Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 216 of 259
Found at i:68415029 original size:39 final size:41
Alignment explanation
Indices: 68414955--68415038 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
68414945 ATTTATGTGG
68414955 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
*
68414996 TTTTGATATAATTGGTATATATAGATAT-A-TTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
68415035 TTTT
1 TTTT
68415039 AGTAGTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 14 0.33
40 1 0.02
41 27 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (41 bp):
TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
Found at i:68416430 original size:56 final size:56
Alignment explanation
Indices: 68416344--68416479 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
68416334 ACCATGGCAT
* *
68416344 CGATATATGTGTGCGAGTAAGACCGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
* *
68416400 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
*
68416456 CGATATATGTGTGAGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
68416480 CTGTCTAGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
Found at i:68416497 original size:56 final size:56
Alignment explanation
Indices: 68416344--68416508 Score: 183
Period size: 56 Copynumber: 2.9 Consensus size: 56
68416334 ACCATGGCAT
* * * * * * *
68416344 CGATATATGTGTGCGAGTAAGACCGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTTCTAGACGTTGGCATCGATATGTGACTC
* * *
68416400 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTTCTAGACGTTGGCATCGATATGTGACTC
*
68416456 CGATATATGTGTGAGAGTAAGACC-C-TGTCTAGGACAG-TGGCATCGATATGTGA
1 CGATATATATGTGAGAGTAAGACCACGT-TCTA-GAC-GTTGGCATCGATATGTGA
68416509 TTACATGTAA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 92 0.94
57 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (56 bp):
CGATATATATGTGAGAGTAAGACCACGTTCTAGACGTTGGCATCGATATGTGACTC
Found at i:68417890 original size:18 final size:18
Alignment explanation
Indices: 68417843--68417883 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
68417833 TGATGGGGTG
*
68417843 ATATGAT-ATATATATGT
1 ATATGATAAGATATATGT
68417860 ATATGATAAGATATATGT
1 ATATGATAAGATATATGT
68417878 ATATGA
1 ATATGA
68417884 AGTGATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATATGATAAGATATATGT
Found at i:68420072 original size:21 final size:21
Alignment explanation
Indices: 68420046--68420087 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
68420036 GTTTATCATT
68420046 TGTCTCGAGACATCAAGAACA
1 TGTCTCGAGACATCAAGAACA
* *
68420067 TGTCTCGAGACCTCAATAACA
1 TGTCTCGAGACATCAAGAACA
68420088 AATTTAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
TGTCTCGAGACATCAAGAACA
Found at i:68420832 original size:19 final size:19
Alignment explanation
Indices: 68420809--68420851 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
68420799 AAAAATTTAT
68420809 TAAAAATTAGAAAA-AATA
1 TAAAAATTAGAAAAGAATA
* *
68420827 TAAAAATCATAAAAGAATA
1 TAAAAATTAGAAAAGAATA
68420846 TAAAAA
1 TAAAAA
68420852 ATTGTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (19 bp):
TAAAAATTAGAAAAGAATA
Found at i:68421193 original size:18 final size:18
Alignment explanation
Indices: 68421172--68421226 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
68421162 TAAAAAATAT
*
68421172 AATTTTTAATAAATTTTA
1 AATTTTTAATAAAATTTA
*
68421190 AATTTTTATTAAAATTTAA
1 AATTTTTAATAAAATTT-A
*
68421209 TAATTTTT-CTAAAATTTA
1 -AATTTTTAATAAAATTTA
68421227 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.50
19 9 0.28
20 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTAATAAAATTTA
Found at i:68421204 original size:19 final size:20
Alignment explanation
Indices: 68421170--68421226 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
68421160 TATAAAAAAT
*
68421170 ATAATTTTTAAT-AAATTTT
1 ATAATTTTTAATAAAATTTA
*
68421189 A-AATTTTTATTAAAATTTA
1 ATAATTTTTAATAAAATTTA
*
68421208 ATAATTTTT-CTAAAATTTA
1 ATAATTTTTAATAAAATTTA
68421227 TTATTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.27
19 17 0.52
20 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTTTAATAAAATTTA
Found at i:68422254 original size:18 final size:19
Alignment explanation
Indices: 68422231--68422270 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
68422221 AGGTTTTGCG
68422231 GTTGACCATTTTACTA-CT
1 GTTGACCATTTTACTATCT
68422249 GTTGACCATTTTACTATCT
1 GTTGACCATTTTACTATCT
68422268 GTT
1 GTT
68422271 TTGGTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (19 bp):
GTTGACCATTTTACTATCT
Found at i:68428865 original size:16 final size:16
Alignment explanation
Indices: 68428844--68428875 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68428834 TGCATCAGGC
68428844 GTGCATATTGTACCTT
1 GTGCATATTGTACCTT
68428860 GTGCATATTGTACCTT
1 GTGCATATTGTACCTT
68428876 ATCTCTTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
GTGCATATTGTACCTT
Found at i:68431335 original size:26 final size:26
Alignment explanation
Indices: 68431303--68431359 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
68431293 GTTAGAAAGC
68431303 ATTATTGTTCAATTTGGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
* *
68431329 ATTATTGTTTAATTTTGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
*
68431355 CTTAT
1 ATTAT
68431360 AAATAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATTGTTCAATTTGGCGAAGCATG
Found at i:68432746 original size:129 final size:134
Alignment explanation
Indices: 68432484--68432751 Score: 501
Period size: 129 Copynumber: 2.0 Consensus size: 134
68432474 TATTATGTAG
68432484 TTGGATCATAATGCGAAAAAACAACATATATTAGTAGGCAATCTAAATGACCCGTAGTTTAATCA
1 TTGGATCATAATGCGAAAAAACAACATATATTAGTAGGCAATCTAAATGACCCGTAGTTTAATCA
68432549 AAATTGAGCAAAGCAATTAAAAAACAATTATGTTGTCAAACTCGAATAGGAGATACATTGTCTTG
66 AAATTGAGCAAAGCAATTAAAAAACAATTATGTTGTCAAACTCGAATAGGAGATACATTGTCTTG
68432614 GGTA
131 GGTA
68432618 TTGGATCATAATGCGAAAAAACAACATATATT-GTAGGCAATCTAAATGACCCGTAGTTTAATC-
1 TTGGATCATAATGCGAAAAAACAACATATATTAGTAGGCAATCTAAATGACCCGTAGTTTAATCA
68432681 AAATTGAGCAAAG-AATT-AAAAA-AATTATGTTGTCAAACTCGAATAGGAGATACATTGTCTTG
66 AAATTGAGCAAAGCAATTAAAAAACAATTATGTTGTCAAACTCGAATAGGAGATACATTGTCTTG
68432743 GGTA
131 GGTA
68432747 TTGGA
1 TTGGA
68432752 ATGGGCGACT
Statistics
Matches: 134, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
129 49 0.37
130 5 0.04
131 4 0.03
132 13 0.10
133 31 0.23
134 32 0.24
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (134 bp):
TTGGATCATAATGCGAAAAAACAACATATATTAGTAGGCAATCTAAATGACCCGTAGTTTAATCA
AAATTGAGCAAAGCAATTAAAAAACAATTATGTTGTCAAACTCGAATAGGAGATACATTGTCTTG
GGTA
Found at i:68438173 original size:61 final size:61
Alignment explanation
Indices: 68438065--68438180 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
68438055 AATGAAAATT
* *
68438065 AAATAAAAATAGAGAAATAGGAAACATTTGGAAATTATGAAGGTTTTCTCCAAAAAAAATGA
1 AAATAAAAATAGAGAAATA-GAAACATTTGGAAATAATGAAGATTTTCTCCAAAAAAAATGA
* * *
68438127 AAATGAAAATGGAGAAAT-GAAATCATTTGGAAATGAATG-TGATTTTCTCCAAAA
1 AAATAAAAATAGAGAAATAGAAA-CATTTGGAAAT-AATGAAGATTTTCTCCAAAA
68438181 TGTGAAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 4 0.09
61 24 0.51
62 19 0.40
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (61 bp):
AAATAAAAATAGAGAAATAGAAACATTTGGAAATAATGAAGATTTTCTCCAAAAAAAATGA
Found at i:68438218 original size:44 final size:44
Alignment explanation
Indices: 68438140--68438226 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
68438130 TGAAAATGGA
* *
68438140 GAAATGAAATCATTTGGAAATGAATGTGATTTTCTCCAAAATGT
1 GAAATGAAATCATTTGGAAATGAAAGTGATTTTCTCAAAAATGT
*
68438184 GAAATGAATTCATTTGGAAATGAACAAG-GA-TTTCTCAAAAATG
1 GAAATGAAATCATTTGGAAATG-A-AAGTGATTTTCTCAAAAATG
68438227 ATCGGAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 33 0.87
45 3 0.08
46 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (44 bp):
GAAATGAAATCATTTGGAAATGAAAGTGATTTTCTCAAAAATGT
Found at i:68444723 original size:58 final size:56
Alignment explanation
Indices: 68444613--68444729 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 56
68444603 TATCATTTTA
* * *
68444613 AATTTAATACTTATCTTGATAGTATTTTATTAATTTAATAGATTTAATATTAAATTT
1 AATTTAATACTTATCTTAATAGTATTATATTAATTTAATA-ATTAAATATTAAATTT
* *
68444670 AATTTAATATTTATCTTAATAAGTATTATATTAATTTAAT-ATTAAAGTGATTAAGTTT
1 AATTTAATACTTATCTTAAT-AGTATTATATTAATTTAATAATTAAA-T-ATTAAATTT
68444728 AA
1 AA
68444730 CTATAATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 5 0.10
57 19 0.37
58 28 0.54
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (56 bp):
AATTTAATACTTATCTTAATAGTATTATATTAATTTAATAATTAAATATTAAATTT
Found at i:68444799 original size:15 final size:16
Alignment explanation
Indices: 68444779--68444808 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68444769 ATTATATTGA
68444779 TTTC-TTTTCCCAAAT
1 TTTCTTTTTCCCAAAT
68444794 TTTCTTTTTCCCAAA
1 TTTCTTTTTCCCAAA
68444809 AACAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTCTTTTTCCCAAAT
Found at i:68445829 original size:23 final size:23
Alignment explanation
Indices: 68445803--68445846 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
68445793 ATATCCCCAC
*
68445803 ATGGTGTGTAG-GGCTAGATGGAA
1 ATGGTGTGCAGAGGCT-GATGGAA
68445826 ATGGTGTGCAGAGGCTGATGG
1 ATGGTGTGCAGAGGCTGATGG
68445847 GTAGAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (23 bp):
ATGGTGTGCAGAGGCTGATGGAA
Found at i:68468211 original size:31 final size:31
Alignment explanation
Indices: 68468175--68468237 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
68468165 TTAAAGATAA
68468175 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
68468206 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
68468237 A
1 A
68468238 CTTTGAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (31 bp):
AATTATTAACAAAAAAAGAGAGAAAAGTTGT
Found at i:68471709 original size:39 final size:39
Alignment explanation
Indices: 68471655--68471731 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
68471645 ACTACAAAGG
68471655 GAGGATAATATATATATGTATGTATGTATACACACACAT
1 GAGGATAATATATATATGTATGTATGTATACACACACAT
*
68471694 GAGGATAATATATATATGTATGTATGTATATACACACA
1 GAGGATAATATATATATGTATGTATGTATACACACACA
68471732 CAGATATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.34
Consensus pattern (39 bp):
GAGGATAATATATATATGTATGTATGTATACACACACAT
Found at i:68475741 original size:25 final size:26
Alignment explanation
Indices: 68475679--68475747 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
68475669 ATTAGATCCT
*
68475679 TTTTTTACT-TTATTATTAAAATTAA
1 TTTTTTACTATTATCATTAAAATTAA
* **
68475704 TTATTTTAGTATTATCATTACTATT-A
1 TT-TTTTACTATTATCATTAAAATTAA
68475730 TTTTTTACTATTATCATT
1 TTTTTTACTATTATCATT
68475748 TTTTCAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 17 0.46
26 9 0.24
27 11 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTTTACTATTATCATTAAAATTAA
Found at i:68476400 original size:9 final size:9
Alignment explanation
Indices: 68476347--68476405 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
68476337 TTTATTACCG
68476347 TTACT-TTA
1 TTACTATTA
68476355 TTACTATTA
1 TTACTATTA
* * *
68476364 CTACTAATG
1 TTACTATTA
68476373 TTACTATTA
1 TTACTATTA
*
68476382 TT--TTTTA
1 TTACTATTA
68476389 TTACTATTA
1 TTACTATTA
*
68476398 TTATTATT
1 TTACTATT
68476406 CCTTCTTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
7 6 0.15
8 5 0.13
9 28 0.72
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (9 bp):
TTACTATTA
Found at i:68495040 original size:44 final size:43
Alignment explanation
Indices: 68494983--68495482 Score: 270
Period size: 44 Copynumber: 11.5 Consensus size: 43
68494973 TAGATCTTAC
* * *
68494983 CCCCCAAGCAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACG-AAGGTCTTAAA
* ** * * *
68495027 CCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC-CAGATCTTAACC
1 CCCCTAAGCAGTAGGGTAACAGATC-GAA-GACGAAGGTCTTAA-A
* * * *
68495071 CCCCTAAGCAATAGGGAAACAGATCGAAGATGAAGGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGTCTTAAA
* ** * * *
68495114 CCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC-CAGATCTTAAT
1 CCCCTAAGCAGTAGGGTAACAGATC-GAA-GACGAAGGTCTTAAA
*
68495157 CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAA-GGTCTTAAA
* * * * ** * * *
68495201 CCCCTAAGTAGTATGGTAACATACCGAA-TTGCAGATCTT-AT
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGTCTTAAA
* *
68495242 CTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGCCTTAAA
1 C-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAA-GGTCTTAAA
* * * * *
68495287 CCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTC-TAGATCTTAAC
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGA---CGAAGGTCTTAAA
* * * *
68495330 CCCCTTAAGCAATAGGGAAACAGATCGAAGACTAGGGGTCTTAAA
1 CCCC-TAAGCAGTAGGGTAACAGATCGAAGACGA-AGGTCTTAAA
* * ** * * *
68495375 CCCCTAAGCAGAAGGGTAACAGACCGAA-TTGCAGATCTT-AT
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGTCTTAAA
* * * * *
68495416 CTTCCTAAGTAGTAGTGG-AGCAAATCGAAGACGAAGGGCCTTAAA
1 C-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAA-GGTCTTAAA
*
68495461 CCCCTAAGCAATAGGGTAACAG
1 CCCCTAAGCAGTAGGGTAACAG
68495483 GCTGAATTTA
Statistics
Matches: 326, Mismatches: 100, Indels: 60
0.67 0.21 0.12
Matches are distributed among these distances:
41 4 0.01
42 50 0.15
43 91 0.28
44 159 0.49
45 21 0.06
46 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGGTCTTAAA
Found at i:68495236 original size:86 final size:85
Alignment explanation
Indices: 68494942--68495574 Score: 691
Period size: 86 Copynumber: 7.3 Consensus size: 85
68494932 AGCCTTATCT
* * * *
68494942 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTTACCCCCCAAGCAGTAGGGAAACAGAT
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTCCAGATCTTACCCCCTAAGCAGTAGGGAAACAGAT
*
68495007 CGAAGACGAAAGGCCTTAAAC
65 CGAAGACGAAGGGCCTTAAAC
*
68495028 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTCCAGATCTT-A-CCCCCTAAGCAGTAGGGAAACAG
*
68495093 ATCGAAGATGAA-GGCCTTAAAC
63 ATCGAAGACGAAGGGCCTTAAAC
*
68495115 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTCCAGATCTT-ACCCCCTAAGCAGTAGGGAAACAGA
*
68495180 TCGAAGACGAAGGGTCTTAAAC
64 TCGAAGACGAAGGGCCTTAAAC
* * ** * * * *
68495202 CCCTAAGTAGTATGGTAACATACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTCCAGATCTTA-CCCCCTAAGCAGTAG-GGAAACAGA
68495266 TCGAAGACGAAGGGCCTTAAAC
64 TCGAAGACGAAGGGCCTTAAAC
* * *
68495288 CCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTTAAGCAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTCCAGATCTT-ACCCCC-TAAGCAGTAGGGAAACAG
* * *
68495353 ATCGAAGACTAGGGGTCTTAAAC
63 ATCGAAGACGAAGGGCCTTAAAC
* * * * ** * * *
68495376 CCCTAAGCAGAAGGGTAACAGACCGAATTGCAGATCTTATCTTCCTAAGTAGTAGTGG-AGCAAA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTCCAGATCTTA-CCCCCTAAGCAGTAG-GGAAACAGA
68495440 TCGAAGACGAAGGGCCTTAAAC
64 TCGAAGACGAAGGGCCTTAAAC
* * * * * * *
68495462 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCTCCCTAGGCAGCA-GTAGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTCCAGATCTTA-CCCCCTAAGCAGTAGGGA-AACAG
* * ** *
68495526 ATCAAAGACGATGAACCTT-GAC
63 ATCGAAGACGAAGGGCCTTAAAC
68495548 CCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCCTAAGCAGTAGGGTAACAGGCTGAA
68495575 AATTATAGAT
Statistics
Matches: 467, Mismatches: 66, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.00
86 221 0.47
87 155 0.33
88 89 0.19
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (85 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTCCAGATCTTACCCCCTAAGCAGTAGGGAAACAGATC
GAAGACGAAGGGCCTTAAAC
Found at i:68495348 original size:174 final size:173
Alignment explanation
Indices: 68494942--68495568 Score: 807
Period size: 174 Copynumber: 3.6 Consensus size: 173
68494932 AGCCTTATCT
* * *
68494942 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTT-ACCCCCCAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* * * * * *
68495006 TCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACC
66 TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTGCAGATCTT-ATC
* * * *
68495071 CCCCTAAGCAATAG-GGAAACAGATCGAAGATGAA-GGCCTTAAAC
129 TCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGCCTTAAAC
* *
68495115 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* * *
68495180 TCGAAGACGAAGGGTCTTAAACCCCTAAGTAGTATGGTAACATACCGAATTGCAGATCTTATCTC
66 TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCTC
68495245 CCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
131 CCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
* *
68495288 CCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTTAAGCAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCC-TAAGCAGTAGGGAAACAG
* * *
68495353 ATCGAAGACTAGGGGTCTTAAACCCCTAAGCAGAAGGGTAACAGACCGAATTGCAGATCTTATCT
65 ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
* * *
68495418 TCCTAAGTAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
130 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
* * * * * * *
68495462 CCCTAAGCAATAGGGTAACAGGCTGAATTTAC-AGATCTTATCTCCCTAGGCAGCA-GTAGAGCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTT-CTAGATCTTAACCCCCTAAGCAGTAGGGA-AACA
* * *** *
68495525 GATCAAAGACGATGAACCTT-GACCCCTAAGCAGTAGGGTAACAG
64 GATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAG
68495569 GCTGAAAATT
Statistics
Matches: 400, Mismatches: 48, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
172 53 0.13
173 124 0.31
174 222 0.56
175 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (173 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
Found at i:68495445 original size:260 final size:261
Alignment explanation
Indices: 68494942--68495571 Score: 801
Period size: 260 Copynumber: 2.4 Consensus size: 261
68494932 AGCCTTATCT
* * *** * * *
68494942 CCCTGAGCAGTAGGGTAACAGGTTGAATTT-CTAGATCTTA-CCCCCCAAGCAGTAG-GGAAACA
1 CCCTAAGCAATAGGGTAACAGACCGAATTTAC-AGATCTTATCTCCCTAAGCAGTAGTGG-AGCA
* *
68495004 GATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAA
64 GATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAA
*
68495069 CCCCCCTAAGCAATAGGGAAACAGATCGAAGATGAAGGCCTTAAACCCCTAAGCAGTAGGGTAAC
129 CCCCCCTAAGCAATAGGGAAACAGATCGAAGATGAAGGCCTTAAACCCCTAAGCAGAAGGGTAAC
* * * *
68495134 AGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTA
194 AGACCGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTA
68495199 AAC
259 AAC
* * * * *
68495202 CCCTAAGTAGTATGGTAACATACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CCCTAAGCAATAGGGTAACAGACCGAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
68495266 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACC
66 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACC
* * *
68495331 CCCTTAAGCAATAGGGAAACAGATCGAAGACT-AGGGGTCTTAAACCCCTAAGCAGAAGGGTAAC
131 CCCCTAAGCAATAGGGAAACAGATCGAAGA-TGA-AGGCCTTAAACCCCTAAGCAGAAGGGTAAC
* * * *
68495395 AGACCGAA-TTGCAGATCTT-ATCTTCCTAAGTAGTAGTGG-AGCAAATCGAAGACGAAGGGCCT
194 AGACCGAATTTCCAGATCTTAATC-CCCTAAGCAGTAG-GGAAACAAATCGAAGACGAAGGGCCT
68495457 TAAAC
257 TAAAC
* * * * *
68495462 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCTCCCTAGGCAGCAGTAGAGCAGA
1 CCCTAAGCAATAGGGTAACAGACCGAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** *
68495527 TCAAAGACGATGAACCTT-GACCCCTAAGCAGTAGGGTAACAGGCT
66 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT
68495572 GAAAATTATA
Statistics
Matches: 322, Mismatches: 40, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
259 13 0.04
260 224 0.70
261 85 0.26
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (261 bp):
CCCTAAGCAATAGGGTAACAGACCGAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACC
CCCCTAAGCAATAGGGAAACAGATCGAAGATGAAGGCCTTAAACCCCTAAGCAGAAGGGTAACAG
ACCGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTAAA
C
Found at i:68497010 original size:25 final size:26
Alignment explanation
Indices: 68496948--68497016 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
68496938 ATTAGATCCT
*
68496948 TTTTTTACT-TTATTATTAAAATTAA
1 TTTTTTACTATTATCATTAAAATTAA
* **
68496973 TTATTTTAGTATTATCATTACTATT-A
1 TT-TTTTACTATTATCATTAAAATTAA
68496999 TTTTTTACTATTATCATT
1 TTTTTTACTATTATCATT
68497017 TTTTCAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 17 0.46
26 9 0.24
27 11 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTTTACTATTATCATTAAAATTAA
Found at i:68497455 original size:3 final size:3
Alignment explanation
Indices: 68497447--68497473 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68497437 TATTTCATCC
68497447 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
68497474 CTTATCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:68497671 original size:9 final size:9
Alignment explanation
Indices: 68497618--68497676 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
68497608 TTTATTACCG
68497618 TTACT-TTA
1 TTACTATTA
68497626 TTACTATTA
1 TTACTATTA
* * *
68497635 CTACTAATG
1 TTACTATTA
68497644 TTACTATTA
1 TTACTATTA
*
68497653 TT--TTTTA
1 TTACTATTA
68497660 TTACTATTA
1 TTACTATTA
*
68497669 TTATTATT
1 TTACTATT
68497677 CCTTCTTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
7 6 0.15
8 5 0.13
9 28 0.72
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (9 bp):
TTACTATTA
Found at i:68497823 original size:47 final size:47
Alignment explanation
Indices: 68497759--68497872 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 47
68497749 GTTCCTTTTT
* *
68497759 ATTACTATTAC-TGTATTATTCCTATTTTTACTAC-TATTATTATTATC
1 ATTACTATCACAT-TATTATTCAT-TTTTTACTACGTATTATTATTATC
* *
68497806 ATTACTATCACATTATTA-GCATTTTTTATTACTGTATTATTATTATC
1 ATTACTATCACATTATTATTCATTTTTTACTAC-GTATTATTATTATC
*
68497853 ATTACTATCACATTACTATT
1 ATTACTATCACATTATTATT
68497873 AAAGTCTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
45 9 0.16
46 2 0.04
47 45 0.79
48 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (47 bp):
ATTACTATCACATTATTATTCATTTTTTACTACGTATTATTATTATC
Found at i:68513761 original size:12 final size:13
Alignment explanation
Indices: 68513744--68513773 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
68513734 ATTTTCATTA
68513744 ATATAAA-ATGAT
1 ATATAAACATGAT
68513756 ATATAAACATGAT
1 ATATAAACATGAT
68513769 ATATA
1 ATATA
68513774 GTACAAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATAAACATGAT
Found at i:68520798 original size:29 final size:29
Alignment explanation
Indices: 68520765--68520834 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
68520755 TAATAAATTA
**
68520765 AGGTACCAAATTGAACTTAAAAAAAGCTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
* ** * *
68520794 AGGTACCAAGTTGGGCCCCAAAAAAGTTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
68520823 AGGTACCAAATT
1 AGGTACCAAATT
68520835 AAGAAAAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (29 bp):
AGGTACCAAATTGAACCCAAAAAAAGCTT
Found at i:68523940 original size:26 final size:26
Alignment explanation
Indices: 68523910--68523972 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
68523900 TTTAAATCAA
*
68523910 ACTTTTCAAAAACACTTCTT-AAAAGT
1 ACTTTTTAAAAACACTT-TTCAAAAGT
*
68523936 ACTTTTTAATAACACTTTTCAAAAGT
1 ACTTTTTAAAAACACTTTTCAAAAGT
*
68523962 ATTTTTTAAAA
1 ACTTTTTAAAA
68523973 GTATTGCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (26 bp):
ACTTTTTAAAAACACTTTTCAAAAGT
Found at i:68523994 original size:23 final size:24
Alignment explanation
Indices: 68523965--68524009 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
68523955 CAAAAGTATT
68523965 TTTTAAAAGTA-TTG-CCATAATCA
1 TTTTAAAA-TATTTGACCATAATCA
68523988 TTTTAAAATATTTGACCATAAT
1 TTTTAAAATATTTGACCATAAT
68524010 TATAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (24 bp):
TTTTAAAATATTTGACCATAATCA
Found at i:68540284 original size:20 final size:20
Alignment explanation
Indices: 68540249--68540297 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
68540239 TAATGTTATT
* * *
68540249 ACTATTTATGATTTGATTCC
1 ACTATTCATGACTTGACTCC
*
68540269 ACTGTTCATGACTTGACTCC
1 ACTATTCATGACTTGACTCC
68540289 ACTATTCAT
1 ACTATTCAT
68540298 AAGACTGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (20 bp):
ACTATTCATGACTTGACTCC
Found at i:68544721 original size:9 final size:9
Alignment explanation
Indices: 68544707--68544751 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
68544697 CAAAAATGGT
68544707 TTAAAAAAA
1 TTAAAAAAA
68544716 TTAAAAAATA
1 TTAAAAAA-A
**
68544726 CTTTTAAAAA
1 -TTAAAAAAA
68544736 TTAAAAAAA
1 TTAAAAAAA
68544745 TTAAAAA
1 TTAAAAA
68544752 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 22 0.73
10 2 0.07
11 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:68547625 original size:17 final size:17
Alignment explanation
Indices: 68547584--68547625 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
68547574 TAATTTTTTA
68547584 AAAATTA-TAAAAAAAT
1 AAAATTATTAAAAAAAT
* *
68547600 ATAAGTTATTAAAATAAT
1 A-AAATTATTAAAAAAAT
68547618 AAAATTAT
1 AAAATTAT
68547626 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.52
18 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTATTAAAAAAAT
Found at i:68548455 original size:26 final size:26
Alignment explanation
Indices: 68548426--68548533 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
68548416 TGGTACAAAT
68548426 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
68548452 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68548478 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
68548504 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68548530 TGAT
1 TGAT
68548534 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:68555542 original size:26 final size:26
Alignment explanation
Indices: 68555513--68555620 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
68555503 TGGTACAAAT
68555513 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
68555539 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68555565 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
68555591 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68555617 TGAT
1 TGAT
68555621 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:68559334 original size:13 final size:14
Alignment explanation
Indices: 68559313--68559342 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
68559303 TGTTATCAAT
68559313 TTTATATAAATTAA
1 TTTATATAAATTAA
68559327 TTTA-ATAAATTAA
1 TTTATATAAATTAA
68559340 TTT
1 TTT
68559343 TCAAGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATATAAATTAA
Found at i:68560050 original size:14 final size:14
Alignment explanation
Indices: 68560031--68560063 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
68560021 TCCAAAGCTT
*
68560031 AAAAAAAACAAAAC
1 AAAAAAAAAAAAAC
68560045 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
68560059 AAAAA
1 AAAAA
68560064 TATATGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:68577134 original size:25 final size:25
Alignment explanation
Indices: 68577100--68577149 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
68577090 TGTGTCCTAA
68577100 CAGAGTGAAAAAGGAAGAAAACCTT
1 CAGAGTGAAAAAGGAAGAAAACCTT
68577125 CAGAGTGAAAAAGGAAGAAAACCTT
1 CAGAGTGAAAAAGGAAGAAAACCTT
68577150 TCTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (25 bp):
CAGAGTGAAAAAGGAAGAAAACCTT
Found at i:68581143 original size:51 final size:51
Alignment explanation
Indices: 68581080--68581216 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
68581070 TATAGTAACT
*
68581080 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * ** * * **
68581131 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
68581182 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
68581217 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:68581849 original size:19 final size:19
Alignment explanation
Indices: 68581825--68581872 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
68581815 TGTTGTGTTA
*
68581825 TTTTGAAATCAATTACTGC
1 TTTTGAAAACAATTACTGC
*
68581844 TTTTGAAAACAATTACTGT
1 TTTTGAAAACAATTACTGC
68581863 TTTTGAAAAC
1 TTTTGAAAAC
68581873 GCGTCCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTTGAAAACAATTACTGC
Found at i:68582425 original size:27 final size:26
Alignment explanation
Indices: 68582390--68582491 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
68582380 AGCATGGCTG
*
68582390 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGTCA
68582416 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAAT-GTGGCAGAGTCA
*
68582444 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGTCA
* *
68582471 CCAGATCAGATATTTGTGGCA
1 CCAGAACAGATA-ATGTGGCA
68582492 TAGCCATCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
26 5 0.07
27 46 0.67
28 18 0.26
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGTCA
Found at i:68588161 original size:20 final size:20
Alignment explanation
Indices: 68588138--68588176 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
68588128 TAAAAAATTT
68588138 GTTTAAAAATAAATAAATAC
1 GTTTAAAAATAAATAAATAC
68588158 GTTTAAAAATAAATAAATA
1 GTTTAAAAATAAATAAATA
68588177 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
GTTTAAAAATAAATAAATAC
Found at i:68588224 original size:12 final size:13
Alignment explanation
Indices: 68588203--68588234 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
68588193 AAAATACAAC
68588203 TTAA-TTTTTTTA
1 TTAATTTTTTTTA
68588215 -TAATTTTTTTTA
1 TTAATTTTTTTTA
68588227 TTAATTTT
1 TTAATTTT
68588235 CCAACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTAATTTTTTTTA
Found at i:68589149 original size:22 final size:22
Alignment explanation
Indices: 68589124--68589165 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
68589114 TATAAATAGT
* *
68589124 AATTAAACAATTTTTTTAAAAA
1 AATTAAACAAATATTTTAAAAA
68589146 AATTAAACAAATATTTTAAA
1 AATTAAACAAATATTTTAAA
68589166 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAACAAATATTTTAAAAA
Found at i:68592963 original size:7 final size:7
Alignment explanation
Indices: 68592951--68592975 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
68592941 ATTACATAGC
68592951 ATATAAT
1 ATATAAT
68592958 ATATAAT
1 ATATAAT
68592965 ATATAAT
1 ATATAAT
68592972 ATAT
1 ATAT
68592976 TATTAGTTTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:68594757 original size:28 final size:29
Alignment explanation
Indices: 68594720--68594784 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
68594710 AGAATGAAGG
* * * *
68594720 AAAACAAAAGGAGAAACAAAAGAGAATG-A
1 AAAATAAAGGGAGAAAAAAAAG-GAAAGTA
*
68594749 AAAATAAAGGGGGAAAAAAAAGGAAAGTA
1 AAAATAAAGGGAGAAAAAAAAGGAAAGTA
68594778 AAAATAA
1 AAAATAA
68594785 CATAAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (29 bp):
AAAATAAAGGGAGAAAAAAAAGGAAAGTA
Found at i:68595012 original size:21 final size:21
Alignment explanation
Indices: 68594988--68595056 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
68594978 CATAGGTGGC
68594988 CAAAATGTAAATTGAGGTAAA
1 CAAAATGTAAATTGAGGTAAA
* *
68595009 CAAAA-GTAGCTACTT-AGGT-GA
1 CAAAATGTA---AATTGAGGTAAA
*
68595030 CTAAAATGTAAACTGAGGTAAA
1 C-AAAATGTAAATTGAGGTAAA
68595052 CAAAA
1 CAAAA
68595057 GTGACTACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
20 5 0.14
21 15 0.42
22 10 0.28
23 6 0.17
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (21 bp):
CAAAATGTAAATTGAGGTAAA
Found at i:68595041 original size:43 final size:43
Alignment explanation
Indices: 68594980--68595066 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
68594970 ATTTCGAACA
* *
68594980 TAGGTGGCCAAAATGTAAATTGAGGTAAACAAAAGT-AGCTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGA-CTACT
*
68595023 TAGGTGACTAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
68595066 T
1 T
68595067 TAGTATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (43 bp):
TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
Found at i:68595199 original size:20 final size:20
Alignment explanation
Indices: 68595174--68595212 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
68595164 ACATTATTGA
68595174 TCTCCTAACTAATA-CAGATT
1 TCTCCTAAC-AATATCAGATT
*
68595194 TCTCCTGACAATATCAGAT
1 TCTCCTAACAATATCAGAT
68595213 GAGATGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (20 bp):
TCTCCTAACAATATCAGATT
Found at i:68600598 original size:26 final size:26
Alignment explanation
Indices: 68600560--68600614 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
68600550 TTCAGTGATG
68600560 TATATCCGAACTTAGGGTCCGCAGGC
1 TATATCCGAACTTAGGGTCCGCAGGC
*
68600586 TATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGAACTTAGGGTCCGCAGGC
68600612 TAT
1 TAT
68600615 GTGCTGGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (26 bp):
TATATCCGAACTTAGGGTCCGCAGGC
Found at i:68600650 original size:39 final size:39
Alignment explanation
Indices: 68600586--68600672 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
68600576 GTCCGCAGGC
* * * *
68600586 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
*
68600625 TATATCCGGACTTAAGGTTCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
*
68600664 TATGTCCGG
1 TATATCCGG
68600673 GCTAAAGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
Found at i:68600689 original size:39 final size:39
Alignment explanation
Indices: 68600586--68600699 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
68600576 GTCCGCAGGC
** * *
68600586 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * *
68600625 TATATCCGGACTTAAGGTTCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * *
68600664 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
68600700 TATTATACCG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
38 5 0.08
39 57 0.92
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:68602982 original size:53 final size:53
Alignment explanation
Indices: 68602841--68602991 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
68602831 ATAAGTGCGC
* **
68602841 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
68602894 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
68602947 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
68602992 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:68604372 original size:23 final size:23
Alignment explanation
Indices: 68604341--68604384 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
68604331 ATTGAGTATT
* *
68604341 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
68604364 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
68604385 TATTGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:68604517 original size:21 final size:20
Alignment explanation
Indices: 68604492--68604548 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
68604482 ATTATTAATA
*
68604492 ATATTACATAAATATATATAT
1 ATATTA-ATAAATATATACAT
68604513 ATATTAA-AAATATATACAT
1 ATATTAATAAATATATACAT
*
68604532 ATA-TAATAAACATATAC
1 ATATTAATAAATATATAC
68604549 TAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.09
19 23 0.70
20 1 0.03
21 6 0.18
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTAATAAATATATACAT
Found at i:68604520 original size:17 final size:17
Alignment explanation
Indices: 68604500--68604548 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
68604490 TAATATTACA
* *
68604500 TAAATATATATATATAT
1 TAAAAATATATACATAT
68604517 TAAAAATATATACATAT
1 TAAAAATATATACATAT
*
68604534 ATAATAAACATATAC
1 -TAA-AAATATATAC
68604549 TAATAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 3 0.11
19 9 0.33
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATATACATAT
Found at i:68604546 original size:19 final size:19
Alignment explanation
Indices: 68604499--68604572 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
68604489 ATAATATTAC
*
68604499 ATAAATATATATATATATTA
1 ATAAATATATACATATA-TA
68604519 A-AAATATATACATATATA
1 ATAAATATATACATATATA
*
68604537 ATAAACATATAC-TA-ATA
1 ATAAATATATACATATATA
68604554 AT-AATA-ATA-ATA-ATA
1 ATAAATATATACATATATA
68604569 ATAA
1 ATAA
68604573 TATTGAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 10 0.21
16 4 0.08
17 5 0.10
18 5 0.10
19 23 0.48
20 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATATACATATATA
Found at i:68604555 original size:3 final size:3
Alignment explanation
Indices: 68604549--68604767 Score: 88
Period size: 3 Copynumber: 73.7 Consensus size: 3
68604539 AAACATATAC
* * **
68604549 TAA TAA TAA TAA TAA TAA TAA TAA TAT TGA -AA TACA -AA -AA GCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
68604592 -AA T-A TAA T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TTAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
68604633 TAA TAA T-A TATA TAA -ATA TATA TACA T-A TACA TATA TAA TAA -AA
1 TAA TAA TAA TA-A TAA TA-A TA-A TA-A TAA TA-A TA-A TAA TAA TAA
*
68604677 -AA T-A TCCAC TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T--AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
68604723 TAA AACA TAA CAG TAA CAA TAA TGA TAA TAG TAA TAG TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
68604768 TCAACAAATA
Statistics
Matches: 163, Mismatches: 32, Indels: 42
0.69 0.14 0.18
Matches are distributed among these distances:
2 23 0.14
3 114 0.70
4 25 0.15
5 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:68604620 original size:66 final size:67
Alignment explanation
Indices: 68604526--68604716 Score: 187
Period size: 69 Copynumber: 2.8 Consensus size: 67
68604516 TTAAAAATAT
*
68604526 ATACATATATAATAAACATA-TACTAATAATAATAATAATAATAATAATAT-TGAAATACAAAAA
1 ATACATATATAATAAAAATATTACTAATAATAATAATAATAATAATAATATAT-AAATACAAAAA
68604589 GCAA
65 -CAA
* * * * *
68604593 ATATA-ATATAATAAAAATATTA-AAATAAAGTAATTAAAAATAATAAT-ATATATAAATATATA
1 ATACATATATAATAAAAATATTACTAAT-AA-TAA-TAATAATAATAATAATATATAAATACAAA
* *
68604655 TACAT
63 AACAA
*
68604660 ATACATATATAATAAAAAATATCCACTAATATATAATAATAATAATAATAATA-ATAA
1 ATACATATATAAT-AAAAATAT-TACTAATA-ATAATAATAATAATAATAATATATAA
68604717 TAATAATAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
66 16 0.16
67 14 0.14
68 22 0.22
69 37 0.37
70 8 0.08
71 4 0.04
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (67 bp):
ATACATATATAATAAAAATATTACTAATAATAATAATAATAATAATAATATATAAATACAAAAAC
AA
Found at i:68610697 original size:20 final size:20
Alignment explanation
Indices: 68610672--68610713 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
68610662 TAGAAATAGT
*
68610672 AATTAAAATAATTTTTTTAA
1 AATTAAAATAATATTTTTAA
* *
68610692 AATTAAACTGATATTTTTAA
1 AATTAAAATAATATTTTTAA
68610712 AA
1 AA
68610714 AAATATAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAAAATAATATTTTTAA
Found at i:68612967 original size:5 final size:5
Alignment explanation
Indices: 68612953--68612981 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
68612943 TATCTTTTAT
68612953 TATT- TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
68612982 AAAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:68613794 original size:9 final size:9
Alignment explanation
Indices: 68613777--68613828 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
68613767 TAAATTTAAT
68613777 TATAAAATA
1 TATAAAATA
*
68613786 TACAAAATA
1 TATAAAATA
68613795 TCATAAAATA
1 T-ATAAAATA
68613805 TATAAAATA
1 TATAAAATA
*
68613814 TCAATTAAATA
1 T--ATAAAATA
68613825 TATA
1 TATA
68613829 TATATTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 20 0.56
10 8 0.22
11 8 0.22
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (9 bp):
TATAAAATA
Found at i:68613825 original size:20 final size:19
Alignment explanation
Indices: 68613778--68613828 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
68613768 AAATTTAATT
*
68613778 ATAAAATATACAAAATATC
1 ATAAAATATATAAAATATC
68613797 ATAAAATATATAAAATATC
1 ATAAAATATATAAAATATC
*
68613816 AATTAAATATATA
1 -ATAAAATATATA
68613829 TATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAATATATAAAATATC
Found at i:68614537 original size:21 final size:21
Alignment explanation
Indices: 68614492--68614543 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
68614482 ATCACATATC
* * * *
68614492 ATATATGTATTCATAGTTTAT
1 ATATATGTATTAATAATTAAA
68614513 ATATATGTATTAATAATTAAA
1 ATATATGTATTAATAATTAAA
68614534 ATATTATGTA
1 ATA-TATGTA
68614544 ATATTATATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (21 bp):
ATATATGTATTAATAATTAAA
Found at i:68615100 original size:21 final size:20
Alignment explanation
Indices: 68615071--68615111 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
68615061 TTATATATTC
*
68615071 TTTAGAATTTTTTTAAAAAAT
1 TTTAGAA-TTTTTAAAAAAAT
*
68615092 TTTATAATTTTTAAAAAAAT
1 TTTAGAATTTTTAAAAAAAT
68615112 ATAATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAGAATTTTTAAAAAAAT
Found at i:68615114 original size:17 final size:18
Alignment explanation
Indices: 68615080--68615119 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
68615070 CTTTAGAATT
*
68615080 TTTTTAAAAAATTTTATAA
1 TTTTTAAAAAA-TATATAA
68615099 TTTTTAAAAAA-ATATAA
1 TTTTTAAAAAATATATAA
68615116 TTTT
1 TTTT
68615120 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTAAAAAATATATAA
Found at i:68625279 original size:3 final size:3
Alignment explanation
Indices: 68625271--68625304 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
68625261 ATTAATGAAG
68625271 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
68625305 AGATAGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:68632081 original size:20 final size:22
Alignment explanation
Indices: 68632042--68632084 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
68632032 TATATGAAAA
*
68632042 TTATTTTAAACTCTTTTATTAT
1 TTATTGTAAACTCTTTTATTAT
68632064 TTATTGTAAAC-C-TTTATTAT
1 TTATTGTAAACTCTTTTATTAT
68632084 T
1 T
68632085 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTGTAAACTCTTTTATTAT
Found at i:68632433 original size:44 final size:44
Alignment explanation
Indices: 68632332--68632439 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 44
68632322 ATATATATTA
* * *
68632332 ATTATTATAAATTGTTTTA--TATTCTTTACTTTAAATTGCCTT
1 ATTATTTTAAATTGTTTTATGTATTATTTACTTTAAACTGCCTT
*
68632374 TTTATTTTAAAATTGTTTTATGTATTATTTA-TTTAAAACTGCCTT
1 ATTATTTT-AAATTGTTTTATGTATTATTTACTTT-AAACTGCCTT
*
68632419 ATTATTTTGAATTGTTTTATG
1 ATTATTTTAAATTGTTTTATG
68632440 CCACATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 6 0.11
43 11 0.20
44 15 0.27
45 24 0.43
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (44 bp):
ATTATTTTAAATTGTTTTATGTATTATTTACTTTAAACTGCCTT
Found at i:68634528 original size:26 final size:28
Alignment explanation
Indices: 68634497--68634556 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 28
68634487 AGAATAGGGA
68634497 AGGAGGAAGATGACGGCTCACAGGGAAGG
1 AGGAGGAAGATGACGGCTCACAGGGAA-G
* *
68634526 AGGAGGAAGATGACGGCTCACATGGTAG
1 AGGAGGAAGATGACGGCTCACAGGGAAG
68634554 AGG
1 AGG
68634557 TGTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.33, C:0.13, G:0.43, T:0.10
Consensus pattern (28 bp):
AGGAGGAAGATGACGGCTCACAGGGAAG
Found at i:68643826 original size:15 final size:15
Alignment explanation
Indices: 68643806--68643856 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
68643796 GTTGTGTAGG
68643806 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* *
68643821 TTATATTTGAGA-T-G
1 TTATATTTTA-ATTAT
*
68643835 TTAGATTTTAATTAT
1 TTATATTTTAATTAT
68643850 TTATATT
1 TTATATT
68643857 ATTATAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 16 0.59
16 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:68645091 original size:18 final size:16
Alignment explanation
Indices: 68645050--68645092 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
68645040 AGAAAAGAAT
68645050 GAAAAAAAAAAGAAAA
1 GAAAAAAAAAAGAAAA
* *
68645066 GGAAAAAAGAACATAAAA
1 -GAAAAAA-AAAAGAAAA
68645084 GAAAAAAAA
1 GAAAAAAAA
68645093 TTAAATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAA
Found at i:68645932 original size:29 final size:27
Alignment explanation
Indices: 68645897--68645950 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
68645887 CCATAACAGA
*
68645897 GAATCCCGTGAAAAAATTTCGAAACATGG
1 GAATCCCGAG-AAAAATTTC-AAACATGG
*
68645926 GAATCCCGAGATAAATTTCAAACAT
1 GAATCCCGAGAAAAATTTCAAACAT
68645951 CCCATCTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 8 0.35
29 9 0.39
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
GAATCCCGAGAAAAATTTCAAACATGG
Found at i:68663463 original size:24 final size:23
Alignment explanation
Indices: 68663426--68663470 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
68663416 TTAAATCCAA
* *
68663426 AAAATAAAATGACTATATTTCTC
1 AAAATAAAAGGACTAAATTTCTC
68663449 AAAATAAAAGGGACTAAATTTC
1 AAAATAAAA-GGACTAAATTTC
68663471 AAATGTACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATAAAAGGACTAAATTTCTC
Found at i:68668811 original size:11 final size:11
Alignment explanation
Indices: 68668797--68668846 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
68668787 TTTCAATATT
68668797 CTCTCAAATTC
1 CTCTCAAATTC
68668808 CTCTCAAA-T-
1 CTCTCAAATTC
*
68668817 CTCTCAAATTT
1 CTCTCAAATTC
*
68668828 CTCTTAAATTC
1 CTCTCAAATTC
68668839 CTCTCAAA
1 CTCTCAAA
68668847 AACTCTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:68668821 original size:20 final size:21
Alignment explanation
Indices: 68668789--68668846 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
68668779 CTTCAATCTT
68668789 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
68668811 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
68668831 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
68668847 AACTCTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:68670005 original size:7 final size:7
Alignment explanation
Indices: 68669993--68670019 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68669983 TAGTGGATTC
68669993 GTATTTA
1 GTATTTA
68670000 GTATTTA
1 GTATTTA
68670007 GTATTTA
1 GTATTTA
68670014 GTATTT
1 GTATTT
68670020 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:68670660 original size:18 final size:18
Alignment explanation
Indices: 68670637--68670679 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
68670627 TGCCAGGTAC
*
68670637 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
68670655 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
68670673 GTTTCCT
1 GTATCCT
68670680 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:68671145 original size:61 final size:61
Alignment explanation
Indices: 68671076--68671261 Score: 203
Period size: 61 Copynumber: 3.1 Consensus size: 61
68671066 TTTTGAATCT
*
68671076 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTAC
1 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTAC
* * * * * *
68671137 TTTTATATT-TTT-A-ATAA--A-ATAGAAA--TTATTTTAAATAAGGCAACATTTTGAA--TAT
1 TTTTATATTATTTCATGTAATTAGATA-AAAGGTTGTTTTAAATAAAG-TA-ATTAT-AATTTAC
68671192 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTAC
1 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTAC
68671253 TTTTATATT
1 TTTTATATT
68671262 TTTAATAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 13 0.13
55 15 0.15
56 11 0.11
57 3 0.03
58 6 0.06
59 3 0.03
60 11 0.11
61 24 0.24
62 13 0.13
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (61 bp):
TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTAC
Found at i:68671266 original size:116 final size:116
Alignment explanation
Indices: 68671062--68671328 Score: 491
Period size: 116 Copynumber: 2.3 Consensus size: 116
68671052 ATATTGTACA
*
68671062 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
68671127 TGTAATTTACTTTTATATTTTTAATAAAAT-AGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGA-AAATTATTTTAAATAAAGC
68671178 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
68671243 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
68671294 AACATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
68671329 AAAATATAAG
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
116 146 0.99
117 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:68671291 original size:54 final size:53
Alignment explanation
Indices: 68671111--68671292 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 53
68671101 TAAAAGGTTG
*
68671111 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATA-AAATTA
* * * * * *
68671165 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTAATTAGATAAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATAAAA--TTA
68671227 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAAT-AAAATTA
68671281 TTTTAAATAAAG
1 TTTTAAATAAAG
68671293 CAACATTTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 9 0.09
62 13 0.13
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (53 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATAAAATTA
Found at i:68674573 original size:126 final size:126
Alignment explanation
Indices: 68674343--68674881 Score: 819
Period size: 126 Copynumber: 4.3 Consensus size: 126
68674333 GCCCAAGTTA
* * * *
68674343 TTTCAGAAACCACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* **
68674408 TGCATCCTGTTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
68674469 TTTCAGAGACCACTATAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGTTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
68674534 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
68674595 TTTCAGAGACTATTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
68674660 TGCATCCTGTTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
68674721 TTTAAGATACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTCTTTCAGTACTTTTACTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
68674786 TGCATCCTGCTTGAAGTGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
68674847 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
68674882 AGAAGCTGTT
Statistics
Matches: 377, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 375 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:68674984 original size:15 final size:15
Alignment explanation
Indices: 68674964--68674993 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68674954 TTTCTTAAAT
68674964 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
68674979 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
68674994 TCTAATTTTA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:68675167 original size:96 final size:97
Alignment explanation
Indices: 68674968--68675173 Score: 251
Period size: 96 Copynumber: 2.1 Consensus size: 97
68674958 TTAAATACCC
* * * *
68674968 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTATTTAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCCTAATCTAATTTTATTTAAAATTATAATTAATTTAATCAAGCA
* *
68675033 ATCCTAAACCCTAATTTATTTGATTTTTTCCT
66 AACCTAAACCCTAATTTATTTAATTTTTTCCT
* *
68675065 TAAAAACCATAAACACT-AAA-CCATAATCTAA-TTT-TTTAAAATTAGTAATTAATTTAATTAA
1 T-AAAACCCTAAACACTAAAATCC-TAATCTAATTTTATTTAAAATTA-TAATTAATTTAATCAA
*
68675126 -CAAACACTAAACCTTAATTTATTTAATTTTTTTCCT
63 GCAAAC-CTAAACCCTAATTTATTTAA-TTTTTTCCT
68675162 TAAAACCCTAAA
1 TAAAACCCTAAA
68675174 ATTTAAAAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
95 12 0.13
96 47 0.50
97 22 0.23
98 13 0.14
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (97 bp):
TAAAACCCTAAACACTAAAATCCTAATCTAATTTTATTTAAAATTATAATTAATTTAATCAAGCA
AACCTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:68675184 original size:16 final size:17
Alignment explanation
Indices: 68675163--68675204 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
68675153 TTTTTTCCTT
68675163 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
68675179 AAAACCC-AAAATTCTC
1 AAAACCCTAAAATTCTA
68675195 AAAACCCTAA
1 AAAACCCTAA
68675205 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:68676550 original size:5 final size:5
Alignment explanation
Indices: 68676540--68676564 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
68676530 GCCCATCCCT
68676540 ACCCC ACCCC ACCCC ACCCC ACCCC
1 ACCCC ACCCC ACCCC ACCCC ACCCC
68676565 TCACTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.80, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCC
Found at i:68682148 original size:25 final size:26
Alignment explanation
Indices: 68682114--68682162 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
68682104 TTGGGAAGCC
68682114 TTTGTGGCTAATATTGT-GAAAAGTT
1 TTTGTGGCTAATATTGTGGAAAAGTT
*
68682139 TTTGTGGCTAATCTTGTGGAAAAG
1 TTTGTGGCTAATATTGTGGAAAAG
68682163 CCTTTATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (26 bp):
TTTGTGGCTAATATTGTGGAAAAGTT
Found at i:68684248 original size:18 final size:18
Alignment explanation
Indices: 68684225--68684266 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
68684215 GTTCAAAGTG
68684225 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
68684243 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
68684261 TAATTA
1 TAATTA
68684267 GAAACCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:68690718 original size:18 final size:18
Alignment explanation
Indices: 68690697--68690769 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 18
68690687 TCAAAAAAGT
68690697 TAAAAAATTGTAAAATTA
1 TAAAAAATTGTAAAATTA
68690715 TAAAAAATTGTAAAAATGGTA
1 TAAAAAATTGT-AAAAT--TA
* *
68690736 AAAAAAATTATTAAAA-TA
1 TAAAAAATT-GTAAAATTA
*
68690754 TTAAAAATATGTAAAA
1 TAAAAAAT-TGTAAAA
68690770 AAAAGTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 24 0.53
19 6 0.13
21 14 0.31
22 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAAAATTGTAAAATTA
Found at i:68690746 original size:31 final size:31
Alignment explanation
Indices: 68690708--68690773 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
68690698 AAAAAATTGT
68690708 AAAATTATAAAAA-ATTGTAAAAAT-GGTAAAA
1 AAAATTATAAAAATA-T-TAAAAATAGGTAAAA
* *
68690739 AAAATTATTAAAATATTAAAAATATGTAAAA
1 AAAATTATAAAAATATTAAAAATAGGTAAAA
68690770 AAAA
1 AAAA
68690774 GTATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.23
31 23 0.74
32 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (31 bp):
AAAATTATAAAAATATTAAAAATAGGTAAAA
Found at i:68690758 original size:21 final size:21
Alignment explanation
Indices: 68690711--68690760 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
68690701 AAATTGTAAA
* *
68690711 ATTATAAAAAATTGTAAAAAT
1 ATTAAAAAAAATTATAAAAAT
** *
68690732 GGTAAAAAAAATTATTAAAAT
1 ATTAAAAAAAATTATAAAAAT
68690753 ATTAAAAA
1 ATTAAAAA
68690761 TATGTAAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
ATTAAAAAAAATTATAAAAAT
Found at i:68692175 original size:11 final size:11
Alignment explanation
Indices: 68692118--68692186 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
68692108 ACAATATCCA
*
68692118 AAAATAATAAC
1 AAAATAACAAC
* * *
68692129 AATATAATAGC
1 AAAATAACAAC
* *
68692140 AAAATGACAAT
1 AAAATAACAAC
*
68692151 AAAATAACATC
1 AAAATAACAAC
*
68692162 AAAATAAAAAC
1 AAAATAACAAC
*
68692173 -AAACAACAAC
1 AAAATAACAAC
68692183 AAAA
1 AAAA
68692187 CAGCATTGAA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
10 8 0.19
11 35 0.81
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:68699303 original size:4 final size:4
Alignment explanation
Indices: 68699294--68699352 Score: 91
Period size: 4 Copynumber: 14.8 Consensus size: 4
68699284 TCAATGTAAA
*
68699294 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC GCTC
1 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC
* *
68699342 GCTC GCTC ACT
1 ACTC ACTC ACT
68699353 TTTTATCTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.20, C:0.49, G:0.05, T:0.25
Consensus pattern (4 bp):
ACTC
Found at i:68701881 original size:194 final size:192
Alignment explanation
Indices: 68701538--68701912 Score: 520
Period size: 194 Copynumber: 1.9 Consensus size: 192
68701528 CAATTGTAGA
* *
68701538 TATTGGTAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTTAAGATTGATGA
1 TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTCAAGATTGATGA
* **
68701603 CAACATCATGATAAACAATTGTAGTACATTAAGTATTCTTAATATGATGTATTTATGTGGTTAAA
66 CAACATCATGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAAA
* *
68701668 TTTCATTTTACTCACAATTTAATC-AATTTTAATCATTTTAATATCGTACATATCTATTGTGTTG
131 TTTCATTTTACTCACAATTTAATCGAATTTT--T-ATTTTAAAATCATACATATCTATTGTGTTG
* * * *
68701732 TATTGATACTGTTGTTGATTGAGTTGGTGTCACAAGTGAACAT-AACATTAACTCAAGATTGATG
1 TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAAC-TCAACACTAACTCAAGATTGATG
* * ** * * * *
68701796 CCAACGTCATGATGGACAATTGTAGTGCATTTAGTATTATTAATGTGATGTATTTACATGTTTAA
65 ACAACATCATGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAA
*
68701861 ATTTTATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATAT
130 ATTTCATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATAT
68701913 TTCATATGTT
Statistics
Matches: 159, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
192 17 0.11
193 1 0.01
194 134 0.84
195 7 0.04
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (192 bp):
TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTCAAGATTGATGA
CAACATCATGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAAA
TTTCATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATATCTATTGTGTTG
Found at i:68702326 original size:11 final size:11
Alignment explanation
Indices: 68702310--68702357 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
68702300 CATTAACAAT
*
68702310 AAAATAGTAGC
1 AAAATAGTAAC
* *
68702321 AAAATAATAAT
1 AAAATAGTAAC
*
68702332 GAAATAGTAAC
1 AAAATAGTAAC
*
68702343 AAAATAGTGAC
1 AAAATAGTAAC
68702354 AAAA
1 AAAA
68702358 AGTGGAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (11 bp):
AAAATAGTAAC
Found at i:68707642 original size:19 final size:20
Alignment explanation
Indices: 68707614--68707651 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
68707604 CGTCAACAAA
68707614 AAAAGATTTTTTCAAAAAAT
1 AAAAGATTTTTTCAAAAAAT
*
68707634 AAAAG-TTTTTTTAAAAAA
1 AAAAGATTTTTTCAAAAAA
68707652 AAGTAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAAGATTTTTTCAAAAAAT
Found at i:68707652 original size:20 final size:20
Alignment explanation
Indices: 68707614--68707652 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68707604 CGTCAACAAA
*
68707614 AAAAGATTTTTTCAAAAAAT
1 AAAAGATTTTTTAAAAAAAT
*
68707634 AAAAGTTTTTTTAAAAAAA
1 AAAAGATTTTTTAAAAAAA
68707653 AGTAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAGATTTTTTAAAAAAAT
Found at i:68707653 original size:21 final size:21
Alignment explanation
Indices: 68707614--68707659 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
68707604 CGTCAACAAA
*
68707614 AAAAGATTTTTTCAAAAAA-T
1 AAAAGATTTTTTAAAAAAAGT
*
68707634 AAAAGTTTTTTTAAAAAAAAGT
1 AAAAGATTTTTT-AAAAAAAGT
68707656 AAAA
1 AAAA
68707660 TGTGCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 6 0.27
22 5 0.23
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAGATTTTTTAAAAAAAGT
Found at i:68707748 original size:18 final size:20
Alignment explanation
Indices: 68707725--68707769 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
68707715 ACAAAATTAA
68707725 AAAAATTCAAAAAT-TAT-T
1 AAAAATTCAAAAATGTATAT
*
68707743 AAAAATTCTAAAATGTATAT
1 AAAAATTCAAAAATGTATAT
68707763 AAAAATT
1 AAAAATT
68707770 TTAAATGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAAATGTATAT
Found at i:68711895 original size:18 final size:19
Alignment explanation
Indices: 68711874--68711927 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
68711864 TATTAACTTT
68711874 AATATTGTTATACTTTA-G
1 AATATTGTTATACTTTATG
68711892 AATATT-TTAATTACTTTATG
1 AATATTGTT-A-TACTTTATG
*
68711912 AAT-TTGTTATATTTTA
1 AATATTGTTATACTTTA
68711928 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.06
18 13 0.42
19 10 0.32
20 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (19 bp):
AATATTGTTATACTTTATG
Found at i:68714703 original size:23 final size:23
Alignment explanation
Indices: 68714659--68714703 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
68714649 TTGTTACCAT
* *
68714659 CAGAGAAGAGAAGAGCAGAATGA
1 CAGAGAAGAGAAGAGAAAAATGA
68714682 CAGAGAAGAAGAAGA-AAAAATG
1 CAGAGAAG-AGAAGAGAAAAATG
68714704 GACACACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.58, C:0.07, G:0.31, T:0.04
Consensus pattern (23 bp):
CAGAGAAGAGAAGAGAAAAATGA
Found at i:68715390 original size:15 final size:15
Alignment explanation
Indices: 68715343--68715390 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
68715333 ACATAAGTGA
*
68715343 TTAAAACATAAC-AT
1 TTAAAATATAACTAT
* * *
68715357 TTCAAATATAAATAA
1 TTAAAATATAACTAT
68715372 TTAAAATATAACTAT
1 TTAAAATATAACTAT
68715387 TTAA
1 TTAA
68715391 TAGTTTATTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAATATAACTAT
Found at i:68716255 original size:18 final size:19
Alignment explanation
Indices: 68716227--68716266 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
68716217 ATGAAAGTAA
*
68716227 GATTGTATTTGAAATGGAT
1 GATTGTATTTGAAATGAAT
*
68716246 GATTGT-TTTGATATGAAT
1 GATTGTATTTGAAATGAAT
68716264 GAT
1 GAT
68716267 ATTTATGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (19 bp):
GATTGTATTTGAAATGAAT
Found at i:68721301 original size:26 final size:26
Alignment explanation
Indices: 68721272--68721325 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
68721262 AGTTCTACAT
68721272 GTATGAGGTTAAAATGAAGAAAACTA
1 GTATGAGGTTAAAATGAAGAAAACTA
68721298 GTATGAGGTTAAAATGAAGAAAACTA
1 GTATGAGGTTAAAATGAAGAAAACTA
68721324 GT
1 GT
68721326 GAATTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (26 bp):
GTATGAGGTTAAAATGAAGAAAACTA
Found at i:68727174 original size:17 final size:18
Alignment explanation
Indices: 68727143--68727176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
68727133 AATTCACGCT
68727143 TTTTGCCCTTAAATTTAC
1 TTTTGCCCTTAAATTTAC
*
68727161 TTTTG-CCTTCAATTTA
1 TTTTGCCCTTAAATTTA
68727177 ATCCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTGCCCTTAAATTTAC
Found at i:68731066 original size:19 final size:19
Alignment explanation
Indices: 68731030--68731066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68731020 TAATTAGGCT
* *
68731030 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
68731049 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
68731067 GAAAAAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:68731665 original size:12 final size:12
Alignment explanation
Indices: 68731634--68731689 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
68731624 TAAATATGTG
*
68731634 TTATTAAAATATA
1 TTATTATAAT-TA
68731647 TTTATTATAATTA
1 -TTATTATAATTA
68731660 TTATTATAATTA
1 TTATTATAATTA
* * *
68731672 TTATCATTATCA
1 TTATTATAATTA
68731684 TTATTA
1 TTATTA
68731690 ACTAATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 26 0.70
13 2 0.05
14 9 0.24
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:68731748 original size:14 final size:15
Alignment explanation
Indices: 68731729--68731757 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68731719 AAAATGAAAT
68731729 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
68731743 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
68731758 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:68735912 original size:13 final size:14
Alignment explanation
Indices: 68735891--68735930 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
68735881 ATTTGATTGG
68735891 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
68735904 AATATGAATTAAAT
1 AAAATGAATTAAAT
68735918 AAAAGTGAATTAA
1 AAAA-TGAATTAA
68735931 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:68736731 original size:13 final size:14
Alignment explanation
Indices: 68736696--68736734 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
68736686 GAAGATATTT
68736696 ATATATTATATATAA
1 ATATATTAT-TATAA
*
68736711 ATAAATTATTAT-A
1 ATATATTATTATAA
68736724 ATATATTATTA
1 ATATATTATTA
68736735 GTAACTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:68736793 original size:26 final size:28
Alignment explanation
Indices: 68736741--68736797 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
68736731 ATTAGTAACT
*
68736741 AAAGCAAATAAAAGAAATAGAATAAAGA
1 AAAGCAAACAAAAGAAATAGAATAAAGA
68736769 AAAG-AAACAAAAG-AATAGAGA-AAAGA
1 AAAGCAAACAAAAGAAATAGA-ATAAAGA
68736795 AAA
1 AAA
68736798 CAGAAAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 9 0.33
28 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.07
Consensus pattern (28 bp):
AAAGCAAACAAAAGAAATAGAATAAAGA
Found at i:68738902 original size:23 final size:22
Alignment explanation
Indices: 68738872--68738960 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 22
68738862 GGCTTTGCCG
68738872 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
68738895 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
* **
68738918 TTCAGGCACTCGTGTGTCG--T
1 ATCAGGCACTTATGTGTCGTAT
68738938 ATCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
68738960 A
1 A
68738961 CTGATCATGT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
20 17 0.29
22 10 0.17
23 31 0.53
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (22 bp):
ATCAGGCACTTATGTGTCGTAT
Found at i:68741291 original size:10 final size:10
Alignment explanation
Indices: 68741274--68741322 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
68741264 TTAAATTCTA
68741274 AAAGATAAAT
1 AAAGATAAAT
*
68741284 ATAGATAAAT
1 AAAGATAAAT
* *
68741294 AAATATAATT
1 AAAGATAAAT
68741304 AAAGATAAAT
1 AAAGATAAAT
68741314 AAAGATAAA
1 AAAGATAAA
68741323 AGCTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:68743748 original size:14 final size:14
Alignment explanation
Indices: 68743731--68743758 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
68743721 AGTATAACAG
68743731 TGCGAATATAGCTA
1 TGCGAATATAGCTA
68743745 TGCGAATATAGCTA
1 TGCGAATATAGCTA
68743759 AACCTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
TGCGAATATAGCTA
Found at i:68743962 original size:23 final size:23
Alignment explanation
Indices: 68743932--68743979 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
68743922 TAAGAATGTG
68743932 AAACATGACTCATCTACTTTACT
1 AAACATGACTCATCTACTTTACT
68743955 AAACATGACTCATCTACTTTACT
1 AAACATGACTCATCTACTTTACT
68743978 AA
1 AA
68743980 GGCAAGTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (23 bp):
AAACATGACTCATCTACTTTACT
Found at i:68745888 original size:17 final size:19
Alignment explanation
Indices: 68745852--68745897 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
68745842 ATTATTTGAC
68745852 TATTTTATATTTAATATAT
1 TATTTTATATTTAATATAT
*
68745871 TATTTT-TA-TTAATTTAT
1 TATTTTATATTTAATATAT
*
68745888 T-TTTCATATT
1 TATTTTATATT
68745898 GCTTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 3 0.13
19 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTATATTTAATATAT
Found at i:68746567 original size:80 final size:80
Alignment explanation
Indices: 68746417--68746567 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
68746407 AAAGGGACTA
* *** *
68746417 AAGTGTAATTTTACTATATATTAAATTATGATTTCTTTATTTATAAGAGAACTGAATTGAAAATT
1 AAGTGTAATTTTACTATATATTAAATTATAATTTAACTATTTATAAAAGAACTGAATTGAAAATT
*
68746482 TTTTTTAGGAGGTCG
66 ATTTTTAGGAGGTCG
* *
68746497 AAGTGTAATTTTACTATAATATTAATTTATAATTTAACTATTTATAAAA-AGATTGAATTG-AAA
1 AAGTGTAATTTTACTAT-ATATTAAATTATAATTTAACTATTTATAAAAGA-ACTGAATTGAAAA
68746560 TTATTTTT
64 TTATTTTT
68746568 GTGAGGGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 28 0.46
81 33 0.54
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.46
Consensus pattern (80 bp):
AAGTGTAATTTTACTATATATTAAATTATAATTTAACTATTTATAAAAGAACTGAATTGAAAATT
ATTTTTAGGAGGTCG
Done.