATGAAATGTGTAATACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
50979885 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *** * *
50979931 GA-GAAATGAATAAGACCATGGTTGAAAGATATGGTGGCAGCATAAC
1 -ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
50979977 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
50980023 A-GAAAAAGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
50980067 TCAAGGATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
45 2 0.01
46 155 0.98
47 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:50992075 original size:19 final size:21
Alignment explanation
Indices: 50992034--50992080 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
50992024 TCTTATATAT
*
50992034 AAATAAAAGTCATAAATTT-A
1 AAATAAAAATCATAAATTTAA
*
50992054 AAATAAAAAT-ATATATTTAA
1 AAATAAAAATCATAAATTTAA
50992074 AAATAAA
1 AAATAAA
50992081 TAATGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAAAAATCATAAATTTAA
Found at i:50996062 original size:39 final size:40
Alignment explanation
Indices: 50996019--50996130 Score: 113
Period size: 39 Copynumber: 2.8 Consensus size: 40
50996009 TCAGATAGTT
*
50996019 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
50996058 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
*
50996097 CGAAGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT--TGACACCCAGTGTCTCATCGA
50996131 CTCGAGGTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.33
39 20 0.35
40 1 0.02
41 17 0.30
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:50997711 original size:5 final size:5
Alignment explanation
Indices: 50997693--50997728 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
50997683 TTTCTTTTAT
50997693 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
50997729 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:51004135 original size:38 final size:41
Alignment explanation
Indices: 51004093--51004171 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
51004083 TCTATGTACA
*
51004093 TGCCACCTTTA-CC-AAAGGAAAA-ATACATCACCAAGTTT
1 TGCCACCTTTACCCAAAAGAAAAATATACATCACCAAGTTT
*
51004131 TGCCACCTTTACCCAAAAGAAAAATATATATCACCAAGTTT
1 TGCCACCTTTACCCAAAAGAAAAATATACATCACCAAGTTT
51004172 GTGTTGGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 11 0.31
39 2 0.06
40 8 0.22
41 15 0.42
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (41 bp):
TGCCACCTTTACCCAAAAGAAAAATATACATCACCAAGTTT
Found at i:51004652 original size:39 final size:37
Alignment explanation
Indices: 51004585--51004677 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
51004575 ACCAGAATGG
* *
51004585 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
51004624 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
51004661 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
51004678 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:51005038 original size:3 final size:3
Alignment explanation
Indices: 51005030--51005072 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
51005020 TAATTCCCAC
* * *
51005030 TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA -AT TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51005073 TTATACTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:51005799 original size:17 final size:16
Alignment explanation
Indices: 51005767--51005800 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
51005757 TTGGCTATTC
*
51005767 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
51005783 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
51005800 T
1 T
51005801 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:51005848 original size:14 final size:14
Alignment explanation
Indices: 51005789--51005839 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
51005779 CTTTTGTTTC
*
51005789 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
51005802 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
51005817 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
51005831 TTTTATTTC
1 TTTTATTTC
51005840 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:51006008 original size:14 final size:17
Alignment explanation
Indices: 51005989--51006025 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
51005979 ATTTATTTCT
51005989 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
51006003 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
51006020 TAATAT
1 TAATAT
51006026 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:51012762 original size:25 final size:25
Alignment explanation
Indices: 51012734--51012792 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
51012724 ATGGCTCTTA
* *
51012734 TGAGCTTGCCGATATACAGCTCGAT
1 TGAGCTTCCCGATATACAACTCGAT
* *
51012759 TGAGCTTCCCGTTATACAACTCGAA
1 TGAGCTTCCCGATATACAACTCGAT
*
51012784 AGAGCTTCC
1 TGAGCTTCC
51012793 TGTTTACATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGCTTCCCGATATACAACTCGAT
Found at i:51020586 original size:21 final size:22
Alignment explanation
Indices: 51020560--51020606 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
51020550 CTCTGCTCAA
*
51020560 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
51020581 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
51020603 ACTC
1 ACTC
51020607 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:51027886 original size:38 final size:38
Alignment explanation
Indices: 51027839--51027912 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
51027829 GTTATATAGA
* *
51027839 ATAAGAGTAGTACTTAAATAGACAGATCTAAACAATAT
1 ATAACAGTAGTACTTAAATAGACAAATCTAAACAATAT
51027877 ATAACAGTAGTACTTAAATAGACAAATCTAAACAAT
1 ATAACAGTAGTACTTAAATAGACAAATCTAAACAAT
51027913 CAAAAGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (38 bp):
ATAACAGTAGTACTTAAATAGACAAATCTAAACAATAT
Found at i:51031542 original size:25 final size:24
Alignment explanation
Indices: 51031497--51031544 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51031487 CTTTATATTT
*
51031497 TTTTTACAAACTTAATATTTTTTA
1 TTTTTACAAAATTAATATTTTTTA
* *
51031521 TTTTTATAAAATTCAATTTTTTTT
1 TTTTTACAAAATT-AATATTTTTT
51031545 GCTAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTACAAAATTAATATTTTTTA
Found at i:51032203 original size:5 final size:5
Alignment explanation
Indices: 51032193--51032228 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
51032183 TTATGTTTTA
51032193 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
51032229 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:51052268 original size:1 final size:1
Alignment explanation
Indices: 51052248--51052336 Score: 151
Period size: 1 Copynumber: 89.0 Consensus size: 1
51052238 CAAGTGCATT
* * *
51052248 CCCCCCACCCACCCCGCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
51052313 CCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCC
51052337 AAAAAAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.02, C:0.97, G:0.01, T:0.00
Consensus pattern (1 bp):
C
Found at i:51060479 original size:12 final size:12
Alignment explanation
Indices: 51060462--51060487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51060452 AGACATGTAA
51060462 GTTTACTAATGG
1 GTTTACTAATGG
51060474 GTTTACTAATGG
1 GTTTACTAATGG
51060486 GT
1 GT
51060488 CTTTTCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (12 bp):
GTTTACTAATGG
Found at i:51068716 original size:4 final size:4
Alignment explanation
Indices: 51068707--51068735 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
51068697 CAATAGAGAT
51068707 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
51068736 GGAGGAGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:51073753 original size:29 final size:29
Alignment explanation
Indices: 51073711--51073768 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
51073701 CTGTCAGCAG
51073711 ATAGTCAGGTTTGAGACTTATCTATCATT
1 ATAGTCAGGTTTGAGACTTATCTATCATT
51073740 ATAGTCAGGTTTGAGACTTATCTATCATT
1 ATAGTCAGGTTTGAGACTTATCTATCATT
51073769 CACATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (29 bp):
ATAGTCAGGTTTGAGACTTATCTATCATT
Found at i:51075385 original size:21 final size:21
Alignment explanation
Indices: 51075361--51075400 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51075351 TCTCCATCTC
* *
51075361 CACCTCCACCACGGCCACCCT
1 CACCCCCACCACCGCCACCCT
*
51075382 CACCCCCACCCCCGCCACC
1 CACCCCCACCACCGCCACC
51075401 ACCAGCACCT
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:0.17, C:0.70, G:0.07, T:0.05
Consensus pattern (21 bp):
CACCCCCACCACCGCCACCCT
Found at i:51080509 original size:11 final size:11
Alignment explanation
Indices: 51080493--51080540 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
51080483 TATACTCATC
51080493 CCTTGCCCATA
1 CCTTGCCCATA
51080504 CCTTGCCCATA
1 CCTTGCCCATA
*
51080515 CCTTTCCCATA
1 CCTTGCCCATA
*
51080526 CC-TACCCATA
1 CCTTGCCCATA
51080536 CCTTG
1 CCTTG
51080541 GAAAGGTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.19, C:0.46, G:0.06, T:0.29
Consensus pattern (11 bp):
CCTTGCCCATA
Found at i:51081102 original size:18 final size:18
Alignment explanation
Indices: 51081078--51081166 Score: 133
Period size: 18 Copynumber: 4.9 Consensus size: 18
51081068 ATCGTTTATA
51081078 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
* *
51081096 ATACTATTTACGTATACG
1 GTACTATTCACGTATACG
51081114 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
* *
51081132 GCACTGTTCACGTATACG
1 GTACTATTCACGTATACG
*
51081150 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
51081167 AGTAGTTGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:51082024 original size:11 final size:11
Alignment explanation
Indices: 51082008--51082036 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
51081998 TTAACTTGGT
51082008 TGGCATGGCAA
1 TGGCATGGCAA
51082019 TGGCATGGCAA
1 TGGCATGGCAA
51082030 TGGCATG
1 TGGCATG
51082037 TCAAACGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (11 bp):
TGGCATGGCAA
Found at i:51088852 original size:16 final size:16
Alignment explanation
Indices: 51088831--51088863 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51088821 ATGTATATAA
51088831 ACTTTCAATTTCTTTC
1 ACTTTCAATTTCTTTC
51088847 ACTTTCAATTTCTTTC
1 ACTTTCAATTTCTTTC
51088863 A
1 A
51088864 TAGAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
ACTTTCAATTTCTTTC
Found at i:51093636 original size:2 final size:2
Alignment explanation
Indices: 51093629--51093654 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51093619 GAGAAAAAGT
51093629 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
51093655 AGTGGATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51098652 original size:18 final size:20
Alignment explanation
Indices: 51098626--51098667 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
51098616 ATTTCATATT
*
51098626 ATTTTAAAG-AAAGCCAA-A
1 ATTTAAAAGTAAAGCCAATA
*
51098644 ATTTAAAAGTAAAGTCAATA
1 ATTTAAAAGTAAAGCCAATA
51098664 ATTT
1 ATTT
51098668 TTAAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTAAAAGTAAAGCCAATA
Found at i:51104147 original size:23 final size:23
Alignment explanation
Indices: 51104121--51104176 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
51104111 CTTTAGCACC
51104121 CGGGCGTGTGTTCTATACCTACA
1 CGGGCGTGTGTTCTATACCTACA
51104144 CGGGCGTGTGTTCTATACCTACA
1 CGGGCGTGTGTTCTATACCTACA
51104167 CGGGCGTGTG
1 CGGGCGTGTG
51104177 GAGCCTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (23 bp):
CGGGCGTGTGTTCTATACCTACA
Found at i:51105134 original size:18 final size:17
Alignment explanation
Indices: 51105113--51105156 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
51105103 TTAATTTTTT
51105113 AAAATTATATAATATATA
1 AAAATTATATAATATA-A
*
51105131 AAAATAATATAATATAA
1 AAAATTATATAATATAA
*
51105148 AATATTATA
1 AAAATTATA
51105157 AACTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATATAATATAA
Done.