Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 126 of 185
Found at i:38743357 original size:26 final size:26
Alignment explanation
Indices: 38743294--38743368 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
38743284 CCATAAACCC
*
38743294 AACCCTAAACCCT-AAA-C-ACTA-A
1 AACCTTAAACCCTAAAACCAACTATA
* * *
38743316 AATCTTGAACCATAAAACCAACTATA
1 AACCTTAAACCCTAAAACCAACTATA
* *
38743342 AACCTTAAACCCTAAACCCAACCATA
1 AACCTTAAACCCTAAAACCAACTATA
38743368 A
1 A
38743369 CAATAAGACC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.22
23 3 0.08
24 1 0.03
25 4 0.10
26 23 0.57
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.17
Consensus pattern (26 bp):
AACCTTAAACCCTAAAACCAACTATA
Found at i:38743601 original size:41 final size:40
Alignment explanation
Indices: 38743498--38743617 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 40
38743488 CCCTAACCTC
* **
38743498 AAACCATAAACCCTTAA-ACTATAGACCATAGACCATAACCTTT
1 AAACCATAAACCC--AACACTA-A-ACCATAGACCCTAAAATTT
* * *
38743541 AACCCTTAACCCCAACACTAAACCATAGACCCTAAAATCTT
1 AAACCATAAACCCAACACTAAACCATAGACCCTAAAAT-TT
* * *
38743582 AAACCATAAACCCAACACTAGACCTTAAACCCTAAA
1 AAACCATAAACCCAACACTAAACCATAGACCCTAAA
38743618 CCATAAACCC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
40 14 0.22
41 35 0.56
42 4 0.06
43 10 0.16
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.19
Consensus pattern (40 bp):
AAACCATAAACCCAACACTAAACCATAGACCCTAAAATTT
Found at i:38743626 original size:14 final size:14
Alignment explanation
Indices: 38743558--38743741 Score: 66
Period size: 14 Copynumber: 13.7 Consensus size: 14
38743548 AACCCCAACA
*
38743558 CTAAACCATAGACC
1 CTAAACCATAAACC
* *
38743572 CTAAAATCTTAAACC
1 CT-AAACCATAAACC
* * *
38743587 ATAAACC--CAACA
1 CTAAACCATAAACC
* *
38743599 CTAGACCTTAAACC
1 CTAAACCATAAACC
38743613 CTAAACCATAAACC
1 CTAAACCATAAACC
* *
38743627 C--AAGCAT-AACA
1 CTAAACCATAAACC
*
38743638 CT-AACCCT-AA-C
1 CTAAACCATAAACC
* *
38743649 CTTAACCTTAAACC
1 CTAAACCATAAACC
**
38743663 CTAAAAAATAAA-C
1 CTAAACCATAAACC
* *
38743676 CTTAACTATAAACC
1 CTAAACCATAAACC
*
38743690 CTAAACCCTAAACC
1 CTAAACCATAAACC
* * *
38743704 ATAAATCTTAAACTC
1 CTAAACCATAAAC-C
38743719 C-AAACCAT-AACC
1 CTAAACCATAAACC
*
38743731 TTTAAACCATA
1 -CTAAACCATA
38743742 GACCATAACC
Statistics
Matches: 122, Mismatches: 36, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
11 6 0.05
12 25 0.20
13 15 0.12
14 65 0.53
15 11 0.09
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:38743701 original size:27 final size:28
Alignment explanation
Indices: 38743603--38743732 Score: 84
Period size: 27 Copynumber: 5.0 Consensus size: 28
38743593 CCAACACTAG
*
38743603 ACCT-TAAACCCTAAACCATAAACC-CA
1 ACCTATAAACCCTAAACCATAAACCTTA
* * *
38743629 AGC-AT-AACACT-AACCCT-AACCTTA
1 ACCTATAAACCCTAAACCATAAACCTTA
**
38743653 ACCT-TAAACCCTAAAAAATAAACCTTA
1 ACCTATAAACCCTAAACCATAAACCTTA
* *
38743680 A-CTATAAACCCTAAACCCTAAACCATAA
1 ACCTATAAACCCTAAACCATAAACC-TTA
*
38743708 ATCT-TAAACTCC-AAACCAT-AACCTT
1 ACCTATAAAC-CCTAAACCATAAACCTT
38743733 TAAACCATAG
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
23 4 0.05
24 9 0.11
25 10 0.13
26 9 0.11
27 29 0.37
28 14 0.18
29 4 0.05
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (28 bp):
ACCTATAAACCCTAAACCATAAACCTTA
Found at i:38744229 original size:19 final size:19
Alignment explanation
Indices: 38744201--38744250 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
38744191 AAGTATGTGT
38744201 CCCTAAACCCTAACACTAAC
1 CCCTAAACCCTAACA-TAAC
*
38744221 CCC-AAACCCTAACATCAC
1 CCCTAAACCCTAACATAAC
38744239 CCCTAAACCCTA
1 CCCTAAACCCTA
38744251 GACCTTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (19 bp):
CCCTAAACCCTAACATAAC
Found at i:38750040 original size:101 final size:101
Alignment explanation
Indices: 38749913--38750113 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
38749903 GGTGTCGTTT
38749913 TCATTATTAGGATTGAAAGCCCAGGTCATGCGTTTAATTACCTTTTTAGTCCCTCCTTTTTTAAG
1 TCATTATTAGGATTGAAAGCCCAGGTCATGCGTTTAATTACCTTTTTAGTCCCTCCTTTTTTAAG
38749978 TCGATTACCAATTTGGTTTATCTTTATTTTTCCCTG
66 TCGATTACCAATTTGGTTTATCTTTATTTTTCCCTG
38750014 TCATTATTAGGATTGAAAGCCCAGGTCATGCGTTTAATTACCTTTTTAGTCCCTCCTTTTTTAAG
1 TCATTATTAGGATTGAAAGCCCAGGTCATGCGTTTAATTACCTTTTTAGTCCCTCCTTTTTTAAG
*
38750079 TCGATTACCAGTTTGGTTTATCTTTATTTTTCCCT
66 TCGATTACCAATTTGGTTTATCTTTATTTTTCCCT
38750114 TTTATTTATA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (101 bp):
TCATTATTAGGATTGAAAGCCCAGGTCATGCGTTTAATTACCTTTTTAGTCCCTCCTTTTTTAAG
TCGATTACCAATTTGGTTTATCTTTATTTTTCCCTG
Found at i:38750183 original size:3 final size:3
Alignment explanation
Indices: 38750177--38750206 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38750167 TTTTTTTACT
38750177 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38750207 AGGTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38757671 original size:100 final size:98
Alignment explanation
Indices: 38757509--38758454 Score: 1120
Period size: 100 Copynumber: 9.6 Consensus size: 98
38757499 AAGCCAAAAT
* *
38757509 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGACTCTTAC-TC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
* *
38757573 CTCAAGCGATGCAGTGGAACAGATTAAAGCCACATC
66 C-CAAG-G-TGCAGTGGAACAGATTAAAGCTACAAC
*** * *
38757609 GATGAATCTTGCTTCCCCGATATTGCAGTTAAAAAGATCAAAGCTACAACGGCGAATCTTACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
* * * * *
38757674 CCAGGCGGTGCAGTGGAATAGATGAAAGCCAAAAC
66 CCA--AGGTGCAGTGGAACAGATTAAAGCTACAAC
* * * *** ** * * *
38757709 GG---ATATTGTCTT-CCTG-CATCGACAACGAAGTAGATCGAAA---A-TAC--C-AATTTTAC
1 GGCAAATCTTG-CTTCCCCGACATTG-CAGTTAAAAAGAT-TAAAGCTACAACGGCGAATCTTAC
* * * *
38757762 -TCTCCAGGCGATGCAGTGGAACAAATTAAAGCCACATC
63 TTC-CCAAG-G-TGCAGTGGAACAGATTAAAGCTACAAC
** * *
38757800 GATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
* * * * *
38757865 CCAGATGATGTAGTGGAATAGATTAAAGCCACATC
66 CCA-A-GGTGCAGTGGAACAGATTAAAGCTACAAC
* * * * *
38757900 AGTAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGACTCTTAC-TC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
38757964 CTCAA----CAGTGGAACAGATTAAAGCTACAAC
66 C-CAAGGTGCAGTGGAACAGATTAAAGCTACAAC
*
38757994 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTAACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
38758059 CCAGATGGTGCAGTGGAACAGATTAAAGCTACAAC
66 CCA-A-GGTGCAGTGGAACAGATTAAAGCTACAAC
*
38758094 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTAACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
38758159 CCAGATGGTGCAGTGGAACAGATTAAAGCTACAAC
66 CCA-A-GGTGCAGTGGAACAGATTAAAGCTACAAC
*
38758194 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTAACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
38758259 CCAGATGGTGCAGTGGAACAGATTAAAGCTACAAC
66 CCA-A-GGTGCAGTGGAACAGATTAAAGCTACAAC
*
38758294 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTAACTTC
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
38758359 CCAGATGGTGCAGTGGAACAGATTAAAGCTACAAC
66 CCA-A-GGTGCAGTGGAACAGATTAAAGCTACAAC
* *
38758394 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAATGGCGAATCTTA
1 GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTA
38758455 TTTTCCAAAA
Statistics
Matches: 748, Mismatches: 66, Indels: 64
0.85 0.08 0.07
Matches are distributed among these distances:
89 1 0.00
90 3 0.00
91 33 0.04
92 1 0.00
93 6 0.01
94 97 0.13
95 9 0.01
96 4 0.01
97 18 0.02
98 6 0.01
99 5 0.01
100 557 0.74
101 6 0.01
102 2 0.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (98 bp):
GGCAAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTTC
CCAAGGTGCAGTGGAACAGATTAAAGCTACAAC
Found at i:38757702 original size:50 final size:50
Alignment explanation
Indices: 38757493--38758454 Score: 416
Period size: 50 Copynumber: 19.5 Consensus size: 50
38757483 CATCAAGAAT
* * * * * **
38757493 AGATGAAAGCCAAAATGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * *
38757543 AGATTAAAGCTACAACAGCGACTCTTAC-TCCTCA-AGCGA-TGCAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCC-CAGA-C-ATTGCAGTGGAAA
* * ** * * * **
38757593 AGATTAAAGCCACATCGATGAATCTTGCTTCCCCGATATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * ** *
38757643 AGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAAT
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * ** *
38757693 AGATGAAAGCCAAAAC-G-GATAT-TGT-CTT-CCTG-CATCGACA-ACGAAGT
1 AGATGAAAGCCACAACGGCGA-ATCT-TACTTCCCAGACATTG-CAGTGGAA-A
* * *
38757740 AGATCGAAA---A-TAC--C-AATTTTAC-TCTCCAGGCGA-TGCAGTGGAACA
1 AGAT-GAAAGCCACAACGGCGAATCTTACTTC-CCAGAC-ATTGCAGTGGAA-A
* * *** * * **
38757785 A-ATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * * *
38757834 AGATCAAAGCTACAACAGCGAATCTTACTTCCCAGATGA-TGTAGTGGAAT
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGA-CATTGCAGTGGAAA
* * * ** * * * **
38757884 AGATTAAAGCCACATCAGTAAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * *
38757934 AGATTAAAGCTACAACAGCGACTCTTAC-TCCTC--A-A---CAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCC-CAGACATTGCAGTGGAAA
* * * * * **
38757978 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * *** *
38758028 AGATTAAAGCTACAACGGCGAATCTAACTTCCCAGATGGTGCAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * * **
38758078 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * *** *
38758128 AGATTAAAGCTACAACGGCGAATCTAACTTCCCAGATGGTGCAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * * **
38758178 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * *** *
38758228 AGATTAAAGCTACAACGGCGAATCTAACTTCCCAGATGGTGCAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * * **
38758278 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * *** *
38758328 AGATTAAAGCTACAACGGCGAATCTAACTTCCCAGATGGTGCAGTGGAAC
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* * * * * **
38758378 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
* *
38758428 AGATTG-AAGCTACAATGGCGAATCTTA
1 AGA-TGAAAGCCACAACGGCGAATCTTA
38758455 TTTTCCAAAA
Statistics
Matches: 681, Mismatches: 191, Indels: 80
0.72 0.20 0.08
Matches are distributed among these distances:
42 4 0.01
43 6 0.01
44 40 0.06
45 10 0.01
46 8 0.01
47 13 0.02
48 11 0.02
49 16 0.02
50 564 0.83
51 9 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATGAAAGCCACAACGGCGAATCTTACTTCCCAGACATTGCAGTGGAAA
Found at i:38759911 original size:3 final size:3
Alignment explanation
Indices: 38759905--38759934 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38759895 TTTTTTTACT
38759905 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38759935 AGGTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38765642 original size:17 final size:19
Alignment explanation
Indices: 38765612--38765649 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
38765602 AATTTGCTTT
38765612 TACATTGTACTTATAA-AA
1 TACATTGTACTTATAATAA
*
38765630 TACA-TGTATTTATAATAA
1 TACATTGTACTTATAATAA
38765648 TA
1 TA
38765650 AGACTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (19 bp):
TACATTGTACTTATAATAA
Found at i:38771186 original size:16 final size:16
Alignment explanation
Indices: 38771165--38771197 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38771155 CGTCATTAAA
38771165 TATATATGATACTAAT
1 TATATATGATACTAAT
*
38771181 TATATATGATATTAAT
1 TATATATGATACTAAT
38771197 T
1 T
38771198 TTCGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATATGATACTAAT
Found at i:38789674 original size:21 final size:21
Alignment explanation
Indices: 38789648--38789712 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
38789638 TGGTTGAATC
* *
38789648 AGCTCTTACGAGCTTCTGTTT
1 AGCTCTTACAAGCTTCTATTT
*
38789669 AGCTCTTACAAGCTTCTATTC
1 AGCTCTTACAAGCTTCTATTT
38789690 AGCTCTTACAAGCTTCTATTT
1 AGCTCTTACAAGCTTCTATTT
38789711 AG
1 AG
38789713 ATTTCGAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (21 bp):
AGCTCTTACAAGCTTCTATTT
Found at i:38790291 original size:4 final size:4
Alignment explanation
Indices: 38790282--38791072 Score: 1582
Period size: 4 Copynumber: 197.8 Consensus size: 4
38790272 ATGAGTGATA
38790282 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790330 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790378 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790426 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790474 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790522 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790570 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790618 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790666 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790714 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790762 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790810 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790858 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790906 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38790954 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38791002 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
38791050 TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TAT
38791073 ATATTTGAAT
Statistics
Matches: 787, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 787 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:38793233 original size:5 final size:5
Alignment explanation
Indices: 38793223--38793255 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
38793213 TTATCTACAA
38793223 AATTT AATTT AATTT AATTT AATTT AATATT AA
1 AATTT AATTT AATTT AATTT AATTT AAT-TT AA
38793256 GATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:38809779 original size:20 final size:21
Alignment explanation
Indices: 38809744--38809782 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38809734 TTTAACTTTG
*
38809744 AAAAATTAAGTGATTAAATTA
1 AAAAATTAAGTAATTAAATTA
38809765 AAAAATTAA-TAATTAAAT
1 AAAAATTAAGTAATTAAAT
38809783 CACTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAAATTAAGTAATTAAATTA
Found at i:38809942 original size:41 final size:39
Alignment explanation
Indices: 38809897--38809973 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
38809887 CCTTTATTGA
38809897 AATTCTTTTGA-TTGTAATTTCTATTTTTCATATAAACTCTT
1 AATTCTTTTGACTT-T-ATTT-TATTTTTCATATAAACTCTT
*
38809938 AATTCTTTTTACTTTATTTTATTTTTCATATAAACT
1 AATTCTTTTGACTTTATTTTATTTTTCATATAAACT
38809974 TTGTTTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 17 0.50
40 4 0.12
41 11 0.32
42 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (39 bp):
AATTCTTTTGACTTTATTTTATTTTTCATATAAACTCTT
Found at i:38811305 original size:17 final size:17
Alignment explanation
Indices: 38811278--38811406 Score: 62
Period size: 17 Copynumber: 6.9 Consensus size: 17
38811268 CTGATATAAT
* * *
38811278 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
38811295 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
38811312 AAATATTTTTAAAATGCTTT-
1 AAATATTTTT--AAT--TTTA
***
38811332 TTTTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
38811350 AAATATTTTTAAAATACTTTTTA
1 AAATATTTTT---A-A--TTTTA
*
38811373 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
38811390 AAATTTTTTTTAATTTT
1 AAA-TATTTTTAATTTT
38811407 TTTTTAATTT
Statistics
Matches: 87, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
17 38 0.44
18 15 0.17
19 7 0.08
20 4 0.05
21 9 0.10
23 14 0.16
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:38811338 original size:48 final size:46
Alignment explanation
Indices: 38811285--38811406 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 46
38811275 AATAAATATA
38811285 TTTATTTTTTAAATTTTTTTAATTTTAAAATA-TTTTTAAAATGCTTTT
1 TTTATTTTTTAAATTTTTTTAATTTTAAAATACTTTTTAAAA---TTTT
** *
38811333 TTTATTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTAAAATTTT
1 TTTATTTTTTAAATTTT--TTTAATTTTAAAATACTTTTTAAAATTTT
* *
38811380 TTTAATTTTAAAATTTTTTTTAATTTT
1 TTTATTTTTTAAA-TTTTTTTAATTTT
38811407 TTTTTAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
47 24 0.39
48 12 0.20
49 16 0.26
50 9 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (46 bp):
TTTATTTTTTAAATTTTTTTAATTTTAAAATACTTTTTAAAATTTT
Found at i:38811348 original size:38 final size:37
Alignment explanation
Indices: 38811299--38811420 Score: 147
Period size: 38 Copynumber: 3.2 Consensus size: 37
38811289 TTTTTTAAAT
38811299 TTTTTTAATTTTAAAATATTTTTAAAATGCTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAAT-CTTTTTTTA
**
38811337 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAA
1 TTTTTTAATTTTAAAATATTTTTAAAAT-CTTTTT-TTA
** *
38811376 TTTTTTTAATTTTAAAAT-TTTTTTTAATTTTTTTTTA
1 -TTTTTTAATTTTAAAATATTTTTAAAATCTTTTTTTA
*
38811413 ATTTTTAA
1 TTTTTTAA
38811421 AATAAAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
36 7 0.10
37 1 0.01
38 39 0.53
39 9 0.12
40 17 0.23
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (37 bp):
TTTTTTAATTTTAAAATATTTTTAAAATCTTTTTTTA
Found at i:38811388 original size:29 final size:30
Alignment explanation
Indices: 38811354--38811424 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
38811344 ATTTTAAAAT
38811354 ATTTTTAAAATACTTTTTAAAATTTTTTTA
1 ATTTTTAAAATACTTTTTAAAATTTTTTTA
** **
38811384 A-TTTTAAAATTTTTTTTAATTTTTTTTTA
1 ATTTTTAAAATACTTTTTAAAATTTTTTTA
38811413 ATTTTTAAAATA
1 ATTTTTAAAATA
38811425 AAATTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTAAAATACTTTTTAAAATTTTTTTA
Found at i:38811399 original size:11 final size:11
Alignment explanation
Indices: 38811345--38811384 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
38811335 TATTTTTTAA
38811345 TTTTAAAATAT
1 TTTTAAAATAT
38811356 TTTTAAAATACT
1 TTTTAAAATA-T
*
38811368 TTTTAAAATTT
1 TTTTAAAATAT
38811379 TTTTAA
1 TTTTAA
38811385 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:38811407 original size:11 final size:11
Alignment explanation
Indices: 38811393--38811418 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38811383 AATTTTAAAA
38811393 TTTTTTTTAAT
1 TTTTTTTTAAT
38811404 TTTTTTTTAAT
1 TTTTTTTTAAT
38811415 TTTT
1 TTTT
38811419 AAAATAAAAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:38812097 original size:16 final size:16
Alignment explanation
Indices: 38812058--38812108 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
38812048 GTCAACAAAT
*
38812058 AATTTTAAAATTATAA
1 AATTTTAAAAATATAA
38812074 AATATTTAGAAAATA-AA
1 AAT-TTTA-AAAATATAA
*
38812091 AATTTTAAAATTATAA
1 AATTTTAAAAATATAA
38812107 AA
1 AA
38812109 GATGCCACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 5 0.17
16 11 0.37
17 9 0.30
18 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTTAAAAATATAA
Found at i:38812828 original size:39 final size:38
Alignment explanation
Indices: 38812774--38812851 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
38812764 AGGGATTTAA
*
38812774 TATAAATGATCCCATTTGATTCGATCCTTAAGAGCGGT
1 TATAAATGATCCCATTTGAGTCGATCCTTAAGAGCGGT
38812812 NTATAAATGATCCCATTTGAGTCGATCCTTAAGAGCGGT
1 -TATAAATGATCCCATTTGAGTCGATCCTTAAGAGCGGT
38812851 T
1 T
38812852 TCCAAATGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.33
Consensus pattern (38 bp):
TATAAATGATCCCATTTGAGTCGATCCTTAAGAGCGGT
Found at i:38814896 original size:15 final size:14
Alignment explanation
Indices: 38814871--38814901 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
38814861 TAGATTTGGC
38814871 ATATATATACATAT
1 ATATATATACATAT
38814885 ATATATTATACATAT
1 ATATA-TATACATAT
38814900 AT
1 AT
38814902 TCTCATGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:38827071 original size:3 final size:3
Alignment explanation
Indices: 38827063--38827091 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38827053 AAATATGTAT
38827063 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
38827092 TATTATGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:38828779 original size:45 final size:45
Alignment explanation
Indices: 38828727--38828818 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
38828717 TGTTTATGTG
* *
38828727 ATAATTTAAATGAGTGCACATGTGGATGCGTGAGTTTAAGATTCT
1 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
38828772 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
1 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
38828817 AT
1 AT
38828819 CATATAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.36
Consensus pattern (45 bp):
ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
Found at i:38830280 original size:51 final size:51
Alignment explanation
Indices: 38830220--38830459 Score: 265
Period size: 51 Copynumber: 4.7 Consensus size: 51
38830210 GATGAACACG
* *
38830220 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * * * * *
38830271 TGTGTAGTACTAAGTGAAGGCTACAATGTGTATTGAGAAGCT-TTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATGATGGTCACA
*
38830322 TGTGTAGTAC-A-GTGCAAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTG--AAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * *
38830373 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAA-GCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATG--ATGGTCACA
*
38830424 TATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
38830460 ATGATAAAAG
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 5 0.03
51 144 0.91
52 2 0.01
53 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
Found at i:38830492 original size:102 final size:102
Alignment explanation
Indices: 38830216--38830459 Score: 393
Period size: 102 Copynumber: 2.4 Consensus size: 102
38830206 TATCGATGAA
*
38830216 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
38830281 TAAGTGAAGGCTACAATGTGTATTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
*
38830318 CACATGTGTAGTAC-A-GTGCAAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGT
1 CACGTGTGTAGTACTATGTG--AAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGT
*
38830381 ACTAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
64 ACTAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
* *
38830420 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
38830460 ATGATAAAAG
Statistics
Matches: 130, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
100 3 0.02
102 123 0.95
103 1 0.01
104 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
Found at i:38830720 original size:37 final size:38
Alignment explanation
Indices: 38830651--38830723 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
38830641 ATGTGTGGAA
* **
38830651 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
38830689 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
38830724 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:38832915 original size:23 final size:23
Alignment explanation
Indices: 38832880--38832924 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
38832870 TTTTTTAAAA
*
38832880 AAATAAATATTTTTTAAAAATTT
1 AAATAAATATTTTCTAAAAATTT
38832903 AAATACAAT-TTTTCTAAAAATT
1 AAATA-AATATTTTCTAAAAATT
38832925 AATGAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAAATATTTTCTAAAAATTT
Found at i:38837262 original size:54 final size:53
Alignment explanation
Indices: 38837180--38837283 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 53
38837170 CTTAGTGTAT
38837180 TAAGTCAGTAAGTTACACGGCCTAGCACA-AGGCCTGCGACACAACCGTGTGTCA
1 TAAGTCAGTAAGTTACACGGCCTAGCACACA-GCCTGCGA-ACAACCGTGTGTCA
** * * *
38837234 TAAGTCAG-AGAGTTACACGGTTTGGCACACAGCTTGCGAACGACCGTGTG
1 TAAGTCAGTA-AGTTACACGGCCTAGCACACAGCCTGCGAACAACCGTGTG
38837284 ACCCAACTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.26
54 31 0.72
55 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (53 bp):
TAAGTCAGTAAGTTACACGGCCTAGCACACAGCCTGCGAACAACCGTGTGTCA
Found at i:38840454 original size:30 final size:31
Alignment explanation
Indices: 38840408--38840471 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
38840398 ATTTCTTATG
38840408 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
38840439 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
38840469 CCA
1 CCA
38840472 TAAATATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.39
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:38840463 original size:15 final size:15
Alignment explanation
Indices: 38840418--38840464 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
38840408 CCAATATCTC
38840418 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
38840433 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
38840448 GATACCCATATCTTT
1 GATACCCATATCTTT
38840463 GA
1 GA
38840465 CTTTCCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:38845080 original size:31 final size:30
Alignment explanation
Indices: 38845045--38845133 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
38845035 ATTTCTTATG
38845045 CCAATATCTCAATACCCATATCTTTGACTTT
1 CCAATAT-TCAATACCCATATCTTTGACTTT
**
38845076 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCAATACCCATATCTTTGACTTT
* *
38845106 ---AT-TT-GATACCTATATCTTTGACTTT
1 CCAATATTCAATACCCATATCTTTGACTTT
38845131 CCA
1 CCA
38845134 TAAATATGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
25 20 0.38
26 2 0.04
27 2 0.04
30 21 0.40
31 7 0.13
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTCAATACCCATATCTTTGACTTT
Found at i:38845092 original size:30 final size:29
Alignment explanation
Indices: 38845056--38845135 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 29
38845046 CAATATCTCA
38845056 ATACCCATATCTTTGACTTTCCAATATTTG
1 ATACCCATATCTTTGACTTTCC-ATATTTG
38845086 ATACCCATATCTTTGAC-TT---TATTTG
1 ATACCCATATCTTTGACTTTCCATATTTG
*
38845111 ATACCTATATCTTTGACTTTCCATA
1 ATACCCATATCTTTGACTTTCCATA
38845136 AATATGGATG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
25 22 0.49
26 2 0.04
29 4 0.09
30 17 0.38
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (29 bp):
ATACCCATATCTTTGACTTTCCATATTTG
Found at i:38847648 original size:2 final size:2
Alignment explanation
Indices: 38847641--38847677 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38847631 GGGCATTTCT
38847641 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
38847678 TTTATCTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:38857947 original size:24 final size:24
Alignment explanation
Indices: 38857920--38858023 Score: 118
Period size: 24 Copynumber: 4.2 Consensus size: 24
38857910 TTAGTAAGTC
*
38857920 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
38857944 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* **
38857968 AAATCTTCTAGCTATACTAATAAATACT
1 AAA---T-AAATTATACTAATAAATACT
*
38857996 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
38858020 AAAT
1 AAAT
38858024 CTTCTAGAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
24 45 0.68
25 1 0.02
27 1 0.02
28 19 0.29
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:38857985 original size:52 final size:53
Alignment explanation
Indices: 38857928--38858094 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 53
38857918 TCAAATAAAT
38857928 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAG-C
1 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAGAC
* *
38857980 TATACTAATAAATACTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATT
1 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCT----AG-----A-C
38858043 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAGA
1 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAGA
38858095 AAGAAAATAT
Statistics
Matches: 101, Mismatches: 3, Indels: 20
0.81 0.02 0.16
Matches are distributed among these distances:
52 48 0.48
54 1 0.01
56 2 0.02
59 2 0.02
63 48 0.48
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (53 bp):
TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAGAC
Found at i:38858061 original size:63 final size:63
Alignment explanation
Indices: 38857980--38858104 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
38857970 ATCTTCTAGC
38857980 TATACTAATAAATACTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATT
1 TATACTAATAAATACTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATT
*
38858043 TATACTAATAAATGCTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATAT
1 TATACTAATAAATACTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATAT
38858105 ATTTTTGTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (63 bp):
TATACTAATAAATACTAAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATT
Found at i:38858071 original size:24 final size:23
Alignment explanation
Indices: 38858036--38858086 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
38858026 TCTAGAAAGA
*
38858036 AAATATTTATACTAATAAATGCT
1 AAATATTTATACTAATAAATACT
38858059 AAATATATTATACTAATAAATACT
1 AAATAT-TTATACTAATAAATACT
38858083 AAAT
1 AAAT
38858087 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATATTTATACTAATAAATACT
Found at i:38892920 original size:27 final size:28
Alignment explanation
Indices: 38892871--38892923 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
38892861 CTCATTATAA
**
38892871 TAATTAAAAATACAATATTTATAAAAAC
1 TAATTAAAAATACAATACGTATAAAAAC
*
38892899 TAATTAAAAATTCAA-ACGTATAAAA
1 TAATTAAAAATACAATACGTATAAAA
38892924 TCACATACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (28 bp):
TAATTAAAAATACAATACGTATAAAAAC
Found at i:38894487 original size:42 final size:43
Alignment explanation
Indices: 38894383--38894507 Score: 198
Period size: 43 Copynumber: 2.9 Consensus size: 43
38894373 GCATTTACAG
*
38894383 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAC
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAC
*
38894426 AAAAAAATGCCGCTAAAGATCATGTTCTTTAACAGCGCTTAA-
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAC
* * *
38894468 AGAAAAACGCCGCTAAAGATCATATTCTTTAGCAGCGCTT
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGCTT
38894508 GGTAAAAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 36 0.47
43 40 0.53
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAAC
Found at i:38894534 original size:44 final size:42
Alignment explanation
Indices: 38894385--38894541 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
38894375 ATTTACAGAA
* * * * *
38894385 AAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAACAA
1 AAAAACGCCGCTAAACATCATGTTCTTTAACAGCGCTTAA-AG
* *
38894428 AAAAATGCCGCTAAAGATCATGTTCTTTAACAGCGCTTAAAG
1 AAAAACGCCGCTAAACATCATGTTCTTTAACAGCGCTTAAAG
* * *
38894470 AAAAACGCCGCTAAAGATCATATTCTTTAGCAGCGCTTGGTAAA-
1 AAAAACGCCGCTAAACATCATGTTCTTTAACAGCGC-T--TAAAG
** *
38894514 AAAAACGTTGCTATACATCATGTTCTTT
1 AAAAACGCCGCTAAACATCATGTTCTTT
38894542 TGGGATTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
42 34 0.34
43 39 0.39
44 23 0.23
45 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (42 bp):
AAAAACGCCGCTAAACATCATGTTCTTTAACAGCGCTTAAAG
Found at i:38894949 original size:21 final size:21
Alignment explanation
Indices: 38894925--38894970 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
38894915 TCTCTCACTA
*
38894925 CTTCTCGCGCTGCAGCCTCTG
1 CTTCTCGCACTGCAGCCTCTG
* *
38894946 CTTCTCTCACTGCAGCCTCTT
1 CTTCTCGCACTGCAGCCTCTG
38894967 CTTC
1 CTTC
38894971 CCTCGTTGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTTCTCGCACTGCAGCCTCTG
Found at i:38899804 original size:9 final size:9
Alignment explanation
Indices: 38899788--38899865 Score: 65
Period size: 9 Copynumber: 9.1 Consensus size: 9
38899778 CTAACAGCAT
38899788 TGTAAGTTA
1 TGTAAGTTA
*
38899797 TTTAAGTTA
1 TGTAAGTTA
**
38899806 TGTAAGTGG
1 TGTAAGTTA
38899815 TGT-A-TTA
1 TGTAAGTTA
38899822 TGTAAGTTA
1 TGTAAGTTA
*
38899831 AGTAAGTTA
1 TGTAAGTTA
* *
38899840 TGTAGGCTA
1 TGTAAGTTA
38899849 TGT-A-TTA
1 TGTAAGTTA
*
38899856 TGCAAGTTA
1 TGTAAGTTA
38899865 T
1 T
38899866 TTAACCTATG
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
7 8 0.15
8 3 0.06
9 41 0.79
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.44
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:38899843 original size:25 final size:25
Alignment explanation
Indices: 38899794--38899843 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38899784 GCATTGTAAG
* * *
38899794 TTATTTAAGTTATGTAAGTGGTGTA
1 TTATGTAAGTTAAGTAAGTGATGTA
*
38899819 TTATGTAAGTTAAGTAAGTTATGTA
1 TTATGTAAGTTAAGTAAGTGATGTA
38899844 GGCTATGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTAAGTAAGTGATGTA
Found at i:38899853 original size:34 final size:34
Alignment explanation
Indices: 38899788--38899864 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
38899778 CTAACAGCAT
** *
38899788 TGTAAGTTATTTAAGTTATGTAAGTGGTGTATTA
1 TGTAAGTTAAGTAAGTTATGTAAGTGATGTATTA
*
38899822 TGTAAGTTAAGTAAGTTATGTAGGCT-ATGTATTA
1 TGTAAGTTAAGTAAGTTATGTAAG-TGATGTATTA
*
38899856 TGCAAGTTA
1 TGTAAGTTA
38899865 TTTAACCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (34 bp):
TGTAAGTTAAGTAAGTTATGTAAGTGATGTATTA
Found at i:38914594 original size:21 final size:21
Alignment explanation
Indices: 38914540--38914597 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
38914530 AATTTCTATT
38914540 TTAATATTTTAATAATAAATA
1 TTAATATTTTAATAATAAATA
*
38914561 -TAGAT-TTTATAAT-TTAACATA
1 TTA-ATATTT-TAATAATAA-ATA
38914582 TTAATATTTTAATAAT
1 TTAATATTTTAATAAT
38914598 TAAAACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
20 8 0.28
21 15 0.52
22 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATATTTTAATAATAAATA
Found at i:38919312 original size:6 final size:6
Alignment explanation
Indices: 38919272--38919310 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
38919262 TGCTGCTTCA
*
38919272 GCCCCT GCCCCT GCCCCT GCCCCT GCCCCT GCCTCT GCC
1 GCCCCT GCCCCT GCCCCT GCCCCT GCCCCT GCCCCT GCC
38919311 TCCTCTCTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.64, G:0.18, T:0.18
Consensus pattern (6 bp):
GCCCCT
Found at i:38923910 original size:2 final size:2
Alignment explanation
Indices: 38923903--38923927 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38923893 AGAAACAGAA
38923903 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
38923928 CATAAATCCA
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:38926408 original size:127 final size:128
Alignment explanation
Indices: 38926150--38926378 Score: 286
Period size: 126 Copynumber: 1.8 Consensus size: 128
38926140 TAATATGCTA
*
38926150 AAAATATTAATTAAAAAAAGAAGAAACTTGAAGCAACATGAAATACAAAATACAAATATGAGTAG
1 AAAATATTAATTAAAAAAAGAAGAAACTTGAAGCAACATGAAATACAAAATACAAATATAAGTAG
** ***
38926215 GAGAGAAATTAAACTCAAGACTCAAAGATATAATTGCAACTATCTAACCATCTAACCGTTTAT
66 GAGAGAAATTAAACTCAAGACTCAAAGATATAAAAGCAACTATCTAACCATCTAACCGAAAAT
*** * * *
38926278 AAAA-ATTAATTAAAAATTTAA-AAAGCTTGAAGCAATATGAAATA-AAAATACAAGTGTAAGTA
1 AAAATATTAATTAAAAAAAGAAGAAA-CTTGAAGCAACATGAAATACAAAATACAAATATAAGTA
* * *
38926340 GGAGAGAAATTGAACTCGAGACTCAAGGATA-AAAAGCAA
65 GGAGAGAAATTAAACTCAAGACTCAAAGATATAAAAGCAA
38926379 TAACATTTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
125 6 0.07
126 46 0.52
127 32 0.36
128 4 0.05
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (128 bp):
AAAATATTAATTAAAAAAAGAAGAAACTTGAAGCAACATGAAATACAAAATACAAATATAAGTAG
GAGAGAAATTAAACTCAAGACTCAAAGATATAAAAGCAACTATCTAACCATCTAACCGAAAAT
Found at i:38927205 original size:168 final size:168
Alignment explanation
Indices: 38926927--38927262 Score: 663
Period size: 168 Copynumber: 2.0 Consensus size: 168
38926917 TTTTATTTTT
38926927 ATTTTCGATTTTTATGAATTCAATCTCTTTGTTCAGATTAGTATATTAATTGGTTCACGATCTAA
1 ATTTTCGATTTTTATGAATTCAATCTCTTTGTTCAGATTAGTATATTAATTGGTTCACGATCTAA
38926992 TCAGTCCAGTTCCAACAAATATTATTTTATTTTTTATTTTAATTTAAAAGTTTTTCAAATTAAAA
66 TCAGTCCAGTTCCAACAAATATTATTTTATTTTTTATTTTAATTTAAAAGTTTTTCAAATTAAAA
38927057 CGATTGAAATGAAAATCGAGTTAATTCAAATAAAATTA
131 CGATTGAAATGAAAATCGAGTTAATTCAAATAAAATTA
*
38927095 ATTTTCGATTTTTATGAATTCAATCTCTTTGTTCTGATTAGTATATTAATTGGTTCACGATCTAA
1 ATTTTCGATTTTTATGAATTCAATCTCTTTGTTCAGATTAGTATATTAATTGGTTCACGATCTAA
38927160 TCAGTCCAGTTCCAACAAATATTATTTTATTTTTTATTTTAATTTAAAAGTTTTTCAAATTAAAA
66 TCAGTCCAGTTCCAACAAATATTATTTTATTTTTTATTTTAATTTAAAAGTTTTTCAAATTAAAA
38927225 CGATTGAAATGAAAATCGAGTTAATTCAAATAAAATTA
131 CGATTGAAATGAAAATCGAGTTAATTCAAATAAAATTA
38927263 TTCAAATTAA
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (168 bp):
ATTTTCGATTTTTATGAATTCAATCTCTTTGTTCAGATTAGTATATTAATTGGTTCACGATCTAA
TCAGTCCAGTTCCAACAAATATTATTTTATTTTTTATTTTAATTTAAAAGTTTTTCAAATTAAAA
CGATTGAAATGAAAATCGAGTTAATTCAAATAAAATTA
Found at i:38927732 original size:19 final size:19
Alignment explanation
Indices: 38927694--38927734 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38927684 ATTCAATTAA
* *
38927694 ATAAAAAATTTTAATTTTT
1 ATAAAAAATGTTAATATTT
*
38927713 ATAAAAAATGTTACTATTT
1 ATAAAAAATGTTAATATTT
38927732 ATA
1 ATA
38927735 TTTTGTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAAAAAATGTTAATATTT
Found at i:38928247 original size:21 final size:20
Alignment explanation
Indices: 38928207--38928248 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38928197 AATCTTGATT
*
38928207 TTAAAAAAAGTAAATATAAA
1 TTAAAAAAAGTAAAAATAAA
*
38928227 TTAAAAAAATTAAAAAGTAAA
1 TTAAAAAAAGTAAAAA-TAAA
38928248 T
1 T
38928249 ATAAGAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
TTAAAAAAAGTAAAAATAAA
Found at i:38928679 original size:7 final size:7
Alignment explanation
Indices: 38928667--38928691 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38928657 TGAGAAAAAG
38928667 TAAATTT
1 TAAATTT
38928674 TAAATTT
1 TAAATTT
38928681 TAAATTT
1 TAAATTT
38928688 TAAA
1 TAAA
38928692 AAGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:38928698 original size:14 final size:14
Alignment explanation
Indices: 38928661--38928699 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
38928651 GGTTGATGAG
38928661 AAAAAGTAAATTTT
1 AAAAAGTAAATTTT
***
38928675 AAATTTTAAATTTT
1 AAAAAGTAAATTTT
38928689 AAAAAGTAAAT
1 AAAAAGTAAAT
38928700 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (14 bp):
AAAAAGTAAATTTT
Found at i:38936165 original size:16 final size:16
Alignment explanation
Indices: 38936146--38936194 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
38936136 GAAGAGAATG
*
38936146 GAAATTAAAGAAAAAA
1 GAAATAAAAGAAAAAA
* **
38936162 GAAAGAAAAGTTAAAA
1 GAAATAAAAGAAAAAA
38936178 GAATATAAAAGAAAAAA
1 GAA-ATAAAAGAAAAAA
38936195 ATTAAATTGC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (16 bp):
GAAATAAAAGAAAAAA
Found at i:38937014 original size:16 final size:18
Alignment explanation
Indices: 38936993--38937030 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38936983 TTCTATATGG
38936993 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
38937009 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
38937027 ATTT
1 ATTT
38937031 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:38941473 original size:16 final size:18
Alignment explanation
Indices: 38941452--38941489 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38941442 TTTTATATGG
38941452 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
*
38941468 ATTTTACTATTGTGTTTT
1 ATTTTACTATTGTATTTT
38941486 ATTT
1 ATTT
38941490 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:38941718 original size:17 final size:18
Alignment explanation
Indices: 38941696--38941734 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
38941686 GATTTGACAA
38941696 AAAAAAGTT-TAAAACTT
1 AAAAAAGTTGTAAAACTT
38941713 AAAAAAGTTGTAAAACTT
1 AAAAAAGTTGTAAAACTT
38941731 AAAA
1 AAAA
38941735 GCCTCTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (18 bp):
AAAAAAGTTGTAAAACTT
Found at i:38941718 original size:18 final size:19
Alignment explanation
Indices: 38941695--38941734 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
38941685 TGATTTGACA
38941695 AAAAAAAGTT-TAAAACTT
1 AAAAAAAGTTGTAAAACTT
38941713 -AAAAAAGTTGTAAAACTT
1 AAAAAAAGTTGTAAAACTT
38941731 AAAA
1 AAAA
38941735 GCCTCTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 8 0.40
19 3 0.15
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAAAAAGTTGTAAAACTT
Found at i:38942605 original size:92 final size:92
Alignment explanation
Indices: 38942444--38942629 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
38942434 ATATAAAATT
* *
38942444 TATTAAAATAATTAAAAATAATTATCATGTGAATGTTACTTCAGTAAAATTAATAGACATTGGGT
1 TATTAAAATAATTAAAAATAATTATCATGCGAATGTTACTTCAGTAAAATTAATAGACATTGGGG
38942509 GAAAGAGATGGAAATTAAATAGAGAAC
66 GAAAGAGATGGAAATTAAATAGAGAAC
* * *
38942536 TATTAAAATAATTAAAAATAGTTATCCTGCGAATGTTACTTCAGTAAAATTATTAGACATTGGGG
1 TATTAAAATAATTAAAAATAATTATCATGCGAATGTTACTTCAGTAAAATTAATAGACATTGGGG
38942601 GAAAGAGATGGAAATTAAATAGAGAAC
66 GAAAGAGATGGAAATTAAATAGAGAAC
38942628 TA
1 TA
38942630 AAATAATTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.30
Consensus pattern (92 bp):
TATTAAAATAATTAAAAATAATTATCATGCGAATGTTACTTCAGTAAAATTAATAGACATTGGGG
GAAAGAGATGGAAATTAAATAGAGAAC
Found at i:38947762 original size:12 final size:12
Alignment explanation
Indices: 38947745--38947774 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38947735 GATCTCTTTT
38947745 AACAAAAATTAC
1 AACAAAAATTAC
38947757 AACAAAAATTAC
1 AACAAAAATTAC
38947769 AA-AAAA
1 AACAAAA
38947775 GATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (12 bp):
AACAAAAATTAC
Found at i:38950108 original size:15 final size:15
Alignment explanation
Indices: 38950090--38950122 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
38950080 ATTTCTCTAA
38950090 TTTTTTGAACAAGGT
1 TTTTTTGAACAAGGT
38950105 TTTTTTGAACAAGGT
1 TTTTTTGAACAAGGT
38950120 TTT
1 TTT
38950123 AACAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (15 bp):
TTTTTTGAACAAGGT
Found at i:38950420 original size:13 final size:15
Alignment explanation
Indices: 38950391--38950422 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
38950381 TATGTTATTG
38950391 TTAATATAATATTTA
1 TTAATATAATATTTA
38950406 TTAAT-TAAT-TTTA
1 TTAATATAATATTTA
38950419 TTAA
1 TTAA
38950423 AAGCAATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATATAATATTTA
Found at i:38955117 original size:56 final size:57
Alignment explanation
Indices: 38954994--38955117 Score: 214
Period size: 57 Copynumber: 2.2 Consensus size: 57
38954984 TGCAGGATGT
38954994 GGAGAAGATAATCTTGGGATGTTAGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
1 GGAGAAGATAATCTTGGGATGTTAGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
* *
38955051 GGAGAAGATAATTTTGGGATGTTGGTTTTTATCCTA-AAAAAAAGAATTTAAAAAGA
1 GGAGAAGATAATCTTGGGATGTTAGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
*
38955107 GTAGAAGATAA
1 GGAGAAGATAA
38955118 AAATGGGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 30 0.47
57 34 0.53
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (57 bp):
GGAGAAGATAATCTTGGGATGTTAGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
Found at i:38955130 original size:56 final size:57
Alignment explanation
Indices: 38954994--38955131 Score: 188
Period size: 56 Copynumber: 2.4 Consensus size: 57
38954984 TGCAGGATGT
*** *
38954994 GGAGAAGATAATCTTGGGATGTTAGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
1 GGAGAAGATAAAAATGGGATGTTGGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
***
38955051 GGAGAAGATAATTTTGGGATGTTGGTTTTTATCCTA-AAAAAAAGAATTTAAAAAGA
1 GGAGAAGATAAAAATGGGATGTTGGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
* *
38955107 GTAGAAGATAAAAATGGGTTGTTGG
1 GGAGAAGATAAAAATGGGATGTTGG
38955132 ATTTACCCTA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 40 0.54
57 34 0.46
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.30
Consensus pattern (57 bp):
GGAGAAGATAAAAATGGGATGTTGGTTTTTATCCTAGAAAAAAAGAATTTAAAAAGA
Found at i:38960003 original size:25 final size:25
Alignment explanation
Indices: 38959961--38960027 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
38959951 ACATGAATAA
*
38959961 CAGGAAGCTCATGA-GAGCTAAGTAT
1 CAGGAAGCTC-TTACGAGCTAAGTAT
* *
38959986 CAGGAAGCTCTTACGAGCTGATTAT
1 CAGGAAGCTCTTACGAGCTAAGTAT
* * *
38960011 CGGGAAACTCTTGCGAG
1 CAGGAAGCTCTTACGAG
38960028 TTGTGGTGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
CAGGAAGCTCTTACGAGCTAAGTAT
Found at i:38969326 original size:23 final size:26
Alignment explanation
Indices: 38969286--38969332 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
38969276 ATATTTATGT
*
38969286 TCAATATAGGAAGTAATT-CTAATAA
1 TCAATATAGGAAGAAATTACTAATAA
38969311 TCAAT-TA-GAAGAAATTACTAAT
1 TCAATATAGGAAGAAATTACTAAT
38969333 TTTAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (26 bp):
TCAATATAGGAAGAAATTACTAATAA
Found at i:38980558 original size:210 final size:211
Alignment explanation
Indices: 38980195--38980618 Score: 665
Period size: 210 Copynumber: 2.0 Consensus size: 211
38980185 CAAGAAGTTT
* * *
38980195 ATAGTCTTGATTGCTGGTTCAGTTTCCTGATAATAGTTGGGGTCAAGAAATAACATTTTGAGAGA
1 ATAGTCTTGATTGCTGGTTCAGTTTCCTGATAATAGTAGGGCTCAAGAAATAACATTGTGAGAGA
* * *
38980260 TGAGGGTGGTGCATATGATTCTTAACAAACCAGCCAGTATACTGCACCAAATCAAGATGAAAATT
66 CGAGGGTGGTGCATATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
* ** * *
38980325 CGATATTGGAACTAACGAATTTTCATATGATGTCCTGGTTTACTAAATACAGAAGAGTAGGTTTA
131 CGATATTGGAACTAAAGAATTTTCATATGATACCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
38980390 ATATGGTTCAACTTCC
196 ATATGGTTCAACTTCC
* *
38980406 ATAGTCTTGATTGCTGGTTCAGTTTTCC-GATATTGGTAGGGCTCAAGAAATAACATTGT-AGAG
1 ATAGTCTTGATTGCTGGTTCAG-TTTCCTGATAATAGTAGGGCTCAAGAAATAACATTGTGAGAG
*
38980469 ACGAGGGTGGTGCATATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGGTGAAAAT
65 ACGAGGGTGGTGCATATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAAT
* *
38980534 TTGATATTGTG-ACTAAAGAATTTTCATATGATACCCTAGTTTACTAAAGACGGAAGAGTAGGTT
130 TCGATATTG-GAACTAAAGAATTTTCATATGATACCCTAGTTTACTAAAGACAGAAGAGTAGGTT
38980598 TAATATGGTTCAACTTCC
194 TAATATGGTTCAACTTCC
38980616 ATA
1 ATA
38980619 AAGAAGCCTG
Statistics
Matches: 195, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
210 141 0.72
211 49 0.25
212 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (211 bp):
ATAGTCTTGATTGCTGGTTCAGTTTCCTGATAATAGTAGGGCTCAAGAAATAACATTGTGAGAGA
CGAGGGTGGTGCATATGATTCCTAACAAACCAACCAGTATACTGCACCAAATCAAGATGAAAATT
CGATATTGGAACTAAAGAATTTTCATATGATACCCTAGTTTACTAAAGACAGAAGAGTAGGTTTA
ATATGGTTCAACTTCC
Found at i:38983894 original size:18 final size:18
Alignment explanation
Indices: 38983868--38983903 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38983858 ATTGAATCGA
*
38983868 TTGTTATGTTGAAATATT
1 TTGTCATGTTGAAATATT
*
38983886 TTGTCATGTTGGAATATT
1 TTGTCATGTTGAAATATT
38983904 GCTTCTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (18 bp):
TTGTCATGTTGAAATATT
Found at i:38984045 original size:55 final size:55
Alignment explanation
Indices: 38983905--38984222 Score: 286
Period size: 55 Copynumber: 5.8 Consensus size: 55
38983895 TGGAATATTG
* * * * *
38983905 CTTCTTTTGAATCGGTTGTTTATATGTTTAAAAT-AATTGTTAGGTAGGAATACTA
1 CTTCTTTTGAATAGATTGTTTATATGTTT-AAATCGATTGTTATGTAAGAATACTA
* * * * * *
38983960 -TT-TTTTTAATTGACTGTTTACATGTGTAAATCGATTGTTATGTAAGAATGCTA
1 CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTGTTATGTAAGAATACTA
* * * * *
38984013 CTTCTTTTGAATCA-ATTGTTTATACGGTTAAATCGATTGTTCTGGTGAA-ATATTGCTT
1 CTTCTTTTGAAT-AGATTGTTTATATGTTTAAATCGATTGTTAT-GT-AAGA-A-TACTA
* **
38984071 CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTATTATGTTGGAATACTA
1 CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTGTTATGTAAGAATACTA
* ** * **
38984126 CTTCTTTTGAATAGATTGTTTATATATTTAAATTAATTGTTATATCGGAATACTA
1 CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTGTTATGTAAGAATACTA
* * **
38984181 CTTCTTTTGAGTTGATTGTTTATATGTTTAAATTAATTGTTA
1 CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTGTTA
38984223 AAAAGCAAGT
Statistics
Matches: 217, Mismatches: 36, Indels: 20
0.79 0.13 0.07
Matches are distributed among these distances:
52 4 0.02
53 36 0.17
54 4 0.02
55 121 0.56
56 4 0.02
57 7 0.03
58 41 0.19
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (55 bp):
CTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTGTTATGTAAGAATACTA
Found at i:38984091 original size:58 final size:57
Alignment explanation
Indices: 38983986--38984149 Score: 187
Period size: 58 Copynumber: 2.9 Consensus size: 57
38983976 TTTACATGTG
*
38983986 TAAATCGATTGTTAT-GT-AAGA-ATGCTACTTCTTTTGAATCA-ATTGTTTATACGGT
1 TAAATCGATTATTATGGTGAA-ATATGCTACTTCTTTTGAAT-AGATTGTTTATACGGT
* * * * *
38984041 TAAATCGATTGTTCTGGTGAAATATTGCTTCTTCTTTTGAATAGATTGTTTATATGTT
1 TAAATCGATTATTATGGTGAAATA-TGCTACTTCTTTTGAATAGATTGTTTATACGGT
* *
38984099 TAAATCGATTATTATGTTGGAATA--CTACTTCTTTTGAATAGATTGTTTATA
1 TAAATCGATTATTATGGTGAAATATGCTACTTCTTTTGAATAGATTGTTTATA
38984150 TATTTAAATT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
55 40 0.42
56 3 0.03
57 4 0.04
58 48 0.51
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (57 bp):
TAAATCGATTATTATGGTGAAATATGCTACTTCTTTTGAATAGATTGTTTATACGGT
Found at i:38984185 original size:113 final size:110
Alignment explanation
Indices: 38983891--38984213 Score: 334
Period size: 113 Copynumber: 2.9 Consensus size: 110
38983881 ATATTTTGTC
* * * * * *
38983891 ATGTTGGAATATTGCTTCTTTTGAATCGGTTGTTTATATGTTTAAAATAATTGTTAGGTAGGAAT
1 ATGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATTAATTGTTATGT-GGAAT
* * * *
38983956 ACTAT-TT-TTTT-AATTGACTGTTTACATGTGTAAATCGATTGTT
65 ACTATCTTCTTTTGAATTGATTGTTTATATGTTTAAATCGATTATT
** * * * ** * *
38983999 ATGTAAGAATGCTACTTCTTTTGAATCA-ATTGTTTATACGGTTAAATCGATTGTTCTGGTGAAA
1 ATGTTGGAATACTACTTCTTTTGAAT-AGATTGTTTATATGTTTAAATTAATTGTTAT-GTGGAA
*
38984063 TATTGCT-TCTTCTTTTGAATAGATTGTTTATATGTTTAAATCGATTATT
64 TA---CTATCTTCTTTTGAATTGATTGTTTATATGTTTAAATCGATTATT
* *
38984112 ATGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATATTTAAATTAATTGTTATATCGGAAT
1 ATGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATTAATTGTTATGT-GGAAT
*
38984177 ACTA-CTTCTTTTGAGTTGATTGTTTATATGTTTAAAT
65 ACTATCTTCTTTTGAATTGATTGTTTATATGTTTAAAT
38984214 TAATTGTTAA
Statistics
Matches: 171, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
108 47 0.27
109 2 0.01
110 34 0.20
111 4 0.02
112 6 0.04
113 78 0.46
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (110 bp):
ATGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATTAATTGTTATGTGGAATA
CTATCTTCTTTTGAATTGATTGTTTATATGTTTAAATCGATTATT
Found at i:38985562 original size:31 final size:29
Alignment explanation
Indices: 38985497--38985562 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 29
38985487 GTTAGTGATT
38985497 TAATATAAATATATAATTATTATTTAACA
1 TAATATAAATATATAATTATTATTTAACA
* *
38985526 T-ATATAATTAATATAA-TATTTTTAATAACA
1 TAATATAAAT-ATATAATTATTATT--TAACA
38985556 TAATATA
1 TAATATA
38985563 TTCGGGCTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 13 0.42
29 7 0.23
30 6 0.19
31 5 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TAATATAAATATATAATTATTATTTAACA
Found at i:38989720 original size:15 final size:14
Alignment explanation
Indices: 38989700--38989734 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
38989690 TAATCCTTAG
*
38989700 TAATTATCTTAATA
1 TAATTATCCTAATA
38989714 TTAATTATCCTAATA
1 -TAATTATCCTAATA
38989729 TAATTA
1 TAATTA
38989735 AAGTAGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTATCCTAATA
Found at i:38990653 original size:27 final size:26
Alignment explanation
Indices: 38990623--38990687 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
38990613 GTACATAATT
*
38990623 GGGAAGCCTTCTCTCGAGCCATATAAC
1 GGGAAGCCTTATCT-GAGCCATATAAC
* *
38990650 GGGAAG-CTTATGTGAGCCATGTAAC
1 GGGAAGCCTTATCTGAGCCATATAAC
*
38990675 GGGAAGCTTTATC
1 GGGAAGCCTTATC
38990688 CAGGCTGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 17 0.53
26 9 0.28
27 6 0.19
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (26 bp):
GGGAAGCCTTATCTGAGCCATATAAC
Found at i:38990902 original size:26 final size:26
Alignment explanation
Indices: 38990823--38990902 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 26
38990813 AGCCATATTA
* * *
38990823 GGAAGCTC-CGGAGAGCTATTAATCA
1 GGAAGCTCACGAAGAGCCATTAATCG
** *
38990848 GGAAGCTCAAAAAGAGCCTTTAATCG
1 GGAAGCTCACGAAGAGCCATTAATCG
38990874 GGAAGCTCACGAAGAGCCATATAAT-G
1 GGAAGCTCACGAAGAGCCAT-TAATCG
38990900 GGA
1 GGA
38990903 CACTTATAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 8 0.18
26 32 0.73
27 4 0.09
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCATTAATCG
Found at i:38991055 original size:24 final size:25
Alignment explanation
Indices: 38990995--38991057 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
38990985 ATTGCAAGAA
*
38990995 CCATATAACGGGAAGCTCAATAAGG
1 CCATATAACGGGATGCTCAATAAGG
*
38991020 CCATATACCGGGATGCTC-ATAAGAG
1 CCATATAACGGGATGCTCAATAAG-G
*
38991045 CTA-ATAACGGGAT
1 CCATATAACGGGAT
38991058 ACTCTTTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
CCATATAACGGGATGCTCAATAAGG
Found at i:38993239 original size:18 final size:18
Alignment explanation
Indices: 38993208--38993252 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
38993198 ATTCCCACTC
38993208 ATAATAATAATAATACTA
1 ATAATAATAATAATACTA
* *
38993226 ATAATTATATTAATACTA
1 ATAATAATAATAATACTA
*
38993244 ATATTAATA
1 ATAATAATA
38993253 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAATACTA
Found at i:38993254 original size:12 final size:12
Alignment explanation
Indices: 38993212--38993252 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
38993202 CCACTCATAA
*
38993212 TAATAATAATAC
1 TAATAATAATAT
*
38993224 TAATAATTATAT
1 TAATAATAATAT
*
38993236 TAATACTAATAT
1 TAATAATAATAT
38993248 TAATA
1 TAATA
38993253 CTTACTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:38994019 original size:19 final size:19
Alignment explanation
Indices: 38993974--38994013 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
38993964 TTTGTTTTGT
*
38993974 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTA
38993992 TTTTATTTACTTTACTTTA
1 TTTTATTTACTTTACTTTA
38994011 TTT
1 TTT
38994014 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTA
Found at i:38994173 original size:5 final size:5
Alignment explanation
Indices: 38994165--38994219 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
38994155 TATTTAATTT
* *
38994165 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
38994214 ATATA A
1 ATATA A
38994220 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:38994194 original size:27 final size:25
Alignment explanation
Indices: 38994163--38994215 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
38994153 TCTATTTAAT
38994163 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
38994190 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
38994215 T
1 T
38994216 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:38997992 original size:24 final size:24
Alignment explanation
Indices: 38997951--38998062 Score: 74
Period size: 24 Copynumber: 4.8 Consensus size: 24
38997941 AATTTATTTA
* *
38997951 AATA-TATATTTAATTTTAAATCT
1 AATATTATTTTTAAATTTAAATCT
** *
38997974 AATATTATTTTTATGTTT-AAGCTT
1 AATATTATTTTTAAATTTAAATC-T
* *
38997998 AATGTTATTTTTAAATTTATCATC-
1 AATATTATTTTTAAATTTA-AATCT
*
38998022 AATATTA-TTTT-AATTTACAATGT
1 AATATTATTTTTAAATTTA-AATCT
*
38998045 ATTATTA-TTTTAAATTTA
1 AATATTATTTTTAAATTTA
38998063 TCATGTATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
22 8 0.12
23 21 0.30
24 38 0.55
26 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (24 bp):
AATATTATTTTTAAATTTAAATCT
Found at i:38998068 original size:24 final size:24
Alignment explanation
Indices: 38998006--38998071 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 24
38997996 TTAATGTTAT
* *
38998006 TTTTAAATTTATCAT-CAATATTA
1 TTTTAAATTTATCATGTATTATTA
38998029 TTTT-AATTTA-CAATGTATTATTA
1 TTTTAAATTTATC-ATGTATTATTA
38998052 TTTTAAATTTATCATGTATT
1 TTTTAAATTTATCATGTATT
38998072 TGTTTATCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 1 0.03
22 8 0.22
23 14 0.38
24 13 0.35
25 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTAAATTTATCATGTATTATTA
Found at i:38998141 original size:24 final size:24
Alignment explanation
Indices: 38998086--38998142 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
38998076 TATCGTGTAC
* *
38998086 TATTATTTTAAGTTTATCACGTAT
1 TATTATTTTAAGTTTATCAAGGAT
38998110 T-TTCATTTTGAA-TTTATCAAGGAT
1 TATT-ATTTT-AAGTTTATCAAGGAT
38998134 TATTATTTT
1 TATTATTTT
38998143 TTAACTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (24 bp):
TATTATTTTAAGTTTATCAAGGAT
Found at i:38998848 original size:18 final size:17
Alignment explanation
Indices: 38998821--38998855 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38998811 GATTATTGCT
38998821 CTTATGTGTATTGTATTG
1 CTTATGTGTATT-TATTG
*
38998839 CTTATTTGTATTTATTG
1 CTTATGTGTATTTATTG
38998856 ATTTGTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (17 bp):
CTTATGTGTATTTATTG
Found at i:39006951 original size:17 final size:16
Alignment explanation
Indices: 39006929--39006962 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
39006919 ATTTTTGAAT
39006929 TTTTATATTTTATATAA
1 TTTT-TATTTTATATAA
39006946 -TTTTATTTTATATAA
1 TTTTTATTTTATATAA
39006961 TT
1 TT
39006963 GATATATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATTTTATATAA
Found at i:39006952 original size:15 final size:15
Alignment explanation
Indices: 39006934--39006962 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39006924 TGAATTTTTA
39006934 TATTTTATATAATTT
1 TATTTTATATAATTT
39006949 TATTTTATATAATT
1 TATTTTATATAATT
39006963 GATATATTAC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTATATAATTT
Found at i:39008342 original size:43 final size:42
Alignment explanation
Indices: 39008152--39008400 Score: 292
Period size: 42 Copynumber: 5.9 Consensus size: 42
39008142 CTAAGAAAAT
*
39008152 AAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTATGAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGAAA
*
39008194 AAACGCAGCTAAAGATCATGTTCTTTAGCGGCGCTTATGAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGAAA
* * *
39008236 AAGCGCCGCTAAAGATCACGTTCTTTAGCGACGCTT-TGGAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT-GAAA
* *
39008278 AAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTT-TGGGAGA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT--GAAA
* * * **
39008321 AAACGCCGCTAAA-ACTAATGTTCTATAGCGGCGCTTGTTCAA
1 AAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTATGAAA
*
39008363 AAACGCCGCTAATAG-T-AGTGTTATTTAGCGGCGCTTAT
1 AAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTAT
39008401 TTCACAAACG
Statistics
Matches: 180, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.01
42 141 0.78
43 36 0.20
44 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGAAA
Found at i:39014416 original size:7 final size:7
Alignment explanation
Indices: 39014406--39014451 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
39014396 TGATATATTT
39014406 TTATGTA
1 TTATGTA
39014413 TTATGTAA
1 TTATGT-A
39014421 GTTATGTAA
1 -TTATGT-A
39014430 GTTATGTA
1 -TTATGTA
39014438 TTATGTA
1 TTATGTA
39014445 TTATGTA
1 TTATGTA
39014452 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:39014427 original size:9 final size:9
Alignment explanation
Indices: 39014413--39014553 Score: 113
Period size: 9 Copynumber: 16.4 Consensus size: 9
39014403 TTTTTATGTA
39014413 TTATGTAAG
1 TTATGTAAG
39014422 TTATGTAAG
1 TTATGTAAG
39014431 TTATGT-A-
1 TTATGTAAG
39014438 TTATGT-A-
1 TTATGTAAG
39014445 TTATGTAAG
1 TTATGTAAG
39014454 -TACTGTAAG
1 TTA-TGTAAG
*
39014463 TAATGTAAG
1 TTATGTAAG
39014472 TTATGTAAAG
1 TTATGT-AAG
*
39014482 TAATGT-A-
1 TTATGTAAG
*
39014489 TAATGTAAG
1 TTATGTAAG
*
39014498 TTAAG-AAGG
1 TTATGTAA-G
39014507 TTATGT-A-
1 TTATGTAAG
*
39014514 TAATGTAAG
1 TTATGTAAG
*
39014523 TCATGTAAG
1 TTATGTAAG
* *
39014532 TTATTTAAT
1 TTATGTAAG
39014541 TTATGTAAG
1 TTATGTAAG
39014550 TTAT
1 TTAT
39014554 TTATGTAAGT
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
7 24 0.22
8 9 0.08
9 66 0.61
10 9 0.08
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (9 bp):
TTATGTAAG
Found at i:39014442 original size:32 final size:33
Alignment explanation
Indices: 39014406--39014535 Score: 124
Period size: 32 Copynumber: 3.9 Consensus size: 33
39014396 TGATATATTT
39014406 TTATGTATTATGTAAGTTATGTAAGTTATGTA-
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAG
*
39014438 TTATGTATTATGTAAG-TACTGTAAGTAATGTAAG
1 TTATGTATTATGTAAGTTA-TGTAAGTTATGT-AG
* * *
39014472 TTATGTA--AAGTAATGTATAATGTAAGTTAAGAAGG
1 TTATGTATTATGTAA-GT-T-ATGTAAGTTATGTA-G
* *
39014507 TTATGTATAATGTAAGTCATGTAAGTTAT
1 TTATGTATTATGTAAGTTATGTAAGTTAT
39014536 TTAATTTATG
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
31 2 0.03
32 32 0.40
33 2 0.03
34 18 0.22
35 18 0.22
36 3 0.04
37 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (33 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTAG
Found at i:39014557 original size:13 final size:13
Alignment explanation
Indices: 39014539--39014564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39014529 AAGTTATTTA
39014539 ATTTATGTAAGTT
1 ATTTATGTAAGTT
39014552 ATTTATGTAAGTT
1 ATTTATGTAAGTT
39014565 GTCTTGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTATGTAAGTT
Found at i:39014819 original size:16 final size:16
Alignment explanation
Indices: 39014800--39014835 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39014790 CTGTAAGTGC
*
39014800 TGTATTATATAAGTTA
1 TGTATTATATAAGATA
*
39014816 TGTATTATGTAAGATA
1 TGTATTATATAAGATA
39014832 TGTA
1 TGTA
39014836 AGTTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (16 bp):
TGTATTATATAAGATA
Found at i:39014837 original size:25 final size:25
Alignment explanation
Indices: 39014809--39014892 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
39014799 CTGTATTATA
39014809 TAAGTTATGTATTATGTAAGATATG
1 TAAGTTATGTATTATGTAAGATATG
* * * *
39014834 TAAGTTGTATTTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGATATG
* * *
39014859 TAAGTAACG-AGTTATGTAAGCTATG
1 TAAGTTATGTA-TTATGTAAGATATG
39014884 TAAGTTATG
1 TAAGTTATG
39014893 CAAGATTATA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGATATG
Found at i:39014857 original size:9 final size:9
Alignment explanation
Indices: 39014736--39014892 Score: 82
Period size: 9 Copynumber: 18.6 Consensus size: 9
39014726 AAGTTGTATT
*
39014736 TTATGAAAG
1 TTATGTAAG
*
39014745 TTATATAAG
1 TTATGTAAG
*
39014754 TTATGTAGG
1 TTATGTAAG
* *
39014763 CTATGT--T
1 TTATGTAAG
*
39014770 TTATGCAAG
1 TTATGTAAG
* *
39014779 TTATTTAAT
1 TTATGTAAG
*
39014788 TTCTGTAAG
1 TTATGTAAG
**
39014797 TGCTGT-A-
1 TTATGTAAG
*
39014804 TTATATAAG
1 TTATGTAAG
39014813 TTATGT-A-
1 TTATGTAAG
39014820 TTATGTAAG
1 TTATGTAAG
*
39014829 ATATGTAAG
1 TTATGTAAG
**
39014838 -T-TGTATT
1 TTATGTAAG
39014845 TTATGTAAG
1 TTATGTAAG
39014854 TTATGTAAG
1 TTATGTAAG
* *
39014863 TAACG--AG
1 TTATGTAAG
39014870 TTATGTAAG
1 TTATGTAAG
*
39014879 CTATGTAAG
1 TTATGTAAG
39014888 TTATG
1 TTATG
39014893 CAAGATTATA
Statistics
Matches: 107, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
7 22 0.21
8 6 0.06
9 79 0.74
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:39014928 original size:8 final size:7
Alignment explanation
Indices: 39014910--39014955 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
39014900 ATAATATAAG
39014910 TTATGTA
1 TTATGTA
39014917 TTATGTTA
1 TTATG-TA
39014925 TTATGTA
1 TTATGTA
39014932 TTATGTA
1 TTATGTA
*
39014939 --ATTTA
1 TTATGTA
39014944 TTATGTTA
1 TTATG-TA
39014952 TTAT
1 TTAT
39014956 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:39014930 original size:15 final size:15
Alignment explanation
Indices: 39014910--39014955 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39014900 ATAATATAAG
39014910 TTATGTATTATGTTA
1 TTATGTATTATGTTA
39014925 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
39014939 --ATTTATTATGTTA
1 TTATGTATTATGTTA
39014952 TTAT
1 TTAT
39014956 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:39015007 original size:98 final size:98
Alignment explanation
Indices: 39014884--39015243 Score: 702
Period size: 98 Copynumber: 3.7 Consensus size: 98
39014874 GTAAGCTATG
* *
39014884 TAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
39014949 TTATTATATATAAGTTATATGGAAGTTATTATA
66 TTATTATATATAAGTTATATGGAAGTTATTATA
39014982 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
39015047 TTATTATATATAAGTTATATGGAAGTTATTATA
66 TTATTATATATAAGTTATATGGAAGTTATTATA
39015080 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
39015145 TTATTATATATAAGTTATATGGAAGTTATTATA
66 TTATTATATATAAGTTATATGGAAGTTATTATA
39015178 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
39015243 T
66 T
39015244 GAGTATAGTA
Statistics
Matches: 260, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 260 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.48
Consensus pattern (98 bp):
TAAGTTATGCAAGCTTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
TTATTATATATAAGTTATATGGAAGTTATTATA
Found at i:39015026 original size:8 final size:7
Alignment explanation
Indices: 39015008--39015053 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
39014998 ATAAAATAAG
39015008 TTATGTA
1 TTATGTA
39015015 TTATGTTA
1 TTATG-TA
39015023 TTATGTA
1 TTATGTA
39015030 TTATGTA
1 TTATGTA
*
39015037 --ATTTA
1 TTATGTA
39015042 TTATGTTA
1 TTATG-TA
39015050 TTAT
1 TTAT
39015054 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:39015028 original size:15 final size:15
Alignment explanation
Indices: 39015008--39015053 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39014998 ATAAAATAAG
39015008 TTATGTATTATGTTA
1 TTATGTATTATGTTA
39015023 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
39015037 --ATTTATTATGTTA
1 TTATGTATTATGTTA
39015050 TTAT
1 TTAT
39015054 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:39015124 original size:8 final size:7
Alignment explanation
Indices: 39015106--39015151 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
39015096 ATAAAATAAG
39015106 TTATGTA
1 TTATGTA
39015113 TTATGTTA
1 TTATG-TA
39015121 TTATGTA
1 TTATGTA
39015128 TTATGTA
1 TTATGTA
*
39015135 --ATTTA
1 TTATGTA
39015140 TTATGTTA
1 TTATG-TA
39015148 TTAT
1 TTAT
39015152 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:39015126 original size:15 final size:15
Alignment explanation
Indices: 39015106--39015151 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39015096 ATAAAATAAG
39015106 TTATGTATTATGTTA
1 TTATGTATTATGTTA
39015121 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
39015135 --ATTTATTATGTTA
1 TTATGTATTATGTTA
39015148 TTAT
1 TTAT
39015152 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:39015843 original size:33 final size:33
Alignment explanation
Indices: 39015805--39015908 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 33
39015795 CTAGGGTTAA
39015805 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
* * ** * ** **
39015838 TAAA-TTCAATTATATT-TTTCTCTGCAACATGG
1 TAAATTTAAAGTATATTAAATATAAGTTA-ATGG
39015870 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
39015903 TAAATT
1 TAAATT
39015909 AAGGTCTGAT
Statistics
Matches: 50, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
31 4 0.08
32 18 0.36
33 24 0.48
34 4 0.08
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (33 bp):
TAAATTTAAAGTATATTAAATATAAGTTAATGG
Found at i:39015853 original size:32 final size:32
Alignment explanation
Indices: 39015805--39015910 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
39015795 CTAGGGTTAA
39015805 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAA-TTAAAGTATATTAAATATAAGTTAATGG
* * ** * ** **
39015838 TAAATTCAATTATATT-TTTCTCTGCAACATGG
1 TAAATTAAAGTATATTAAATATAAGTTA-ATGG
39015870 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAA-TTAAAGTATATTAAATATAAGTTAATGG
39015903 TAAATTAA
1 TAAATTAA
39015911 GGTCTGATTT
Statistics
Matches: 52, Mismatches: 18, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
31 4 0.08
32 22 0.42
33 22 0.42
34 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (32 bp):
TAAATTAAAGTATATTAAATATAAGTTAATGG
Found at i:39018291 original size:17 final size:17
Alignment explanation
Indices: 39018269--39018317 Score: 75
Period size: 16 Copynumber: 3.0 Consensus size: 17
39018259 TATCCTATTT
39018269 CCTACATTATATAATAA
1 CCTACATTATATAATAA
39018286 CCTACATTATAT-ATAA
1 CCTACATTATATAATAA
*
39018302 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
39018318 TCTAGCGGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.17
16 13 0.43
17 12 0.40
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:39018520 original size:113 final size:110
Alignment explanation
Indices: 39018339--39018689 Score: 389
Period size: 113 Copynumber: 3.1 Consensus size: 110
39018329 TTCCCACAAC
* * * * * *
39018339 GCGCTGCTAATAATATGTTTTAGCGGCATTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
39018403 AGACCAATGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
64 AGACCAA-GC-TTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
* * *
39018452 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * * *
39018517 GACCAAACTCTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTAC
65 GACCAAGCT-TGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAATAA
* * * *
39018566 TCGCCGCTAATACTATTCTTTAGCGGCGTTTTAATATAAGCGCCACTAAGGCTACTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
* * *
39018631 GACCAAAGCACTGCGTTTTGGTTAATATTTTGCGGCGTTTTCCAATAA
65 GACC-AAGC-TTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
*
39018679 GCGCCACTAAT
1 GCGCCGCTAAT
39018690 CTTAATATAC
Statistics
Matches: 198, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
111 1 0.01
112 13 0.07
113 87 0.44
114 82 0.41
115 15 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (110 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAGCTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
Found at i:39018710 original size:74 final size:73
Alignment explanation
Indices: 39018588--39018728 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
39018578 CTATTCTTTA
* *
39018588 GCGGCGTTTTAATATAAGCGCCACTAAGGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGT
1 GCGGCGTTTTAATATAAGCGCCACTAAGGCTAATATACAGCAAGACCAAA-CACTGCGTTTTGGT
39018653 TAATATTTT
65 TAATATTTT
* * * * *
39018662 GCGGCGTTTTCCA-ATAAGCGCCACTAA-TCTTAATATACCGCAATACCAAACTCTGCGTTTTGG
1 GCGGCGTTTT-AATATAAGCGCCACTAAGGC-TAATATACAGCAAGACCAAACACTGCGTTTTGG
39018725 TTAA
64 TTAA
39018729 GAAATATTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
73 17 0.29
74 40 0.69
75 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (73 bp):
GCGGCGTTTTAATATAAGCGCCACTAAGGCTAATATACAGCAAGACCAAACACTGCGTTTTGGTT
AATATTTT
Found at i:39018791 original size:188 final size:188
Alignment explanation
Indices: 39018474--39019065 Score: 986
Period size: 188 Copynumber: 3.1 Consensus size: 188
39018464 CTATGCTTTA
* * *
39018474 GCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
* *
39018539 AAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATTCTTTAGCGGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
** * *
39018604 AGCGCCACTAAGGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
* *
39018662 GCGGCGTTTTCCAATAAGCGCCACTAATCTTAATATACCGCAATACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
* *
39018727 AAGAAATATTGCGGCGCTTTTCACTACTTGCCGCTAATACTATTCTTTAGCAGCATTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
39018792 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
* *
39018850 GCAGCATTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
*
39018915 AAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
* *
39018980 AGCGCCACTACTGCTAGTATATATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
* * * *
39019038 GCGGCGCTTTACAATAAGCACCGCTAAT
1 GCGGCGTTTTCCAATAAGCGCCACTAAT
39019066 AATATGTTTT
Statistics
Matches: 376, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
188 376 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (188 bp):
GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
Found at i:39018897 original size:74 final size:73
Alignment explanation
Indices: 39018776--39018916 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 73
39018766 CTATTCTTTA
* * * *
39018776 GCAGCATTTTAATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCAGCATTTTAATATAAGCGCCACTAATCCTAATATACAGCAAGACCAAA-CGCTGCGTTTTGGT
39018841 TAATATTTT
65 TAATATTTT
* * *
39018850 GCAGCATTTTCCA-ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCAGCATTTT-AATATAAGCGCCACTAATCCTAATATACAGCAAGACCAAACGCTGCGTTTTGGT
39018914 TAA
65 TAA
39018917 GAAATCTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 16 0.27
74 42 0.71
75 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (73 bp):
GCAGCATTTTAATATAAGCGCCACTAATCCTAATATACAGCAAGACCAAACGCTGCGTTTTGGTT
AATATTTT
Found at i:39019084 original size:113 final size:113
Alignment explanation
Indices: 39018863--39019498 Score: 708
Period size: 113 Copynumber: 5.6 Consensus size: 113
39018853 GCATTTTCCA
* ** * *
39018863 ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAA-C-TCTGCGTTTTGGTTAAGAAATCTTG
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGT-TGCGTTTTGGTT-A-ATATTTTG
* * ** * *
39018926 CGGCGCTTTTCACTACTCGCCGCTAATACTAT-TCTTTAGCAGCGTTTTAAT
63 CGGCGCTTTACAATAAGCGCCGCTAATACTATGT-TTTAGCGGCGTTTTAAC
* * *
39018977 ATAAGCGCCACTACTGCTAGTATATATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGG
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGG
* * *
39019042 CGCTTTACAATAAGCACCGCTAATAATATGTTTTAGCGGCGTTTTACC
66 CGCTTTACAATAAGCGCCGCTAATACTATGTTTTAGCGGCGTTTTAAC
* * * * * *
39019090 ATAAGTGCCACAAATGCTAGTATACATCGAGACCAATGTGTTGCGTTTTGGTTAATATTTTGCGG
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGG
* * *
39019155 CGCTTTACAATAAGCACCGCTAATAATATGTTTTAGCGGCGTTTTACC
66 CGCTTTACAATAAGCGCCGCTAATACTATGTTTTAGCGGCGTTTTAAC
* * * * * *
39019203 ATAAGTGCCACAAATGCTAGTATACATCGAGACCAATGTGTTGCGTTTTGGTTAATATTTTGCGG
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGG
*
39019268 CGCTTTACAATAAGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAA-
66 CGCTTTACAATAAGCGCCGCTAATACTATGTTTTAGCGGCGTTTT-AAC
* * * *
39019316 ATAAGCGCCACTAATCCTAATATACCTCAAGACCAAA-C-TATGCGTTTTGGTTAAGAAATATTG
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGT-TGCGTTTTGGTT-A-ATATTTTG
* * ** ** *
39019379 CGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAAT
63 CGGCGCTTTACAATAAGCGCCGCTAATACTATGTTTTAGCGGCGTTTTAAC
* * * *
39019430 ATAAGCACCACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGAGCTTTTGC
1 ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATA--TTTTGC
39019495 GGCG
64 GGCG
39019499 TTTGTTCAGA
Statistics
Matches: 460, Mismatches: 50, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
111 1 0.00
112 12 0.03
113 294 0.64
114 117 0.25
115 35 0.08
116 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (113 bp):
ATAAGCGCCACTAATGCTAATATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGG
CGCTTTACAATAAGCGCCGCTAATACTATGTTTTAGCGGCGTTTTAAC
Found at i:39019351 original size:226 final size:226
Alignment explanation
Indices: 39018856--39019498 Score: 824
Period size: 226 Copynumber: 2.8 Consensus size: 226
39018846 TTTTGCAGCA
* * *
39018856 TTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTAAGAAA
1 TTTTCAAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTATGCGTTTTGGTTAAGAAA
* * *
39018921 TCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATAAGCGCC
66 TATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATT-TTTAGCGGCGTTTTAATATAAGCGCC
* *
39018986 ACTACTGCTAGTATATATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACA
130 ACTAATGCTAGTATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACA
*
39019051 ATAAGCACCGCTAATAATATGTTTTAGCGGCG
195 ATAAGCACCGCTAATAATATGCTTTAGCGGCG
* * * * * * * ** *
39019083 TTTT-ACCATAAGTGCCACAAATGCTAGTATACATCGAGACCAATGTGTTGCGTTTTGGTT-A-A
1 TTTTCA-AATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACT-ATGCGTTTTGGTTAAGA
* * * ** * * ** *
39019145 TATTTTGCGGCGCTTTACAATAAGCACCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGTG
64 AATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTAT-TTTTAGCGGCGTTTTAATATAAGCG
* * * *
39019210 CCACAAATGCTAGTATACATCGAGACCAATGTGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTA
128 CCACTAATGCTAGTATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTA
* *
39019275 CAATAAGCGCCGCTAATACTATGCTTTAGCGGCG
193 CAATAAGCACCGCTAATAATATGCTTTAGCGGCG
39019309 TTTTCAAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTATGCGTTTTGGTTAAGAAA
1 TTTTCAAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTATGCGTTTTGGTTAAGAAA
* * *
39019374 TATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAATATAAGCACC
66 TATTGCGGCGCTTTTCAATACTCGCCGCTAATACTAT-TTTTAGCGGCGTTTTAATATAAGCGCC
* * * *
39019439 ACTAAGGCTAATATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAGAGCTTTTGCGGCG
130 ACTAATGCTAGTATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATA--TTTTGCGGCG
39019499 TTTGTTCAGA
Statistics
Matches: 343, Mismatches: 65, Indels: 14
0.81 0.15 0.03
Matches are distributed among these distances:
225 12 0.03
226 178 0.52
227 131 0.38
228 12 0.03
229 10 0.03
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (226 bp):
TTTTCAAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTATGCGTTTTGGTTAAGAAA
TATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATTTTTAGCGGCGTTTTAATATAAGCGCCA
CTAATGCTAGTATACATCAAGACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAA
TAAGCACCGCTAATAATATGCTTTAGCGGCG
Found at i:39021152 original size:15 final size:16
Alignment explanation
Indices: 39021132--39021170 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
39021122 AGTTCAGTCC
39021132 AAAACCCAAA-TAAAT
1 AAAACCCAAACTAAAT
*
39021147 AAAACCCAAACTCAAT
1 AAAACCCAAACTAAAT
39021163 -AAACCCAA
1 AAAACCCAA
39021171 CAAACCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAACCCAAACTAAAT
Found at i:39022301 original size:3 final size:3
Alignment explanation
Indices: 39022293--39022323 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
39022283 GTTAATCTGT
*
39022293 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
39022324 ATCCGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39022456 original size:3 final size:3
Alignment explanation
Indices: 39022450--39022536 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
39022440 TCACATTTTA
* * * * * * *
39022450 TAT TAT TAT TGT TAT TAT TAT AAT AAT TAT TAT TGT TAC TAT CAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
39022498 TAT TAT TAT TAT TAT TAT TAG TAT TAG TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
39022537 ATATCAATTT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:39030502 original size:202 final size:197
Alignment explanation
Indices: 39030158--39030522 Score: 428
Period size: 202 Copynumber: 1.8 Consensus size: 197
39030148 TTTTACTCAT
* * *
39030158 AAGTTAATCTATTTTTTTAATTTTAATATCGTACATATTTAATGTTTTATTATTAATTAGTTTCA
1 AAGTTAATCTATATTTTTAATTTTAACATCGTACATATTTAATGTTTTATTAATAATTAGTTTCA
** * * * * * * * *
39030223 AATTATACATTTTATCATTTATTGTATTTTATTTTAAACTAACATCTGGGTTCTAAGTGCATTGT
66 AAACAAACATTTCATCATTTACTGTATATTATTTTAAACTAACATCTAGGTTCTAAATACATAGT
*
39030288 TTCTACACACATACACATGTGATAAAATTTTTAATATTGATAATGTTGTTGATTGAGTTAGTGTC
131 TTCTAAACACATACACATGTGATAAAATTTTTAATATTGATAATGTTGTTGATTGAGTTAGTGTC
39030353 AC
196 AC
* * *
39030355 AAGTTAATCTAATATTTTTCATTTTAGCATCGTACATATTTAATGCGTTATTATTAATACTTAGT
1 AAGTTAATCT-ATATTTTTAATTTTAACATCGTACATATTTAAT--GTT-TTATTAATAATTAGT
* * *
39030420 TTCAAAACAAATATTTCATTATTTACTGTATATTATTTTTAAAC--ACGACTCTATGTTCTAAAT
62 TTCAAAACAAACATTTCATCATTTACTGTATATTA-TTTTAAACTAAC-A-TCTAGGTTCTAAAT
* ** * *
39030483 ACATAGTTTTTAAACACATATGCGTGTGATAGAATTTTTA
124 ACATAGTTTCTAAACACATACACATGTGATAAAATTTTTA
39030523 GTATCATATC
Statistics
Matches: 136, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
197 10 0.07
198 29 0.21
200 5 0.04
201 41 0.30
202 51 0.38
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.47
Consensus pattern (197 bp):
AAGTTAATCTATATTTTTAATTTTAACATCGTACATATTTAATGTTTTATTAATAATTAGTTTCA
AAACAAACATTTCATCATTTACTGTATATTATTTTAAACTAACATCTAGGTTCTAAATACATAGT
TTCTAAACACATACACATGTGATAAAATTTTTAATATTGATAATGTTGTTGATTGAGTTAGTGTC
AC
Done.