Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 217 of 320
Found at i:72622851 original size:24 final size:26
Alignment explanation
Indices: 72622802--72622881 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
72622792 ATCTAATATT
72622802 TATTAAAAATAAATATTATTAAATTAA
1 TATTAAAAATAAATATTATT-AATTAA
72622829 TATTAAAAATAAATATTA-T-ATTAA
1 TATTAAAAATAAATATTATTAATTAA
* * *
72622853 -ATTTAATATTAAATCTTATTAAATTAA
1 TA-TTAAAAATAAATATTATT-AATTAA
72622880 TA
1 TA
72622882 GAATATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 18 0.40
25 1 0.02
26 1 0.02
27 23 0.51
28 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTAAAAATAAATATTATTAATTAA
Found at i:72622860 original size:17 final size:17
Alignment explanation
Indices: 72622774--72622863 Score: 61
Period size: 17 Copynumber: 5.7 Consensus size: 17
72622764 AAAATTAATC
* *
72622774 AATTTAATATTAAATTT
1 AATTTAATATTATATTA
*
72622791 AATCTAATATT-TATTA
1 AATTTAATATTATATTA
**
72622807 AAAATAA-A-TATTATTA
1 AATTTAATATTA-TATTA
72622823 AA-TTAATATTA-A--A
1 AATTTAATATTATATTA
*
72622836 AA-TAAATATTATATTA
1 AATTTAATATTATATTA
72622852 AATTTAATATTA
1 AATTTAATATTA
72622864 AATCTTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
13 11 0.19
14 2 0.04
15 5 0.09
16 19 0.33
17 20 0.35
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAATATTATATTA
Found at i:72622861 original size:30 final size:27
Alignment explanation
Indices: 72622802--72622865 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
72622792 ATCTAATATT
72622802 TATTAAAAATAAATATTATTAAATTAA
1 TATTAAAAATAAATATTATTAAATTAA
72622829 TATTAAAAATAAATATTATATTAAATTTAA
1 TATTAAAAATAAATA-T-TATTAAA-TTAA
72622859 TATTAAA
1 TATTAAA
72622866 TCTTATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 15 0.44
28 1 0.03
29 7 0.21
30 11 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTAAAAATAAATATTATTAAATTAA
Found at i:72623006 original size:17 final size:17
Alignment explanation
Indices: 72622971--72623006 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
72622961 TTAAGATAAG
**
72622971 TATTAAATTTAATTTAA
1 TATTAAATTTAATAAAA
72622988 TATTAAATTTAATAAAA
1 TATTAAATTTAATAAAA
72623005 TA
1 TA
72623007 ATAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAAATTTAATAAAA
Found at i:72623009 original size:67 final size:65
Alignment explanation
Indices: 72622774--72623009 Score: 169
Period size: 67 Copynumber: 3.4 Consensus size: 65
72622764 AAAATTAATC
** *
72622774 AATTTAATATTAAATTTAATCTAATATTTATTAAA--AATAAATATTATTAA-ATTAATATTAAA
1 AATTTAATATTAAATTTAATAAAATA-ATATTAAATTAATAAAT-TTATTAAGA-TAATATT-AA
* *
72622836 AATA
62 ATTT
**
72622840 AATATT-ATATTAAATTTAATATTAAATCTTATTAAATTAATAGAATATTTATCTACAAGATAAA
1 AAT-TTAATATTAAATTTAATA--AAATAATATTAAATTAAT--AA-ATTTAT-T--AAGAT-AA
*
72622904 CATTAAATTT
56 TATTAAATTT
***
72622914 AATTTAATATTAAGA--TAATCACTTTAATATTAAATTAATAACATTTATTAAGATAAGTATTAA
1 AATTTAATATTAA-ATTTAAT-AAAATAATATTAAATTAATAA-ATTTATTAAGATAA-TATTAA
72622977 ATTT
62 ATTT
72622981 AATTTAATATTAAATTTAATAAAATAATA
1 AATTTAATATTAAATTTAATAAAATAATA
72623010 ATATTTTTTG
Statistics
Matches: 135, Mismatches: 16, Indels: 37
0.72 0.09 0.20
Matches are distributed among these distances:
66 20 0.15
67 43 0.32
68 7 0.05
69 4 0.03
70 8 0.06
71 6 0.04
72 16 0.12
73 6 0.04
74 18 0.13
75 7 0.05
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (65 bp):
AATTTAATATTAAATTTAATAAAATAATATTAAATTAATAAATTTATTAAGATAATATTAAATTT
Found at i:72623414 original size:9 final size:9
Alignment explanation
Indices: 72623394--72623424 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
72623384 AAAATATTAT
72623394 ATTAATTTTA
1 ATTAA-TTTA
72623404 ATTAATTTA
1 ATTAATTTA
72623413 ATTAATTTA
1 ATTAATTTA
72623422 ATT
1 ATT
72623425 TTACTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:72634540 original size:46 final size:44
Alignment explanation
Indices: 72634490--72634605 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 44
72634480 AGTACTAGTG
72634490 TAAGACATGTCTGGGACATGCATCAGCCT-TGAGACGTAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATCAG-CTATGAGACGT--GCCAGTA
* * * * * *
72634536 TAAGATATGTCTGGGACATGCAACTGCTATGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCTATGAGACGTGCCAGTA
72634580 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
72634606 GGAACAGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.17
45 15 0.25
46 34 0.58
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCAGCTATGAGACGTGCCAGTA
Found at i:72634630 original size:50 final size:51
Alignment explanation
Indices: 72634575--72634706 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 51
72634565 TGAGATGTGT
* * *
72634575 CAGTGTAAGACCATGTCTGGGACATGGCATCGGAACAGT-TATG-TGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGAAC-CTCAAAGATGAGAGC
* * * * *
72634625 TAGTGTAAGACCATGTCTAGGACATAGCATC--AGCCTCAAAGATGATAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGAACCTCAAAGATGAGAGC
*
72634674 CAATGTAAGACCATGTCTGGGACATGGCATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
72634707 CACTTTACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.02
48 4 0.06
49 33 0.50
50 28 0.42
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (51 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGAACCTCAAAGATGAGAGC
Found at i:72648522 original size:27 final size:29
Alignment explanation
Indices: 72648492--72648555 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
72648482 TATTATCCTC
*
72648492 ACTTAAAAT-TTTAAAATTTTTAT-AT-AA
1 ACTTAAAATATTT-AAATTATTATAATAAA
*
72648519 ACTTTAAATATTTAAATTATTATAATAAA
1 ACTTAAAATATTTAAATTATTATAATAAA
72648548 ACTTAAAA
1 ACTTAAAA
72648556 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 17 0.55
28 5 0.16
29 9 0.29
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
ACTTAAAATATTTAAATTATTATAATAAA
Found at i:72658609 original size:17 final size:18
Alignment explanation
Indices: 72658579--72658617 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
72658569 CGAACTTAAA
72658579 TATTAAAGAATTAAATTG
1 TATTAAAGAATTAAATTG
*
72658597 TATT-AAGAGTTAAATTG
1 TATTAAAGAATTAAATTG
72658614 TATT
1 TATT
72658618 TTTCTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (18 bp):
TATTAAAGAATTAAATTG
Found at i:72659441 original size:18 final size:18
Alignment explanation
Indices: 72659418--72659454 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
72659408 TTTTCATTTA
72659418 AGTTATTAGGCTATTAGT
1 AGTTATTAGGCTATTAGT
72659436 AGTTATTAGGCTATTAGT
1 AGTTATTAGGCTATTAGT
72659454 A
1 A
72659455 AATTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (18 bp):
AGTTATTAGGCTATTAGT
Found at i:72662327 original size:25 final size:25
Alignment explanation
Indices: 72662299--72662374 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
72662289 CTTATGAGTG
* *
72662299 TTCCGATATTTGGCTCTCACGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
* *
72662324 TTCCGCTACTTGGCTCTCATGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
* * *
72662349 TCCCAATACTTGGCTCGCAAGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
72662374 T
1 T
72662375 CTTGATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCCGATACTTGGCTCTCAAGAGCT
Found at i:72664526 original size:19 final size:19
Alignment explanation
Indices: 72664479--72664558 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
72664469 CATATCATAT
72664479 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
72664498 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
72664515 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
*
72664534 CATATCATATCTAAAATTG
1 CATATCATATCTAAGATTG
72664553 CATATC
1 CATATC
72664559 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:72665091 original size:87 final size:86
Alignment explanation
Indices: 72664960--72665457 Score: 328
Period size: 87 Copynumber: 5.7 Consensus size: 86
72664950 AACAATACAG
* *
72664960 AGATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 AGATGCCAAATCATCTTGGATCTGCTTCA--GTAAAACATC-TGAAAGTCAAATCTGCTATGTCT
72665023 TCGATTTGCTCCTTGTGAACACAA
63 TCGATTTGCTCCTTGTGAACACAA
* * *
72665047 AGATGCTAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAAGTTACATCTGCTATG---T-
1 AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTC
* * ***
72665108 -ATCTGCT-CTCCGTCGAA-ATGG
65 GATTTGCTCCT-TGT-GAACACAA
* * ** * *
72665129 AGATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCTGC-TT-CAGT-AAAACATCTGAAAGTCAAATCTGCTAT
*
72665194 GTCTTCGATTTTCTCCTTGTGAACACAA
59 GTCTTCGATTTGCTCCTTGTGAACACAA
* * * * *
72665222 GGATGCCAAATCATCTTGGATCTGCTTTAGTAAAATCATCTGAAGGTTAGATCTGCTATG---T-
1 AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTC
* * * *
72665283 -ATCTGCT-CTCCGTCGAA-ATAG
65 GATTTGCTCCT-TGT-GAACACAA
* ** ** * *
72665304 AGATGCCAGATCTGTTATCTTGGATCTATTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCT-GCTT-CAGT-AAAACATCTGAAAGTCAAATCTGCTAT
72665369 GTCTTCGATTTGCTCCTTGTGAACA-AA
59 GTCTTCGATTTGCTCCTTGTGAACACAA
* * *
72665396 AGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGT
1 A-GATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGT
72665458 ATCTGCTCTC
Statistics
Matches: 309, Mismatches: 64, Indels: 76
0.69 0.14 0.17
Matches are distributed among these distances:
81 4 0.01
82 38 0.12
83 6 0.02
84 2 0.01
85 2 0.01
86 32 0.10
87 95 0.31
88 50 0.16
89 29 0.09
91 2 0.01
92 8 0.03
93 37 0.12
94 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (86 bp):
AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTCG
ATTTGCTCCTTGTGAACACAA
Found at i:72665212 original size:175 final size:174
Alignment explanation
Indices: 72665001--72665544 Score: 910
Period size: 175 Copynumber: 3.1 Consensus size: 174
72664991 GTAAACACGT
* *
72665001 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCTAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
* *
72665066 ATCTGCTTCAGTAAAATCATCTGAAAGTTACATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
72665131 ATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTT-GATCTGCTTTGGTGTGAGAACATCC
* *
72665176 GAAAGTCAAATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
* *
72665241 ATCTGCTTTAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
**
72665306 ATGCCAGATCTGTTATCTTGGATCTATTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTT-GATCTGCTTTGGTGTGAGAACATCC
72665351 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACA-AAAGGATGCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAA-GATGCCAAATCATCTTG
**
72665415 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTAAAAATGGA
65 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
*
72665480 GATGCCAGATCTGTTATCTTGAATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTGTTATCTTG-ATCTGCTTTGGTGTGAGAACATCC
* *
72665526 GAAGGTCAGATCTGCTATG
1 GAAAGTCAAATCTGCTATG
72665545 CTTTAACCTG
Statistics
Matches: 345, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
174 3 0.01
175 342 0.99
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (174 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGATCTGCTTTGGTGTGAGAACATCC
Found at i:72665330 original size:86 final size:85
Alignment explanation
Indices: 72665059--72665544 Score: 316
Period size: 88 Copynumber: 5.6 Consensus size: 85
72665049 ATGCTAAATC
* * * *
72665059 ATCTTGGATCTGC-TTCAGTAAAATCATCTGAAAGTTACATCTGCTATGTATCTGCTCTCCGTCG
1 ATCTTGGATCTGCTTTGAGTAAAA-CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-G
*
72665123 AAATGGAGATGCCAGATCTGTT
64 AAATAGAGATGCCAGATCTGTT
* * * * * **
72665145 ATCTTAGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTTCTCC
1 ATCTTGGATCTGCTTT-GAGT-AAAACATCCGAAAGTCAGATCTGCTATGT-ATC--TGCTCTCC
* *
72665210 TTGTGAACACA-AGGATGCCAAATC----
61 --GTGAA-ATAGA-GATGCCAGATCTGTT
* * *
72665234 ATCTTGGATCTGCTTT-AGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCG
1 ATCTTGGATCTGCTTTGAGTAAAA-CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-G
72665298 AAATAGAGATGCCAGATCTGTT
64 AAATAGAGATGCCAGATCTGTT
** * * * *
72665320 ATCTTGGATCTATTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC-
1 ATCTTGGATCTGCTTT-GAGT-AAAACATCCGAAAGTCAGATCTGCTATG---T--ATCTGCTCT
* * *
72665384 CTTGTGAACA-AAAGGATGCCAAATC----
59 C-CGTGAA-ATAGA-GATGCCAGATCTGTT
* * * * *
72665409 ATCTTGGATCTGC-TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTAA
1 ATCTTGGATCTGCTTTGAGTAAAA-CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-G
*
72665473 AAATGGAGATGCCAGATCTGTT
64 AAATAGAGATGCCAGATCTGTT
* * *
72665495 ATCTTGAATCTGCTTTGGTGTAAGAACATCCGAAGGTCAGATCTGCTATG
1 ATCTTGGATCTGCTTT-GAGTAA-AACATCCGAAAGTCAGATCTGCTATG
72665545 CTTTAACCTG
Statistics
Matches: 304, Mismatches: 57, Indels: 76
0.70 0.13 0.17
Matches are distributed among these distances:
82 34 0.11
83 8 0.03
84 7 0.02
86 46 0.15
87 49 0.16
88 74 0.24
89 36 0.12
91 7 0.02
92 10 0.03
93 33 0.11
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (85 bp):
ATCTTGGATCTGCTTTGAGTAAAACATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGTGAA
ATAGAGATGCCAGATCTGTT
Found at i:72665687 original size:84 final size:84
Alignment explanation
Indices: 72665546--72666002 Score: 568
Period size: 84 Copynumber: 5.4 Consensus size: 84
72665536 TCTGCTATGC
* * *
72665546 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTACTCCACTACTGTTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
* *
72665610 AGGGAGTTAAGATCTGTAAA
65 AGGGAGATAAGATCTGCAAA
*
72665630 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT-
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
72665694 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
* * *
72665713 TTTAACCTGTTACCCTACTGCTCAGGGGATTAAAGCGAGTCTTCGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* *
72665778 GGAAGATAAGATCTGCAAT
66 GGGAGATAAGATCTGCAAA
* * * * **
72665797 TTTGACATGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTTGTTGATCTGCTCCGCTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC--T-TCGATCTGCTCCACTACTGC
* *
72665862 TTAGGGAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTGCAAA
* * * * **
72665884 TTTAGCCTGTTACCCTACTACTTAGGGGATTAAAGCGAGTTGTCGTCGATCTGCTCTGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA---GTCTTCGATCTGCTCCACTACTGC
72665949 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
*
72665968 --GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
72666003 CTGAATTTTG
Statistics
Matches: 328, Mismatches: 37, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
82 31 0.09
83 78 0.24
84 112 0.34
86 1 0.00
87 103 0.31
90 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:72665822 original size:167 final size:168
Alignment explanation
Indices: 72665546--72666002 Score: 577
Period size: 167 Copynumber: 2.7 Consensus size: 168
72665536 TCTGCTATGC
* * * *
72665546 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTACTCCACTACTGTTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCG-AGTCTTCGATCTGCTCCACTACTGCTT
* * *
72665610 AGGGAGTTAAGATCTGTAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTC-T-T
65 AGGGAGATAAGATCTG-CAATTT-ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTGT
*
72665673 CGATCTGCTCCACTACTGCTT-GGGAGATAAGATCTGCAAA
128 CGATCTGCTCCACTACTGATTAGGGAGATAAGATCTGCAAA
* *
72665713 TTTAACCTGTTACCCTACTGCTCAGGGGATTAAAGCGAGTCTTCGATCTGCTCCACTACTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* *
72665778 GGAAGATAAGATCTGCAATTTTGACATGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTTGT
66 GGGAGATAAGATCTGCAA-TTT-ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCG-TGT
* * * * *
72665843 TGATCTGCTCCGCTACTTATTAGGGAGATAAGATCTGTAAT
128 CGATCTGCTCCACTACTGATTAGGGAGATAAGATCTGCAAA
* * * **
72665884 TTTAGCCTGTTACCCTACTACTTAGGGGATTAAAGCGAGTTGTCGTCGATCTGCTCTGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGA---GTCTTCGATCTGCTCCACTACTGC
*
72665949 TTAGGGAGATAAGATCTGCGA---ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
63 TTAGGGAGATAAGATCTGCAATTTACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
72666003 CTGAATTTTG
Statistics
Matches: 253, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
166 3 0.01
167 108 0.43
169 33 0.13
170 18 0.07
171 52 0.21
174 39 0.15
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (168 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAATTTACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTGTCGA
TCTGCTCCACTACTGATTAGGGAGATAAGATCTGCAAA
Found at i:72671255 original size:15 final size:15
Alignment explanation
Indices: 72671235--72671264 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72671225 CACTATCTCC
72671235 TTTCTCTAACTAGGT
1 TTTCTCTAACTAGGT
*
72671250 TTTCTCTGACTAGGT
1 TTTCTCTAACTAGGT
72671265 ATAGACAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (15 bp):
TTTCTCTAACTAGGT
Found at i:72673257 original size:36 final size:37
Alignment explanation
Indices: 72673216--72673296 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 37
72673206 GCATATCATA
72673216 TCATATCATATCTAAGATTG-TATCATATCTAAGATT
1 TCATATCATATCTAAGATTGATATCATATCTAAGATT
72673252 TCATATCATATCTAAGATTGCATATCATATCTAAGATT
1 TCATATCATATCTAAGATTG-ATATCATATCTAAGATT
*
72673290 GCATATC
1 TCATATC
72673297 CTTAAAGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 20 0.48
38 22 0.52
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (37 bp):
TCATATCATATCTAAGATTGATATCATATCTAAGATT
Found at i:72673260 original size:19 final size:19
Alignment explanation
Indices: 72673216--72673296 Score: 121
Period size: 19 Copynumber: 4.4 Consensus size: 19
72673206 GCATATCATA
72673216 TCATATCATATCTAAGA-T
1 TCATATCATATCTAAGATT
*
72673234 T-GTATCATATCTAAGATT
1 TCATATCATATCTAAGATT
72673252 TCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
72673271 GCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
72673290 GCATATC
1 TCATATC
72673297 CTTAAAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.24
18 3 0.05
19 41 0.71
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:72675239 original size:55 final size:55
Alignment explanation
Indices: 72675179--72675311 Score: 180
Period size: 55 Copynumber: 2.4 Consensus size: 55
72675169 TTGGAATACG
72675179 GCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCATGTTAGAATACTT
1 GCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCATGTTAGAATA-TT
* * *
72675235 -CTTCTTTT-AAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATATT
1 GCTTCTTTTGAAA-CGATTTTTTATATGTTTAAATCGATTGTCATGTTAGAATATT
* *
72675289 GCTTATTTTGAATCGATTATTTT
1 GCTTCTTTTGAAACGATT-TTTT
72675312 TACGTAGCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
54 5 0.07
55 57 0.85
56 5 0.07
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (55 bp):
GCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCATGTTAGAATATT
Found at i:72677242 original size:16 final size:16
Alignment explanation
Indices: 72677223--72677261 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
72677213 AGAGAGCAGG
* *
72677223 GGAAAGAAAGAACGAA
1 GGAAAAAAAGAAAGAA
72677239 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
72677255 GGAAAAA
1 GGAAAAA
72677262 GGGGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:72678399 original size:47 final size:47
Alignment explanation
Indices: 72678337--72678453 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
72678327 GATATTATTA
* *
72678337 CTGT-TACCGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
* *
72678384 CTGTGTACCGTACTGTTACTGCTCCGGATTTGTTCCGACGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
72678431 CTGTGTACCGTACTGTTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
72678454 ACTGTTACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
Found at i:72678452 original size:6 final size:6
Alignment explanation
Indices: 72678441--72678465 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
72678431 CTGTGTACCG
72678441 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
72678466 CCGACTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:72678634 original size:18 final size:18
Alignment explanation
Indices: 72678581--72678648 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
72678571 AAAGACCGAC
* *
72678581 TGTTGCTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
72678600 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
72678618 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
72678636 TGTTACTGGATAA
1 TGTTACTGAATAA
72678649 CCGATCAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 29 0.74
19 10 0.26
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:72681004 original size:30 final size:32
Alignment explanation
Indices: 72680944--72681007 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
72680934 CACTTATTTT
72680944 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
72680977 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
72681008 ATACATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:72681269 original size:41 final size:41
Alignment explanation
Indices: 72681224--72681379 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
72681214 ACCGGCTCTT
*
72681224 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
72681265 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
72681306 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
72681347 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
72681380 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:72688640 original size:30 final size:32
Alignment explanation
Indices: 72688580--72688643 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
72688570 CACTTATTTT
72688580 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
72688613 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
72688644 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:72688960 original size:41 final size:41
Alignment explanation
Indices: 72688858--72688972 Score: 203
Period size: 41 Copynumber: 2.8 Consensus size: 41
72688848 ACCGGCTCTT
*
72688858 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
72688899 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
72688940 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
72688973 TAACGATAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:72693700 original size:17 final size:19
Alignment explanation
Indices: 72693678--72693715 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
72693668 TTAATAACCT
*
72693678 AAATTAA-AAT-ACTTTAA
1 AAATTAAGAATCAATTTAA
72693695 AAATTAAGAATCAATTTAA
1 AAATTAAGAATCAATTTAA
72693714 AA
1 AA
72693716 TCAAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTAAGAATCAATTTAA
Found at i:72702614 original size:31 final size:31
Alignment explanation
Indices: 72702579--72702678 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 31
72702569 TACTAAAACT
72702579 ATCTAAATATATCCATGAACATTAAACACAA
1 ATCTAAATATATCCATGAACATTAAACACAA
* * * *
72702610 ATCTAAAAAAAAAAT-CAT-ACACTACTAAA-AC-T
1 ATCT---AAATATATCCATGA-AC-ATTAAACACAA
72702642 ATCTAAATATATCCATGAACATTAAACACAA
1 ATCTAAATATATCCATGAACATTAAACACAA
72702673 ATCTAA
1 ATCTAA
72702679 TTTTTAAAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
29 11 0.21
30 7 0.13
31 11 0.21
32 5 0.10
33 7 0.13
34 11 0.21
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (31 bp):
ATCTAAATATATCCATGAACATTAAACACAA
Found at i:72702626 original size:63 final size:63
Alignment explanation
Indices: 72702551--72702678 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
72702541 CTATTATTAC
72702551 AAAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCT
1 AAAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCT
72702614 AAAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCT
1 AAAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCT
72702677 AA
1 AA
72702679 TTTTTAAAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (63 bp):
AAAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCT
Found at i:72704004 original size:24 final size:24
Alignment explanation
Indices: 72703958--72704005 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
72703948 GACTCGACTC
**
72703958 TTGTTCAAACACTTGCTTGAACAA
1 TTGTTCAAACACTTGCTCAAACAA
*
72703982 TTGTTTAAACACTTGCTCAAACAA
1 TTGTTCAAACACTTGCTCAAACAA
72704006 GACCTTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (24 bp):
TTGTTCAAACACTTGCTCAAACAA
Found at i:72705247 original size:42 final size:43
Alignment explanation
Indices: 72705145--72705254 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
72705135 AAAAAAGCCA
*
72705145 TAAAAGATCATGACTTTTAGCGGCGTTTATGGGGGAGGCACCGC
1 TAAAAG-TCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
* * * *
72705189 TAAAAGTCAT-AGCTTTTAGCTGCGTTTGT-GGTGAAGCGCCGC
1 TAAAAGTCATGA-CTTTTAGCGGCGTTTATGGGGGAAGCACCGC
*
72705231 TACAAGTCATGACTTTTAGCGGCG
1 TAAAAGTCATGACTTTTAGCGGCG
72705255 CTTTTGTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.54
43 20 0.35
44 6 0.11
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAAAGTCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
Found at i:72706103 original size:13 final size:14
Alignment explanation
Indices: 72706077--72706105 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
72706067 ACTAACGACG
72706077 AATTAAACCATTAT
1 AATTAAACCATTAT
72706091 AATTAAA-CATTAT
1 AATTAAACCATTAT
72706104 AA
1 AA
72706106 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:72710033 original size:14 final size:14
Alignment explanation
Indices: 72710013--72710046 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
72710003 AAATTATACT
72710013 CTAAACTTGAAACC
1 CTAAACTTGAAACC
* *
72710027 TTAAACTTGAGACC
1 CTAAACTTGAAACC
72710041 CTAAAC
1 CTAAAC
72710047 CCAAAACCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (14 bp):
CTAAACTTGAAACC
Found at i:72710127 original size:14 final size:14
Alignment explanation
Indices: 72710092--72710157 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
72710082 CCCCAAAACC
*
72710092 AACCATAAATCCTA
1 AACCATAAAGCCTA
*
72710106 GACCATAAAGCCTA
1 AACCATAAAGCCTA
*
72710120 AACTATAAA-CTCTAAA
1 AACCATAAAGC-CT--A
* *
72710136 AACCATTAACCCTA
1 AACCATAAAGCCTA
72710150 AACCATAA
1 AACCATAA
72710158 TCCTAGACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 1 0.02
14 29 0.71
16 10 0.24
17 1 0.02
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (14 bp):
AACCATAAAGCCTA
Found at i:72728084 original size:84 final size:84
Alignment explanation
Indices: 72727924--72728085 Score: 184
Period size: 84 Copynumber: 1.9 Consensus size: 84
72727914 CATACCAATG
* * ** *
72727924 CCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATACCAATAGCCCAACTATGGTATTA
1 CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCAACTATGGTATTA
**
72727989 CACGATTCTCATATTGATT
66 CACGAAACTCATATTGATT
* ** * *
72728008 CCATGTCCCAGACATGGTCCTACATGAAATCTCATAACGATGTC-ATATCCCAGA-TATGGTCTT
1 CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCA-ACTATGGTATT
72728071 ACACGTAAACTCATA
65 ACACG-AAACTCATA
72728086 ACCCTAAGGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 20 0.31
84 44 0.69
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (84 bp):
CCATATCCCAGACATGGTCCTACATGAAATCTCATAACGATACCAATAGCCCAACTATGGTATTA
CACGAAACTCATATTGATT
Found at i:72729546 original size:29 final size:29
Alignment explanation
Indices: 72729514--72729987 Score: 301
Period size: 29 Copynumber: 16.3 Consensus size: 29
72729504 GGGATAGCTT
* *
72729514 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
*
72729543 CGACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * ** **
72729572 CAACCATCGAATATGAAAAAGGGACAGTTT
1 CGACCATCGACTATG-AAAAGGGATGGTGA
* * * * * * *
72729602 TGGCTATTGATTATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * *
72729631 CGGCTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* *
72729660 CGACCATCAACTATGAAAAGGTATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72729689 CGACCGTCGAATATGAAAAGGGATAGCTTA
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * *
72729719 AG-CTATCAATTATGAAAAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** * * *
72729747 CGACTTTCAACTGTGAAAAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** * *
72729776 CGACTTTCAACTACGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72729805 CGACCATTGAATATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * * * *
72729834 TGGCTATCGATTATGAAAGGGGATAGTGG
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * *
72729863 CGACCATCAACTATGAACAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * *
72729892 CGACCATCGAATATGAAAAGGGATAG-CA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72729920 TCGGCTATCAATTATG-AAAGTGGATGGTGA
1 -CGACCATCGACTATGAAAAG-GGATGGTGA
* *
72729950 CGACCATCAACAATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
72729979 CGACCATCG
1 CGACCATCG
72729988 TGATTCCACT
Statistics
Matches: 343, Mismatches: 91, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
28 12 0.03
29 300 0.87
30 31 0.09
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
CGACCATCGACTATGAAAAGGGATGGTGA
Found at i:72729581 original size:58 final size:58
Alignment explanation
Indices: 72729489--72729987 Score: 343
Period size: 58 Copynumber: 8.6 Consensus size: 58
72729479 TAACGACAAT
* * * * *
72729489 CATCAACTATGGAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* ** *** *
72729547 CATCAACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATG-AAAAGGGATGGTGACGAC
* ** * * * * * *
72729606 TATTGATTATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* * * * *
72729664 CATCAACTATGAAAAGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCTTAAG-C
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGAC
* * * ** * *
72729722 TATCAATTATGAAAAGGGATGGTAACGACTTTC-AACTGTGAAAAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGAC
** * * * ** *
72729780 TTTCAACTACGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCT-TTGGC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGAC
* * * * * * * *
72729838 TATCGATTATGAAAGGGGATAGTGGCGACCATC-AACTATGAACAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGAC
* * * *
72729896 CATCGAA-TATGAAAAGGGATAG-CATCGGCTATC-AATTATG-AAAGTGGATGGTGACGAC
1 CATC-AACTATGAAAAGGGATGGTGA-CGACCATCGAA-TATGAAAAG-GGATGGTGACGAC
*
72729954 CATCAACAATGAAAAGGGATGGTGACGACCATCG
1 CATCAACTATGAAAAGGGATGGTGACGACCATCG
72729988 TGATTCCACT
Statistics
Matches: 332, Mismatches: 92, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
57 19 0.06
58 262 0.79
59 49 0.15
60 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (58 bp):
CATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
Found at i:72729794 original size:116 final size:115
Alignment explanation
Indices: 72729496--72729915 Score: 491
Period size: 116 Copynumber: 3.6 Consensus size: 115
72729486 AATCATCAAC
* * * * * *
72729496 TATGGAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 TATGAAAAGGGAT-GGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
* * * *
72729561 AGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGCTATTGAT
65 AGGGATGGTGACGACCATCGAATATG-AAAAGGGATAGCTTTGGCTATCGAT
* * * * * *
72729613 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 TATGAAAAGGGAT-GGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
* * ** *
72729678 AGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCTTAAGCTATCAAT
65 AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* * ** *
72729729 TATGAAAAGGGATGGTAACGACTTTCAACTGTGAAAAGGGATGGTAACGACTTTCAACTACGAAA
1 TATGAAAAGGGATGGT-ACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
*
72729794 AGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCTTTGGCTATCGAT
65 AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* * * * *
72729845 TATGAAAGGGGATAGTGGCGACCATCAACTATGAACAGGGATGGTAACGACCATCGAA-TATGAA
1 TATGAAAAGGGATGGT-ACGACTATCAACTATGAAAAGGGATGGTAACGACCATC-AACTATGAA
72729909 AAGGGAT
64 AAGGGAT
72729916 AGCATCGGCT
Statistics
Matches: 262, Mismatches: 39, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
115 2 0.01
116 172 0.66
117 88 0.34
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (115 bp):
TATGAAAAGGGATGGTACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAAA
GGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
Found at i:72733441 original size:18 final size:16
Alignment explanation
Indices: 72733418--72733461 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
72733408 TGTCATTATT
*
72733418 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
72733436 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
72733452 CTTATTTTTT
1 CTTATTTTTT
72733462 ATACCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:72733548 original size:21 final size:21
Alignment explanation
Indices: 72733522--72733707 Score: 68
Period size: 21 Copynumber: 8.7 Consensus size: 21
72733512 TTTTAATCAT
72733522 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
72733543 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* *
72733564 TTGTT-TTTCTATTACTATTTA
1 TTATTATTACTATTACT-TTTA
*
72733585 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
*
72733609 TT-TTATTATTATTA--TTTA
1 TTATTATTACTATTACTTTTA
*
72733627 TTATT-TTA-TCATTCCTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
72733648 TTATTGTTATTATTAGTATACTA
1 TTATTATTACTATTACT-T-TTA
*
72733671 TTATTATT-CTTATTAATGTATTA
1 TTATTATTAC-TATTACT-T-TTA
72733694 TTATTATTA-TATTA
1 TTATTATTACTATTA
72733708 TTACTATTGC
Statistics
Matches: 125, Mismatches: 21, Indels: 37
0.68 0.11 0.20
Matches are distributed among these distances:
17 1 0.01
18 17 0.14
19 2 0.02
20 10 0.08
21 36 0.29
22 14 0.11
23 33 0.26
24 6 0.05
26 1 0.01
27 5 0.04
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:72733619 original size:3 final size:3
Alignment explanation
Indices: 72733606--72733715 Score: 77
Period size: 3 Copynumber: 36.7 Consensus size: 3
72733596 GCACTATTCT
* *
72733606 TTA TT- TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTCC TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA T-TA TTA
* * * *
72733651 TTG TTA TTA TTA GTA -TA CTA TTA TTA TTC TTA TTAA TGTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
*
72733697 TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TT
72733716 GCTATCATCA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 9 0.10
3 66 0.77
4 10 0.12
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:72733677 original size:20 final size:20
Alignment explanation
Indices: 72733649--72733702 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
72733639 TCCTTTCTAT
*
72733649 TATTGTTATTATTAGT-ATAC
1 TATTATTATTATTAGTAAT-C
* * *
72733669 TATTATTATTCTTATTAATG
1 TATTATTATTATTAGTAATC
72733689 TATTATTATTATTA
1 TATTATTATTATTA
72733703 TATTATTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (20 bp):
TATTATTATTATTAGTAATC
Found at i:72733703 original size:20 final size:22
Alignment explanation
Indices: 72733645--72733703 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
72733635 TCATTCCTTT
*
72733645 CTATTATTGTTATTATTAGTATA
1 CTATTATTATTATTATTAG-ATA
*
72733668 CTATTATTATTCTTATTA-AT-
1 CTATTATTATTATTATTAGATA
*
72733688 GTATTATTATTATTAT
1 CTATTATTATTATTAT
72733704 ATTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
23 16 0.50
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CTATTATTATTATTATTAGATA
Found at i:72733802 original size:3 final size:3
Alignment explanation
Indices: 72733794--72733844 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
72733784 ATTTATTTAC
72733794 ATT ATT ATT -TCT ATT ACTT -TT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
72733839 ATT ATT
1 ATT ATT
72733845 CTCTTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:72739761 original size:24 final size:24
Alignment explanation
Indices: 72739729--72739776 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
72739719 TAAAATAAAA
72739729 TTCTAAAACTTTGAAGTGGCGAAG
1 TTCTAAAACTTTGAAGTGGCGAAG
72739753 TTCTAAAACTTTGAAGTGGCGAAG
1 TTCTAAAACTTTGAAGTGGCGAAG
72739777 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
TTCTAAAACTTTGAAGTGGCGAAG
Found at i:72746093 original size:31 final size:31
Alignment explanation
Indices: 72746056--72746120 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
72746046 TATAAAATTA
72746056 TCACTGAACTATTCAAAAGTTTTCATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* *** *
72746087 TCACTGATCTATTTGGAAGTTTTTATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
72746118 TCA
1 TCA
72746121 TTATACGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:72748664 original size:31 final size:32
Alignment explanation
Indices: 72748592--72748671 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
72748582 TTAAAAATAA
*
72748592 AAAATAAAAACTTTCGAATAATTCGATGACTT
1 AAAATAAAAACTTTCAAATAATTCGATGACTT
* *
72748624 -ATATAAAAACTTTCAAATAATTCGGTGA-TT
1 AAAATAAAAACTTTCAAATAATTCGATGACTT
*
72748654 AAAATGAAAACTTTCAAA
1 AAAATAAAAACTTTCAAA
72748672 AAGTCCAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAAATAAAAACTTTCAAATAATTCGATGACTT
Found at i:72749162 original size:4 final size:4
Alignment explanation
Indices: 72749153--72749186 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
72749143 CATTCTACCA
*
72749153 TATG TATG TATG TATG TA-G TATG TATG TCTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
72749187 AGCTCACCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:72749176 original size:15 final size:15
Alignment explanation
Indices: 72749156--72749185 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72749146 TCTACCATAT
72749156 GTATGTATGTATGTA
1 GTATGTATGTATGTA
*
72749171 GTATGTATGTCTGTA
1 GTATGTATGTATGTA
72749186 TAGCTCACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (15 bp):
GTATGTATGTATGTA
Found at i:72756102 original size:20 final size:20
Alignment explanation
Indices: 72756065--72756101 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
72756055 TAGTTGAATT
*
72756065 TGGATAATTGAAAGAAAATA
1 TGGATAATTGAAAAAAAATA
72756085 TGGA-AATTGAAAAAAAA
1 TGGATAATTGAAAAAAAA
72756102 AGAGACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (20 bp):
TGGATAATTGAAAAAAAATA
Found at i:72760666 original size:32 final size:32
Alignment explanation
Indices: 72760615--72760773 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
72760605 TATAACTATG
72760615 CTAC-TTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72760646 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72760678 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72760710 CTACTTTTTTAGATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
72760742 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
72760774 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 4 0.04
32 110 0.96
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:72760715 original size:64 final size:64
Alignment explanation
Indices: 72760615--72760773 Score: 275
Period size: 64 Copynumber: 2.5 Consensus size: 64
72760605 TATAACTATG
* *
72760615 CTAC-TTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAGATGCAAAACTAATGTATGAT
* *
72760678 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTAGATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAGATGCAAAACTAATGTATGAT
72760742 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
72760774 ATTTTTTATG
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 4 0.04
64 86 0.96
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAGATGCAAAACTAATGTATGAT
Found at i:72774553 original size:11 final size:11
Alignment explanation
Indices: 72774533--72774564 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
72774523 ACATATATAT
72774533 ATAA-ATAATA
1 ATAATATAATA
72774543 ATAATATAATA
1 ATAATATAATA
72774554 ATAATA-AATA
1 ATAATATAATA
72774564 A
1 A
72774565 ATAAATGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATATAATA
Found at i:72774567 original size:14 final size:13
Alignment explanation
Indices: 72774533--72774568 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
72774523 ACATATATAT
72774533 ATAAATAATAATA
1 ATAAATAATAATA
72774546 ATATAATAATAATAA
1 ATA-AATAATAAT-A
72774561 ATAAATAA
1 ATAAATAA
72774569 ATGAGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:72776353 original size:43 final size:43
Alignment explanation
Indices: 72776300--72776588 Score: 201
Period size: 44 Copynumber: 6.6 Consensus size: 43
72776290 CCTTTAATCC
*
72776300 GCTCCACTGTAA-CTTCGGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAGGATAGTGTCTTCGATCT
* * * * * ** *
72776343 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTTATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAGGATAGT-GT-CTTCGATCT
72776387 GCTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAGGATAGTGTCTTCGATCT
* * * * *
72776430 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTTGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATAGT-GT-CTTCGATCT
* * * * * *
72776474 GCTCCACTGTAACCTCAAGGAGATAAGAT-CTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATAGTG----TCTTCGATCT
* * ** * *
72776520 GTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-AGTGTCTTCGATCT
*
72776564 GCTCCACTGTAACCTCAGGGAGATA
1 GCTCCACTGTAATCTCAGGGAGATA
72776589 AGATCTGAAA
Statistics
Matches: 194, Mismatches: 38, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.01
43 57 0.29
44 98 0.51
45 1 0.01
46 32 0.16
47 1 0.01
48 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATAGTGTCTTCGATCT
Found at i:72776397 original size:44 final size:44
Alignment explanation
Indices: 72776334--72776807 Score: 289
Period size: 44 Copynumber: 10.8 Consensus size: 44
72776324 AGGATAGTGT
* *
72776334 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTA
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTA
* * * * * *
72776378 TTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATAGT-GT-
1 CTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCTTA
* * *
72776421 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTG
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTA
* * *
72776465 CTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAATT-
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTTA
*** * **
72776511 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGG
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTA
* *
72776555 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTTA
*** * * *
72776601 CTTTGGTCTGTTCCACTGTAATCTCAAGGAGATAAGA-C-CTGA
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTA
* * * * *
72776643 -TGCGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-C---
1 CTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTTA
* * * * *
72776682 CTT-AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATC
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT-TA
* * * *
72776726 CTT-GATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATT-
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTTA
*** *
72776771 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
72776808 CCTGTATAAT
Statistics
Matches: 330, Mismatches: 73, Indels: 52
0.73 0.16 0.11
Matches are distributed among these distances:
39 24 0.07
40 4 0.01
41 27 0.08
42 3 0.01
43 33 0.10
44 133 0.40
45 6 0.02
46 95 0.29
47 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTA
Found at i:72776408 original size:87 final size:87
Alignment explanation
Indices: 72776256--72776588 Score: 408
Period size: 87 Copynumber: 3.9 Consensus size: 87
72776246 GACTTGATGT
* * * * *
72776256 GATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-C-T--TT-AATCCGCTCCACTGTAACTTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCCGCTCCACTGTAACCTC
*
72776316 GGGGAGATAGGATAGTGTCTTC
66 AGGGAGATAGGATAGTGTCTTC
** * *
72776338 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCCGCTCCACTGTAACCTC
72776403 AGGGAGATAGGATAGTGTCTTC
66 AGGGAGATAGGATAGTGTCTTC
*
72776425 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCCGCTCCACTGTAACCTC
* * * *
72776490 AAGGAGATAAGAT-CTGAAATTCTTT
66 AGGGAGATAGGATAGTG----TCTTC
* * * * *
72776515 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCCGCTCCACTGTAACCTC
72776580 AGGGAGATA
66 AGGGAGATA
72776589 AGATCTGAAA
Statistics
Matches: 223, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
82 31 0.14
83 1 0.00
84 1 0.00
86 4 0.02
87 113 0.51
90 73 0.33
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCCGCTCCACTGTAACCTC
AGGGAGATAGGATAGTGTCTTC
Found at i:72776550 original size:90 final size:90
Alignment explanation
Indices: 72776340--72776807 Score: 473
Period size: 90 Copynumber: 5.3 Consensus size: 90
72776330 GTGTCTTCGA
* ** * * *
72776340 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAG
* * * *
72776405 GGAGATAGGA--T--AGTGTCTTCGA
66 GGAGATAAGATCTGAAAT-TCTTTGG
* *
72776427 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAG
72776492 GGAGATAAGATCTGAAATTCTTTGG
66 GGAGATAAGATCTGAAATTCTTTGG
* *
72776517 TCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAG
72776582 GGAGATAAGATCTGAAATTCTTTGG
66 GGAGATAAGATCTGAAATTCTTTGG
* * * * * * * *
72776607 TCTGTTCCACTGTAATCTCAAGGAGATAAGA-C-C-TGATGCGATCTTCTCTACTGTAACTTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAG
* * **
72776669 AGAGATAAGATC-------CCTTAA
66 GGAGATAAGATCTGAAATTCTTTGG
* * * * * * * * *
72776687 TCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCCTT-GATCTGCTCCGCTGTAATCTT
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT-TGCTTCAATCTGCTCCACTGTAACCTC
72776750 AGGGAGATAAGATCTGAAATTCTTTGG
64 AGGGAGATAAGATCTGAAATTCTTTGG
*
72776777 TCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA
72776808 CCTGTATAAT
Statistics
Matches: 317, Mismatches: 48, Indels: 29
0.80 0.12 0.07
Matches are distributed among these distances:
80 30 0.09
82 1 0.00
83 28 0.09
84 2 0.01
87 101 0.32
88 1 0.00
89 2 0.01
90 150 0.47
91 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (90 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTTGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGAAATTCTTTGG
Found at i:72789533 original size:27 final size:30
Alignment explanation
Indices: 72789477--72789536 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 30
72789467 ACATAAATAC
*
72789477 ATACACATATATATATATAAACAATAGTAT
1 ATACACATATATATATATAAAAAATAGTAT
72789507 ATACA-ATATA-ATAT-TAGAAAAAT-GTAT
1 ATACACATATATATATATA-AAAAATAGTAT
72789534 ATA
1 ATA
72789537 ATAGTGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 9 0.32
28 9 0.32
29 5 0.18
30 5 0.18
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (30 bp):
ATACACATATATATATATAAAAAATAGTAT
Found at i:72789847 original size:3 final size:3
Alignment explanation
Indices: 72789839--72789876 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
72789829 AAGCATAAAC
72789839 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72789877 GTAAAATCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72790785 original size:26 final size:26
Alignment explanation
Indices: 72790756--72790822 Score: 100
Period size: 25 Copynumber: 2.5 Consensus size: 26
72790746 CCAAAAAAAA
72790756 TTTCCTTTTTTTATTCCATTACCAAC-
1 TTTCC-TTTTTTATTCCATTACCAACT
*
72790782 TTTCCCTTTTTATTCCATTACCAACT
1 TTTCCTTTTTTATTCCATTACCAACT
72790808 TTTCCCTTTTTTATT
1 TTT-CCTTTTTTATT
72790823 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 19 0.51
26 8 0.22
27 10 0.27
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTCCTTTTTTATTCCATTACCAACT
Found at i:72790791 original size:25 final size:26
Alignment explanation
Indices: 72790763--72790818 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
72790753 AAATTTCCTT
72790763 TTTTTATTCCATTACCAAC-TTTCCC
1 TTTTTATTCCATTACCAACTTTTCCC
72790788 TTTTTATTCCATTACCAACTTTTCCC
1 TTTTTATTCCATTACCAACTTTTCCC
72790814 TTTTT
1 TTTTT
72790819 TATTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTTATTCCATTACCAACTTTTCCC
Found at i:72791513 original size:35 final size:35
Alignment explanation
Indices: 72791458--72791554 Score: 149
Period size: 35 Copynumber: 2.8 Consensus size: 35
72791448 GAGAGGTGGA
* * *
72791458 GGTGGTAGACAGCATTGGAGAGTGGGAGTGGCGCT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
* *
72791493 GGTGGCAGACAACATGGGAGAATGGGAGTGGTGCT
1 GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
72791528 GGTGGCAGACAGCATGGGAGAATGGGA
1 GGTGGCAGACAGCATGGGAGAATGGGA
72791555 AGAGGCAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.25, C:0.11, G:0.47, T:0.16
Consensus pattern (35 bp):
GGTGGCAGACAGCATGGGAGAATGGGAGTGGCGCT
Found at i:72792939 original size:13 final size:13
Alignment explanation
Indices: 72792921--72792945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72792911 AACATTCGGC
72792921 CGGTGGGAATAAT
1 CGGTGGGAATAAT
72792934 CGGTGGGAATAA
1 CGGTGGGAATAA
72792946 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:72795976 original size:48 final size:48
Alignment explanation
Indices: 72795913--72796251 Score: 233
Period size: 48 Copynumber: 7.1 Consensus size: 48
72795903 AAAATTAATA
*
72795913 AGAAAAAAATGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAG
1 AGAAAAAAAT-TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
* * *
72795962 AGAAAAAAATTAAATTTAAATGGAATGAGAAAAACATTAAATTTAAATGGGAA-G
1 AGAAAAAAATTAAATTAAAATGGAA--AG--AAAGA-T-AATTTAAAT-GAAATG
* * * * * *
72796016 ATAGATAAATTAAA-TGAAAT-GACAA-AAAAATAAACTTAAATGAAATG
1 AGAAAAAAATTAAATTAAAATGGA-AAGAAAGAT-AATTTAAATGAAATG
* *
72796063 AG--AAAAA--AAA-TAAAATGGGAAGAAAGATAATATAAATGAAATG
1 AGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
* * * *
72796106 AGGAAAAAAAATAAATTTAAAT--TAA-AAA-ATAATATAAATGAAATG
1 A-GAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
* * * *
72796151 AGAAAAAATTTAAATTAAAATGGGAAGATAGATAAATTAAATGAAATG
1 AGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
* * *
72796199 AGAAAATAAAATTAAATTTAAATGGAAA-AATA-ATAAATTAAATAAAATG
1 AG-AAA-AAAATTAAATTAAAATGGAAAGAA-AGATAATTTAAATGAAATG
72796248 -GAAA
1 AGAAA
72796252 TGGAAATAAA
Statistics
Matches: 235, Mismatches: 31, Indels: 50
0.74 0.10 0.16
Matches are distributed among these distances:
43 24 0.10
44 24 0.10
45 22 0.09
46 13 0.06
47 19 0.08
48 39 0.17
49 35 0.15
50 21 0.09
51 1 0.00
52 6 0.03
53 7 0.03
54 21 0.09
55 3 0.01
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.23
Consensus pattern (48 bp):
AGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
Found at i:72796003 original size:75 final size:73
Alignment explanation
Indices: 72795916--72796127 Score: 270
Period size: 75 Copynumber: 2.9 Consensus size: 73
72795906 ATTAATAAGA
* *
72795916 AAAAAATGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAATTAAATTTAA
1 AAAAAAT-TAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAA-TAAATTTAA
*
72795981 ATGGAATGAG
64 ATGAAATGAG
* * * * *
72795991 AAAAACATTAAATTTAAATGGGAAGATAGATAAATTAAATGAAATGACAAAAAAATAAACTTAAA
1 AAAAA-ATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAA
72796056 TGAAATGAG
65 TGAAATGAG
*
72796065 -AAAAA--AAA-TAAAATGGGAAGAAAGATAATATAAATGAAATGAGGAAAAAAAATAAATTTAA
1 AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGA-G-AAAAAAATAAATTTAA
72796126 AT
64 AT
72796128 TAAAAAATAA
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
69 30 0.25
70 3 0.03
71 17 0.14
72 1 0.01
73 4 0.03
74 17 0.14
75 46 0.38
76 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.15, T:0.22
Consensus pattern (73 bp):
AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAAT
GAAATGAG
Found at i:72796054 original size:26 final size:26
Alignment explanation
Indices: 72795931--72796076 Score: 115
Period size: 27 Copynumber: 5.7 Consensus size: 26
72795921 ATGTAAATTA
* *
72795931 AAATG-GAAAGAAAGATAATTTAAATG
1 AAATGAGAAA-AAAAATAAATTAAATG
* *
72795957 AAAAGAGAAAAAAATTAAATTTAAATG
1 AAATGAGAAAAAAAATAAA-TTAAATG
* * *
72795984 GAATGAGAAAAACATTAAATT---T-
1 AAATGAGAAAAAAAATAAATTAAATG
* * * *
72796006 AAATGGGAAGATAGATAAATTAAATG
1 AAATGAGAAAAAAAATAAATTAAATG
*
72796032 AAATGA-CAAAAAAATAAACTTAAATG
1 AAATGAGAAAAAAAATAAA-TTAAATG
72796058 AAATGAGAAAAAAAATAAA
1 AAATGAGAAAAAAAATAAA
72796077 ATGGGAAGAA
Statistics
Matches: 92, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
22 14 0.15
23 1 0.01
25 9 0.10
26 30 0.33
27 38 0.41
ACGTcount: A:0.62, C:0.02, G:0.14, T:0.21
Consensus pattern (26 bp):
AAATGAGAAAAAAAATAAATTAAATG
Found at i:72796138 original size:45 final size:44
Alignment explanation
Indices: 72796052--72796233 Score: 172
Period size: 44 Copynumber: 4.0 Consensus size: 44
72796042 AAAATAAACT
*** *
72796052 TAAATGAAATGAGAAAAAAAATAAAATGGGAA-G-AAAGATAATA
1 TAAATGAAATGAGAAAAAAAAT-AAATTTAAATGAAAAAATAATA
*
72796095 TAAATGAAATGAGGAAAAAAAATAAATTTAAATTAAAAAATAATA
1 TAAATGAAATGA-GAAAAAAAATAAATTTAAATGAAAAAATAATA
** * *
72796140 TAAATGAAATGAGAAAAAATTTAAATTAAAATGGGAAGATAGATAA-A
1 TAAATGAAATGAGAAAAAAAATAAATTTAAAT--GAA-A-AAATAATA
*
72796187 TTAAATGAAATGAGAAAATAAAATTAAATTTAAATGGAAAAATAATA
1 -TAAATGAAATGAGAAAA-AAAA-TAAATTTAAATGAAAAAATAATA
72796234 AATTAAATAA
Statistics
Matches: 113, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
43 18 0.16
44 27 0.24
45 21 0.19
46 7 0.06
47 4 0.04
48 24 0.21
49 2 0.02
50 10 0.09
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (44 bp):
TAAATGAAATGAGAAAAAAAATAAATTTAAATGAAAAAATAATA
Found at i:72796143 original size:17 final size:18
Alignment explanation
Indices: 72796111--72796144 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
72796101 AAATGAGGAA
*
72796111 AAAAAATAAATTTAAATT
1 AAAAAATAAATATAAATT
72796129 AAAAAAT-AATATAAAT
1 AAAAAATAAATATAAAT
72796145 GAAATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATAAATATAAATT
Found at i:72796146 original size:88 final size:92
Alignment explanation
Indices: 72796052--72796233 Score: 259
Period size: 93 Copynumber: 2.0 Consensus size: 92
72796042 AAAATAAACT
72796052 TAAATGAAATGAG-AAAAA-AAA-TAAAATGGGAAGAAAGAT-AATATAAATGAAATGAGGAAAA
1 TAAATGAAATGAGAAAAAATAAATTAAAATGGGAAGAAAGATAAAT-TAAATGAAATGA-GAAAA
*
72796113 -AAAA-TAAATTTAAATTAAAAAATAATA
64 TAAAATTAAATTTAAATGAAAAAATAATA
*
72796140 TAAATGAAATGAGAAAAAATTTAAATTAAAATGGGAAGATAGATAAATTAAATGAAATGAGAAAA
1 TAAATGAAATGAGAAAAAA--TAAATTAAAATGGGAAGAAAGATAAATTAAATGAAATGAGAAAA
*
72796205 TAAAATTAAATTTAAATGGAAAAATAATA
64 TAAAATTAAATTTAAATGAAAAAATAATA
72796234 AATTAAATAA
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
88 13 0.16
89 5 0.06
92 8 0.10
93 33 0.40
94 24 0.29
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (92 bp):
TAAATGAAATGAGAAAAAATAAATTAAAATGGGAAGAAAGATAAATTAAATGAAATGAGAAAATA
AAATTAAATTTAAATGAAAAAATAATA
Found at i:72796280 original size:17 final size:17
Alignment explanation
Indices: 72796241--72796297 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
72796231 ATAAATTAAA
72796241 TAAAATGGAAATGGAAA-
1 TAAAAT-GAAATGGAAAT
72796258 TAAAATGAAATGGAAAT
1 TAAAATGAAATGGAAAT
* *
72796275 TCAAATGAAATGAAAAT
1 TAAAATGAAATGGAAAT
*
72796292 TTAAAT
1 TAAAAT
72796298 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 10 0.28
17 26 0.72
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (17 bp):
TAAAATGAAATGGAAAT
Found at i:72796280 original size:22 final size:22
Alignment explanation
Indices: 72796233--72796289 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
72796223 GAAAAATAAT
* * *
72796233 AAATTAAATAAAATGGAAATGG
1 AAATAAAATGAAATGGAAATGC
*
72796255 AAATAAAATGAAATGGAAATTC
1 AAATAAAATGAAATGGAAATGC
*
72796277 AAATGAAATGAAA
1 AAATAAAATGAAA
72796290 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.61, C:0.02, G:0.16, T:0.21
Consensus pattern (22 bp):
AAATAAAATGAAATGGAAATGC
Found at i:72796803 original size:17 final size:18
Alignment explanation
Indices: 72796784--72796834 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
72796774 TTATAAATTT
72796784 AAATGAAAATAAATACTA
1 AAATGAAAATAAATACTA
* * *
72796802 AAATGAAAA-AAAAATTG
1 AAATGAAAATAAATACTA
72796819 AAATGATAAATAAATA
1 AAATGA-AAATAAATA
72796835 AATTGAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.41
18 12 0.44
19 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (18 bp):
AAATGAAAATAAATACTA
Found at i:72796850 original size:17 final size:17
Alignment explanation
Indices: 72796776--72796866 Score: 58
Period size: 19 Copynumber: 4.9 Consensus size: 17
72796766 AAAATAAATT
*
72796776 ATAAATTTAAATG-AAA
1 ATAAATTGAAATGAAAA
*
72796792 ATAAATACTAAAATGAAAA
1 ATAAAT--TGAAATGAAAA
*
72796811 AAAAATTGAAATGATAAATAA
1 ATAAATTGAAATG---AA-AA
72796832 ATAAATTGAAATGGAAAA
1 ATAAATTGAAAT-GAAAA
* *
72796850 TTTAAATTTAAATGAAA
1 -ATAAATTGAAATGAAA
72796867 TAAAATGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.10
17 6 0.10
18 12 0.20
19 20 0.33
20 2 0.03
21 13 0.22
22 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (17 bp):
ATAAATTGAAATGAAAA
Found at i:72796866 original size:45 final size:43
Alignment explanation
Indices: 72796829--72796915 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 43
72796819 AAATGATAAA
* **
72796829 TAAAT-AAATTGAAATGGAAAATTTAAATTTAAATGAAATAAAATG
1 TAAATGAAA-TGAAATGG-AAATTCAAATAGAAATGAAATAAAA-G
*
72796874 TAAATGAAATGAAATGGAAATTCAAATAGAAATGAAACAAAA
1 TAAATGAAATGAAATGGAAATTCAAATAGAAATGAAATAAAA
72796916 AACAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 21 0.57
45 13 0.35
46 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.25
Consensus pattern (43 bp):
TAAATGAAATGAAATGGAAATTCAAATAGAAATGAAATAAAAG
Found at i:72796883 original size:5 final size:5
Alignment explanation
Indices: 72796859--72796910 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
72796849 ATTTAAATTT
* *
72796859 AAATG AAATA AAATG TAAATG AAATG AAATGG AAATTC AAATAG AAATG
1 AAATG AAATG AAATG -AAATG AAATG AAAT-G AAA-TG AAAT-G AAATG
72796908 AAA
1 AAA
72796911 CAAAAAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 22 0.56
6 16 0.41
7 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:72796883 original size:16 final size:16
Alignment explanation
Indices: 72796853--72796894 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
72796843 TGGAAAATTT
*
72796853 AAATTTAAATGAAATA
1 AAATGTAAATGAAATA
*
72796869 AAATGTAAATGAAATG
1 AAATGTAAATGAAATA
*
72796885 AAATGGAAAT
1 AAATGTAAAT
72796895 TCAAATAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (16 bp):
AAATGTAAATGAAATA
Found at i:72800118 original size:6 final size:7
Alignment explanation
Indices: 72800100--72800124 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72800090 ATTGGAATCA
72800100 ATTTTTG
1 ATTTTTG
72800107 ATTTTTG
1 ATTTTTG
72800114 ATTTTTG
1 ATTTTTG
72800121 ATTT
1 ATTT
72800125 ATCATCCCTA
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (7 bp):
ATTTTTG
Found at i:72820070 original size:25 final size:25
Alignment explanation
Indices: 72820010--72820127 Score: 71
Period size: 25 Copynumber: 4.8 Consensus size: 25
72820000 CCCTTTCTCA
* * *
72820010 AGCCTTATAATGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTCATCTG
* *
72820035 AGCCATGTAACGGGAAGCTTATCTG
1 AGCCATATAACGGGAAGCTCATCTG
* * ** **
72820060 GGCTATATAACAAGAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATCTG
* *
72820085 AGCCATA-ATCAGGAAGCTCATGC-G
1 AGCCATATAACGGGAAGCTCAT-CTG
* *
72820109 AGCCA-ATAATGGGTAGCTC
1 AGCCATATAACGGGAAGCTC
72820128 CAAAAAGCCA
Statistics
Matches: 69, Mismatches: 22, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
23 1 0.01
24 26 0.38
25 42 0.61
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATCTG
Found at i:72820233 original size:26 final size:25
Alignment explanation
Indices: 72820202--72820262 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
72820192 GGAAGCTTCG
72820202 GAGAGCCATTAA-TCAAGAAGCTCAC
1 GAGAGCCATTAAGT-AAGAAGCTCAC
* *
72820227 AGAGAGCCTTTAAGTAGGAAGCTCAC
1 -GAGAGCCATTAAGTAAGAAGCTCAC
72820253 GAAGAGCCAT
1 G-AGAGCCAT
72820263 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 28 0.93
27 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (25 bp):
GAGAGCCATTAAGTAAGAAGCTCAC
Found at i:72820361 original size:23 final size:22
Alignment explanation
Indices: 72820335--72820399 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 22
72820325 GGATGCTCCA
72820335 AAGAGCTATTAATGGGAAGCTTC
1 AAGAGCTATTAATGGGAAG-TTC
* * *
72820358 AAGAACCATATAATGGAAAGTTC
1 AAGAGCTAT-TAATGGGAAGTTC
*
72820381 AAGAAGGCTAATAATGGGA
1 AAG-A-GCTATTAATGGGA
72820400 CGCTCTTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 13 0.41
24 17 0.53
25 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.22
Consensus pattern (22 bp):
AAGAGCTATTAATGGGAAGTTC
Found at i:72821114 original size:39 final size:39
Alignment explanation
Indices: 72821071--72821155 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
72821061 CGAAATCTAG
*
72821071 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
*
72821110 CTGAAGCACATAAGTACTAAACGGGAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
72821149 CTGAAGC
1 CTGAAGC
72821156 TCATTAGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.28, T:0.13
Consensus pattern (39 bp):
CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
Found at i:72823613 original size:21 final size:20
Alignment explanation
Indices: 72823589--72823632 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
72823579 TAAATTTAAC
* *
72823589 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATCCA-AT
*
72823610 TCAATTCAATCCAATCCAAT
1 TCAATTCAATACAATCCAAT
72823630 TCA
1 TCA
72823633 CGTCTTAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (20 bp):
TCAATTCAATACAATCCAAT
Found at i:72824871 original size:28 final size:27
Alignment explanation
Indices: 72824831--72824883 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
72824821 TTAAATCTAA
72824831 AAAGTATAAGAACAAAAATTTTAAAAAT
1 AAAGTATAAGAAC-AAAATTTTAAAAAT
*
72824859 AAAGTA-AATGAACTAAATTTTAAAA
1 AAAGTATAA-GAACAAAATTTTAAAA
72824884 GTACGATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAGTATAAGAACAAAATTTTAAAAAT
Found at i:72837686 original size:3 final size:3
Alignment explanation
Indices: 72837678--72837712 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
72837668 AAACAGCGAA
*
72837678 AAG AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
72837713 AATTCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72851197 original size:64 final size:64
Alignment explanation
Indices: 72851096--72851219 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
72851086 ATCTTTAAAG
*
72851096 TTTTATTCTATAATTTAAGTTAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
1 TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
*
72851160 TTTTATTCTATAATTTAAGATAAATAAATAATCAATTCAATCAATTCAACATAAAGTGGG
1 TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGG
72851220 ATGGATGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.35
Consensus pattern (64 bp):
TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
Found at i:72852606 original size:24 final size:24
Alignment explanation
Indices: 72852578--72852627 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
72852568 AATCTTATGT
72852578 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
72852602 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
72852626 TA
1 TA
72852628 CTTCTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (24 bp):
TAGCAAGAAAGTTTAGTTTAAAAC
Found at i:72856196 original size:30 final size:30
Alignment explanation
Indices: 72856153--72856211 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
72856143 GGAGGTGAGA
72856153 TGGGAAGGAAGTAAAAATTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGGGGAAAG
*
72856184 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGGGGGAAA
72856212 ATGAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 15 0.56
31 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGGGGGAAAG
Found at i:72858346 original size:23 final size:22
Alignment explanation
Indices: 72858320--72858414 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 22
72858310 GGACTCACCA
72858320 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTT-TATGAGCTTACCGTTT
*
72858343 CAGCTCTTATGAGCTTA-CATTT
1 CAGCT-TTATGAGCTTACCGTTT
72858365 CAGCTTT-TCAGAGCTTACCGTTT
1 CAGCTTTAT--GAGCTTACCGTTT
* * *
72858388 CAGTTCTTAGGGGCTTA-CGTTT
1 CAGCT-TTATGAGCTTACCGTTT
72858410 CAGCT
1 CAGCT
72858415 CTACAAAGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 25 0.42
23 29 0.48
24 3 0.05
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (22 bp):
CAGCTTTATGAGCTTACCGTTT
Found at i:72858368 original size:22 final size:23
Alignment explanation
Indices: 72858327--72858416 Score: 105
Period size: 22 Copynumber: 4.0 Consensus size: 23
72858317 CCACAGCTTG
72858327 TATGAGCTTACCGTTTCAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
* *
72858350 TATGAGCTTA-CATTTCAGCTTT
1 TATGAGCTTACCGTTTCAGCTCT
*
72858372 TCA-GAGCTTACCGTTTCAGTTCT
1 T-ATGAGCTTACCGTTTCAGCTCT
* *
72858395 TAGGGGCTTA-CGTTTCAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
72858417 ACAAAGCTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 30 0.53
23 27 0.47
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (23 bp):
TATGAGCTTACCGTTTCAGCTCT
Found at i:72858425 original size:45 final size:45
Alignment explanation
Indices: 72858331--72858427 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
72858321 AGCTTGTATG
* * * *
72858331 AGCTTACCGTTTCAGCTCTTATGAGCTTACATTTCAGCTTTTCAG
1 AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
* * *
72858376 AGCTTACCGTTTCAGTTCTTAGGGGCTTACGTTTCAGCTCTACAA
1 AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
72858421 AGCTTAC
1 AGCTTAC
72858428 TATTCAACTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (45 bp):
AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
Found at i:72864525 original size:29 final size:29
Alignment explanation
Indices: 72864470--72864530 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
72864460 AACAAATAAT
* * * *
72864470 CACTCAACTATAAAAATTTTCATTTTAGG
1 CACTCAACAATAAAAATTTGCAATTTAAG
72864499 CACTCAA-AATAAAAAGTTTGCAATTTAAG
1 CACTCAACAATAAAAA-TTTGCAATTTAAG
72864528 CAC
1 CAC
72864531 CTAGTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
CACTCAACAATAAAAATTTGCAATTTAAG
Found at i:72865209 original size:9 final size:9
Alignment explanation
Indices: 72865195--72865244 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
72865185 TTTATACAAA
72865195 TAATTCGGT
1 TAATTCGGT
*
72865204 TAATTCGGG
1 TAATTCGGT
*
72865213 TAATTCGGG
1 TAATTCGGT
* *
72865222 CAATTCGAT
1 TAATTCGGT
72865231 TAATTCGGT
1 TAATTCGGT
72865240 TAATT
1 TAATT
72865245 TTATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (9 bp):
TAATTCGGT
Found at i:72865910 original size:31 final size:29
Alignment explanation
Indices: 72865862--72865942 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 29
72865852 CACCTTTTTG
* *
72865862 TTTTCTTTTTTTATTTATTTTCATATTCC
1 TTTTTTTTTTTTTTTTATTTTCATATTCC
*
72865891 TTTTGTTTTTTTTCTTTTATTTTCATATTTC
1 TTTT-TTTTTTTT-TTTTATTTTCATATTCC
**
72865922 TTTTTTTTACTTTTTTATTTT
1 TTTTTTTTTTTTTTTTATTTT
72865943 GTTCCTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 13 0.29
30 13 0.29
31 19 0.42
ACGTcount: A:0.11, C:0.10, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTTATTTTCATATTCC
Found at i:72865977 original size:9 final size:9
Alignment explanation
Indices: 72865963--72866033 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
72865953 AAATTTTATC
72865963 TTTTTATTT
1 TTTTTATTT
*
72865972 TTTTTACTT
1 TTTTTATTT
*
72865981 TTTTGA-TT
1 TTTTTATTT
*
72865989 TTTTT-CTT
1 TTTTTATTT
* *
72865997 ATTTCATTT
1 TTTTTATTT
*
72866006 TGTTTATTT
1 TTTTTATTT
72866015 TGTTTTATTT
1 T-TTTTATTT
72866025 TTTATTATT
1 TTT-TTATT
72866034 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 11 0.23
9 24 0.50
10 13 0.27
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:72866006 original size:24 final size:24
Alignment explanation
Indices: 72865979--72866024 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
72865969 TTTTTTTTAC
*
72865979 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
72866003 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
72866025 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:72866026 original size:34 final size:32
Alignment explanation
Indices: 72865955--72866033 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 32
72865945 TCCTTAATAA
* *
72865955 ATTTTATCTT-TTTATTTTTTTTACTTTTTTG
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
* *
72865986 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTG
*
72866021 ATTTTTTATTATT
1 ATTTTTTCTTATT
72866034 AACTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 3 0.08
34 23 0.59
35 4 0.10
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
Found at i:72866212 original size:14 final size:14
Alignment explanation
Indices: 72866195--72866221 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72866185 TTTTTTAAAA
72866195 TTTTAAATATTAAT
1 TTTTAAATATTAAT
72866209 TTTTAAATATTAA
1 TTTTAAATATTAA
72866222 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:72866221 original size:37 final size:35
Alignment explanation
Indices: 72866079--72866221 Score: 137
Period size: 37 Copynumber: 4.0 Consensus size: 35
72866069 TTTATAATAC
* *
72866079 TTTTTTAAAATTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATTATTTTTAAAATTAA
* * * * *
72866113 TTTTTT-TAACTTTAGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATAT-TATTTTTAAAATTAA
* * *
72866148 TTTTTTATATATTTTAAAAATGTATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAATAT-TATTTTTAAAATTAA
72866185 TTTTTTAAAATTTTAAATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATATT-ATTTTTAAA-ATTAA
72866222 CCATATTTTT
Statistics
Matches: 85, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
33 9 0.11
34 16 0.19
35 8 0.09
36 19 0.22
37 33 0.39
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTTTAAAATTTTAAATATTATTTTTAAAATTAA
Found at i:72866228 original size:23 final size:23
Alignment explanation
Indices: 72866180--72866221 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
72866170 TATTTTTCAA
*
72866180 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
72866203 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
72866222 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:72866312 original size:20 final size:19
Alignment explanation
Indices: 72866279--72866320 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
72866269 ATACAATTTC
72866279 TTTAATTTTGTTTTAAATT
1 TTTAATTTTGTTTTAAATT
* *
72866298 TTTAACTTTTTTTTTTAATT
1 TTTAA-TTTTGTTTTAAATT
72866318 TTT
1 TTT
72866321 GAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTAATTTTGTTTTAAATT
Found at i:72866434 original size:18 final size:18
Alignment explanation
Indices: 72866413--72866453 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72866403 TTTTTTTACT
72866413 TTTTTATTAAATTTTGTC
1 TTTTTATTAAATTTTGTC
* * *
72866431 TTTTTCTTAATTTTTTTC
1 TTTTTATTAAATTTTGTC
72866449 TTTTT
1 TTTTT
72866454 TAAGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTATTAAATTTTGTC
Found at i:72866472 original size:36 final size:36
Alignment explanation
Indices: 72866432--72866505 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
72866422 AATTTTGTCT
72866432 TTTTCTTAATTT-TTTTCTTT-TTTAAGTTTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAA--TTTATATTA
* *
72866468 TTTTCTTATTTTATTTTGTTTATTTAATTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
72866504 TT
1 TT
72866506 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 22 0.65
37 7 0.21
38 5 0.15
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (36 bp):
TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
Found at i:72866479 original size:18 final size:18
Alignment explanation
Indices: 72866458--72866510 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
72866448 CTTTTTTAAG
72866458 TTTTATATTATTT-TCTTA
1 TTTTATATTATTTAT-TTA
* *
72866476 TTTTATTTTGTTTATTTA
1 TTTTATATTATTTATTTA
* *
72866494 ATTTATATTATTAATTT
1 TTTTATATTATTTATTT
72866511 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATATTATTTATTTA
Found at i:72866588 original size:34 final size:35
Alignment explanation
Indices: 72866548--72866652 Score: 108
Period size: 38 Copynumber: 2.9 Consensus size: 35
72866538 TGTTTTACAA
72866548 TTTTTTAAATTTTAAT-TATTATTTTTAAAATTA-T
1 TTTTTTAAATTTTAATATA-TATTTTTAAAATTATT
* * *
72866582 TTTTTT-AACTTTAGATATATATTTGTGAAATTATTT
1 TTTTTTAAATTTTA-ATATATATTTTTAAAATTA-TT
*
72866618 TTTTTATAAATTTTAAATATATATTTTTTAAATTA
1 TTTTT-TAAATTTT-AATATATATTTTTAAAATTA
72866653 ATTTCGAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
33 6 0.10
34 20 0.34
35 2 0.03
36 6 0.10
37 1 0.02
38 22 0.38
39 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (35 bp):
TTTTTTAAATTTTAATATATATTTTTAAAATTATT
Found at i:72866781 original size:20 final size:19
Alignment explanation
Indices: 72866752--72866798 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
72866742 CAAACTTTTC
72866752 AAAAATTAAAAA-AAAGTTA
1 AAAAATTAAAAAGAAA-TTA
72866771 AAAAATATAAAAAGAAATTA
1 AAAAAT-TAAAAAGAAATTA
72866791 AAGAAATT
1 AA-AAATT
72866799 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAATTAAAAAGAAATTA
Found at i:72866869 original size:14 final size:14
Alignment explanation
Indices: 72866850--72866876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72866840 AAAAATATGG
72866850 TTAATATTTAAAAA
1 TTAATATTTAAAAA
72866864 TTAATATTTAAAA
1 TTAATATTTAAAA
72866877 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:72866891 original size:37 final size:37
Alignment explanation
Indices: 72866855--72866972 Score: 104
Period size: 37 Copynumber: 3.3 Consensus size: 37
72866845 TATGGTTAAT
*
72866855 ATTT-AAAAATTA-ATATTTAAAAT-TTTAAAAAATTA
1 ATTTGAAAAA-TACATATTTAAAATATATAAAAAATTA
*
72866890 ATTTGAAAAATACATTTTTAAAATATATAAAAAATTA
1 ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
* * * * *
72866927 ATTTCACAAATATATATCTAAAGT-TA-AAAAAA-TA
1 ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
* *
72866961 TTTTTAAAAATA
1 ATTTGAAAAATA
72866973 ATAATTTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
34 11 0.16
35 12 0.17
36 17 0.25
37 29 0.42
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (37 bp):
ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
Found at i:72866975 original size:15 final size:14
Alignment explanation
Indices: 72866950--72866986 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
72866940 ATATCTAAAG
*
72866950 TTAAAAAAATATTT
1 TTAAAAAAATAATT
72866964 TTAAAAATAATAATT
1 TTAAAAA-AATAATT
72866979 TTAAAAAA
1 TTAAAAAA
72866987 GTATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAAAAATAATT
Found at i:72867057 original size:17 final size:16
Alignment explanation
Indices: 72867035--72867099 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
72867025 TAAAGTTAAT
72867035 AATAAAAAATAAAACAA
1 AATAAAAAATAAAA-AA
*
72867052 AATAAACAAAATGAAATAAG
1 AAT-AA-AAAAT-AAA-AAA
72867072 AA-AAAAAATAAAAAA
1 AATAAAAAATAAAAAA
*
72867087 AGTAAAAAA-AAAA
1 AATAAAAAATAAAA
72867100 GATACAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.17
16 9 0.22
17 8 0.20
18 4 0.10
19 5 0.12
20 6 0.15
21 1 0.03
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (16 bp):
AATAAAAAATAAAAAA
Found at i:72867157 original size:17 final size:17
Alignment explanation
Indices: 72867133--72867191 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
72867123 ATAAAAAAGT
72867133 AAAA-AAAAGAAATATG
1 AAAATAAAAGAAATATG
72867149 AAAATAAAAG-AA-A--
1 AAAATAAAAGAAATATG
*
72867162 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
72867179 AAAATAAAAGAAA
1 AAAATAAAAGAAA
72867192 AAGAAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 9 0.25
14 2 0.06
15 2 0.06
16 6 0.17
17 17 0.47
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:72867173 original size:30 final size:29
Alignment explanation
Indices: 72867120--72867204 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 29
72867110 ATTAAGGAAC
*
72867120 AAAATAAAA-AAGTAAAAAAAAGAAATATG
1 AAAATAAAAGAA-AAAAAAAAAGAAATATG
72867149 AAAATAAAAGAAAAAAACAAAAGAAATATG
1 AAAATAAAAGAAAAAAA-AAAAGAAATATG
72867179 AAAATAAAAGAAAAAGAAAACAAGAA
1 AAAATAAAAGAAAAA-AAAA-AAGAA
72867205 GGTGTCAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
29 13 0.25
30 31 0.61
31 7 0.14
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (29 bp):
AAAATAAAAGAAAAAAAAAAAGAAATATG
Found at i:72868889 original size:208 final size:208
Alignment explanation
Indices: 72868524--72869198 Score: 1107
Period size: 208 Copynumber: 3.2 Consensus size: 208
72868514 GTCCAATTAG
** *
72868524 ATATTACTGAATCTGCTAATACATACTTCATTTGGATAAATTATGCATTATTAAAATTAAATTAA
1 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
*
72868589 AATATTGAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAATAATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAATAATTATTGTAATG
* *
72868654 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTCTGTAATGTGATATATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
72868719 TATATATATAATC
196 TATATATATAATC
* *
72868732 ATATTAGTGAATCTGCTAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
*
72868797 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAATAATTATTGTAATG
*
72868862 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCG----
72868927 TATATATATATATATATAATC
192 --TA-A-ATATATATATAATC
72868948 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
* *
72869013 AATATTAAATAAGAAATAAAATTATAAAATAATATGTTATTTGGAAAATAATTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAATAATTATTGTAATG
* *
72869078 AGATACATGTTTTATTAAGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTATA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
72869143 TATATATATAATC
196 TATATATATAATC
* * * * *
72869156 ATATTAGTGAATCTGTTAATACATACTTCGTCCGAATGAAGTA
1 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTA
72869199 CGTATTAGCA
Statistics
Matches: 436, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
208 233 0.53
210 2 0.00
214 2 0.00
215 1 0.00
216 198 0.45
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (208 bp):
ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAATAATTATTGTAATG
AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
TATATATATAATC
Found at i:72869372 original size:31 final size:29
Alignment explanation
Indices: 72869303--72869376 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
72869293 ACAAAATAAT
**
72869303 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATGGCA
72869332 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAATGTAACAT--GGCA
*
72869363 AACAAAAGTGACTA
1 AACATAAGTGACTA
72869377 TTTTTGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 25 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATGGCA
Found at i:72881089 original size:12 final size:12
Alignment explanation
Indices: 72881072--72881102 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
72881062 GTTACAGCAG
72881072 CAGCAGCTGCAT
1 CAGCAGCTGCAT
72881084 CAGCAGCTGCAT
1 CAGCAGCTGCAT
72881096 CAGCAGC
1 CAGCAGC
72881103 CGTTGCCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.13
Consensus pattern (12 bp):
CAGCAGCTGCAT
Found at i:72881399 original size:3 final size:3
Alignment explanation
Indices: 72881391--72881425 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
72881381 AAGCATCCAG
72881391 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
72881426 AAGCTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Done.