Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 26 of 103
Found at i:9644529 original size:67 final size:67
Alignment explanation
Indices: 9644407--9644544 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 67
9644397 AACCACTTTT
* * *
9644407 GGTTGTGGTTGAGCTTTTGAAAAACCACTTTGGTTTTTGGTTGAGCCCATGAAAAACCATTGTGA
1 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGTTTTTAGTTGAGCCCATGAAAAACCATTGCGA
9644472 AA
66 AA
* * * * *
9644474 GGTTGTGGTTGAGCCTTTGAAAAATCACTTTAGG-TTTTAGTTGATCTC-GGTAAAAACTATTGC
1 GGTTGTGGTTGAGCCTTTGAAAAACCACTTT-GGTTTTTAGTTGAGCCCATG-AAAAACCATTGC
9644537 GAAA
64 GAAA
9644541 GGTT
1 GGTT
9644545 TTGGCTAAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 1 0.02
67 58 0.95
68 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (67 bp):
GGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGTTTTTAGTTGAGCCCATGAAAAACCATTGCGA
AA
Found at i:9644529 original size:99 final size:100
Alignment explanation
Indices: 9644335--9644530 Score: 245
Period size: 99 Copynumber: 2.0 Consensus size: 100
9644325 AAGTTAGTTG
* * *
9644335 TTGGATTTTGGTTGATCCCGTGAGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAAC
1 TTGGATTTTGGTTGAGCCCAT-AGAAAAACCATTGTTGAAGGTTGTGGTTGAGCCTTTGAAAAAC
* * **
9644400 CACTTTTGGTTGTGGTTGAGCTTTTGAAAAACCACT
65 CACTTTAGGTTGTAGTTGAGCTGGTGAAAAACCACT
* *
9644436 TTGGTTTTTGGTTGAGCCCAT-GAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAAT
1 TTGGATTTTGGTTGAGCCCATAGAAAAACCATTGTTG-AAGGTTGTGGTTGAGCCTTTGAAAAAC
* *
9644499 CACTTTAGGTTTTAGTTGATCTCGGT-AAAAAC
65 CACTTTAGGTTGTAGTTGAGCT-GGTGAAAAAC
9644531 TATTGCGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
98 2 0.02
99 61 0.74
100 1 0.01
101 18 0.22
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (100 bp):
TTGGATTTTGGTTGAGCCCATAGAAAAACCATTGTTGAAGGTTGTGGTTGAGCCTTTGAAAAACC
ACTTTAGGTTGTAGTTGAGCTGGTGAAAAACCACT
Found at i:9647578 original size:68 final size:67
Alignment explanation
Indices: 9647469--9647606 Score: 231
Period size: 68 Copynumber: 2.0 Consensus size: 67
9647459 AGAGACATGA
* *
9647469 TTCTTCAAATGAGCAGTTCAACTTTTTAGCACTTGTGAACAATGAGCAATAAAAGCCAAAATTTG
1 TTCTTAAAATGAGCAGTTCAACTTTTTAACACTTGTGAACAATGAGCAATAAAAGCCAAAATTTG
9647534 AG
66 AG
* *
9647536 NTTCTTAAAATGAGCATTTCAACTTTTTAACACTTGTGAACAATGAGCAATAAAGGCCAAAATTT
1 -TTCTTAAAATGAGCAGTTCAACTTTTTAACACTTGTGAACAATGAGCAATAAAAGCCAAAATTT
9647601 GAG
65 GAG
9647604 TTC
1 TTC
9647607 ACATGTCTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 3 0.05
68 63 0.95
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (67 bp):
TTCTTAAAATGAGCAGTTCAACTTTTTAACACTTGTGAACAATGAGCAATAAAAGCCAAAATTTG
AG
Found at i:9649902 original size:19 final size:19
Alignment explanation
Indices: 9649878--9649915 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9649868 CCATTTGACT
*
9649878 TATTGGAGTATGATTTGAG
1 TATTGGAATATGATTTGAG
9649897 TATTGGAATATGATTTGAG
1 TATTGGAATATGATTTGAG
9649916 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAATATGATTTGAG
Found at i:9654250 original size:73 final size:73
Alignment explanation
Indices: 9654146--9654302 Score: 233
Period size: 73 Copynumber: 2.2 Consensus size: 73
9654136 GAAGGATGGC
* * *
9654146 TAGTCGATTAAGAGCCTACTACCAGAAATCTGGACTTCAAGACAGAAACAACTTAATCAACTAAG
1 TAGTCGACTAAAAGCCTACTACCAGAAATCTGGACTTCAAAACAGAAACAACTTAATCAACTAAG
9654211 AAGGAAGT
66 AAGGAAGT
* * * **
9654219 TAGTCGACTAAAAGCTTACTGCCAGAAATCTGGACTTCAAAATAGAAACAACTTAATGGACTAAG
1 TAGTCGACTAAAAGCCTACTACCAGAAATCTGGACTTCAAAACAGAAACAACTTAATCAACTAAG
9654284 AAGGAAGT
66 AAGGAAGT
*
9654292 TAGTCAACTAA
1 TAGTCGACTAA
9654303 GTGCTCACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (73 bp):
TAGTCGACTAAAAGCCTACTACCAGAAATCTGGACTTCAAAACAGAAACAACTTAATCAACTAAG
AAGGAAGT
Found at i:9654337 original size:73 final size:73
Alignment explanation
Indices: 9654122--9654377 Score: 218
Period size: 73 Copynumber: 3.5 Consensus size: 73
9654112 GACAAAGAAG
* * * * * * * *
9654122 ACTTAGTCGACCAAGAAGGATGGCTAGTCGATTAAGAGC-CTACTACCAGAAATCTGGACTTC-A
1 ACTTAATCGACTAAGAAGGA-AGTTAGTCAACTAAGAGCTC-ACTGCCAAAAATCTGGAC-TCAA
*
9654185 AGACAGAAACA
63 AGATAGAAACA
* * * * *
9654196 ACTTAATCAACTAAGAAGGAAGTTAGTCGACTAAAAGCTTACTGCCAGAAATCTGGACTTCAAA-
1 ACTTAATCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAAAAATCTGGAC-TCAAAG
9654260 ATAGAAACA
65 ATAGAAACA
* * *
9654269 ACTTAATGGACTAAGAAGGAAGTTAGTCAACTAAGTGCTCACTTCCAAAAAT-TGGGA-TCAGAA
1 ACTTAATCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAAAAATCT-GGACTCA-AA
* *
9654332 GATAGAGACG
64 GATAGAAACA
* *
9654342 ACTTAGTCGACTAAG-AGCGTAGTTAGTCAACTAAGA
1 ACTTAATCGACTAAGAAG-GAAGTTAGTCAACTAAGA
9654378 TCATTCTGTC
Statistics
Matches: 152, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
71 3 0.02
72 5 0.03
73 125 0.82
74 19 0.12
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (73 bp):
ACTTAATCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAAAAATCTGGACTCAAAGA
TAGAAACA
Found at i:9654885 original size:35 final size:33
Alignment explanation
Indices: 9654793--9654889 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 33
9654783 CCATTGTTGT
* *
9654793 AGGTTGTAGTTGAGCCTTTGAAAAACCACTTTG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTGTG
* * ** *
9654826 -GGTTTTGGTTAAGCCCATGGAAAACCA-TAGTG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACT-GTG
9654858 AAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 --AGGTTGTGGTTGAGCCTTTGAAAAACCACT
9654890 TTGGGTTTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
31 1 0.02
32 23 0.49
35 22 0.47
36 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (33 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACTGTG
Found at i:9654917 original size:67 final size:67
Alignment explanation
Indices: 9654758--9654931 Score: 201
Period size: 67 Copynumber: 2.6 Consensus size: 67
9654748 TAGTTGTTGT
* *
9654758 GTTTTGGTTGATCCCGTTAGAAAAGCCATTGTTG-TAGGTTGTAGTTGAGCCTTTGAAAAACCAC
1 GTTTTGGTTGATCCCGGTA-AAAA-CCATTG-TGAAAGGTTGTAGTTGAGCCTTTGAAAAACCAC
9654822 TTTGG
63 TTTGG
* * * *
9654827 GTTTTGGTTAAGCCCATGG--AAAACCATAGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 GTTTTGGTTGATCCC--GGTAAAAACCATTGTGAAAGGTTGTAGTTGAGCCTTTGAAAAACCACT
9654890 TTGG
64 TTGG
* * *
9654894 GTTTTAGTTGATCCCGGTAAAAACTATTGCGAAAGGTT
1 GTTTTGGTTGATCCCGGTAAAAACCATTGTGAAAGGTT
9654932 TTGGCTAAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
65 2 0.02
66 2 0.02
67 66 0.75
68 4 0.05
69 13 0.15
71 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (67 bp):
GTTTTGGTTGATCCCGGTAAAAACCATTGTGAAAGGTTGTAGTTGAGCCTTTGAAAAACCACTTT
GG
Found at i:9655355 original size:35 final size:35
Alignment explanation
Indices: 9655327--9655434 Score: 171
Period size: 35 Copynumber: 3.1 Consensus size: 35
9655317 GGAGTGCGTG
*
9655327 TGATGATATTGAAATGTGCGTTTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
9655362 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
** * *
9655397 TGATGATATTGCCATGTGCGTGTAAGGAGTGTACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
9655432 TGA
1 TGA
9655435 GCTCAGTAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.31
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
Found at i:9657598 original size:26 final size:25
Alignment explanation
Indices: 9657542--9657600 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
9657532 ACCTTTCACA
9657542 AGAAAAATAACTCTAGTTTTCAAGT
1 AGAAAAATAACTCTAGTTTTCAAGT
9657567 AGAAAAATAACTCTAGTTTTCAAGT
1 AGAAAAATAACTCTAGTTTTCAAGT
9657592 AGAAAAATA
1 AGAAAAATA
9657601 GAGAAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (25 bp):
AGAAAAATAACTCTAGTTTTCAAGT
Found at i:9658999 original size:2 final size:2
Alignment explanation
Indices: 9658992--9659027 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9658982 GCTTATATTA
* *
9658992 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9659028 GAATGATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9661096 original size:21 final size:21
Alignment explanation
Indices: 9661070--9661125 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
9661060 TTCATCAGCT
9661070 GAATTTCGCTGCAGCAAGAAA
1 GAATTTCGCTGCAGCAAGAAA
*
9661091 GAATTTCGCTGCAGCTAGAAA
1 GAATTTCGCTGCAGCAAGAAA
*
9661112 AAATTTCGCTGCAG
1 GAATTTCGCTGCAG
9661126 AGAAAAACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (21 bp):
GAATTTCGCTGCAGCAAGAAA
Found at i:9662634 original size:10 final size:10
Alignment explanation
Indices: 9662615--9662647 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
9662605 AAATATCATT
9662615 TTCCAGCAAC
1 TTCCAGCAAC
*
9662625 TTCCACCAAC
1 TTCCAGCAAC
9662635 TTCCAGCAAC
1 TTCCAGCAAC
9662645 TTC
1 TTC
9662648 TTTTTCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.27, C:0.42, G:0.06, T:0.24
Consensus pattern (10 bp):
TTCCAGCAAC
Found at i:9665595 original size:26 final size:26
Alignment explanation
Indices: 9665566--9665624 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9665556 ATTTTCTAGT
* *
9665566 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
9665592 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
9665618 TTTCCTT
1 TTTCCTT
9665625 ATGGCCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:9673391 original size:26 final size:26
Alignment explanation
Indices: 9673362--9673420 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9673352 ATTTTCTAGT
* *
9673362 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
9673388 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
9673414 TTTCCTT
1 TTTCCTT
9673421 ATGGCTGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:9676499 original size:38 final size:40
Alignment explanation
Indices: 9676457--9676559 Score: 165
Period size: 38 Copynumber: 2.6 Consensus size: 40
9676447 AAAGTGCTTG
* *
9676457 TGTGCACGATGTGGGGGGATGCACACGATGGCACTAA-T-
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAACTA
*
9676495 TGTGCACGATGTGGGGGGATGCACACGATGACCCCAACTA
1 TGTGCACGATGTGGGGGGATGCACACGATGACACCAACTA
9676535 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
9676560 TGAGTTGGGT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 34 0.57
39 1 0.02
40 25 0.42
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.19
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACACCAACTA
Found at i:9682094 original size:43 final size:43
Alignment explanation
Indices: 9682040--9682161 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
9682030 ATGGACTCGA
* * *
9682040 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGATGATGACTCGG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAG
* *
9682083 TTATGTGCGAGTAGGGAGTGCGCATAA-ATCGGTGATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCT-GGTGATGACCCAG
* * *
9682126 CCATGTGCGAGTAGGGAATGCGCATGAGCTGGTGAT
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGAT
9682162 AATGGGATGG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.97
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.23
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAG
Found at i:9682187 original size:26 final size:26
Alignment explanation
Indices: 9682158--9682213 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
9682148 CATGAGCTGG
*
9682158 TGATAATGGGATGGTGTGCATGATGA
1 TGATAATCGGATGGTGTGCATGATGA
*
9682184 TGATGATCGGATGGTGTGCATGATGA
1 TGATAATCGGATGGTGTGCATGATGA
9682210 TGAT
1 TGAT
9682214 GGGTATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.38, T:0.32
Consensus pattern (26 bp):
TGATAATCGGATGGTGTGCATGATGA
Found at i:9682206 original size:23 final size:24
Alignment explanation
Indices: 9682166--9682213 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
9682156 GGTGATAATG
9682166 GGATGGTGTGCATGATGATGATGATC
1 GGATGGTGTGCA--ATGATGATGATC
9682192 GGATGGTGTGC-ATGATGATGAT
1 GGATGGTGTGCAATGATGATGAT
9682214 GGGTATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.50
26 11 0.50
ACGTcount: A:0.23, C:0.06, G:0.40, T:0.31
Consensus pattern (24 bp):
GGATGGTGTGCAATGATGATGATC
Found at i:9685854 original size:23 final size:23
Alignment explanation
Indices: 9685798--9685860 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
9685788 AAATATCATC
9685798 TTCCAGTAGCTTCTTCTCCCATT
1 TTCCAGTAGCTTCTTCTCCCATT
*
9685821 TTCCTA-CAGCTTCTTCTCCCATT
1 TTCC-AGTAGCTTCTTCTCCCATT
*
9685844 TTCCAGTAGCTTTTTCT
1 TTCCAGTAGCTTCTTCT
9685861 TCTTCTTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.13, C:0.33, G:0.08, T:0.46
Consensus pattern (23 bp):
TTCCAGTAGCTTCTTCTCCCATT
Found at i:9694626 original size:17 final size:17
Alignment explanation
Indices: 9694601--9694652 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
9694591 TTTGGGATTA
9694601 CTTCCCCTAAATATGTG
1 CTTCCCCTAAATATGTG
*
9694618 CTTCACCTAAATATGTG
1 CTTCCCCTAAATATGTG
*
9694635 CTCCCCCTAAATATGTG
1 CTTCCCCTAAATATGTG
9694652 C
1 C
9694653 ATTAAGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.33
Consensus pattern (17 bp):
CTTCCCCTAAATATGTG
Found at i:9696951 original size:43 final size:43
Alignment explanation
Indices: 9696903--9697012 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 43
9696893 ATTCCATTTG
* *
9696903 TTGAGACTACTCTGGATGATGATTATGTTTATGATGCCATCCA
1 TTGAGATTACTCTGGATGATGATTATGTCTATGATGCCATCCA
* *
9696946 TTGAGATTACTCTGAATGATGATTATGTCTATGATGCCATTCA
1 TTGAGATTACTCTGGATGATGATTATGTCTATGATGCCATCCA
*
9696989 TTGGGAGATTACTTTGGATGATGA
1 TT--GAGATTACTCTGGATGATGA
9697013 CTTTGATTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 41 0.69
45 18 0.31
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (43 bp):
TTGAGATTACTCTGGATGATGATTATGTCTATGATGCCATCCA
Found at i:9698715 original size:49 final size:49
Alignment explanation
Indices: 9698643--9698795 Score: 243
Period size: 49 Copynumber: 3.1 Consensus size: 49
9698633 CATTCATCGT
*
9698643 CATAGCTGGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCGCA
1 CATAGCTGGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCACA
* * *
9698692 CATAGCCGGGTCATCATCATCATCAGCTTATGCGCACTCCCTACTCACG
1 CATAGCTGGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCACA
* * *
9698741 CATAGCTAGGTCATCATCATTATCGGCTTATGCACACTCCCTACTCACA
1 CATAGCTGGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCACA
9698790 CATAGC
1 CATAGC
9698796 AAGGTCAATA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 94 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.26
Consensus pattern (49 bp):
CATAGCTGGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCACA
Found at i:9702570 original size:17 final size:17
Alignment explanation
Indices: 9702548--9702582 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9702538 CATTTAGAGG
9702548 AGGGCAATTATTTTGAT
1 AGGGCAATTATTTTGAT
9702565 AGGGCAATTATTTTGAT
1 AGGGCAATTATTTTGAT
9702582 A
1 A
9702583 AAATATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (17 bp):
AGGGCAATTATTTTGAT
Found at i:9710320 original size:2 final size:2
Alignment explanation
Indices: 9710313--9710338 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9710303 TATTGTATTG
9710313 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9710339 GGATGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9710522 original size:20 final size:20
Alignment explanation
Indices: 9710470--9710527 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
9710460 AGCACTTCTA
*
9710470 TTGAAAATGTATTGATACAT
1 TTGAAAATGTATCGATACAT
* *
9710490 TTGTGAGATGTATCGATACAT
1 TTG-AAAATGTATCGATACAT
9710511 TTGAAAATGTATCGATA
1 TTGAAAATGTATCGATA
9710528 TATTGAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGAAAATGTATCGATACAT
Found at i:9712616 original size:42 final size:42
Alignment explanation
Indices: 9712557--9712723 Score: 181
Period size: 42 Copynumber: 4.0 Consensus size: 42
9712547 TGTTGATGTG
* * **
9712557 GACCCGGCTATGTGCGAGTAGGAGTCCACATAAGTCGCTGCT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGTCATTGCT
* *
9712599 GACCCAACTATGTGCGAGTAAGAGTGCACATAAGTCATTGCT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGTCATTGCT
* * * *
9712641 AACCCAGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGCT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGTCATTGCT
* * * * * * *
9712683 GACCCGGCTATATGTGAGTGGGAGTACGCATAAGTCGTTGC
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGTCATTGC
9712724 ATATGAGATG
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (42 bp):
GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGTCATTGCT
Found at i:9715832 original size:14 final size:14
Alignment explanation
Indices: 9715815--9715906 Score: 94
Period size: 14 Copynumber: 6.2 Consensus size: 14
9715805 TCCTTTCTTA
*
9715815 TTTCTTATTTCTCC
1 TTTCTTCTTTCTCC
**
9715829 TTTCTTCCATCATTCC
1 TTTCTTCTTTC--TCC
*
9715845 TTTCTTCCTTTCTCT
1 TTTCTT-CTTTCTCC
*
9715860 TTTCTTCTTTCTTC
1 TTTCTTCTTTCTCC
9715874 TTTCTTCTTTCTCC
1 TTTCTTCTTTCTCC
9715888 TTTCTTCCTTTCTCTC
1 TTTCTT-CTTTCTC-C
9715904 TTT
1 TTT
9715907 GCTTTCAAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
14 33 0.52
15 15 0.23
16 13 0.20
17 3 0.05
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCTTCTTTCTCC
Found at i:9715870 original size:7 final size:7
Alignment explanation
Indices: 9715807--9715906 Score: 85
Period size: 7 Copynumber: 13.6 Consensus size: 7
9715797 CCAAACCTTC
9715807 CTTTCTT
1 CTTTCTT
*
9715814 ATTTCTT
1 CTTTCTT
* *
9715821 ATTTCTC
1 CTTTCTT
9715828 CTTTCTT
1 CTTTCTT
**
9715835 CCATCATT
1 CTTTC-TT
9715843 CCTTTCTT
1 -CTTTCTT
9715851 CCTTTC-T
1 -CTTTCTT
9715858 CTTTTCTT
1 C-TTTCTT
9715866 CTTTCTT
1 CTTTCTT
9715873 CTTTCTT
1 CTTTCTT
*
9715880 CTTTCTC
1 CTTTCTT
9715887 CTTTCTT
1 CTTTCTT
9715894 CCTTTCTCT
1 -CTTTCT-T
9715903 CTTT
1 CTTT
9715907 GCTTTCAAGT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
6 1 0.01
7 50 0.65
8 22 0.29
9 4 0.05
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (7 bp):
CTTTCTT
Found at i:9715904 original size:45 final size:46
Alignment explanation
Indices: 9715803--9715906 Score: 119
Period size: 45 Copynumber: 2.3 Consensus size: 46
9715793 TGGGCCAAAC
*
9715803 CTTCCTTTCT-T-ATTTCTTATTTCTCCTTTCTTCCATCATTCCTTT
1 CTTCCTTTCTCTCTTTTCTTATTTCTCCTTTCTTCCATCA-TCCTTT
* * **
9715848 CTTCC-TT-TCTCTTTTCTTCTTTCTTCTTTCTTCTTTC-TCCTTT
1 CTTCCTTTCTCTCTTTTCTTATTTCTCCTTTCTTCCATCATCCTTT
9715891 CTTCCTTTCTCTCTTT
1 CTTCCTTTCTCTCTTT
9715907 GCTTTCAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
43 12 0.24
44 5 0.10
45 33 0.66
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (46 bp):
CTTCCTTTCTCTCTTTTCTTATTTCTCCTTTCTTCCATCATCCTTT
Found at i:9722220 original size:49 final size:50
Alignment explanation
Indices: 9722163--9722261 Score: 150
Period size: 49 Copynumber: 2.0 Consensus size: 50
9722153 TGCAGCGAGA
*
9722163 TTGAATCTCTCTGCAGCGAAATT-CATACCCAGAAACA-A-AATGTTTCTCG
1 TTGAATCTCGCTGCAGCGAAATTGCA-ACCCAGAAA-ATAGAATGTTTCTCG
9722212 TTGAATCTCGCTGCAGCGAAATTGCAACCCAGAAAATAGAATGTTTCTCG
1 TTGAATCTCGCTGCAGCGAAATTGCAACCCAGAAAATAGAATGTTTCTCG
9722262 CTGCAGCGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 1 0.02
49 32 0.70
50 13 0.28
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (50 bp):
TTGAATCTCGCTGCAGCGAAATTGCAACCCAGAAAATAGAATGTTTCTCG
Found at i:9722275 original size:21 final size:21
Alignment explanation
Indices: 9722249--9722294 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9722239 CCCAGAAAAT
*
9722249 AGAATGT-TTCTCGCTGCAGCG
1 AGAATGTATT-TCGCTGCAACG
9722270 AGAATGTATTTCGCTGCAACG
1 AGAATGTATTTCGCTGCAACG
9722291 AGAA
1 AGAA
9722295 GCTACAGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (21 bp):
AGAATGTATTTCGCTGCAACG
Found at i:9724221 original size:42 final size:42
Alignment explanation
Indices: 9724162--9724266 Score: 192
Period size: 42 Copynumber: 2.5 Consensus size: 42
9724152 NNNNNNNNNN
* *
9724162 CGCACATAGTTGGGTCATCATCAGCTCATGTGCACTCCCACA
1 CGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACA
9724204 CGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACA
1 CGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACA
9724246 CGCACATAGCTGGGTCATCAT
1 CGCACATAGCTGGGTCATCAT
9724267 TATCACATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (42 bp):
CGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACA
Found at i:9730724 original size:50 final size:50
Alignment explanation
Indices: 9730644--9730831 Score: 202
Period size: 50 Copynumber: 3.8 Consensus size: 50
9730634 CAAAATTATC
* * * *
9730644 TTAAGACAACACATATATCTTTGTCTAAATTAAGACAACTCTTATTTTTAA
1 TTAAGACAACATATATATCCTTGTCTAAATTAAGACAACTCTT-GTATTAA
* **
9730695 TTAAGACAACATATGTA-CCTTGTCTAAATTAAGACAACTCTTGGCTTAA
1 TTAAGACAACATATATATCCTTGTCTAAATTAAGACAACTCTTGTATTAA
** * * *
9730744 CAAAGACAACATGT-T-TTCTTGTCTAAATTAAGACAACTCTTGTAATAA
1 TTAAGACAACATATATATCCTTGTCTAAATTAAGACAACTCTTGTATTAA
* * * *
9730792 TGAAGACAACATATAAATTCTTGTCTAAATTAACACAACT
1 TTAAGACAACATATATATCCTTGTCTAAATTAAGACAACT
9730832 TTCGTCTTAC
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 40 0.34
49 15 0.13
50 46 0.40
51 15 0.13
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (50 bp):
TTAAGACAACATATATATCCTTGTCTAAATTAAGACAACTCTTGTATTAA
Found at i:9730786 original size:21 final size:21
Alignment explanation
Indices: 9730713--9730786 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
9730703 ACATATGTAC
9730713 CTTGTCTAAATTAAGACAACT
1 CTTGTCTAAATTAAGACAACT
* * **
9730734 CTTGGCTTAACAAAGACAACATGTTTT
1 CTTGTCTAAATTAAGACAAC------T
9730761 CTTGTCTAAATTAAGACAACT
1 CTTGTCTAAATTAAGACAACT
9730782 CTTGT
1 CTTGT
9730787 AATAATGAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 22 0.56
27 17 0.44
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (21 bp):
CTTGTCTAAATTAAGACAACT
Found at i:9732856 original size:257 final size:257
Alignment explanation
Indices: 9732400--9732912 Score: 830
Period size: 257 Copynumber: 2.0 Consensus size: 257
9732390 ATTGCTCCAA
* * * *
9732400 TATTATTGTGTTATATTCATGGATGAATGATGGTTGAAGGAATGATTGAAAAAAACAGCCAAAAG
1 TATTATTGTGTTATATTCATGGATGAATAATAGTTGAAAGAATGATGGAAAAAAACAGCCAAAAG
* * *
9732465 AACGTATTTTAGCAAGTTTGAACTTGGACGATCAACTCCTAATAGTTACAAGTTAATCGTATGGC
66 AACGTATTTTAGCAAGGTTGAACTTAGACGATCAACTCCTAATAGTTACAAGTTAATCCTATGGC
* * * * * *
9732530 AAAAAGCATGAGACTTTTGAAGAATTGAAAAGCCCCAGTCGATCCTAAGGCAATTTGGATGAAAA
131 AAAAAACAGGAGACTTTTGAAAAATTGAAAAGCCCCAATCAATCCTAAGGCAAATTGGATGAAAA
9732595 ATTACAAGATTTAAGAAGCCTTAATCAATCCTAGTGCCTTTTCATAGAAAAATATAAAAAAG
196 ATTACAAGATTTAAGAAGCCTTAATCAATCCTAGTGCCTTTTCATAGAAAAATATAAAAAAG
*
9732657 TATTATTGTGTTATATTCATGGATGAATAATAGTTGAAAGAATGATGGACAAAAGA-AGCCAAAA
1 TATTATTGTGTTATATTCATGGATGAATAATAGTTGAAAGAATGATGGA-AAAAAACAGCCAAAA
* * *
9732721 GAATGTATTTTAGCAAGGTTGAACTTAGAGGATCGACTCCTAATAGTTACAAGTTAATCCTATGG
65 GAACGTATTTTAGCAAGGTTGAACTTAGACGATCAACTCCTAATAGTTACAAGTTAATCCTATGG
* *
9732786 CAAAAAATAGGAGACTTTTGAAAAATTGAAAAGCCCCAATCAATCTTAAGGCAAATTGGATGAAA
130 CAAAAAACAGGAGACTTTTGAAAAATTGAAAAGCCCCAATCAATCCTAAGGCAAATTGGATGAAA
*
9732851 AATTACAAGATTTAAGAAGCCTTAGTCAATCCTAGTGCCTTTTCATAGAAAAATATAAAAAA
195 AATTACAAGATTTAAGAAGCCTTAATCAATCCTAGTGCCTTTTCATAGAAAAATATAAAAAA
9732913 TGTTAACTTG
Statistics
Matches: 235, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
257 230 0.98
258 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (257 bp):
TATTATTGTGTTATATTCATGGATGAATAATAGTTGAAAGAATGATGGAAAAAAACAGCCAAAAG
AACGTATTTTAGCAAGGTTGAACTTAGACGATCAACTCCTAATAGTTACAAGTTAATCCTATGGC
AAAAAACAGGAGACTTTTGAAAAATTGAAAAGCCCCAATCAATCCTAAGGCAAATTGGATGAAAA
ATTACAAGATTTAAGAAGCCTTAATCAATCCTAGTGCCTTTTCATAGAAAAATATAAAAAAG
Found at i:9735707 original size:20 final size:20
Alignment explanation
Indices: 9735684--9735724 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9735674 ATCAAATCTC
*
9735684 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
9735704 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
9735724 A
1 A
9735725 CAAGGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:9744422 original size:15 final size:16
Alignment explanation
Indices: 9744392--9744426 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9744382 ATAAAATATT
9744392 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
9744408 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
9744424 ATG
1 ATG
9744427 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:9745695 original size:15 final size:15
Alignment explanation
Indices: 9745651--9745701 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
9745641 TTTAAAGATC
*
9745651 AAAGATTTTGGTTTT
1 AAAGTTTTTGGTTTT
**
9745666 AAAG-CCTTGGATTTT
1 AAAGTTTTTGG-TTTT
9745681 AAAGTTTTTGGTTTT
1 AAAGTTTTTGGTTTT
9745696 AAAGTT
1 AAAGTT
9745702 ATTTTAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (15 bp):
AAAGTTTTTGGTTTT
Found at i:9747763 original size:19 final size:19
Alignment explanation
Indices: 9747739--9747776 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9747729 CCATTTAACT
*
9747739 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
9747758 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
9747777 GGTTTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:9751683 original size:11 final size:11
Alignment explanation
Indices: 9751667--9751694 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9751657 CACTGTAGTT
9751667 TTTAAAATAAC
1 TTTAAAATAAC
9751678 TTTAAAATAAC
1 TTTAAAATAAC
9751689 TTTAAA
1 TTTAAA
9751695 CCCAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTAAAATAAC
Found at i:9758567 original size:36 final size:35
Alignment explanation
Indices: 9758522--9758620 Score: 128
Period size: 36 Copynumber: 2.7 Consensus size: 35
9758512 CGGTATAATG
*
9758522 GCCAAATGTGGGGTGTTATACCACATGAATACTTGA
1 GCCAGATGTGGGG-GTTATACCACATGAATACTTGA
*
9758558 GCCAGATGTGGGGCATTATACCACATGAATACTTGA
1 GCCAGATGTGGGG-GTTATACCACATGAATACTTGA
*
9758594 ACCAGATG-GGGGGCTTCATACCACATG
1 GCCAGATGTGGGGG-TT-ATACCACATG
9758621 TGATAAGGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 6 0.11
36 50 0.89
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (35 bp):
GCCAGATGTGGGGGTTATACCACATGAATACTTGA
Found at i:9759470 original size:39 final size:40
Alignment explanation
Indices: 9759427--9759515 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
9759417 ATACAATCTT
* * * *
9759427 GCTGCAGCGAAATTTCTACCTAG-AAACAGAATGTTTCTC
1 GCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTC
9759466 GCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTC
1 GCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTC
9759506 GCTGCAGCGA
1 GCTGCAGCGA
9759516 GAAGCTACAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 20 0.44
40 25 0.56
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (40 bp):
GCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTC
Found at i:9759885 original size:43 final size:43
Alignment explanation
Indices: 9759836--9759946 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
9759826 ATCACCAGCG
* ** *
9759836 TATGCGCATTCCCTACTCGCACATGGCTGGGTCATCAACAGG-T
1 TATGCGCACTCCCTACTCGCACATAACCGGGTCATCAAC-GGCT
**
9759879 TATGCGCACTCCCTACTCGCACATAACCGGGTCATCTTCGGCT
1 TATGCGCACTCCCTACTCGCACATAACCGGGTCATCAACGGCT
9759922 TATGCGCACTCCCTACTCGCACATA
1 TATGCGCACTCCCTACTCGCACATA
9759947 GCCCAGTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 2 0.03
43 59 0.97
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
TATGCGCACTCCCTACTCGCACATAACCGGGTCATCAACGGCT
Found at i:9767220 original size:42 final size:42
Alignment explanation
Indices: 9767090--9767220 Score: 156
Period size: 42 Copynumber: 3.1 Consensus size: 42
9767080 TGTTGATGTG
* * *
9767090 GACCCGACTATGTGCGAGTAGGAGTGCGTATACG-CTGATGAT
1 GACCCGACTATGTGCGAGTAGGAGTGTGCATAAGTC-GATGAT
* * * *
9767132 GACCAGGCTATGTGCGAGTAAGAGTGTGCATAAGTAGATGAT
1 GACCCGACTATGTGCGAGTAGGAGTGTGCATAAGTCGATGAT
* * *
9767174 GACCCGATTATGTGTGAGTAGGAGTGTGCATAAGTCGATGCT
1 GACCCGACTATGTGCGAGTAGGAGTGTGCATAAGTCGATGAT
9767216 GACCC
1 GACCC
9767221 AGCCATGTGC
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTAGGAGTGTGCATAAGTCGATGAT
Found at i:9769139 original size:43 final size:44
Alignment explanation
Indices: 9769058--9769206 Score: 171
Period size: 43 Copynumber: 3.4 Consensus size: 44
9769048 CATTTATCGT
* *
9769058 CATAGCCGGGTCATTATCATCGACTTATGCGCACTCCCTACTCGCA
1 CATAGCCGGGTCATCATCAT--ACTTATACGCACTCCCTACTCGCA
*
9769104 CATAGCCGGGTCATCATCAT-CTTATACGCATTCCCTACTCGCA
1 CATAGCCGGGTCATCATCATACTTATACGCACTCCCTACTCGCA
* ** *
9769147 CATAGCCGGGTCATCATCA-ACTCATGTGCACTCCC-ACATCTCA
1 CATAGCCGGGTCATCATCATACTTATACGCACTCCCTAC-TCGCA
9769190 CATAGCTC-GGTCATCAT
1 CATAGC-CGGGTCATCAT
9769207 TATCACACAA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
42 2 0.02
43 70 0.76
44 1 0.01
46 19 0.21
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.26
Consensus pattern (44 bp):
CATAGCCGGGTCATCATCATACTTATACGCACTCCCTACTCGCA
Found at i:9770359 original size:13 final size:11
Alignment explanation
Indices: 9770322--9770360 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
9770312 ATTTCTTTCG
9770322 TTATTTTATCC
1 TTATTTTATCC
9770333 TTATTTTCATCC
1 TTATTTT-ATCC
9770345 TTCATTTTATACC
1 TT-ATTTTAT-CC
9770358 TTA
1 TTA
9770361 GAACTACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.28
12 9 0.36
13 9 0.36
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTTTATCC
Found at i:9774360 original size:43 final size:43
Alignment explanation
Indices: 9774307--9774404 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
9774297 TTCACATAAC
* *
9774307 CGGGTCATCATTGGCTTATGCGCACTCCCTACTAGCACATAGT
1 CGGGTCATCATCGGCTTATGCCCACTCCCTACTAGCACATAGT
*
9774350 CGGGTCATCATCGGCTTATGCCCACTCCCTACTCGCACATAGT
1 CGGGTCATCATCGGCTTATGCCCACTCCCTACTAGCACATAGT
9774393 CGGGTCATCATC
1 CGGGTCATCATC
9774405 AGTTAATGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.19, C:0.34, G:0.20, T:0.27
Consensus pattern (43 bp):
CGGGTCATCATCGGCTTATGCCCACTCCCTACTAGCACATAGT
Found at i:9774419 original size:43 final size:43
Alignment explanation
Indices: 9774307--9774434 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
9774297 TTCACATAAC
**
9774307 CGGGTCATCATTGGCTTATGCGCACTCCCTACTAGCACATAGT
1 CGGGTCATCATCAGCTTATGCGCACTCCCTACTAGCACATAGT
* * *
9774350 CGGGTCATCATCGGCTTATGCCCACTCCCTACTCGCACATAGT
1 CGGGTCATCATCAGCTTATGCGCACTCCCTACTAGCACATAGT
* *
9774393 CGGGTCATCATCAG-TTAATGTGCACTCCC-ACTTTGCACATAG
1 CGGGTCATCATCAGCTT-ATGCGCACTCCCTAC-TAGCACATAG
9774435 CTAGGTCATC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.05
43 72 0.95
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (43 bp):
CGGGTCATCATCAGCTTATGCGCACTCCCTACTAGCACATAGT
Found at i:9777638 original size:42 final size:41
Alignment explanation
Indices: 9777579--9777753 Score: 260
Period size: 42 Copynumber: 4.1 Consensus size: 41
9777569 TTATTTGATA
*
9777579 ATGATGACCTAGCTATGTGCATGTGGGAGTGCACATGAGCTT
1 ATGATGACCCAGCTATGTGCA-GTGGGAGTGCACATGAGCTT
9777621 ATGATGACCCAGCTATGTGCATGTGGGAGTGCACATGAGCTT
1 ATGATGACCCAGCTATGTGCA-GTGGGAGTGCACATGAGCTT
* *
9777663 ATGATGACCCAACTATGTGCAGTGTGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAGTG-GGAGTGCACATGAGCTT
* *
9777705 ATGATGACCTAGCTATGTGCGAGTGGGGAGTGCACATGAGCTA
1 ATGATGACCCAGCTATGTGC-AGT-GGGAGTGCACATGAGCTT
9777748 ATGATG
1 ATGATG
9777754 GTGGGATGGT
Statistics
Matches: 124, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
41 3 0.02
42 95 0.77
43 25 0.20
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (41 bp):
ATGATGACCCAGCTATGTGCAGTGGGAGTGCACATGAGCTT
Found at i:9783730 original size:22 final size:22
Alignment explanation
Indices: 9783702--9783768 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
9783692 ATACGCACCC
9783702 TAATCCCAACTTAGAGGCATCA
1 TAATCCCAACTTAGAGGCATCA
9783724 TAATCCCAACTTAGAGGCATCA
1 TAATCCCAACTTAGAGGCATCA
9783746 TAATCCCAACTTAGAGGCATCA
1 TAATCCCAACTTAGAGGCATCA
9783768 T
1 T
9783769 TGTATACCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
TAATCCCAACTTAGAGGCATCA
Found at i:9788555 original size:13 final size:14
Alignment explanation
Indices: 9788526--9788560 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
9788516 TGGAGACCAC
9788526 TTGATGTGTTGTAAA
1 TTGAT-TGTTGTAAA
9788541 TTGATTGTT-TAAA
1 TTGATTGTTGTAAA
9788554 TTGATTG
1 TTGATTG
9788561 GCTTATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
14 4 0.20
15 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGATTGTTGTAAA
Found at i:9804278 original size:11 final size:11
Alignment explanation
Indices: 9804262--9804286 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9804252 AAATACGGTG
9804262 TTCAATATAAA
1 TTCAATATAAA
9804273 TTCAATATAAA
1 TTCAATATAAA
9804284 TTC
1 TTC
9804287 CATTTCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (11 bp):
TTCAATATAAA
Found at i:9813355 original size:2 final size:2
Alignment explanation
Indices: 9813348--9813376 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9813338 TTATATTTAC
9813348 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
9813377 AATGGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:9816615 original size:20 final size:21
Alignment explanation
Indices: 9816580--9816618 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9816570 GCTATAAATA
*
9816580 TCATTTGTTCCAGCAGCTTCT
1 TCATTTCTTCCAGCAGCTTCT
9816601 TCATTTCTT-CAGCAGCTT
1 TCATTTCTTCCAGCAGCTT
9816619 TTTGTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.28, G:0.13, T:0.44
Consensus pattern (21 bp):
TCATTTCTTCCAGCAGCTTCT
Found at i:9817431 original size:2 final size:2
Alignment explanation
Indices: 9817426--9817472 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9817416 TCTATGTATG
9817426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9817468 TA TA T
1 TA TA T
9817473 CCATCATCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9817565 original size:42 final size:42
Alignment explanation
Indices: 9817513--9817625 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
9817503 CAGCTCATAT
* * * *
9817513 GCACTCTCCACTAGCACATGGTTGGGTCAGCATCGGCTTATGC
1 GCACT-TCCACTCGCACATAGTCGGGTCAGCATCGGCTTATGA
* *
9817556 GCATTTCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGA
1 GCACTTCCACTCGCACATAGTCGGGTCAGCATCGGCTTATGA
*
9817598 GCACTCCCACTCGCACATAGTCGGGTCA
1 GCACTTCCACTCGCACATAGTCGGGTCA
9817626 ATATCATCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 57 0.93
43 4 0.07
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.23
Consensus pattern (42 bp):
GCACTTCCACTCGCACATAGTCGGGTCAGCATCGGCTTATGA
Found at i:9818462 original size:23 final size:22
Alignment explanation
Indices: 9818422--9818475 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
9818412 AAGAGAAGAA
* *
9818422 GGAAGATGAAGAAGAAGCTGTT
1 GGAAGATGAAGAAAAAGCTGCT
*
9818444 GGAAAATGAGAGAAAAAGCTGCT
1 GGAAGATGA-AGAAAAAGCTGCT
9818467 GGAAGATGA
1 GGAAGATGA
9818476 TATTTATAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.44, C:0.06, G:0.35, T:0.15
Consensus pattern (22 bp):
GGAAGATGAAGAAAAAGCTGCT
Found at i:9831828 original size:32 final size:32
Alignment explanation
Indices: 9831772--9831832 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
9831762 TTTATAAAAA
*
9831772 GGCTTTGAACCCCATCTATCGATAGATAGTAG
1 GGCTCTGAACCCCATCTATCGATAGATAGTAG
* *
9831804 GGCTCTGAAGCCCATCTATTGATAGATAG
1 GGCTCTGAACCCCATCTATCGATAGATAG
9831833 CCCCGATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (32 bp):
GGCTCTGAACCCCATCTATCGATAGATAGTAG
Found at i:9834529 original size:21 final size:21
Alignment explanation
Indices: 9834487--9834530 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9834477 TTCTACCTGA
* * *
9834487 AATGTGTCGATACATTGCCTC
1 AATGTATCGAAACATTGACTC
*
9834508 AATGTATCGAAACATTTACTC
1 AATGTATCGAAACATTGACTC
9834529 AA
1 AA
9834531 AATTAGGGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (21 bp):
AATGTATCGAAACATTGACTC
Found at i:9835333 original size:80 final size:80
Alignment explanation
Indices: 9835231--9835393 Score: 245
Period size: 80 Copynumber: 2.0 Consensus size: 80
9835221 TGTAAGTCCT
* * * *
9835231 TAGGCTAGAGAACTAAATTGTGGAATGGATGTTTGTGTGTTGTGCTGTGAGCCATATGGGTCGCT
1 TAGGCTAGAGAACCAAACTGTGGAATGGATGTTTGTGTGTTGTGATGTGAGCCATATGGGTCGCC
9835296 TATGTTGTGTGTACC
66 TATGTTGTGTGTACC
* * * *
9835311 TAGGGTAGAGATCCAAACTGTGGAATGGGTGTTTGTGTGTTGTGATGTGAGCCATATGGGTGGCC
1 TAGGCTAGAGAACCAAACTGTGGAATGGATGTTTGTGTGTTGTGATGTGAGCCATATGGGTCGCC
*
9835376 TATTTTGTGTGTACC
66 TATGTTGTGTGTACC
9835391 TAG
1 TAG
9835394 ATTAGGATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.36
Consensus pattern (80 bp):
TAGGCTAGAGAACCAAACTGTGGAATGGATGTTTGTGTGTTGTGATGTGAGCCATATGGGTCGCC
TATGTTGTGTGTACC
Found at i:9844079 original size:36 final size:36
Alignment explanation
Indices: 9843991--9844119 Score: 120
Period size: 36 Copynumber: 3.6 Consensus size: 36
9843981 AATAATAAAG
* * * *
9843991 TGTGTGGTATGATGCCTCACATCTGGCTCTGGTCA--
1 TGTGTGGTATGATGCCCCACATTTGGATCAGGT-ATT
* *
9844026 TGTGTGGTATGAAGCCCCACATTTGGGTCAGGTATT
1 TGTGTGGTATGATGCCCCACATTTGGATCAGGTATT
* *
9844062 TGTGTGGAATGATGCCCCGCATTTGGCAT-AGGTATT
1 TGTGTGGTATGATGCCCCACATTTGG-ATCAGGTATT
** *
9844098 CATGTGGTATGAGGCCCCACAT
1 TGTGTGGTATGATGCCCCACAT
9844120 CCTATTGTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.01
35 28 0.36
36 47 0.61
37 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (36 bp):
TGTGTGGTATGATGCCCCACATTTGGATCAGGTATT
Found at i:9861269 original size:35 final size:35
Alignment explanation
Indices: 9861223--9861302 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
9861213 CAACTTTAGC
* * *
9861223 TGCTGATTTTGAAGGTTGAAAAGTGCAATTTTTGT
1 TGCTGATTTTGAAGGCTGAAAAGTACAATTTTGGT
*
9861258 TGCTGATTTTGAAGGCTGAAAAGTACGATTTTGGT
1 TGCTGATTTTGAAGGCTGAAAAGTACAATTTTGGT
*
9861293 TGCTAATTTT
1 TGCTGATTTT
9861303 CGTAGCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (35 bp):
TGCTGATTTTGAAGGCTGAAAAGTACAATTTTGGT
Found at i:9861393 original size:34 final size:34
Alignment explanation
Indices: 9861317--9861397 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
9861307 GCTTTGGCTA
* * * *
9861317 CTGATTTTTGGAGGGAGAGTAGAGTAGCTTAGCTG
1 CTGATTTTT-GAGGAAAAATAGAGCAGCTTAGCTG
* *
9861352 CTAATTTTTGAGGAAAAATAGAGCAGCTTGGCTG
1 CTGATTTTTGAGGAAAAATAGAGCAGCTTAGCTG
*
9861386 TTGA-TTTTGAGG
1 CTGATTTTTGAGG
9861398 CTGATATGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
33 8 0.21
34 22 0.58
35 8 0.21
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (34 bp):
CTGATTTTTGAGGAAAAATAGAGCAGCTTAGCTG
Found at i:9867022 original size:13 final size:13
Alignment explanation
Indices: 9867004--9867029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9866994 TTTCAGAAAA
9867004 TTTATAAAATCAT
1 TTTATAAAATCAT
9867017 TTTATAAAATCAT
1 TTTATAAAATCAT
9867030 AGTTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9871936 original size:15 final size:16
Alignment explanation
Indices: 9871916--9871946 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9871906 TTCTTAAAAC
9871916 AACTTTAAAA-CCAAA
1 AACTTTAAAATCCAAA
9871931 AACTTTAAAATCCAAA
1 AACTTTAAAATCCAAA
9871947 GCTTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (16 bp):
AACTTTAAAATCCAAA
Found at i:9874605 original size:19 final size:19
Alignment explanation
Indices: 9874581--9874618 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9874571 CTACCAAACC
*
9874581 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
9874600 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9874619 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:9882778 original size:14 final size:14
Alignment explanation
Indices: 9882759--9882800 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
9882749 TTGACTTGGA
9882759 TAAATAATTATAAT
1 TAAATAATTATAAT
*
9882773 TAAATAAATAT-AT
1 TAAATAATTATAAT
**
9882786 TATTTAATTATAAT
1 TAAATAATTATAAT
9882800 T
1 T
9882801 TTAGGTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATAATTATAAT
Found at i:9898238 original size:21 final size:20
Alignment explanation
Indices: 9898198--9898239 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
9898188 TGAGCTGATT
*
9898198 TTGGTGATTTTAGTGAGTTA
1 TTGGTGATTTTAATGAGTTA
9898218 TTGGCTGATATTTAATG-GTTA
1 TTGG-TGAT-TTTAATGAGTTA
9898239 T
1 T
9898240 AAATGTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.50
Consensus pattern (20 bp):
TTGGTGATTTTAATGAGTTA
Found at i:9910524 original size:43 final size:43
Alignment explanation
Indices: 9910457--9910567 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
9910447 TAATGCTCAT
* ** * *
9910457 TCCCTGCTCGCACATGGCTGGGTCATTACT-GGGTTATGCGCAC
1 TCCCTACTCGCACATAACCGGGTCA-TACTCGGCTTATGCGCAC
* *
9910500 TTCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCGCAC
1 TCCCTACTCGCACATAACCGGGTCATACTCGGCTTATGCGCAC
* *
9910543 TCCCTACTCGCACATAGCCGAGTCA
1 TCCCTACTCGCACATAACCGGGTCA
9910568 ATATAATTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 3 0.05
43 54 0.95
ACGTcount: A:0.18, C:0.35, G:0.22, T:0.25
Consensus pattern (43 bp):
TCCCTACTCGCACATAACCGGGTCATACTCGGCTTATGCGCAC
Found at i:9912710 original size:20 final size:20
Alignment explanation
Indices: 9912685--9912726 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9912675 CCCTAACATT
9912685 TTTTTTAATTCTTGCACCCA
1 TTTTTTAATTCTTGCACCCA
** *
9912705 TTTTTTGGTTCTTGCATCCA
1 TTTTTTAATTCTTGCACCCA
9912725 TT
1 TT
9912727 CTACTCCCCC
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:0.14, C:0.21, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTTTAATTCTTGCACCCA
Found at i:9924362 original size:20 final size:21
Alignment explanation
Indices: 9924337--9924375 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9924327 TTTCTGGCAG
*
9924337 TAAGC-TCTTAGTCGATTAAC
1 TAAGCTTCTTAGTCAATTAAC
9924357 TAAGCTTCTTAGTCAATTA
1 TAAGCTTCTTAGTCAATTA
9924376 GGTCATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (21 bp):
TAAGCTTCTTAGTCAATTAAC
Found at i:9924391 original size:73 final size:73
Alignment explanation
Indices: 9924194--9924398 Score: 259
Period size: 73 Copynumber: 2.8 Consensus size: 73
9924184 CAAACAGAAT
* * * *
9924194 GCTCTTTGTCGACTAACTATGCTTCTTAGTCGATTAAGTCGTCTTTGTCAT-TGAACCCAGTTTC
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTTTGTC-TCTAAACCCAATTTC
9924258 TAGCAGTAA
65 TAGCAGTAA
* * * * *
9924267 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGACTAAATCATCTCTATCTCTAAACTCAATTTCT
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTAAACCCAATTTCT
*
9924332 GGCAGTAA
66 AGCAGTAA
* * * * *
9924340 GCTCTTAGTCGATTAACTAAGCTTCTTAGTCAATTAGGTCATCTTTGTCTCTGAACCCA
1 GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTAAACCCA
9924399 GTTTTTTCAC
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
72 1 0.01
73 110 0.99
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCATCTTTGTCTCTAAACCCAATTTCT
AGCAGTAA
Found at i:9925196 original size:19 final size:20
Alignment explanation
Indices: 9925172--9925210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9925162 TTTCTCCTTA
9925172 CTTTCTA-TCTCCCTTTTTG
1 CTTTCTATTCTCCCTTTTTG
9925191 CTTTCTATTTCTCCCTTTTT
1 CTTTCTA-TTCTCCCTTTTT
9925211 TTGTCATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.05, C:0.31, G:0.03, T:0.62
Consensus pattern (20 bp):
CTTTCTATTCTCCCTTTTTG
Found at i:9946158 original size:18 final size:19
Alignment explanation
Indices: 9946131--9946178 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9946121 GTAACAGGTG
*
9946131 AAAAAAATATTTTG-AAAT
1 AAAATAATATTTTGTAAAT
* *
9946149 AAAATGATATTTTGTTAAT
1 AAAATAATATTTTGTAAAT
9946168 AAAATAATATT
1 AAAATAATATT
9946179 AAAATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
AAAATAATATTTTGTAAAT
Found at i:9948319 original size:91 final size:90
Alignment explanation
Indices: 9948207--9948385 Score: 349
Period size: 91 Copynumber: 2.0 Consensus size: 90
9948197 TTGTTTTGAC
9948207 TATATATATATATATATATATAAGTTATATACGTAAAGGATTTTAAAATCGGGAAACAAGCTCTT
1 TATATATATATATATATATATAAGTTATATACGTAAAGGATTTTAAAATCGGGAAACAAGCTCTT
9948272 TACCATGGTTTGTATCAAAATGTNTA
66 TACCATGGTTTGTATCAAAATGT-TA
9948298 TATATATATATATATATATATAAGTTATATACGTAAAGGATTTTAAAATCGGGAAACAAGCTCTT
1 TATATATATATATATATATATAAGTTATATACGTAAAGGATTTTAAAATCGGGAAACAAGCTCTT
9948363 TACCATGGTTTGTATCAAAATGT
66 TACCATGGTTTGTATCAAAATGT
9948386 GCCTTATTGG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (90 bp):
TATATATATATATATATATATAAGTTATATACGTAAAGGATTTTAAAATCGGGAAACAAGCTCTT
TACCATGGTTTGTATCAAAATGTTA
Found at i:9950140 original size:54 final size:54
Alignment explanation
Indices: 9950054--9950286 Score: 358
Period size: 54 Copynumber: 4.3 Consensus size: 54
9950044 AAAACATTTT
*
9950054 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAT
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
* * * * *
9950108 ATCTCACCCAACTCATGTGCATCCCACAACATCGTGGACATAACTGGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
* * *
9950162 ATCGCACCCAGCTCATGCGCATCCCACCACATCGTGCACATAGCCAGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
*
9950216 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
* *
9950270 ATTTCACCCATCTCATG
1 ATCTCACCCAGCTCATG
9950287 CACGGTTACA
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 159 1.00
ACGTcount: A:0.27, C:0.40, G:0.14, T:0.18
Consensus pattern (54 bp):
ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
Found at i:9950191 original size:30 final size:30
Alignment explanation
Indices: 9950156--9950249 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
9950146 CATAACTGGA
9950156 CACCACATCGCACCCAGCTCATGCGCATCC
1 CACCACATCGCACCCAGCTCATGCGCATCC
** * **
9950186 CACCACATCGTGCACA--T-A-GC-CA-GA
1 CACCACATCGCACCCAGCTCATGCGCATCC
* *
9950210 CACCACATCTCACCCAGCTCATGTGCATCC
1 CACCACATCGCACCCAGCTCATGCGCATCC
9950240 CACCACATCG
1 CACCACATCG
9950250 TGCACATAGT
Statistics
Matches: 45, Mismatches: 13, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
24 12 0.27
25 2 0.04
26 3 0.07
27 2 0.04
28 2 0.04
29 2 0.04
30 22 0.49
ACGTcount: A:0.27, C:0.46, G:0.13, T:0.15
Consensus pattern (30 bp):
CACCACATCGCACCCAGCTCATGCGCATCC
Found at i:9960558 original size:26 final size:23
Alignment explanation
Indices: 9960529--9960576 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9960519 TTTTTGCTAC
9960529 AATTTTGGAGGAAGAAGAAAGCTGAA
1 AATTTT-GAGGAAG--GAAAGCTGAA
*
9960555 AATTTTGAGGTAGGAAAGCTGA
1 AATTTTGAGGAAGGAAAGCTGA
9960577 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.23
Consensus pattern (23 bp):
AATTTTGAGGAAGGAAAGCTGAA
Found at i:9960781 original size:13 final size:13
Alignment explanation
Indices: 9960763--9960787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9960753 TGTTGCCAAT
9960763 TTGTGCAGAAAAA
1 TTGTGCAGAAAAA
9960776 TTGTGCAGAAAA
1 TTGTGCAGAAAA
9960788 CTTTGAGCTG
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:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
TTGTGCAGAAAAA
Found at i:9960836 original size:23 final size:23
Alignment explanation
Indices: 9960776--9960895 Score: 150
Period size: 23 Copynumber: 5.1 Consensus size: 23
9960766 TGCAGAAAAA
* *
9960776 TTGTGCAGAAAACTTTGAGCTGT
1 TTGTGCAGAAAAATTGGAGCTGT
**
9960799 TTGCTATAGAAAAATTGGAGCTGT
1 TTG-TGCAGAAAAATTGGAGCTGT
*
9960823 TTGTGCAGAAAAATTGGAGTTGT
1 TTGTGCAGAAAAATTGGAGCTGT
*
9960846 TTGCTGCAGAAAAATTGAAGCTGT
1 TTG-TGCAGAAAAATTGGAGCTGT
* *
9960870 TTGTGCAGAAAAATTAGAGCTAT
1 TTGTGCAGAAAAATTGGAGCTGT
9960893 TTG
1 TTG
9960896 CTGCCAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 43 0.52
24 40 0.48
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (23 bp):
TTGTGCAGAAAAATTGGAGCTGT
Found at i:9960898 original size:47 final size:47
Alignment explanation
Indices: 9960776--9960899 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
9960766 TGCAGAAAAA
* * ** *
9960776 TTGTGCAGAAAACTTTGAGCTGTTTGCTATAGAAAAATTGGAGCTGT
1 TTGTGCAGAAAAATTAGAGCTGTTTGCTGCAGAAAAATTGAAGCTGT
* *
9960823 TTGTGCAGAAAAATTGGAGTTGTTTGCTGCAGAAAAATTGAAGCTGT
1 TTGTGCAGAAAAATTAGAGCTGTTTGCTGCAGAAAAATTGAAGCTGT
*
9960870 TTGTGCAGAAAAATTAGAGCTATTTGCTGC
1 TTGTGCAGAAAAATTAGAGCTGTTTGCTGC
9960900 CAATTTGTGC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (47 bp):
TTGTGCAGAAAAATTAGAGCTGTTTGCTGCAGAAAAATTGAAGCTGT
Found at i:9961122 original size:16 final size:17
Alignment explanation
Indices: 9961091--9961135 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
9961081 GAGTGACGGT
9961091 GAAAGAGAGAAAAAAGAAA
1 GAAAGA-AG-AAAAAGAAA
9961110 GAAA-AAGAAAAAGAAA
1 GAAAGAAGAAAAAGAAA
9961126 GAAAGAAGAA
1 GAAAGAAGAA
9961136 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.52
17 7 0.28
18 1 0.04
19 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAGAAGAAAAAGAAA
Found at i:9961134 original size:11 final size:11
Alignment explanation
Indices: 9961091--9961135 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
9961081 GAGTGACGGT
*
9961091 GAAAGAGAGAA
1 GAAAGAAAGAA
*
9961102 AAAAGAAAGAA
1 GAAAGAAAGAA
9961113 -AAAGAAA-AA
1 GAAAGAAAGAA
9961122 GAAAGAAAGAA
1 GAAAGAAAGAA
9961133 GAA
1 GAA
9961136 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 14 0.47
11 14 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:9964121 original size:54 final size:53
Alignment explanation
Indices: 9963943--9964121 Score: 268
Period size: 54 Copynumber: 3.3 Consensus size: 53
9963933 AAAACATTTT
* * *
9963943 ATCTCACCCAACTCATATGCATCCCACCACATAGTGCACATAGCTGGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGC-GGACACCAC
* * *
9963997 ATCGCACCTAGCTCATTTGCATCCCACCACATCGTGCACATAGCCGGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG-CGGACACCAC
*
9964051 ATCTCACCCAGTTCATGTGCATCCCACCACATCGTGCACATAGTCGGACACCAC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAG-CGGACACCAC
9964105 ATCTCACCCAGCTCATG
1 ATCTCACCCAGCTCATG
9964122 CACGATTACA
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 112 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (53 bp):
ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCGGACACCAC
Found at i:9964176 original size:2 final size:2
Alignment explanation
Indices: 9964163--9964192 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9964153 TTATGACATA
*
9964163 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9964193 CAACATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9967647 original size:43 final size:43
Alignment explanation
Indices: 9967577--9967695 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
9967567 GTAATTATGT
*
9967577 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* *
9967620 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* *
9967663 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
9967696 GAGCTGGTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:9978716 original size:20 final size:20
Alignment explanation
Indices: 9978669--9978718 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
9978659 GATGGGAGGA
*
9978669 GGAAGAA-GAGGAAGTTGCT
1 GGAAGAATGAGGAAGCTGCT
*
9978688 GG-AGAAATGTGGAAGCTGCT
1 GGAAG-AATGAGGAAGCTGCT
9978708 GGAAGAATGAG
1 GGAAGAATGAG
9978719 ATTTTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 4 0.16
20 17 0.68
21 2 0.08
ACGTcount: A:0.36, C:0.06, G:0.42, T:0.16
Consensus pattern (20 bp):
GGAAGAATGAGGAAGCTGCT
Found at i:9979855 original size:71 final size:70
Alignment explanation
Indices: 9979734--9979916 Score: 249
Period size: 71 Copynumber: 2.6 Consensus size: 70
9979724 CAAAGTGCAC
* * * * *
9979734 ACATTCTAGTCCAAGATCGACAATAAACCCTCTATAGTCGATCCAATGAAGGAAAAATACATGAA
1 ACATTCTAGT-CAAGATCGACTATAGACCCTCTATAGTCAATCCAATGAAGGAAAAACAAATGAA
9979799 ACACGA
65 ACACGA
***
9979805 ACATTCTAGTCTAAGATCGACTATAGACCCTCTATAGTCAATCTTGTGAAGGAAAAACAAATGAA
1 ACATTCTAGTC-AAGATCGACTATAGACCCTCTATAGTCAATCCAATGAAGGAAAAACAAATGAA
*
9979870 ACATGA
65 ACACGA
*
9979876 ACATTCTAGTCCAGAATCGACTATAGACCCTCTATAGTCAA
1 ACATTCTAGTCAAG-ATCGACTATAGACCCTCTATAGTCAA
9979917 CCCTAGATTG
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
70 3 0.03
71 97 0.97
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (70 bp):
ACATTCTAGTCAAGATCGACTATAGACCCTCTATAGTCAATCCAATGAAGGAAAAACAAATGAAA
CACGA
Found at i:9985754 original size:57 final size:57
Alignment explanation
Indices: 9985661--9985781 Score: 181
Period size: 57 Copynumber: 2.1 Consensus size: 57
9985651 TCAGCATATT
* *
9985661 AGCAACAGATTTTATTTTTGACAGTCAAAATATCAAAATATCAGCAAACTTTAGTTC
1 AGCAACAGATTTTATTTATGACAGTCAAAATATCAAAACATCAGCAAACTTTAGTTC
* * * *
9985718 AGCAGCAGATTTTGTTTATGACAGTCAAAATATCAAAACATCAGCAGACTTTAGTTT
1 AGCAACAGATTTTATTTATGACAGTCAAAATATCAAAACATCAGCAAACTTTAGTTC
9985775 A-CAACAG
1 AGCAACAG
9985782 TTAAATATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 5 0.09
57 52 0.91
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (57 bp):
AGCAACAGATTTTATTTATGACAGTCAAAATATCAAAACATCAGCAAACTTTAGTTC
Found at i:9985782 original size:40 final size:39
Alignment explanation
Indices: 9985720--9985798 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
9985710 TTTAGTTCAG
* **
9985720 CAGCAGATTTTGTTTATGACAGTCAAAATATCA-AAACAT
1 CAGCAGATTTAGTTTACAACAGT-AAAATATCATAAACAT
*
9985759 CAGCAGACTTTAGTTTACAACAGTTAAATATCATAAACAT
1 CAGCAGA-TTTAGTTTACAACAGTAAAATATCATAAACAT
9985799 ATCAACATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 15 0.44
40 19 0.56
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (39 bp):
CAGCAGATTTAGTTTACAACAGTAAAATATCATAAACAT
Found at i:9998188 original size:23 final size:23
Alignment explanation
Indices: 9998158--9998211 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
9998148 TTTATTGTAT
9998158 GGTGGGTTTAGCTTGCTATAGTA
1 GGTGGGTTTAGCTTGCTATAGTA
9998181 GGTGGGTTTAGCTTGCTATAGTA
1 GGTGGGTTTAGCTTGCTATAGTA
9998204 GGTGGGTT
1 GGTGGGTT
9998212 CTGTGGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.15, C:0.07, G:0.39, T:0.39
Consensus pattern (23 bp):
GGTGGGTTTAGCTTGCTATAGTA
Found at i:9999544 original size:34 final size:34
Alignment explanation
Indices: 9999506--9999605 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
9999496 TCACCAAGCT
*
9999506 TTTACAATGGCTTTTCACAGGCTCAACCAAAACC
1 TTTACAATGGTTTTTCACAGGCTCAACCAAAACC
* * * *
9999540 TTTACACTAGTTTTTCACGGGCTCAACTAAAACC
1 TTTACAATGGTTTTTCACAGGCTCAACCAAAACC
* *
9999574 --CA-AAGTGGTTTTTCA-AGGCTCAACCACAACC
1 TTTACAA-TGGTTTTTCACAGGCTCAACCAAAACC
9999605 T
1 T
9999606 ATAACATTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
31 14 0.26
32 10 0.19
34 29 0.55
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (34 bp):
TTTACAATGGTTTTTCACAGGCTCAACCAAAACC
Found at i:10000810 original size:21 final size:21
Alignment explanation
Indices: 10000786--10000826 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10000776 ACACATATAT
10000786 CCTTGTCTAAATTAAAACAAC
1 CCTTGTCTAAATTAAAACAAC
* *
10000807 CCTTGTCTTAATTAAGACAA
1 CCTTGTCTAAATTAAAACAA
10000827 AATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (21 bp):
CCTTGTCTAAATTAAAACAAC
Found at i:10000897 original size:29 final size:29
Alignment explanation
Indices: 10000855--10000920 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
10000845 TTAAGACAAT
* *
10000855 TCTTGTCTTAATTAAGACAACCTATAAAC
1 TCTTGTCTAAATTAAGACAACATATAAAC
10000884 TCTTGTCTAAATTAAGACAACATATAAAC
1 TCTTGTCTAAATTAAGACAACATATAAAC
10000913 TCTTGTCT
1 TCTTGTCT
10000921 TAATAAACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAACATATAAAC
Found at i:10004406 original size:2 final size:2
Alignment explanation
Indices: 10004399--10004437 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10004389 TCATGGAAAG
10004399 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10004438 TAAACTTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10014136 original size:35 final size:35
Alignment explanation
Indices: 10014072--10014235 Score: 181
Period size: 35 Copynumber: 4.7 Consensus size: 35
10014062 GTACTCTCCT
* * *
10014072 AGGATGTAAAATACTACTAGCGCTAGTATTTTCCTG
1 AGGATGTAAAATACTACTAGTGCTTGTATTCT-CTG
* *
10014108 A-GATGTGAAAA-ACTACTAGTTCTTGTATTCTCTT
1 AGGATGT-AAAATACTACTAGTGCTTGTATTCTCTG
* * * *
10014142 AGGACGTAAAATACCACTAGTGCTTGCATTTTCCT-
1 AGGATGTAAAATACTACTAGTGCTTGTATTCT-CTG
* *
10014177 TGGATGTAAAATACTACTAGTGCTTGTATTCTCTT
1 AGGATGTAAAATACTACTAGTGCTTGTATTCTCTG
10014212 AGGATGTAAAATACTACTAGTGCT
1 AGGATGTAAAATACTACTAGTGCT
10014236 AATTTTGTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
34 9 0.08
35 91 0.85
36 7 0.07
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (35 bp):
AGGATGTAAAATACTACTAGTGCTTGTATTCTCTG
Found at i:10014173 original size:70 final size:70
Alignment explanation
Indices: 10014060--10014236 Score: 250
Period size: 70 Copynumber: 2.5 Consensus size: 70
10014050 GCAAATGGTG
* * * *
10014060 TTGTACTCTCCTAGGATGTAAAATACTACTAGCGCTAGTATTTTCC-TGAGATGTGAAAA-ACTA
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTG-GATGT-AAAATACTA
*
10014123 CTAGTTC
64 CTAGTGC
* * *
10014130 TTGTATTCTCTTAGGACGTAAAATACCACTAGTGCTTGCATTTTCCTTGGATGTAAAATACTACT
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTGGATGTAAAATACTACT
10014195 AGTGC
66 AGTGC
10014200 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTA
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTA
10014237 ATTTTGTTTG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 4 0.04
70 88 0.94
71 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (70 bp):
TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTGGATGTAAAATACTACT
AGTGC
Found at i:10018673 original size:13 final size:13
Alignment explanation
Indices: 10018655--10018679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10018645 ATAAAAATGC
10018655 AAACTTTTGTTTA
1 AAACTTTTGTTTA
10018668 AAACTTTTGTTT
1 AAACTTTTGTTT
10018680 TTTTGGGTTT
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
AAACTTTTGTTTA
Found at i:10019814 original size:17 final size:17
Alignment explanation
Indices: 10019783--10019816 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10019773 AAGGAATAAC
10019783 TATTCTTAAATATTAGT
1 TATTCTTAAATATTAGT
10019800 TATTCCTTAAA-ATTAGT
1 TATT-CTTAAATATTAGT
10019817 CAAAAGCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (17 bp):
TATTCTTAAATATTAGT
Found at i:10020794 original size:20 final size:19
Alignment explanation
Indices: 10020766--10020840 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 19
10020756 TATTTTAATC
10020766 ATAATAATATTTAAATTATAA
1 ATAA-AATA-TTAAATTATAA
* *
10020787 ATAAAATATTAGTATTTTAAA
1 ATAAAATATTA-AATTAT-AA
*
10020808 ATATTAATGATTAAATTATAA
1 ATA-AAAT-ATTAAATTATAA
10020829 ATAAAATATTAA
1 ATAAAATATTAA
10020841 TATTTATGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.18
20 11 0.25
21 14 0.32
22 7 0.16
23 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAAAATATTAAATTATAA
Found at i:10020857 original size:42 final size:41
Alignment explanation
Indices: 10020750--10020887 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 41
10020740 TAATTAGAAT
* * *
10020750 TATTATTATTTTAATCATAATAATATTTAAATTATAAATAAAA
1 TATTAATATTTTAA-AATATTAATA-TTAAATTATAAATAAAA
*
10020793 TATTAGTATTTTAAAATATTAATGATTAAATTATAAATAAAA
1 TATTAATATTTTAAAATATTAAT-ATTAAATTATAAATAAAA
* * *
10020835 TATTAATA-TTTATGAATGTTAATATCTAAATTAT---T-AAT
1 TATTAATATTTTA-AAATATTAATAT-TAAATTATAAATAAAA
10020873 TATTAATATTTTAAA
1 TATTAATATTTTAAA
10020888 TAAATTATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
38 11 0.13
39 5 0.06
41 6 0.07
42 47 0.57
43 14 0.17
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (41 bp):
TATTAATATTTTAAAATATTAATATTAAATTATAAATAAAA
Found at i:10020895 original size:27 final size:27
Alignment explanation
Indices: 10020804--10020917 Score: 101
Period size: 27 Copynumber: 4.2 Consensus size: 27
10020794 ATTAGTATTT
* * *
10020804 TAAAATATTAATGATTAA-ATTATAAA
1 TAAATTATTAATTATTAATATTTTAAA
* * *
10020830 TAAAATATTAA-TATTTATGAATGTTAATA
1 TAAATTATTAATTATTAAT--ATTTTAA-A
10020859 TCTAAATTATTAATTATTAATATTTTAAA
1 --TAAATTATTAATTATTAATATTTTAAA
10020888 TAAATTATTAATTATTAATA-TTTAAA
1 TAAATTATTAATTATTAATATTTTAAA
10020914 -AAAT
1 TAAAT
10020918 ACAATAAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
25 8 0.11
26 17 0.23
27 20 0.27
28 5 0.07
29 2 0.03
30 6 0.08
31 10 0.14
32 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (27 bp):
TAAATTATTAATTATTAATATTTTAAA
Found at i:10020927 original size:27 final size:27
Alignment explanation
Indices: 10020861--10020928 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
10020851 TGTTAATATC
* *
10020861 TAAATTATTAATTATTAATATTTTAAA
1 TAAATAATAAATTATTAATATTTTAAA
* *
10020888 TAAATTATTAATTATTAATA-TTTAAA
1 TAAATAATAAATTATTAATATTTTAAA
10020914 -AAATACAATAAATTA
1 TAAAT--AATAAATTA
10020929 AAATAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 4 0.11
26 6 0.16
27 27 0.73
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAATAATAAATTATTAATATTTTAAA
Found at i:10032897 original size:28 final size:28
Alignment explanation
Indices: 10032865--10032946 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 28
10032855 TTCTTATGGG
*
10032865 TTAAAAGTATTAATCCACTCCTGGTGGA
1 TTAAAAGTATTCATCCACTCCTGGTGGA
* *
10032893 TTAAAAGTATTCATCTACTCCTAGTGGA
1 TTAAAAGTATTCATCCACTCCTGGTGGA
* *
10032921 -TAAAAGTATCCATCCATTCCTGGTGG
1 TTAAAAGTATTCATCCACTCCTGGTGG
10032947 GTAAAATTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (28 bp):
TTAAAAGTATTCATCCACTCCTGGTGGA
Found at i:10032934 original size:27 final size:27
Alignment explanation
Indices: 10032866--10032957 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
10032856 TCTTATGGGT
*
10032866 TAAAAGTATTAATCCACTCCTGGTGGA
1 TAAAAGTATTCATCCACTCCTGGTGGA
* *
10032893 TTAAAAGTATTCATCTACTCCTAGTGGA
1 -TAAAAGTATTCATCCACTCCTGGTGGA
* * *
10032921 TAAAAGTATCCATCCATTCCTGGTGGG
1 TAAAAGTATTCATCCACTCCTGGTGGA
*
10032948 TAAAATTATT
1 TAAAAGTATT
10032958 TTTAGAATTA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 30 0.56
28 24 0.44
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (27 bp):
TAAAAGTATTCATCCACTCCTGGTGGA
Found at i:10037331 original size:16 final size:17
Alignment explanation
Indices: 10037303--10037336 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10037293 AATTTATTAT
10037303 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
10037320 ATTAAAAA-ATATAAAA
1 ATTAAAAATATATAAAA
10037336 A
1 A
10037337 AAATAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:10037337 original size:9 final size:9
Alignment explanation
Indices: 10037301--10037342 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10037291 ATAATTTATT
*
10037301 ATATTAAAA
1 ATATAAAAA
10037310 ATATATAAAA
1 ATATA-AAAA
10037320 AT-TAAAAA
1 ATATAAAAA
10037328 ATATAAAAA
1 ATATAAAAA
*
10037337 AAATAA
1 ATATAA
10037343 TTGATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.21
9 17 0.59
10 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
ATATAAAAA
Found at i:10042408 original size:25 final size:25
Alignment explanation
Indices: 10042376--10042429 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10042366 CTTTTGAAAC
10042376 TAATGTTT-ATTTATTAT-ATAAAGAT
1 TAATGTTTAATTT-TT-TCATAAAGAT
10042401 TAATGTTTAATTTTTTCATAAAGAT
1 TAATGTTTAATTTTTTCATAAAGAT
10042426 TAAT
1 TAAT
10042430 ATTATTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 1 0.04
25 22 0.81
26 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (25 bp):
TAATGTTTAATTTTTTCATAAAGAT
Found at i:10046872 original size:20 final size:20
Alignment explanation
Indices: 10046847--10046899 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
10046837 CCAGAACACT
*
10046847 CTTAGTTGACTAAGATTCAC
1 CTTAGTCGACTAAGATTCAC
10046867 CTTAGTCGACTAAGATTCAC
1 CTTAGTCGACTAAGATTCAC
10046887 CTTAGTCGACTAA
1 CTTAGTCGACTAA
10046900 ATGCATTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (20 bp):
CTTAGTCGACTAAGATTCAC
Found at i:10060643 original size:23 final size:23
Alignment explanation
Indices: 10060616--10060671 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
10060606 GTTTAGAGTT
* *
10060616 TGTGAAACGGCATGTTGGGAATG
1 TGTGACACGGCATGGTGGGAATG
*
10060639 TGTGACACGACATGGTGGGAATG
1 TGTGACACGGCATGGTGGGAATG
10060662 TGTGACACGG
1 TGTGACACGG
10060672 TTGAGACACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.39, T:0.23
Consensus pattern (23 bp):
TGTGACACGGCATGGTGGGAATG
Found at i:10060753 original size:58 final size:58
Alignment explanation
Indices: 10060639--10060785 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 58
10060629 GTTGGGAATG
* * *** *
10060639 TGTGACACGACATGGTGGGAATGTGTGACACGGTTGAGACACGACAGGGTTTAGAGTT
1 TGTGACACGCCATGGTGGGAATGTGTGACACGGTTGAGACACAACAACATTCAGAGTT
* *
10060697 TGTGACACGCCATGGTGGGAATGTGTGACACTGTTGTGACA-AACCAACATTCAGAGTT
1 TGTGACACGCCATGGTGGGAATGTGTGACACGGTTGAGACACAA-CAACATTCAGAGTT
* * *
10060755 GGTGACACGCCATGGAGGGAATCTGTGACAC
1 TGTGACACGCCATGGTGGGAATGTGTGACAC
10060786 ACCAGAGTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 1 0.01
58 76 0.99
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.23
Consensus pattern (58 bp):
TGTGACACGCCATGGTGGGAATGTGTGACACGGTTGAGACACAACAACATTCAGAGTT
Found at i:10060797 original size:47 final size:47
Alignment explanation
Indices: 10060746--10060878 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 47
10060736 CAAACCAACA
10060746 TTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACACCAGAG
1 TTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACACCAGAG
* * * *
10060793 TTCAGAGTTGGTGACACGCCTTTGAGGAAATCTGTGACACACCAGCG
1 TTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACACCAGAG
* *
10060840 TTCAGAGTTCGTGACACGCCATGGAAGGAATCTGTGACA
1 TTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACA
10060879 TGCTAGCGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (47 bp):
TTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACACCAGAG
Found at i:10060890 original size:47 final size:47
Alignment explanation
Indices: 10060731--10060878 Score: 208
Period size: 47 Copynumber: 3.1 Consensus size: 47
10060721 GTGACACTGT
* * * *
10060731 TGTGACAAACCAACATTCAGAGTTGGTGACACGCCATGGAGGGAATC
1 TGTGACACACCAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATC
* * *
10060778 TGTGACACACCAGAGTTCAGAGTTGGTGACACGCCTTTG-AGGAAATC
1 TGTGACACACCAGCGTTCAGAGTTGGTGACACGCCATGGAAGG-AATC
*
10060825 TGTGACACACCAGCGTTCAGAGTTCGTGACACGCCATGGAAGGAATC
1 TGTGACACACCAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATC
10060872 TGTGACA
1 TGTGACA
10060879 TGCTAGCGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 2 0.02
47 83 0.94
48 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (47 bp):
TGTGACACACCAGCGTTCAGAGTTGGTGACACGCCATGGAAGGAATC
Found at i:10060909 original size:47 final size:47
Alignment explanation
Indices: 10060731--10060911 Score: 157
Period size: 47 Copynumber: 3.9 Consensus size: 47
10060721 GTGACACTGT
* * * * * * *
10060731 TGTGACAAACCAACATTCAGAGTTGGTGACACGCCATGGAGGGAATC
1 TGTGACACACCAGCGTTCAAAGTTCGTCACACGCCATGGAAGGAATC
* * * * * *
10060778 TGTGACACACCAGAGTTCAGAGTTGGTGACACGCCTTTG-AGGAAATC
1 TGTGACACACCAGCGTTCAAAGTTCGTCACACGCCATGGAAGG-AATC
* *
10060825 TGTGACACACCAGCGTTCAGAGTTCGTGACACGCCATGGAAGGAATC
1 TGTGACACACCAGCGTTCAAAGTTCGTCACACGCCATGGAAGGAATC
** * * * *
10060872 TGTGACATGCTAGCGTTCAAAGTTTGTCAGACTCCATGGA
1 TGTGACACACCAGCGTTCAAAGTTCGTCACACGCCATGGA
10060912 GATCCATGAC
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 2 0.02
47 108 0.96
48 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (47 bp):
TGTGACACACCAGCGTTCAAAGTTCGTCACACGCCATGGAAGGAATC
Found at i:10061613 original size:31 final size:31
Alignment explanation
Indices: 10061575--10061777 Score: 291
Period size: 31 Copynumber: 6.5 Consensus size: 31
10061565 GTGTCAGCGT
* *
10061575 TGGCGTGTTACAACATTTGAC-TTGATACGCA
1 TGGCGTGTTACAACATTTTACGTT-ATATGCA
*
10061606 TGGCGTGTTATAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
10061637 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
10061668 TGGCATGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
10061699 TGGCGTGTTACCACATTATACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
10061730 TGGTGTGTTACCACATTATACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
10061761 TGGCGTGTTACTACATT
1 TGGCGTGTTACAACATT
10061778 ATGGGTTAAC
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
31 156 0.99
32 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:10065601 original size:118 final size:118
Alignment explanation
Indices: 10065449--10065699 Score: 398
Period size: 118 Copynumber: 2.1 Consensus size: 118
10065439 CCACTCAACG
* *
10065449 TGTCACTCCATAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTACATGCACTCAGCT-TG
1 TGTCACCCCACAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTACATGCACTCAG-TGTG
* *
10065513 TCACGCTAACTATCTGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCA
65 TCACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCA
* * *
10065567 TGTCACCCCACAATA-ATGCAAGAAGTTAGCGTGTCACCATAGAAATCTGCATGCACTCAGTGTG
1 TGTCACCCCACAATACA-GCAAGAAGTCAGCGTGTCACCACAGAAATCTACATGCACTCAGTGTG
*
10065631 TCACGCCAATTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCA
65 TCACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCA
10065685 TGTCACCCCACAATA
1 TGTCACCCCACAATA
10065700 NTTTGCTTCC
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
117 2 0.02
118 121 0.98
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (118 bp):
TGTCACCCCACAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTACATGCACTCAGTGTGT
CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCA
Found at i:10065714 original size:58 final size:57
Alignment explanation
Indices: 10065527--10065758 Score: 218
Period size: 58 Copynumber: 4.0 Consensus size: 57
10065517 GCTAACTATC
* *
10065527 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATA-A
1 TGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATATT
**** * * * * ** * * * *
10065583 TGCAAGAAGTTAGCGTGTCACCATAGAAAT-CTGCATGCACTCAGTGTGTCACGCCA-ATTATC
1 TGCTTCCACTCAGCGTGTCACCACA-AGATGGGGCGTG--C-CA---TGTCACCCCACAATATT
10065645 TGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATANTT
1 TGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATA-TT
*
10065703 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATAT
1 TGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATAT
10065759 AGCAAGAACT
Statistics
Matches: 135, Mismatches: 30, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
56 30 0.22
57 7 0.05
58 56 0.41
59 4 0.03
60 1 0.01
61 6 0.04
62 31 0.23
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.22
Consensus pattern (57 bp):
TGCTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATATT
Found at i:10065742 original size:176 final size:174
Alignment explanation
Indices: 10065527--10065874 Score: 617
Period size: 176 Copynumber: 2.0 Consensus size: 174
10065517 GCTAACTATC
10065527 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATA-ATGCAAGAA
1 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATATA-GCAAGAA
* * * *
10065591 GTTAGCGTGTCACCATAGAAATCTGCATGCACTCAGTGTGTCACGCCAATTATCTGCTTCCACTC
65 CTTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAAGTA-CTGCTTCCACTC
10065656 AGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATANTT
129 AGCGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATA-TT
10065703 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATATAGCAAGAAC
1 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATATAGCAAGAAC
10065768 TTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAAGTACTGCTTCCACTCAG
66 TTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAAGTACTGCTTCCACTCAG
*
10065833 CGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAATA
131 CGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATA
10065875 CTGCAAGAAG
Statistics
Matches: 166, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
175 55 0.33
176 110 0.66
177 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (174 bp):
TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATATAGCAAGAAC
TTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAAGTACTGCTTCCACTCAG
CGTGTCACCACAAGATGGGGCGTGCCATGTCACCCCACAATATT
Found at i:10065991 original size:118 final size:116
Alignment explanation
Indices: 10065703--10066044 Score: 531
Period size: 117 Copynumber: 2.9 Consensus size: 116
10065693 CACAATANTT
* * *
10065703 TGCTTCCACTCAGCGTGTCACCCCAAGATGGGGCGTGCCATGTCACCCCACAATATAGCAAGAAC
1 TGCTTCCACTCAGCGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAATAT-GCAAGAAG
* * *
10065768 TTAGCATGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAAGTAC
65 TCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAACTAC
10065820 TGCTTCCACTCAGCGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAATACTGCAAGAAG
1 TGCTTCCACTCAGCGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAATA-TGCAAGAAG
* * *
10065885 TCAGCGTGTCATCACAGAAATCTGCATGCACTCAGCTTGTCACGCCAACTATC
65 TCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAACTA-C
* * *
10065938 TGGTTCCACTCAACGTGTCACCACAAGGTGGTGCGTGCCATGTCACCCCACAATAATGCAAGAAG
1 TGCTTCCACTCAGCGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAAT-ATGCAAGAAG
*
10066003 TCAGCGTGTCACCATAGAAATCTACATGCACTCAGCGTGTCA
65 TCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCA
10066045 ACTTAGCATA
Statistics
Matches: 206, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
117 105 0.51
118 100 0.49
119 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (116 bp):
TGCTTCCACTCAGCGTGTCACCACAAGGTGGGGCGTGCCATGTCACCCCACAATATGCAAGAAGT
CAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGCCAACTAC
Done.