Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 41 of 130
Found at i:9863086 original size:35 final size:33
Alignment explanation
Indices: 9863047--9863185 Score: 93
Period size: 35 Copynumber: 3.9 Consensus size: 33
9863037 ACGAATAAAC
9863047 CGAGACAACACTATAGCTCAAAAAATAAAGATAA
1 CGAGACAACACTATAG-TCAAAAAATAAAGATAA
* *
9863081 TCGAGACAAC-GTCGTAGATCAAAAAAATAAAGATAA
1 -CGAGACAACACT-ATAG-TC-AAAAAATAAAGATAA
* * * *
9863117 CTAGGACAACACCAATTGTCAAAAAATAAATATAA
1 CGA-GACAACA-CTATAGTCAAAAAATAAAGATAA
* *
9863152 CCAGGATAACACTGCA-AGTCAAAAAAATAAAGAT
1 CGA-GACAACACT--ATAGTC-AAAAAATAAAGAT
9863186 CAACAGGACA
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
34 2 0.02
35 42 0.51
36 36 0.44
37 2 0.02
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.17
Consensus pattern (33 bp):
CGAGACAACACTATAGTCAAAAAATAAAGATAA
Found at i:9863139 original size:36 final size:35
Alignment explanation
Indices: 9863099--9863262 Score: 140
Period size: 36 Copynumber: 4.7 Consensus size: 35
9863089 ACGTCGTAGA
*
9863099 TCAAAAAAATAAAGATAACTAGGACAACACCAATTG
1 TCAAAAAAATAAAGATAACTAGGACAACACCAA-GG
* * *
9863135 TC-AAAAAATAAATATAACCAGGATAACACTGCAA-G
1 TCAAAAAAATAAAGATAACTAGGACAACAC--CAAGG
*
9863170 TCAAAAAAATAAAGATCAAC-AGGAC-ACAAC-AGG
1 TCAAAAAAATAAAGAT-AACTAGGACAACACCAAGG
* * * *
9863203 TCAAAAAAATAAAAATGATTGGGACAACACCAATGG
1 TCAAAAAAATAAAGATAACTAGGACAACACCAA-GG
** *
9863239 TTGAAAAAATAAAGATGACTAGGA
1 TCAAAAAAATAAAGATAACTAGGA
9863263 TGACACTAAC
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
32 2 0.02
33 21 0.20
34 4 0.04
35 31 0.30
36 39 0.38
37 6 0.06
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.16
Consensus pattern (35 bp):
TCAAAAAAATAAAGATAACTAGGACAACACCAAGG
Found at i:9863328 original size:36 final size:35
Alignment explanation
Indices: 9863278--9863375 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 35
9863268 CTAACAATTG
* * *
9863278 AAAAATAAATATGACTGTGATAACATTGTAAGTCAA
1 AAAAATAAA-ATGACTGAGACAACACTGTAAGTCAA
* *
9863314 AAAAATAAAGATGACTGAGACAACACTGTAGGTTAA
1 AAAAATAAA-ATGACTGAGACAACACTGTAAGTCAA
* * *
9863350 AAATATTAAAATGACTGGGACGACAC
1 AAA-AATAAAATGACTGAGACAACAC
9863376 CAACGATTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 47 0.90
37 5 0.10
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.22
Consensus pattern (35 bp):
AAAAATAAAATGACTGAGACAACACTGTAAGTCAA
Found at i:9863412 original size:143 final size:140
Alignment explanation
Indices: 9863102--9863413 Score: 321
Period size: 140 Copynumber: 2.2 Consensus size: 140
9863092 TCGTAGATCA
* *
9863102 AAAAAATAAAGATAACTAGGACAACAC---CAATTGTCAAAAAATAAATATAACCAGGATAACAC
1 AAAAAATAAAGATGACTAGGATAACACTAACAATTG---AAAAATAAATATAACCAGGATAACAC
*
9863164 TGCAAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGATTGGGACA
63 TGCAAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGACTGGGACA
* *
9863229 ACACCAATGGTTG
128 ACACCAACGATTG
* * * *
9863242 AAAAAATAAAGATGACTAGGATGACACTAACAATTGAAAAATAAATATGA-CTGTGATAACATTG
1 AAAAAATAAAGATGACTAGGATAACACTAACAATTGAAAAATAAATATAACCAG-GATAACACTG
* * * * * *
9863306 TAAGTCAAAAAAATAAAGAT-GACTGAGACA-ACACTGTAGGTTAAAAATATTAAAATGACTGGG
65 CAAGTCAAAAAAATAAAGATCAACAG-GACACA-AC---AGGTCAAAAAAATAAAAATGACTGGG
*
9863369 ACGACACCAACGATTG
125 ACAACACCAACGATTG
* * * *
9863385 AAAAGATAAATATGATTGGGATAACACTA
1 AAAAAATAAAGATGACTAGGATAACACTA
9863414 CAAGTCAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
139 6 0.04
140 71 0.50
143 65 0.46
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (140 bp):
AAAAAATAAAGATGACTAGGATAACACTAACAATTGAAAAATAAATATAACCAGGATAACACTGC
AAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGACTGGGACAACA
CCAACGATTG
Found at i:9863425 original size:143 final size:141
Alignment explanation
Indices: 9863102--9863447 Score: 344
Period size: 143 Copynumber: 2.5 Consensus size: 141
9863092 TCGTAGATCA
* * * ** *
9863102 AAAAAATAAAGATAACTAGGACAACACCAA-TTGTCAAAAAATAAATATAACCAGGATAACACTG
1 AAAAAATAAAGATGACTAGGATAACACTAACAAGTCAAAAAATAAATATGACCAGGATAACACTG
*
9863166 CAAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGATTGGGACAAC
66 CAAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGACTGGGACAAC
* *
9863231 ACCAATGGTTG
131 ACCAACGATTG
* ** * *
9863242 AAAAAATAAAGATGACTAGGATGACACTAACAA-TTGAAAAATAAATATGA-CTGTGATAACATT
1 AAAAAATAAAGATGACTAGGATAACACTAACAAGTCAAAAAATAAATATGACCAG-GATAACACT
* * * * * *
9863305 GTAAGTCAAAAAAATAAAGAT-GACTGAGACA-ACACTGTAGGTTAAAAATATTAAAATGACTGG
65 GCAAGTCAAAAAAATAAAGATCAACAG-GACACA-AC---AGGTCAAAAAAATAAAAATGACTGG
*
9863368 GACGACACCAACGATTG
125 GACAACACCAACGATTG
* * * * * * *
9863385 AAAAGATAAATATGATTGGGATAACACT-ACAAGTCAAAAAATAAAGATGATCGGGATAACACT
1 AAAAAATAAAGATGACTAGGATAACACTAACAAGTCAAAAAATAAATATGACCAGGATAACACT
9863448 ATCAATCAAT
Statistics
Matches: 166, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
139 6 0.04
140 74 0.45
142 4 0.02
143 80 0.48
144 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.19
Consensus pattern (141 bp):
AAAAAATAAAGATGACTAGGATAACACTAACAAGTCAAAAAATAAATATGACCAGGATAACACTG
CAAGTCAAAAAAATAAAGATCAACAGGACACAACAGGTCAAAAAAATAAAAATGACTGGGACAAC
ACCAACGATTG
Found at i:9863429 original size:35 final size:35
Alignment explanation
Indices: 9863385--9863467 Score: 114
Period size: 35 Copynumber: 2.3 Consensus size: 35
9863375 CCAACGATTG
* *
9863385 AAAAGATAAATATGATTGGGATAACACTA-CAAGTC
1 AAAAGATAAAGATGATCGGGATAACACTATCAA-TC
*
9863420 AAAAAATAAAGATGATCGGGATAACACTATCAATC
1 AAAAGATAAAGATGATCGGGATAACACTATCAATC
9863455 AATAAGATAAAGA
1 AA-AAGATAAAGA
9863468 ATAAAGTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.71
36 12 0.29
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (35 bp):
AAAAGATAAAGATGATCGGGATAACACTATCAATC
Found at i:9863446 original size:107 final size:108
Alignment explanation
Indices: 9863193--9863447 Score: 279
Period size: 107 Copynumber: 2.4 Consensus size: 108
9863183 GATCAACAGG
* * * *
9863193 ACACAACAGGTCAAAAAAATAAAAATGATTGGGACAACAC-CAATGGTTGAAAAAATAAAGATGA
1 ACACTACAAGTCAAAAAAATAAAGATGATCGGGACAACACTCAATGGTTGAAAAAATAAAGATGA
* * *
9863257 CTAGGATGACACTAACAATTGAAAAATAAATATGACTGTGATA
66 CTAGGACGACACCAACAATTGAAAAATAAATATGACTGGGATA
* ** * **
9863300 ACATTGTAAGTCAAAAAAATAAAGATGA-CTGAGACAACACTGTA-GGTT-AAAAATATTAAA-A
1 ACACTACAAGTCAAAAAAATAAAGATGATC-GGGACAACACTCAATGGTTGAAAAA-A-TAAAGA
* * *
9863361 TGACTGGGACGACACCAACGATTGAAAAGATAAATATGATTGGGATA
63 TGACTAGGACGACACCAACAATTGAAAA-ATAAATATGACTGGGATA
*
9863408 ACACTACAAGTC-AAAAAATAAAGATGATCGGGATAACACT
1 ACACTACAAGTCAAAAAAATAAAGATGATCGGGACAACACT
9863448 ATCAATCAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
106 5 0.04
107 85 0.70
108 31 0.26
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (108 bp):
ACACTACAAGTCAAAAAAATAAAGATGATCGGGACAACACTCAATGGTTGAAAAAATAAAGATGA
CTAGGACGACACCAACAATTGAAAAATAAATATGACTGGGATA
Found at i:9864475 original size:46 final size:49
Alignment explanation
Indices: 9864412--9864505 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 49
9864402 TTTGAATCTC
***
9864412 TTTTTTAGATTGCCCTTTTTGGGTTTTTAGTCTAAATCATTT-TTTTTA
1 TTTTTTAGATTGCCCTTTTCAAGTTTTTAGTCTAAATCATTTCTTTTTA
* *
9864460 TTTTTT-GA-TGCCCTTTTCAAGTTTTTAGTTTGAATCATTTCTTTTT
1 TTTTTTAGATTGCCCTTTTCAAGTTTTTAGTCTAAATCATTTCTTTTT
9864506 CTTTCTTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
46 27 0.68
47 7 0.17
48 6 0.15
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.61
Consensus pattern (49 bp):
TTTTTTAGATTGCCCTTTTCAAGTTTTTAGTCTAAATCATTTCTTTTTA
Found at i:9870388 original size:21 final size:21
Alignment explanation
Indices: 9870337--9870390 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 21
9870327 ATAGTAATAA
9870337 GATAACCCTTCATCACCTATG
1 GATAACCCTTCATCACCTATG
9870358 GAT-A-----CATCACCTATG
1 GATAACCCTTCATCACCTATG
9870373 GATAACCCTTCATCACCT
1 GATAACCCTTCATCACCT
9870391 TATACTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
15 14 0.52
16 1 0.04
20 1 0.04
21 11 0.41
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (21 bp):
GATAACCCTTCATCACCTATG
Found at i:9870511 original size:183 final size:183
Alignment explanation
Indices: 9870203--9870547 Score: 663
Period size: 183 Copynumber: 1.9 Consensus size: 183
9870193 TTAATTCTTG
*
9870203 CACCTTATACTTCAAAGCTATGCAATTTTCATTAGAATGGTCGGCCACACCATAATGATAATCAC
1 CACCTTATACTTCAAAGCTATGCAATTTTCATTAGAATGGCCGGCCACACCATAATGATAATCAC
9870268 ATTTAGCATTAGGGTCATACCATTTTGGATACGGTGGCTTCAATTGCACTATTTACTTTATAGTA
66 ATTTAGCATTAGGGTCATACCATTTTGGATACGGTGGCTTCAATTGCACTATTTACTTTATAGTA
9870333 ATAAGATAACCCTTCATCACCTATGGATACATCACCTATGGATAACCCTTCAT
131 ATAAGATAACCCTTCATCACCTATGGATACATCACCTATGGATAACCCTTCAT
*
9870386 CACCTTATACTTCAAAGTTATGCAATTTTCATTAGAATGGCCGGCCACACCATAATGATAATCAC
1 CACCTTATACTTCAAAGCTATGCAATTTTCATTAGAATGGCCGGCCACACCATAATGATAATCAC
*
9870451 ATTTAGCATTAGGGTCATACCATTTTGGATATGGTGGCTTCAATTGCACTATTTACTTTATAGTA
66 ATTTAGCATTAGGGTCATACCATTTTGGATACGGTGGCTTCAATTGCACTATTTACTTTATAGTA
9870516 ATAAGATAACCCTTCATCACCTATGGATACAT
131 ATAAGATAACCCTTCATCACCTATGGATACAT
9870548 GCTGGTGTAT
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 159 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (183 bp):
CACCTTATACTTCAAAGCTATGCAATTTTCATTAGAATGGCCGGCCACACCATAATGATAATCAC
ATTTAGCATTAGGGTCATACCATTTTGGATACGGTGGCTTCAATTGCACTATTTACTTTATAGTA
ATAAGATAACCCTTCATCACCTATGGATACATCACCTATGGATAACCCTTCAT
Found at i:9874675 original size:12 final size:14
Alignment explanation
Indices: 9874660--9874704 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 14
9874650 CAATAATATC
9874660 ATAAAT-AA-ATAA
1 ATAAATCAACATAA
9874672 ATAAATCAACAT-A
1 ATAAATCAACATAA
9874685 A-AAATCAACATAAA
1 ATAAATCAACAT-AA
9874699 ATAAAT
1 ATAAAT
9874705 AAAATCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 16 0.57
13 4 0.14
14 4 0.14
15 4 0.14
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAATCAACATAA
Found at i:9875795 original size:39 final size:39
Alignment explanation
Indices: 9875729--9875901 Score: 222
Period size: 39 Copynumber: 4.4 Consensus size: 39
9875719 GGCTACAAAG
* *
9875729 CTTTAAATTCAAAAAAGCTCCTCTCACTAGAGGTAATGAA
1 CTTTAAATTC-AAAAAGCTCCTTTCACCAGAGGTAATGAA
* * *
9875769 CTTTAAATTCAAAAAGTTCCTTTCACTAGAGGCAATGAA
1 CTTTAAATTCAAAAAGCTCCTTTCACCAGAGGTAATGAA
*
9875808 CTTTAAATTCATAAAAGCTCATTTCACCAGAGGTAATGAA
1 CTTTAAATTCA-AAAAGCTCCTTTCACCAGAGGTAATGAA
* * *
9875848 CTTTAAATTCAAAAGGCT-CTTCACACCAGAGGTAACGAA
1 CTTTAAATTCAAAAAGCTCCTT-TCACCAGAGGTAATGAA
*
9875887 CTTTGAATTCAAAAA
1 CTTTAAATTCAAAAA
9875902 AGTTCTTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
38 2 0.02
39 71 0.60
40 45 0.38
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (39 bp):
CTTTAAATTCAAAAAGCTCCTTTCACCAGAGGTAATGAA
Found at i:9875818 original size:79 final size:79
Alignment explanation
Indices: 9875715--9875903 Score: 236
Period size: 79 Copynumber: 2.4 Consensus size: 79
9875705 CTCCTCTAAA
* * * *
9875715 CAGAGGCTACAAAGCTTTAAATTCAAAAAAGCTCCTCTCACTAGAGGTAATGAACTTTAAATTCA
1 CAGAGGCAACGAA-CTTTAAATTCAAAAAAGCTCATCTCACCAGAGGTAATGAACTTTAAATTCA
* *
9875780 AAAAGTTCCTT-TCAC
65 AAAAGCT-CTTCACAC
* * * *
9875795 TAGAGGCAATGAACTTTAAATTCATAAAAGCTCATTTCACCAGAGGTAATGAACTTTAAATTCAA
1 CAGAGGCAACGAACTTTAAATTCAAAAAAGCTCATCTCACCAGAGGTAATGAACTTTAAATTCAA
*
9875860 AAGGCTCTTCACAC
66 AAAGCTCTTCACAC
* *
9875874 CAGAGGTAACGAACTTTGAATTCAAAAAAG
1 CAGAGGCAACGAACTTTAAATTCAAAAAAG
9875904 TTCTTTTAAC
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 3 0.03
79 80 0.87
80 9 0.10
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (79 bp):
CAGAGGCAACGAACTTTAAATTCAAAAAAGCTCATCTCACCAGAGGTAATGAACTTTAAATTCAA
AAAGCTCTTCACAC
Found at i:9876210 original size:39 final size:40
Alignment explanation
Indices: 9876135--9876220 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
9876125 AAGGCTCTTA
9876135 AAATT-AAAAAGCTCCTCTGACCAAAGGCTATGAAACTTT
1 AAATTCAAAAAGCTCCTCTGACCAAAGGCTATGAAACTTT
* *
9876174 AAATTCAAAAAGCTCTTCTGACCAGAGG-TAAT-AAACTTT
1 AAATTCAAAAAGCTCCTCTGACCAAAGGCT-ATGAAACTTT
9876213 AAATTCAA
1 AAATTCAA
9876221 CAAGTAGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 21 0.49
40 22 0.51
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.27
Consensus pattern (40 bp):
AAATTCAAAAAGCTCCTCTGACCAAAGGCTATGAAACTTT
Found at i:9888269 original size:12 final size:12
Alignment explanation
Indices: 9888252--9888288 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9888242 AAGATATCAA
9888252 TTATTATTATTT
1 TTATTATTATTT
*
9888264 TTATTATTTTTT
1 TTATTATTATTT
*
9888276 TTATTATTCTTT
1 TTATTATTATTT
9888288 T
1 T
9888289 ACATTGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:9893061 original size:144 final size:144
Alignment explanation
Indices: 9892793--9893062 Score: 303
Period size: 144 Copynumber: 1.9 Consensus size: 144
9892783 AAAAATTATA
* * * *
9892793 AAATATTATGAAATTAAGATATAGAAAGTTTCATGAAAATCTGAACTTAAAAAGATAAAATTACG
1 AAATATTATGAAATTAAAATATAGAAAGTTTCATAAAAATCCGAACTTAAAAAGATAAAATTACA
* * * * ****
9892858 AAAATACCCTTAAAATATATTTTGGTAATTTCGCACCTCACAGGGTACTATTGTGATTTTAAATA
66 AAAATACCCTTAAAATATATTTTAGTAATTTCGCAACTCACAGAGTACAATAAAAATTTTAAATA
9892923 CAACAAAAATCACG
131 CAACAAAAATCACG
* * * *
9892937 AAATATTATGAAATTAAAATCT-GAAAAGTTTCATAAAAATCCG-AGTTCAGAAAGATCAAATTA
1 AAATATTATGAAATTAAAATATAG-AAAGTTTCATAAAAATCCGAACTT-AAAAAGATAAAATTA
* * * * *
9893000 CAAAAATACCCTTAAAATATATTTTAGTACTTTTGTAATTCTCTA-AGTACAATAAAAATTTTA
64 CAAAAATACCCTTAAAATATATTTTAGTAATTTCGCAACTCAC-AGAGTACAATAAAAATTTTA
9893063 GTGCTTTAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
143 4 0.04
144 97 0.95
145 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (144 bp):
AAATATTATGAAATTAAAATATAGAAAGTTTCATAAAAATCCGAACTTAAAAAGATAAAATTACA
AAAATACCCTTAAAATATATTTTAGTAATTTCGCAACTCACAGAGTACAATAAAAATTTTAAATA
CAACAAAAATCACG
Found at i:9898789 original size:17 final size:17
Alignment explanation
Indices: 9898769--9898802 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9898759 CTTTCTTGGG
9898769 TGTTCTTCTG-TTTCTTT
1 TGTTCTT-TGTTTTCTTT
9898786 TGTTCTTTGTTTTCTTT
1 TGTTCTTTGTTTTCTTT
9898803 CTTTCTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.74
Consensus pattern (17 bp):
TGTTCTTTGTTTTCTTT
Found at i:9899948 original size:21 final size:21
Alignment explanation
Indices: 9899924--9899972 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9899914 GTTTCTGAAA
9899924 GAATTTGATAATTTTGCTTTT
1 GAATTTGATAATTTTGCTTTT
* * * *
9899945 GAATCTGCTACTTTTTCTTTT
1 GAATTTGATAATTTTGCTTTT
*
9899966 GATTTTG
1 GAATTTG
9899973 CCCATTTTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.14, T:0.57
Consensus pattern (21 bp):
GAATTTGATAATTTTGCTTTT
Found at i:9900185 original size:40 final size:41
Alignment explanation
Indices: 9900130--9900217 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
9900120 TTACCAATGA
* *
9900130 AATATTTACCGACAGATTTTTCAT-T-GGTAATTACAGATGT
1 AATATTTACCAACAGAATTTT-ATGTCGGTAATTACAGATGT
* *
9900170 AATATTTGCCAACAGAATTTTATGTCGGTAATTACTGATGT
1 AATATTTACCAACAGAATTTTATGTCGGTAATTACAGATGT
9900211 AAT-TTTA
1 AATATTTA
9900218 AATTTACCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.05
40 22 0.54
41 17 0.41
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (41 bp):
AATATTTACCAACAGAATTTTATGTCGGTAATTACAGATGT
Found at i:9904451 original size:18 final size:17
Alignment explanation
Indices: 9904424--9904457 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9904414 GTAAAAATGC
*
9904424 AAAAGAGAAAATCAAAA
1 AAAAGAGAAAAGCAAAA
9904441 AAAATGAGAAAAGCAAA
1 AAAA-GAGAAAAGCAAA
9904458 GAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
AAAAGAGAAAAGCAAAA
Found at i:9906476 original size:33 final size:33
Alignment explanation
Indices: 9906432--9906588 Score: 136
Period size: 33 Copynumber: 4.7 Consensus size: 33
9906422 TTGGTTCAAA
* * *
9906432 TCATTTTATTTTCAAACTTTGACTCATTCCATG
1 TCATTTCATTTTCAAACTTTGGCTCATTCCAAG
* *
9906465 TCATTTCATTTTTCAAACTTTGGCTTAGTCCAAG
1 TCATTTCA-TTTTCAAACTTTGGCTCATTCCAAG
* *
9906499 TCATTTCATTTTCAAATTTTGGTTCAATT-CAAG
1 TCATTTCATTTTCAAACTTTGGCTC-ATTCCAAG
* * * * * * *
9906532 TCATTTTATTTTCAGAGTTTGGTTCAATCTAAA
1 TCATTTCATTTTCAAACTTTGGCTCATTCCAAG
* * *
9906565 TCATTTTATTTTCAGACTTAGGCT
1 TCATTTCATTTTCAAACTTTGGCT
9906589 TAGGAACAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.02
33 70 0.68
34 31 0.30
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (33 bp):
TCATTTCATTTTCAAACTTTGGCTCATTCCAAG
Found at i:9907584 original size:26 final size:25
Alignment explanation
Indices: 9907548--9907596 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
9907538 AAAGGCCATC
*
9907548 TTTATTGTTATTTTAATCATTTTTAT
1 TTTATTATTATTTT-ATCATTTTTAT
*
9907574 TTTATTATTATTTTATTATTTTT
1 TTTATTATTATTTTATCATTTTT
9907597 GGAAATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTATTATTATTTTATCATTTTTAT
Found at i:9907884 original size:20 final size:21
Alignment explanation
Indices: 9907859--9907907 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
9907849 AAAGATCACC
*
9907859 ACAATCAATAGA-AAAAAACA
1 ACAATCAATAAACAAAAAACA
*
9907879 ACAATCTTATAAACAAAAAACA
1 ACAATC-AATAAACAAAAAACA
*
9907901 AGAATCA
1 ACAATCA
9907908 TACACAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.65, C:0.16, G:0.04, T:0.14
Consensus pattern (21 bp):
ACAATCAATAAACAAAAAACA
Found at i:9907914 original size:20 final size:21
Alignment explanation
Indices: 9907871--9907914 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
9907861 AATCAATAGA
9907871 AAAAAACAACAATCTTATAAAC
1 AAAAAACAACAATC-TATAAAC
* *
9907893 AAAAAACAAGAATC-ATACAC
1 AAAAAACAACAATCTATAAAC
9907913 AA
1 AA
9907915 GCAAATCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.66, C:0.18, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAACAACAATCTATAAAC
Found at i:9914869 original size:3 final size:3
Alignment explanation
Indices: 9914861--9914887 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9914851 CTGAAATTTC
9914861 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
9914888 CATTGTTTTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9916770 original size:29 final size:29
Alignment explanation
Indices: 9916702--9916825 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 29
9916692 TAAGGCGCTT
*
9916702 TTTATATATTTTCT-TAATTTGT--TATTTA
1 TTTATTTATTTTCTAT-ATTTGTCCT-TTTA
* * * *
9916730 TTTAGTTATTTTCTTTTTTTATCCTTTTA
1 TTTATTTATTTTCTATATTTGTCCTTTTA
* *
9916759 TTTATTTGTTTTCTATATTTGTTCTTTTA
1 TTTATTTATTTTCTATATTTGTCCTTTTA
* *
9916788 TTTACTTATTTTCTCTATTTGTCTCTTTTA
1 TTTATTTATTTTCTATATTTGTC-CTTTTA
9916818 TTCTATTT
1 TT-TATTT
9916826 CCTCATGAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 16 0.21
29 47 0.62
30 9 0.12
31 4 0.05
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTATTTATTTTCTATATTTGTCCTTTTA
Found at i:9917089 original size:18 final size:19
Alignment explanation
Indices: 9917066--9917101 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9917056 GTCAAATTGG
9917066 GTCAAACTTAA-TAAAAAA
1 GTCAAACTTAATTAAAAAA
9917084 GTCAAACTTAATTAAAAA
1 GTCAAACTTAATTAAAAA
9917102 TTGTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (19 bp):
GTCAAACTTAATTAAAAAA
Found at i:9918835 original size:19 final size:17
Alignment explanation
Indices: 9918802--9918838 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
9918792 TAAGTTTGAA
9918802 ACCTTAAAGCCTAAACC
1 ACCTTAAAGCCTAAACC
9918819 ACCTTACAAGCCCTAAACC
1 ACCTTA-AAG-CCTAAACC
9918838 A
1 A
9918839 ATCCCCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.41, C:0.38, G:0.05, T:0.16
Consensus pattern (17 bp):
ACCTTAAAGCCTAAACC
Found at i:9920291 original size:21 final size:22
Alignment explanation
Indices: 9920255--9920300 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9920245 TAAAACAAAG
9920255 AGTGAAAATCTTTTGAAATGAAA
1 AGTGAAAA-CTTTTGAAATGAAA
*
9920278 AGTGAAAA-TTTTGAACTGAAA
1 AGTGAAAACTTTTGAAATGAAA
9920299 AG
1 AG
9920301 ATTTCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
23 8 0.36
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (22 bp):
AGTGAAAACTTTTGAAATGAAA
Found at i:9920408 original size:41 final size:40
Alignment explanation
Indices: 9920346--9920851 Score: 389
Period size: 40 Copynumber: 12.6 Consensus size: 40
9920336 ATAGTACATA
* * *
9920346 ATTTCTAAGACCTCT-AGGCAAAACTTTAAACTTTTAAATG
1 ATTTCCAAGACCTCTGA-GCAAAATTTTAAATTTTTAAATG
* * * *
9920386 ATTTCCAAAGACCTCCGAGCAAAATTTTAAAGTTTTGAAGG
1 ATTTCC-AAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* *
9920427 ATTTTCAAGACCTCTGAGCAAAACTTTAAA-TTTTAAATG
1 ATTTCCAAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* * * *
9920466 ATTTCCAAGATCTCATGA-CAAAATATTCAATTTTTGAATG
1 ATTTCCAAGACCTC-TGAGCAAAATTTTAAATTTTTAAATG
* * * * *
9920506 ATCTCTAAGACCTCCGAGCAAAATTTTAGATTTTTGAATG
1 ATTTCCAAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* * *
9920546 ATTTCCAATACCT-TTAGGCAAAACTTTAAATTTTTAAATG
1 ATTTCCAAGACCTCTGA-GCAAAATTTTAAATTTTTAAATG
* * * * *
9920586 ATTTCAAAGACCT-TTAGGCAAAATCTTAAAATTTTGAATG
1 ATTTCCAAGACCTCTGA-GCAAAATTTTAAATTTTTAAATG
* * * * *
9920626 ATTTCTAAGACCT-TTAGGTAAAATTTTAAATTTTCAAAAG
1 ATTTCCAAGACCTCTGA-GCAAAATTTTAAATTTTTAAATG
* * ***
9920666 ATTTTCAAAGGCCTCTGAATGAAATTTTAAATTTTTAAATG
1 A-TTTCCAAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* * * *
9920707 ATTTCCAAAGACCTCTAAACAAAATCTTAAATTTTTGAATG
1 ATTTCC-AAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* * * * * *
9920748 ATTTCCAATACCTTTAAGCAAAATCTTAAAATTTTGAATG
1 ATTTCCAAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
* **
9920788 ATTTCCAAGA-CTTTCGAGTGAAATTTTAAATTTTTGAAA-G
1 ATTTCCAAGACCTCT-GAGCAAAATTTTAAATTTTT-AAATG
* * *
9920828 ATTTTCAAAGACTTCTAAGCAAAA
1 A-TTTCCAAGACCTCTGAGCAAAA
9920852 CCCCAAAATT
Statistics
Matches: 377, Mismatches: 76, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
39 35 0.09
40 226 0.60
41 111 0.29
42 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (40 bp):
ATTTCCAAGACCTCTGAGCAAAATTTTAAATTTTTAAATG
Found at i:9920525 original size:79 final size:78
Alignment explanation
Indices: 9920348--9920558 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 78
9920338 AGTACATAAT
* *
9920348 TTCTAAGACCT-CTAGGCAAAACTTTAAACTTTTAAATGATTTCCAAAGACCTCCGAGCAAAATT
1 TTCTAAGACCTCCGA-GCAAAACTTTAAA-TTTTAAATGATTTCC-AAGACCTCCGAGCAAAATA
9920412 TTAAAGTTTTGAAGGA
63 TTAAAGTTTTGAAGGA
* * * *
9920428 TTTTCAAGACCTCTGAGCAAAACTTTAAATTTTAAATGATTTCCAAGATCTCATGA-CAAAATAT
1 TTCT-AAGACCTCCGAGCAAAACTTTAAATTTTAAATGATTTCCAAGACCTC-CGAGCAAAATAT
* * *
9920492 TCAATTTTTGAATGA
64 TAAAGTTTTGAAGGA
* * * *
9920507 TCTCTAAGACCTCCGAGCAAAATTTTAGATTTTTGAATGATTTCCAATACCT
1 T-TCTAAGACCTCCGAGCAAAACTTTA-AATTTTAAATGATTTCCAAGACCT
9920559 TTAGGCAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 47 0.43
80 42 0.38
81 20 0.18
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (78 bp):
TTCTAAGACCTCCGAGCAAAACTTTAAATTTTAAATGATTTCCAAGACCTCCGAGCAAAATATTA
AAGTTTTGAAGGA
Found at i:9920911 original size:22 final size:22
Alignment explanation
Indices: 9920866--9921031 Score: 99
Period size: 22 Copynumber: 7.6 Consensus size: 22
9920856 AAAATTTCCT
* *
9920866 ACAATATCAAAGTTTTTC-GAGC
1 ACAATCTCAAAGTTCTTCAG-GC
*
9920888 ACGATCTCAAAGTTCTTCAGGC
1 ACAATCTCAAAGTTCTTCAGGC
* *
9920910 ACAATTTCAAAATTC-TCTAGGC
1 ACAATCTCAAAGTTCTTC-AGGC
* * *
9920932 ACAATCTCAAAGTCCTCCAAGC
1 ACAATCTCAAAGTTCTTCAGGC
* * *
9920954 ATAAT-TCAAAGTCCTTCGGGC
1 ACAATCTCAAAGTTCTTCAGGC
* *
9920975 ACAACCTTAAAGTCCTCTT--GGC
1 ACAATCTCAAAGT--TCTTCAGGC
* * * *
9920997 ACAATTTCAAAGTCCTTTAGTC
1 ACAATCTCAAAGTTCTTCAGGC
*
9921019 ACAATATCAAAGT
1 ACAATCTCAAAGT
9921032 CTTTCGAGCA
Statistics
Matches: 111, Mismatches: 25, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.03
21 18 0.16
22 85 0.77
23 2 0.02
24 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (22 bp):
ACAATCTCAAAGTTCTTCAGGC
Found at i:9921022 original size:44 final size:42
Alignment explanation
Indices: 9920886--9921116 Score: 135
Period size: 44 Copynumber: 5.3 Consensus size: 42
9920876 AGTTTTTCGA
* * * * *
9920886 GCACGATCTCAAAGTTCTTCAGGCACAATTTCAAAATTCTCTAG
1 GCACAATCTCAAAG-TCTT-TGGCACAATTTCAAAGTCCTTTAG
*** * **
9920930 GCACAATCTCAAAGTCCTCCAAGCATAA-TTCAAAGTCCTTCGG
1 GCACAATCTCAAAGT-CT-TTGGCACAATTTCAAAGTCCTTTAG
* *
9920973 GCACAACCTTAAAGTCCTCTTGGCACAATTTCAAAGTCCTTTAG
1 GCACAATCTCAAAGT-CT-TTGGCACAATTTCAAAGTCCTTTAG
* * * * * *
9921017 TCACAATATCAAAGTCTTTCGAGCATAATTTCGAAGTCCTCTAA
1 GCACAATCTCAAAGTCTTT-G-GCACAATTTCAAAGTCCTTTAG
* *
9921061 CCACAA-CTGTAAAGTCTTATGAGCACAATTTCAAAGTCCTTT-G
1 GCACAATCT-CAAAGTCTT-TG-GCACAATTTCAAAGTCCTTTAG
*
9921104 AGCACAATTTCAA
1 -GCACAATCTCAA
9921117 TTTTCAAAAT
Statistics
Matches: 143, Mismatches: 35, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 37 0.26
44 102 0.71
45 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
GCACAATCTCAAAGTCTTTGGCACAATTTCAAAGTCCTTTAG
Found at i:9921087 original size:22 final size:22
Alignment explanation
Indices: 9920930--9921116 Score: 107
Period size: 22 Copynumber: 8.5 Consensus size: 22
9920920 AATTCTCTAG
* ***
9920930 GCACAATCTCAAAGTCCTCCAA
1 GCACAATGTCAAAGTCCTTTGA
* * *
9920952 GCATAAT-TCAAAGTCCTTCGG
1 GCACAATGTCAAAGTCCTTTGA
** *
9920973 GCACAACCTTAAAGTCCTCTTG-
1 GCACAATGTCAAAGTCCT-TTGA
*
9920995 GCACAATTTCAAAGTCCTTT-A
1 GCACAATGTCAAAGTCCTTTGA
*
9921016 GTCACAATATCAAAGT-CTTTCGA
1 G-CACAATGTCAAAGTCCTTT-GA
* * * * *
9921039 GCATAATTTCGAAGTCCTCTAA
1 GCACAATGTCAAAGTCCTTTGA
*
9921061 CCACAACTGT-AAAGT-CTTATGA
1 GCACAA-TGTCAAAGTCCTT-TGA
*
9921083 GCACAATTTCAAAGTCCTTTGA
1 GCACAATGTCAAAGTCCTTTGA
*
9921105 GCACAATTTCAA
1 GCACAATGTCAA
9921117 TTTTCAAAAT
Statistics
Matches: 129, Mismatches: 25, Indels: 22
0.73 0.14 0.12
Matches are distributed among these distances:
21 27 0.21
22 90 0.70
23 12 0.09
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (22 bp):
GCACAATGTCAAAGTCCTTTGA
Found at i:9923389 original size:21 final size:20
Alignment explanation
Indices: 9923341--9923404 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
9923331 CCCATAAAAT
*
9923341 CCTAAATTTGAAATCCCAAAC
1 CCTAAATTTGAAA-CCTAAAC
*
9923362 CCCAAATTTGAAACACTAAAC
1 CCTAAATTTGAAAC-CTAAAC
* * *
9923383 CTTAAATCTCAAACCCTAAAC
1 CCTAAATTTGAAA-CCTAAAC
9923404 C
1 C
9923405 ACTTCCTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.22
Consensus pattern (20 bp):
CCTAAATTTGAAACCTAAAC
Found at i:9923506 original size:18 final size:18
Alignment explanation
Indices: 9923458--9923520 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
9923448 CATTTCATTT
9923458 TACATTATTACATGCATTCA
1 TACATTA-T-CATGCATTCA
* *
9923478 TAGATTGTCATGCATTCA
1 TACATTATCATGCATTCA
* *
9923496 TACCTTATCATTCATATCA
1 TACATTATCATGCAT-TCA
*
9923515 TGCATT
1 TACATT
9923521 CCTCATATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
18 21 0.62
19 8 0.24
20 5 0.15
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (18 bp):
TACATTATCATGCATTCA
Found at i:9924951 original size:72 final size:71
Alignment explanation
Indices: 9924827--9924962 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 71
9924817 AGTACTGCAT
* **
9924827 TTTTAAGATAAAAAAAAAGTGGATATTGAAACTATATTTTTGAAATTCTAAAATTCTAATAAAAA
1 TTTTAACATAAAAAAAAAGTGGATATTGAAACTATATTTTAAAAATTCTAAAATTCTAATAAAAA
9924892 TCATAC
66 TCATAC
* * * * *
9924898 TTTTAACATAAAAAACATAGTGGATATTGAAATTTTCTTTTCAAAAATT-TAAAATTTTAATAAA
1 TTTTAACATAAAAAA-AAAGTGGATATTGAAACTATATTTT-AAAAATTCTAAAATTCTAATAAA
9924962 A
64 A
9924963 CCCATGTTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
71 14 0.25
72 36 0.65
73 5 0.09
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (71 bp):
TTTTAACATAAAAAAAAAGTGGATATTGAAACTATATTTTAAAAATTCTAAAATTCTAATAAAAA
TCATAC
Found at i:9925718 original size:6 final size:6
Alignment explanation
Indices: 9925709--9925743 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
9925699 AAAAAACTCA
9925709 AAAATT AAAATT GAAAA-T AAAATT AAAATT AAAAT
1 AAAATT AAAATT -AAAATT AAAATT AAAATT AAAAT
9925744 ATGAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:9925731 original size:12 final size:13
Alignment explanation
Indices: 9925709--9925751 Score: 63
Period size: 12 Copynumber: 3.4 Consensus size: 13
9925699 AAAAAACTCA
9925709 AAAATTAAAATTG
1 AAAATTAAAATTG
9925722 AAAA-TAAAATT-
1 AAAATTAAAATTG
9925733 AAAATTAAAATATG
1 AAAATTAAAAT-TG
9925747 AAAAT
1 AAAAT
9925752 AATGAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 13 0.48
13 5 0.19
14 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (13 bp):
AAAATTAAAATTG
Found at i:9925732 original size:18 final size:17
Alignment explanation
Indices: 9925709--9925744 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
9925699 AAAAAACTCA
9925709 AAAATTAAAATTGAAAAT
1 AAAATTAAAATT-AAAAT
9925727 AAAATTAAAATTAAAAT
1 AAAATTAAAATTAAAAT
9925744 A
1 A
9925745 TGAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATTAAAATTAAAAT
Found at i:9925760 original size:24 final size:23
Alignment explanation
Indices: 9925708--9925766 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
9925698 GAAAAAACTC
9925708 AAAAATTAAAATTGAAAATAAAAT
1 AAAAATTAAAATTGAAAAT-AAAT
*
9925732 TAAAATTAAAATATGAAAAT-AAT
1 AAAAATTAAAAT-TGAAAATAAAT
*
9925755 GAAAAATGAAAA
1 -AAAAATTAAAA
9925767 AAGAAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 20 0.67
25 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAAATTAAAATTGAAAATAAAT
Found at i:9926634 original size:3 final size:3
Alignment explanation
Indices: 9926628--9926656 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9926618 AAATAGAAAG
9926628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9926657 CATACTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9926714 original size:14 final size:14
Alignment explanation
Indices: 9926695--9926721 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9926685 ACTATATAGT
9926695 AATAATACTAATAA
1 AATAATACTAATAA
9926709 AATAATACTAATA
1 AATAATACTAATA
9926722 CTAATAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATACTAATAA
Found at i:9927103 original size:60 final size:60
Alignment explanation
Indices: 9927036--9927156 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 60
9927026 ATGATGATAC
*
9927036 CACAAGTCTAAAAGTGACCAAAATCGAGTCAAGGTCATAGATGAATAACCAAGACAATGT
1 CACAAGTCTAAAAATGACCAAAATCGAGTCAAGGTCATAGATGAATAACCAAGACAATGT
* * ** * *
9927096 CACAAGTCTAAAAATGACCAAGATCGAGTTAAGGTTGTAGATGAATGACCAAGACGATGT
1 CACAAGTCTAAAAATGACCAAAATCGAGTCAAGGTCATAGATGAATAACCAAGACAATGT
9927156 C
1 C
9927157 GTGAGTTAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (60 bp):
CACAAGTCTAAAAATGACCAAAATCGAGTCAAGGTCATAGATGAATAACCAAGACAATGT
Found at i:9927377 original size:17 final size:17
Alignment explanation
Indices: 9927335--9927384 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
9927325 GATTCTAAGT
9927335 TTCACAAAGGTTCTAAA
1 TTCACAAAGGTTCTAAA
**
9927352 TTTGCAAAGGTTCTAAA
1 TTCACAAAGGTTCTAAA
* *
9927369 TTCATAAAGATTCTAA
1 TTCACAAAGGTTCTAA
9927385 GTTTGTAAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (17 bp):
TTCACAAAGGTTCTAAA
Found at i:9928349 original size:120 final size:119
Alignment explanation
Indices: 9928160--9928403 Score: 280
Period size: 120 Copynumber: 2.0 Consensus size: 119
9928150 TGAAACTATG
* * *
9928160 AGTCTAAAGATAAAGCGACTAGGATAGAGTCGAGGTTGAAGATAAATGATCGAGACAAAATCTTA
1 AGTCTAAAGATAAAGCGACTAGGATAGAGTCAAGGTTGAAAATAAATGATCCAGACAAAA-CTTA
* * * *
9928225 AGTCAAGAA-AATGATTTGGCCTGAGCCAAGATCAAATGATCAGTATGAAATTGCA
65 AGTC-AGAAGAATGATCTAGACTGAGCCAAGATCAAATGATCAGGATGAAATTGCA
* *
9928280 AGTCTAAAGATAAAGTGACTAGGACTA-AGTCAATGTTGAAAATAAATGA-CCATGACAAAA-TT
1 AGTCTAAAGATAAAGCGACTAGGA-TAGAGTCAAGGTTGAAAATAAATGATCCA-GACAAAACTT
** ** *
9928342 ACGAGTCAGAAGAATGATCTAGACTGAGCTGAGATTGAATGATCGGGATGAAATTGCA
64 A--AGTCAGAAGAATGATCTAGACTGAGCCAAGATCAAATGATCAGGATGAAATTGCA
9928400 AGTC
1 AGTC
9928404 AATAAAATGA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
118 3 0.03
119 6 0.06
120 94 0.90
121 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (119 bp):
AGTCTAAAGATAAAGCGACTAGGATAGAGTCAAGGTTGAAAATAAATGATCCAGACAAAACTTAA
GTCAGAAGAATGATCTAGACTGAGCCAAGATCAAATGATCAGGATGAAATTGCA
Found at i:9929165 original size:20 final size:20
Alignment explanation
Indices: 9929142--9929179 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9929132 TTTAAGTCTT
*
9929142 CTTTTTTTTATTTTTTTTCA
1 CTTTTTTTCATTTTTTTTCA
*
9929162 CTTTTTTTCCTTTTTTTT
1 CTTTTTTTCATTTTTTTT
9929180 TGCATACCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
CTTTTTTTCATTTTTTTTCA
Found at i:9929564 original size:7 final size:7
Alignment explanation
Indices: 9929552--9929589 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
9929542 CATCAATTTT
9929552 TTTTTCA
1 TTTTTCA
9929559 TTTTTCA
1 TTTTTCA
9929566 TTTTTC-
1 TTTTTCA
9929572 TTTTTCA
1 TTTTTCA
9929579 TCTTTTCA
1 T-TTTTCA
9929587 TTT
1 TTT
9929590 GTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:9934025 original size:25 final size:24
Alignment explanation
Indices: 9933974--9934050 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
9933964 GTAAAAGAAA
* **
9933974 AAAATAAAAAT-TGAAAATAAAAC
1 AAAATCAAAATATGAAAATAAATG
*
9933997 AAAACTTAAAATATGAAAATAAATG
1 AAAA-TCAAAATATGAAAATAAATG
*
9934022 AAAATCATAAA-ATGAAATAAAAATG
1 AAAATCA-AAATATGAAA-ATAAATG
9934047 AAAA
1 AAAA
9934051 AGGGAAACCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.09
24 14 0.31
25 27 0.60
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATCAAAATATGAAAATAAATG
Found at i:9934566 original size:22 final size:22
Alignment explanation
Indices: 9934523--9934566 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9934513 TCTAAACCCA
*
9934523 GAAACCTAAATCCCAAATTCTT
1 GAAACCTAAATCCCAAAATCTT
9934545 GAAACCTAAA-CCCAAGAATCTT
1 GAAACCTAAATCCCAA-AATCTT
9934567 AATAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.27, G:0.07, T:0.23
Consensus pattern (22 bp):
GAAACCTAAATCCCAAAATCTT
Found at i:9934971 original size:20 final size:20
Alignment explanation
Indices: 9934925--9934972 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
9934915 TACTATATAG
9934925 TAATAATACTAATAAAACGA
1 TAATAATACTAATAAAACGA
* *
9934945 TACTAATACTAAT-AACCGAA
1 TAATAATACTAATAAAACG-A
9934965 TAATAATA
1 TAATAATA
9934973 ATGAAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.27
Consensus pattern (20 bp):
TAATAATACTAATAAAACGA
Found at i:9935512 original size:72 final size:72
Alignment explanation
Indices: 9935399--9935638 Score: 342
Period size: 73 Copynumber: 3.3 Consensus size: 72
9935389 AAAACACCAT
* * * *
9935399 GTTTTTAAGAT-AAAAAATTAGTGGATG-TAGAAA-TTATATTTTTGAAATTCTATAATTTTAAT
1 GTTTTTAAGATAAAAAAAATAGTAGATGTTA-AAACTT-TATTTTTGAAACTCTAAAATTTTAAT
9935461 AAAGATTAA
64 AAAGATTAA
* *
9935470 GTTTTTAAGATAAAAAAAATAATAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAACAA
1 GTTTTTAAGATAAAAAAAATAGTAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAATAA
9935535 AGATTAA
66 AGATTAA
9935542 GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAATA
1 GTTTTTAAGATAAAAAAA-ATAGTAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAATA
* *
9935607 AAGATCAC
65 AAGATTAA
*
9935615 GTTTGTAAGATAAAAAAACATAGT
1 GTTTTTAAGATAAAAAAA-ATAGT
9935639 GAATATTAAA
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
71 11 0.07
72 66 0.43
73 76 0.50
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (72 bp):
GTTTTTAAGATAAAAAAAATAGTAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAATAA
AGATTAA
Found at i:9935593 original size:73 final size:73
Alignment explanation
Indices: 9935399--9935681 Score: 337
Period size: 73 Copynumber: 3.9 Consensus size: 73
9935389 AAAACACCAT
* * * *
9935399 GTTTTTAAGAT-AAAAAAT-TAGTGGATG-TAGAAATTATATTTTTGAAATTCTATAATTTTAAT
1 GTTTTTAAGATAAAAAAATATAGTAGATGTTA-AAATTATATTTTTGAAACTCTAAAATTTTAAC
9935461 AAAGATTAA
65 AAAGATTAA
*
9935470 GTTTTTAAGATAAAAAAA-ATAATAGATGTTAAAACTT-TATTTTTGAAACTCTAAAATTTTAAC
1 GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAA-TTATATTTTTGAAACTCTAAAATTTTAAC
9935533 AAAGATTAA
65 AAAGATTAA
*
9935542 GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAACTT-TATTTTTGAAACTCTAAAATTTTAAT
1 GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAA-TTATATTTTTGAAACTCTAAAATTTTAAC
* *
9935606 AAAGATCAC
65 AAAGATTAA
* * * ** * * *
9935615 GTTTGTAAGATAAAAAAACATAGT-GAATATTAAAATTATATTTTCAAAATTTTGAAATTTTAAC
1 GTTTTTAAGATAAAAAAATATAGTAG-ATGTTAAAATTATATTTTTGAAACTCTAAAATTTTAAC
9935679 AAA
65 AAA
9935682 CACGATATCT
Statistics
Matches: 187, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
71 11 0.06
72 69 0.37
73 107 0.57
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (73 bp):
GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAATTATATTTTTGAAACTCTAAAATTTTAACA
AAGATTAA
Found at i:9935863 original size:72 final size:71
Alignment explanation
Indices: 9935401--9935864 Score: 224
Period size: 72 Copynumber: 6.5 Consensus size: 71
9935391 AACACCATGT
* * * * ** *
9935401 TTTTAAGATAAAAAAT-TAGTGGATGTAGAAATTATATTTTTGAAATTCT-ATAATTTTAATAAA
1 TTTTAAGATAAAAAATGTAATAGATATTGAAATTATATTTTCAAAATTCTGA-AATTTTAACAAA
* **
9935464 GATTA-A
65 CACCACA
** * * ** * *
9935470 GTTTTTAAGATAAAAAAAATAATAGATGTTAAAACTT-TATTTTTGAAACTCTAAAATTTTAACA
1 --TTTTAAGATAAAAAATGTAATAGATATTGAAA-TTATATTTTCAAAATTCTGAAATTTTAACA
* **
9935534 AAGATTA-A
63 AACACCACA
* * * * ** * * *
9935542 GTTTTTAAGATAAAAAAATATAGTAGATGTTAAAACTT-TATTTTTGAAACTCTAAAATTTTAAT
1 --TTTTAAGAT-AAAAAATGTAATAGATATTGAAA-TTATATTTTCAAAATTCTGAAATTTTAAC
* * *
9935606 AAAGATCACG
62 AAACACCACA
** * * *
9935616 TTTGTAAGATAAAAAAACATAGT-GAATATTAAAATTATATTTTCAAAATTTTGAAATTTTAACA
1 TTT-TAAGAT-AAAAAATGTAATAG-ATATTGAAATTATATTTTCAAAATTCTGAAATTTTAACA
* *
9935680 AACACGATA
63 AACACCACA
* * * * **
9935689 TCTTTAAGATAAAAAATGTAATGGGTAATGAAATT-TATTTTCAAAATTCTGCAATTTTAATGAA
1 T-TTTAAGATAAAAAATGTAATAGATATTGAAATTATATTTTCAAAATTCTGAAATTTTAACAAA
*
9935753 TACCACA
65 CACCACA
* * * * * *
9935760 TTTTTAAGATAAAAAATATAGTAAATGTTGAAATTATATTTTAAAAATTCTGAAATATTAACAAA
1 -TTTTAAGATAAAAAATGTAATAGATATTGAAATTATATTTTCAAAATTCTGAAATTTTAACAAA
* * *
9935825 GACTACG
65 CACCACA
* *
9935832 TTTTGGAGATTAAAAATGTAATAGATATTGAAA
1 TTTT-AAGATAAAAAATGTAATAGATATTGAAA
9935865 AAAATATGTT
Statistics
Matches: 321, Mismatches: 59, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
71 74 0.23
72 127 0.40
73 118 0.37
74 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (71 bp):
TTTTAAGATAAAAAATGTAATAGATATTGAAATTATATTTTCAAAATTCTGAAATTTTAACAAAC
ACCACA
Found at i:9935864 original size:143 final size:143
Alignment explanation
Indices: 9935401--9935864 Score: 391
Period size: 143 Copynumber: 3.2 Consensus size: 143
9935391 AACACCATGT
* * * * ** * *
9935401 TTTTAAGATAAAAAAT-TAGTGGATGTAGAAA-TTATATTTTTGAAATTCTATAATTTTAATAAA
1 TTTTAAGATAAAAAATGTAATAGATATTGAAACTT-TATTTTCAAAACTCTAAAATTTTAATAAA
** * * ** * *
9935464 GATTA-AGTTTTTAAGATAAAAAAAATAATAGATGTTAAAACTT-TATTTTTGAAACTCTAAAAT
65 GACCACA-TTTTTAAGATAAAAAAAATAGTAAATGTTAAAA-TTATATTTTAAAAATTCTGAAAT
*
9935527 TTTAACAAAGATTAAG
128 TTTAACAAAGACTAAG
* * * * **
9935543 TTTTTAAGATAAAAAAATATAGTAGATGTTAAAACTTTATTTTTGAAACTCTAAAATTTTAATAA
1 -TTTTAAGAT-AAAAAATGTAATAGATATTGAAACTTTATTTTCAAAACTCTAAAATTTTAATAA
* * * * * * *
9935608 AGATCACGTTTGTAAGATAAAAAAACATAGTGAATATTAAAATTATATTTTCAAAATTTTGAAAT
64 AGACCACATTTTTAAGATAAAAAAA-ATAGTAAATGTTAAAATTATATTTTAAAAATTCTGAAAT
* *
9935673 TTTAACAAACACGATA-
128 TTTAACAAAGACTA-AG
* * * * ** *
9935689 TCTTTAAGATAAAAAATGTAATGGGTAATGAAA-TTTATTTTCAAAATTCTGCAATTTTAATGAA
1 T-TTTAAGATAAAAAATGTAATAGATATTGAAACTTTATTTTCAAAACTCTAAAATTTTAATAAA
* * * *
9935753 TACCACATTTTTAAGATAAAAAATATAGTAAATGTTGAAATTATATTTTAAAAATTCTGAAATAT
65 GACCACATTTTTAAGATAAAAAAAATAGTAAATGTTAAAATTATATTTTAAAAATTCTGAAATTT
*
9935818 TAACAAAGACTACG
130 TAACAAAGACTAAG
* *
9935832 TTTTGGAGATTAAAAATGTAATAGATATTGAAA
1 TTTT-AAGATAAAAAATGTAATAGATATTGAAA
9935865 AAAATATGTT
Statistics
Matches: 259, Mismatches: 52, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
142 3 0.01
143 78 0.30
144 51 0.20
145 78 0.30
146 48 0.19
147 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (143 bp):
TTTTAAGATAAAAAATGTAATAGATATTGAAACTTTATTTTCAAAACTCTAAAATTTTAATAAAG
ACCACATTTTTAAGATAAAAAAAATAGTAAATGTTAAAATTATATTTTAAAAATTCTGAAATTTT
AACAAAGACTAAG
Found at i:9936076 original size:73 final size:72
Alignment explanation
Indices: 9935937--9936079 Score: 169
Period size: 73 Copynumber: 2.0 Consensus size: 72
9935927 GTTTTTAAAA
* * * * *
9935937 TAAAAAATATAGTGGATATTGATCTTTATTTTCAAAATTTAGGAATTTTAACAAAAATTACATTT
1 TAAAAAACATAGTGGATATTGAACTATATTTTCAAAATTTAGAAATTTTAACAAAAATAACATTT
9936002 TTAAGTT
66 TTAAGTT
* * * * * **
9936009 TAAAAAACATAGTTGATGTTGAAACTATATTTTCAAGATTTTGAAATTTTAATAAAAATAATGTT
1 TAAAAAACATAGTGGATATTG-AACTATATTTTCAAAATTTAGAAATTTTAACAAAAATAACATT
9936074 TTTAAG
65 TTTAAG
9936080 ATAAAAAGCG
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
72 18 0.31
73 40 0.69
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (72 bp):
TAAAAAACATAGTGGATATTGAACTATATTTTCAAAATTTAGAAATTTTAACAAAAATAACATTT
TTAAGTT
Found at i:9936161 original size:37 final size:37
Alignment explanation
Indices: 9936116--9936203 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
9936106 TCATAATAAA
* * *
9936116 ATTA-ATATAAAACGTAAAATATCTTTATTTAATGTT
1 ATTATATATAAAACGTAAAATATATTTAGTTAATATT
**
9936152 ATTATATATAAAATTTAAAATATATTTAGTTAATATT
1 ATTATATATAAAACGTAAAATATATTTAGTTAATATT
*
9936189 ATCATATATAGAAAC
1 ATTATATATA-AAAC
9936204 AAAATTGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 4 0.09
37 36 0.84
38 3 0.07
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (37 bp):
ATTATATATAAAACGTAAAATATATTTAGTTAATATT
Found at i:9941625 original size:19 final size:19
Alignment explanation
Indices: 9941601--9941638 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9941591 AAACATGTAA
9941601 TGATTGGCAAGGAAAAAGT
1 TGATTGGCAAGGAAAAAGT
9941620 TGATTGGCAAGGAAAAAGT
1 TGATTGGCAAGGAAAAAGT
9941639 ATTCTAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.32, T:0.21
Consensus pattern (19 bp):
TGATTGGCAAGGAAAAAGT
Found at i:9941955 original size:20 final size:20
Alignment explanation
Indices: 9941927--9941975 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
9941917 CTAAAATTAA
9941927 TAAAATATTATTTTTTAAAT
1 TAAAATATTATTTTTTAAAT
* *
9941947 TAAATTATTATTTTTTAAAA
1 TAAAATATTATTTTTTAAAT
9941967 TATAAATAT
1 TA-AAATAT
9941976 AAATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAATATTATTTTTTAAAT
Found at i:9942839 original size:19 final size:19
Alignment explanation
Indices: 9942813--9942853 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
9942803 TTAAAAAGTA
*
9942813 ACTAAAAATAAAAAATAAAT
1 ACTAAAAA-AAAAGATAAAT
9942833 ACTAAAAAAAAAGATAAAT
1 ACTAAAAAAAAAGATAAAT
9942852 AC
1 AC
9942854 CGAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.17
Consensus pattern (19 bp):
ACTAAAAAAAAAGATAAAT
Found at i:9942859 original size:19 final size:18
Alignment explanation
Indices: 9942817--9942859 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
9942807 AAAGTAACTA
*
9942817 AAAATAAAAAATAAATACT
1 AAAA-AAAAAATAAATACC
9942836 AAAAAAAAAGATAAATACC
1 AAAAAAAAA-ATAAATACC
9942855 GAAAA
1 -AAAA
9942860 GTAAAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAAAAAAATAAATACC
Found at i:9948908 original size:25 final size:25
Alignment explanation
Indices: 9948855--9948908 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
9948845 AAAGAATGGT
* *
9948855 TTTTTTTTTTTGTGAATCTTTAAAT
1 TTTTTTTTTTTGTGAATATTTAAAC
*
9948880 TTTTTTTTTTTGTGAATATTTGAAC
1 TTTTTTTTTTTGTGAATATTTAAAC
9948905 TTTT
1 TTTT
9948909 GAAGATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.69
Consensus pattern (25 bp):
TTTTTTTTTTTGTGAATATTTAAAC
Found at i:9949030 original size:21 final size:21
Alignment explanation
Indices: 9949004--9949078 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
9948994 TGAAATCATT
*
9949004 TGTGAACCTTCAAACCTTTAA
1 TGTGAATCTTCAAACCTTTAA
* **
9949025 TGTGAATCTTAAAACCTTCGA
1 TGTGAATCTTCAAACCTTTAA
*
9949046 TGTGAATC-TCAAAATCTTTAA
1 TGTGAATCTTC-AAACCTTTAA
*
9949067 TGTAAAT-TTCAA
1 TGTGAATCTTCAA
9949079 TACTCTCAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.07
21 40 0.93
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTGAATCTTCAAACCTTTAA
Found at i:9949065 original size:42 final size:42
Alignment explanation
Indices: 9949019--9949115 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
9949009 ACCTTCAAAC
* * *
9949019 CTTTAATGTGAATCTT-AAAAC-CTTCGATGTGAATCTCAAAAT
1 CTTTAATGTGAAT-TTCAAAACTC-TCAATATAAATCTCAAAAT
* *
9949061 CTTTAATGTAAATTTCAATACTCTCAATATAAATCTCAAAAT
1 CTTTAATGTGAATTTCAAAACTCTCAATATAAATCTCAAAAT
*
9949103 CTTTGATGTGAAT
1 CTTTAATGTGAAT
9949116 ATCGAAACCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.04
42 43 0.93
43 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (42 bp):
CTTTAATGTGAATTTCAAAACTCTCAATATAAATCTCAAAAT
Found at i:9949240 original size:46 final size:44
Alignment explanation
Indices: 9949187--9949330 Score: 126
Period size: 46 Copynumber: 3.4 Consensus size: 44
9949177 TATTTAATTT
9949187 TTAGATGTGAATCTCTAAAAATTTTTCAAATATGAATCTTTGATTG
1 TTAGATGTGAATCTCT-AAAATTTTTCAAATATGAATCTTT-ATTG
* *
9949233 TTAGATGTGAATCTC--------TTCAAATGTGAAAT-TTTATTT
1 TTAGATGTGAATCTCTAAAATTTTTCAAATATG-AATCTTTATTG
* ** *
9949269 TTAGATGTGAATCTCTAAAATTTTTTTAAATAAAAATCATTAATTG
1 TTAGATGTGAATCTCTAAAA-TTTTTCAAATATGAATC-TTTATTG
9949315 TTAGATGTGAATCTCT
1 TTAGATGTGAATCTCT
9949331 TTAAATATGA
Statistics
Matches: 78, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
36 18 0.23
37 12 0.15
38 3 0.04
44 3 0.04
45 6 0.08
46 36 0.46
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (44 bp):
TTAGATGTGAATCTCTAAAATTTTTCAAATATGAATCTTTATTG
Found at i:9949275 original size:36 final size:37
Alignment explanation
Indices: 9949211--9949284 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
9949201 CTAAAAATTT
9949211 TTCAAATATGAATCTTTGATTGTTAGATGTGAATCTC
1 TTCAAATATGAATCTTTGATTGTTAGATGTGAATCTC
* *
9949248 TTCAAATGTGAAAT-TTT-ATTTTTAGATGTGAATCTC
1 TTCAAATATG-AATCTTTGATTGTTAGATGTGAATCTC
9949284 T
1 T
9949285 AAAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 19 0.56
37 12 0.35
38 3 0.09
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (37 bp):
TTCAAATATGAATCTTTGATTGTTAGATGTGAATCTC
Found at i:9949288 original size:82 final size:83
Alignment explanation
Indices: 9949175--9949346 Score: 256
Period size: 82 Copynumber: 2.1 Consensus size: 83
9949165 CCTAAATACA
** * *
9949175 AATATTTAATTTTTAGATGTGAATCTCTAAAAATTTTTCAAATATGAATCTTTGATTGTTAGATG
1 AATATTTAATTTTTAGATGTGAATCTCTAAAAATTTTTCAAATAAAAATCATTAATTGTTAGATG
*
9949240 TGAATCTCTTCAAATGTG
66 TGAATCTCTTCAAATATG
* * *
9949258 AA-ATTTTATTTTTAGATGTGAATCTCTAAAATTTTTTTAAATAAAAATCATTAATTGTTAGATG
1 AATATTTAATTTTTAGATGTGAATCTCTAAAAATTTTTCAAATAAAAATCATTAATTGTTAGATG
*
9949322 TGAATCTCTTTAAATATG
66 TGAATCTCTTCAAATATG
9949340 AATATTT
1 AATATTT
9949347 GCTTTTTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 73 0.92
83 6 0.08
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (83 bp):
AATATTTAATTTTTAGATGTGAATCTCTAAAAATTTTTCAAATAAAAATCATTAATTGTTAGATG
TGAATCTCTTCAAATATG
Found at i:9953489 original size:22 final size:22
Alignment explanation
Indices: 9953470--9953525 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
9953460 AGATATGAAT
9953470 ATCTTGAATTTTGTGAATGAGA
1 ATCTTGAATTTTGTGAATGAGA
9953492 ATCTTGAATTTTGTGAATGAGA
1 ATCTTGAATTTTGTGAATGAGA
*
9953514 ATCTTAAATTTT
1 ATCTTGAATTTT
9953526 TGGATGCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
ATCTTGAATTTTGTGAATGAGA
Found at i:9953619 original size:24 final size:23
Alignment explanation
Indices: 9953542--9953633 Score: 94
Period size: 24 Copynumber: 3.9 Consensus size: 23
9953532 CAAATCTTTG
* *
9953542 AAAATTTTCCAATATGAATCTCT
1 AAAATTTTCAAATGTGAATCTCT
*** *
9953565 AAAAATTTTTTTTATGTAAATCTCT
1 -AAAA-TTTTCAAATGTGAATCTCT
*
9953590 ATAATTTTCAAATGTGAATCTCGT
1 AAAATTTTCAAATGTGAATCTC-T
9953614 AAAATTTTCAAATGTGAATC
1 AAAATTTTCAAATGTGAATC
9953634 ATTTTTTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
23 14 0.25
24 27 0.49
25 14 0.25
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (23 bp):
AAAATTTTCAAATGTGAATCTCT
Found at i:9953752 original size:14 final size:15
Alignment explanation
Indices: 9953733--9953764 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9953723 AAAGACCAAC
9953733 AAAAAATCAAAAAAA
1 AAAAAATCAAAAAAA
*
9953748 AAAAAATGAAAAAAA
1 AAAAAATCAAAAAAA
9953763 AA
1 AA
9953765 GTATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAAAATCAAAAAAA
Found at i:9955270 original size:5 final size:6
Alignment explanation
Indices: 9955256--9955280 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9955246 TCCAAAAGGA
9955256 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
9955281 GTTTGGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:9955355 original size:29 final size:28
Alignment explanation
Indices: 9955312--9955367 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
9955302 TAAAAAAAGT
*
9955312 TTTTAATTTAATTTGATTTTTTTATTTC
1 TTTTAATTTAATTTGATTTGTTTATTTC
*
9955340 TTTTATTTTATATTTGATTTGTTTATTT
1 TTTTAATTTA-ATTTGATTTGTTTATTT
9955368 TTGGTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTTAATTTAATTTGATTTGTTTATTTC
Found at i:9955846 original size:29 final size:29
Alignment explanation
Indices: 9955803--9955873 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
9955793 TTTTGAGTTG
* * * *
9955803 TTTTTGGGATCTTTATGAGCTTCTAAAAT
1 TTTTTGGGTTTTTTAAGAACTTCTAAAAT
* * *
9955832 TTTTTGGGTTTTTTAAGAATTTTTAGAAT
1 TTTTTGGGTTTTTTAAGAACTTCTAAAAT
9955861 TTTTTGGGTTTTT
1 TTTTTGGGTTTTT
9955874 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.20, C:0.04, G:0.18, T:0.58
Consensus pattern (29 bp):
TTTTTGGGTTTTTTAAGAACTTCTAAAAT
Found at i:9956054 original size:20 final size:20
Alignment explanation
Indices: 9956007--9956056 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9955997 CTAGGGTTGG
*
9956007 TTAAATTTTTCGGCAACTGA
1 TTAAATTTTTCGGCAACCGA
**
9956027 TTGGATTTTT-GGACAACCGA
1 TTAAATTTTTCGG-CAACCGA
9956047 TTAAATTTTT
1 TTAAATTTTT
9956057 TTATTTCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
TTAAATTTTTCGGCAACCGA
Found at i:9956495 original size:23 final size:24
Alignment explanation
Indices: 9956469--9956599 Score: 85
Period size: 24 Copynumber: 5.5 Consensus size: 24
9956459 CTTTGATTGA
9956469 ATTT-TTAT-TCTTTGTTGCATGAT
1 ATTTATTATGTCTTT-TTGCATGAT
* *
9956492 ATTTATTATGATATTTTTGCATTA-
1 ATTTATTATG-TCTTTTTGCATGAT
* *
9956516 ATTT-TTATGACATTATTGCATGAT
1 ATTTATTATGTC-TTTTTGCATGAT
** *
9956540 ATTTATTATAACAGTTTTTACATGAT
1 ATTTATTATGTC--TTTTTGCATGAT
* *
9956566 -TTTATTATGATATTATTGCATGAT
1 ATTTATTATG-TCTTTTTGCATGAT
9956590 ATTT-TTATGT
1 ATTTATTATGT
9956600 TGTTTTTATG
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
23 19 0.23
24 27 0.32
25 24 0.29
26 14 0.17
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (24 bp):
ATTTATTATGTCTTTTTGCATGAT
Found at i:9956539 original size:48 final size:50
Alignment explanation
Indices: 9956483--9956598 Score: 157
Period size: 50 Copynumber: 2.4 Consensus size: 50
9956473 TTATTCTTTG
* * *
9956483 TTGCATGATATTTATTATGATA-TTTTTGCATTAATTT-TTATGACATTA
1 TTGCATGATATTTATTATGACAGTTTTTACATGAATTTATTATGACATTA
* * *
9956531 TTGCATGATATTTATTATAACAGTTTTTACATGATTTTATTATGATATTA
1 TTGCATGATATTTATTATGACAGTTTTTACATGAATTTATTATGACATTA
9956581 TTGCATGATATTT-TTATG
1 TTGCATGATATTTATTATG
9956599 TTGTTTTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 20 0.34
49 16 0.27
50 23 0.39
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.53
Consensus pattern (50 bp):
TTGCATGATATTTATTATGACAGTTTTTACATGAATTTATTATGACATTA
Found at i:9956593 original size:50 final size:48
Alignment explanation
Indices: 9956466--9956597 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
9956456 AAACTTTGAT
* * * * * *
9956466 TGAATTTTTAT-TCTTTGTTGCATGATATTTATTATGATATTTTTGCA
1 TGAATTTTTATGACATTATTGCATGATATTTATTATAACATTTTTACA
*
9956513 TTAATTTTTATGACATTATTGCATGATATTTATTATAACAGTTTTTACA
1 TGAATTTTTATGACATTATTGCATGATATTTATTATAACA-TTTTTACA
* *
9956562 TGATTTTATTATGATATTATTGCATGATATTT-TTAT
1 TGAATTT-TTATGACATTATTGCATGATATTTATTAT
9956598 GTTGTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
47 10 0.14
48 23 0.32
49 16 0.22
50 23 0.32
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (48 bp):
TGAATTTTTATGACATTATTGCATGATATTTATTATAACATTTTTACA
Found at i:9956638 original size:32 final size:35
Alignment explanation
Indices: 9956570--9956638 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 35
9956560 CATGATTTTA
* ** *
9956570 TTATGATATTATTGCATGATATTTTTATGTTGTTT
1 TTATGATATTATTGCATGATATTTTGATAATATTT
9956605 TTATGATATTA-TG-AT-ATATTTTGATAATATTT
1 TTATGATATTATTGCATGATATTTTGATAATATTT
9956637 TT
1 TT
9956639 GTATGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
32 15 0.50
33 2 0.07
34 2 0.07
35 11 0.37
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (35 bp):
TTATGATATTATTGCATGATATTTTGATAATATTT
Found at i:9967703 original size:7 final size:7
Alignment explanation
Indices: 9967669--9967802 Score: 53
Period size: 7 Copynumber: 18.9 Consensus size: 7
9967659 TCTAATATTT
9967669 TATTAAA
1 TATTAAA
*
9967676 TATGAAA
1 TATTAAA
*
9967683 AATTATATA
1 TATTA-A-A
*
9967692 TTATTTAA
1 -TATTAAA
9967700 TATTAAA
1 TATTAAA
*
9967707 TATGAAA
1 TATTAAA
*
9967714 TATT-TA
1 TATTAAA
9967720 -ATTAAA
1 TATTAAA
9967726 TATTAAA
1 TATTAAA
*
9967733 T-TATATGA
1 TAT-TA-AA
9967741 TATTAAA
1 TATTAAA
*
9967748 TATTTAAT
1 TA-TTAAA
* *
9967756 TAATTTAT
1 T-ATTAAA
9967764 TATTAAA
1 TATTAAA
* *
9967771 AATTAAT
1 TATTAAA
*
9967778 TATTAGA
1 TATTAAA
9967785 TATT--A
1 TATTAAA
*
9967790 TATTTAA
1 TATTAAA
9967797 TATTAA
1 TATTAA
9967803 TTGAATTTAA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
5 8 0.09
6 3 0.03
7 59 0.63
8 16 0.17
9 4 0.04
10 3 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (7 bp):
TATTAAA
Found at i:9968803 original size:212 final size:212
Alignment explanation
Indices: 9968436--9968863 Score: 856
Period size: 212 Copynumber: 2.0 Consensus size: 212
9968426 TACAAAAAAT
9968436 TAATATTTGTTTAAAAACCTACTTATTAATTAAGTGATATAATCTGATTTACTTTATTAATGAGA
1 TAATATTTGTTTAAAAACCTACTTATTAATTAAGTGATATAATCTGATTTACTTTATTAATGAGA
9968501 TAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAATAATGTATCAAATATAAATC
66 TAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAATAATGTATCAAATATAAATC
9968566 ATTTATTTTAAAGGTTGATATTTACTCATTAATGAGATAACATCATCTAATTCGTTAATAATGTA
131 ATTTATTTTAAAGGTTGATATTTACTCATTAATGAGATAACATCATCTAATTCGTTAATAATGTA
9968631 TAGAGTCTATACACTGA
196 TAGAGTCTATACACTGA
9968648 TAATATTTGTTTAAAAACCTACTTATTAATTAAGTGATATAATCTGATTTACTTTATTAATGAGA
1 TAATATTTGTTTAAAAACCTACTTATTAATTAAGTGATATAATCTGATTTACTTTATTAATGAGA
9968713 TAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAATAATGTATCAAATATAAATC
66 TAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAATAATGTATCAAATATAAATC
9968778 ATTTATTTTAAAGGTTGATATTTACTCATTAATGAGATAACATCATCTAATTCGTTAATAATGTA
131 ATTTATTTTAAAGGTTGATATTTACTCATTAATGAGATAACATCATCTAATTCGTTAATAATGTA
9968843 TAGAGTCTATACACTGA
196 TAGAGTCTATACACTGA
9968860 TAAT
1 TAAT
9968864 GCATCAAATA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 216 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (212 bp):
TAATATTTGTTTAAAAACCTACTTATTAATTAAGTGATATAATCTGATTTACTTTATTAATGAGA
TAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAATAATGTATCAAATATAAATC
ATTTATTTTAAAGGTTGATATTTACTCATTAATGAGATAACATCATCTAATTCGTTAATAATGTA
TAGAGTCTATACACTGA
Found at i:9968885 original size:102 final size:104
Alignment explanation
Indices: 9968482--9968902 Score: 392
Period size: 102 Copynumber: 4.0 Consensus size: 104
9968472 ATATAATCTG
* * * * * *
9968482 ATTTACTTTATTAATGAGATAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAAT
1 ATTTACTTCATTAATGAGATAACATCATCCAAGTCATTAATAATGTATAGAATCTATACACTAAT
9968547 AATGTATCAAATATAAATCATTTATTTTAAAGG-TTGAT
66 AATGTATCAAATATAAATCATTTATTTTAAAGGATTGAT
* * * * *
9968585 ATTTAC-TCATTAATGAGATAACATCATCTAATTCGTTAATAATGTATAGAGTCTATACACTGAT
1 ATTTACTTCATTAATGAGATAACATCATCCAAGTCATTAATAATGTATAGAATCTATACACTAAT
* **** * * * *
9968649 AATAT-TTGTTTAAAAACCTACTTATTAATT-AAGTGATATAATCT
66 AATGTATCAAATATAAATC-ATTTATT--TTAAAG-GAT-TGA--T
* * * * * *
9968693 GATTTACTTTATTAATGAGATAGCGTCATCCGAGTCATTAATAGTGTATAGAATCTATATACTAA
1 -ATTTACTTCATTAATGAGATAACATCATCCAAGTCATTAATAATGTATAGAATCTATACACTAA
9968758 TAATGTATCAAATATAAATCATTTATTTTAAAGG-TTGAT
65 TAATGTATCAAATATAAATCATTTATTTTAAAGGATTGAT
* * * * *
9968797 ATTTAC-TCATTAATGAGATAACATCATCTAATTCGTTAATAATGTATAGAGTCTATACACTGAT
1 ATTTACTTCATTAATGAGATAACATCATCCAAGTCATTAATAATGTATAGAATCTATACACTAAT
* * *
9968861 AATGCATCAAATATAAAAGC-TTTA--TTAAAGGATTTAT
66 AATGTATCAAATAT-AAATCATTTATTTTAAAGGATTGAT
9968898 ATTTA
1 ATTTA
9968903 ATTCGTTATT
Statistics
Matches: 250, Mismatches: 54, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
100 7 0.03
101 16 0.06
102 121 0.48
103 19 0.08
104 4 0.02
105 1 0.00
106 4 0.02
107 1 0.00
108 4 0.02
109 9 0.04
110 57 0.23
111 7 0.03
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (104 bp):
ATTTACTTCATTAATGAGATAACATCATCCAAGTCATTAATAATGTATAGAATCTATACACTAAT
AATGTATCAAATATAAATCATTTATTTTAAAGGATTGAT
Found at i:9969476 original size:3 final size:3
Alignment explanation
Indices: 9969468--9969623 Score: 95
Period size: 3 Copynumber: 54.7 Consensus size: 3
9969458 TTTATTGCTG
*
9969468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTGA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * * * *
9969515 TATG TTA -TA TATA TTA TTA TTA TTA -TA CTA -TA GTA -AA TCA -TA
1 T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
9969557 TTA -TA TTA -TA TTA -TA TTA -TA TTA -TA TTA TTA TTA CTA TTA TCC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9969600 TTA TTA TT- TCTA TT- TTA TT- TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TT
9969624 TATTTTCTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
2 23 0.19
3 89 0.73
4 8 0.07
5 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9981109 original size:16 final size:15
Alignment explanation
Indices: 9981086--9981135 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
9981076 ATGCATCCAC
9981086 AAAA-AAAAAAAAAG
1 AAAATAAAAAAAAAG
*
9981100 AGAAATAAAAAAAATG
1 A-AAATAAAAAAAAAG
*
9981116 AAAAGAAAAAAAAAG
1 AAAATAAAAAAAAAG
9981131 AAAAT
1 AAAAT
9981136 TGATGGGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 1 0.03
15 19 0.63
16 10 0.33
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAATAAAAAAAAAG
Found at i:9981110 original size:21 final size:19
Alignment explanation
Indices: 9981086--9981134 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9981076 ATGCATCCAC
*
9981086 AAAAAAAAAAAAAGAGAAA
1 AAAAAAAAAAAAAAAGAAA
* **
9981105 TAAAAAAAATGAAAAGAAA
1 AAAAAAAAAAAAAAAGAAA
9981124 AAAAAAGAAAA
1 AAAAAA-AAAA
9981135 TTGATGGGGC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAGAAA
Found at i:9981135 original size:21 final size:21
Alignment explanation
Indices: 9981086--9981135 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9981076 ATGCATCCAC
9981086 AAAAAAAAA--AAAAGAGAAA
1 AAAAAAAAATGAAAAGAGAAA
*
9981105 TAAAAAAAATGAAAAGA-AAA
1 AAAAAAAAATGAAAAGAGAAA
9981125 AAAAAGAAAAT
1 AAAAA-AAAAT
9981136 TGATGGGGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 11 0.42
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAAAATGAAAAGAGAAA
Found at i:9982301 original size:17 final size:17
Alignment explanation
Indices: 9982270--9982324 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
9982260 TCTTTCTTGA
*
9982270 GAATTTAAAAGTCTTTGT
1 GAATTTAGAA-TCTTTGT
* *
9982288 GAATTTGGAATCTTTGC
1 GAATTTAGAATCTTTGT
*
9982305 GAATTTAGAATCTTTAT
1 GAATTTAGAATCTTTGT
9982322 GAA
1 GAA
9982325 ACTTGAAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (17 bp):
GAATTTAGAATCTTTGT
Found at i:9982335 original size:35 final size:35
Alignment explanation
Indices: 9982270--9982336 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
9982260 TCTTTCTTGA
* * *
9982270 GAATTTAAAAGTCTTTGTGAATTTGGAATCTTTGC
1 GAATTTAAAAGTCTTTATGAACTTGAAATCTTTGC
*
9982305 GAATTTAGAA-TCTTTATGAAACTTGAAATCTT
1 GAATTTAAAAGTCTTTATG-AACTTGAAATCTT
9982337 GCAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 7 0.26
35 20 0.74
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (35 bp):
GAATTTAAAAGTCTTTATGAACTTGAAATCTTTGC
Found at i:9982421 original size:86 final size:85
Alignment explanation
Indices: 9982316--9982508 Score: 217
Period size: 86 Copynumber: 2.3 Consensus size: 85
9982306 AATTTAGAAT
* * * *
9982316 CTTTATGAAACTTGAAATCTTGCAAATATTTTTTCCTGCGACTCTGAAAGTCCTTATGAACCTAG
1 CTTTATGAAATTTGAAATCTTACAAATATTTTTTCCTACGAATCTGAAAGTCCTTATGAACC-AG
* *
9982381 AAATTTTTGTGAATTAAAAAC
65 AAATCTCTGTGAATTAAAAAC
* ** * * * *
9982402 CTTTGTGAAATTTGAAATCTTATGAATTTTTTTTTCTATGAATCTGAAAGTCCTTGTGAACCAGA
1 CTTTATGAAATTTGAAATCTTACAAATATTTTTTCCTACGAATCTGAAAGTCCTTATGAACCAGA
* *
9982467 GATCTCTGTGAATTTAAAAC
66 AATCTCTGTGAATTAAAAAC
*
9982487 CTTTACGAAATTT-AGAATCTTA
1 CTTTATGAAATTTGA-AATCTTA
9982509 TGAATCTTCC
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
84 1 0.01
85 37 0.42
86 51 0.57
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (85 bp):
CTTTATGAAATTTGAAATCTTACAAATATTTTTTCCTACGAATCTGAAAGTCCTTATGAACCAGA
AATCTCTGTGAATTAAAAAC
Found at i:9983220 original size:37 final size:37
Alignment explanation
Indices: 9983137--9983220 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
9983127 TCATCCCGAT
* * *
9983137 CATTTGATCTTGGCTCAGTCCATATCATTTTTCTAAC
1 CATTTGATCTTGACTCAGTCCAGATCATTTTACTAAC
* * *
9983174 C-TTTCGATCTTGACTTAGTTCAGATCATTTTACTGAC
1 CATTT-GATCTTGACTCAGTCCAGATCATTTTACTAAC
9983211 CATTTGATCT
1 CATTTGATCT
9983221 CGGCTCAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 3 0.08
37 33 0.85
38 3 0.08
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (37 bp):
CATTTGATCTTGACTCAGTCCAGATCATTTTACTAAC
Found at i:9983397 original size:34 final size:34
Alignment explanation
Indices: 9983352--9983425 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
9983342 AATCTAAATC
*
9983352 ATTTTCCTGACTCATGATTTCAT-TCTGATCATTT
1 ATTTTCCTGACTCATAATTTCATCTC-GATCATTT
* * *
9983386 ATTTTCTTGACTTATAATTTCATCTCGGTCATTT
1 ATTTTCCTGACTCATAATTTCATCTCGATCATTT
9983420 ATTTTC
1 ATTTTC
9983426 AACCTCGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.20, C:0.19, G:0.08, T:0.53
Consensus pattern (34 bp):
ATTTTCCTGACTCATAATTTCATCTCGATCATTT
Found at i:9983505 original size:149 final size:149
Alignment explanation
Indices: 9983235--9983537 Score: 500
Period size: 149 Copynumber: 2.0 Consensus size: 149
9983225 TCAATCTAGA
9983235 TTATTTTCTTGACTTACAATTTCATCTCGGTCATTTATCTTCAACCTCAACTCGGTCCTAGTCAT
1 TTATTTTCTTGACTTACAATTTCATCTCGGTCATTTATCTTCAACCTCAACTCGGTCCTAGTCAT
* * * *
9983300 TTTTAGACTCGTAGTTTCATCCCGATCATTTGATTTTGACTTAATCTAAATCATTTTCCTGACTC
66 TTTTAGACTCGTAGTTTCATCCCGATCATTCGAATTCGACTTAATCCAAATCATTTTCCTGACTC
* *
9983365 ATGATTTCATTCTGATCAT
131 ACGATTTCATTCTCATCAT
* * * *
9983384 TTATTTTCTTGACTTATAATTTCATCTCGGTCATTTATTTTCAACCTCGACTCGGTCCT-GATCG
1 TTATTTTCTTGACTTACAATTTCATCTCGGTCATTTATCTTCAACCTCAACTCGGTCCTAG-TCA
9983448 TTTTTAGACTCGTAGTTTCATCCCGATCATTCGAATTCGACTTAATCCAAATCATTTTCCTGACT
65 TTTTTAGACTCGTAGTTTCATCCCGATCATTCGAATTCGACTTAATCCAAATCATTTTCCTGACT
9983513 CACGATTTCATTCTCATCAT
130 CACGATTTCATTCTCATCAT
9983533 TTATT
1 TTATT
9983538 GTTAACCTTG
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
148 1 0.01
149 142 0.99
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.44
Consensus pattern (149 bp):
TTATTTTCTTGACTTACAATTTCATCTCGGTCATTTATCTTCAACCTCAACTCGGTCCTAGTCAT
TTTTAGACTCGTAGTTTCATCCCGATCATTCGAATTCGACTTAATCCAAATCATTTTCCTGACTC
ACGATTTCATTCTCATCAT
Found at i:9983911 original size:5 final size:5
Alignment explanation
Indices: 9983867--9983955 Score: 67
Period size: 5 Copynumber: 17.2 Consensus size: 5
9983857 TAATTGCTGT
9983867 TATTA TTATTA TTATTA TA--A TATTGA T-TTA TATGTTA TATTA TATTA
1 TATTA -TATTA -TATTA TATTA TATT-A TATTA TA--TTA TATTA TATTA
* * * *
9983914 TATTA TTATTA TACTA TAGTA AATCA TATTA TATTA TATTA T
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
9983956 TATTTCTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.04
4 2 0.03
5 41 0.59
6 18 0.26
7 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:9985015 original size:51 final size:51
Alignment explanation
Indices: 9984904--9985022 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 51
9984894 AAAAGAATAA
* ***
9984904 TAAAAATAAATAAATAAATAATAAAAAAACCTTTTTCAAATAAGTTTAAAAG
1 TAAAAATAAAT-AATAAATAATAAAAAAACATTTTTCAAATAAGAAAAAAAG
*
9984956 TAAAAATAAATAATAAATAATAAAAAAATATTTTTCAAATAA-AAAAAGAAG
1 TAAAAATAAATAATAAATAATAAAAAAACATTTTTCAAATAAGAAAAA-AAG
9985007 -AAAGAATAAA-AATAAA
1 TAAA-AATAAATAATAAA
9985023 AAAAGAGGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 11 0.18
51 38 0.63
52 11 0.18
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.25
Consensus pattern (51 bp):
TAAAAATAAATAATAAATAATAAAAAAACATTTTTCAAATAAGAAAAAAAG
Found at i:9986730 original size:1 final size:1
Alignment explanation
Indices: 9986724--9986754 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
9986714 TTCTATTCTC
*
9986724 TTTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9986755 CTGATACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:9990495 original size:6 final size:6
Alignment explanation
Indices: 9990479--9990511 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
9990469 TTTTTTCCAG
9990479 CTTTTC C-TTTC CTTTTC CTTTT- CTTTTC CTTTT
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTTTT
9990512 GATTTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
CTTTTC
Found at i:9990501 original size:17 final size:17
Alignment explanation
Indices: 9990479--9990511 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9990469 TTTTTTCCAG
9990479 CTTTTCCTTTCCTTTTC
1 CTTTTCCTTTCCTTTTC
*
9990496 CTTTTCTTTTCCTTTT
1 CTTTTCCTTTCCTTTT
9990512 GATTTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTTCCTTTCCTTTTC
Found at i:9990511 original size:11 final size:11
Alignment explanation
Indices: 9990479--9990511 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
9990469 TTTTTTCCAG
*
9990479 CTTTTCCTTTC
1 CTTTTCCTTTT
9990490 CTTTTCCTTTT
1 CTTTTCCTTTT
9990501 CTTTTCCTTTT
1 CTTTTCCTTTT
9990512 GATTTGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTCCTTTT
Found at i:9990549 original size:17 final size:17
Alignment explanation
Indices: 9990527--9990564 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9990517 GTTGTTTGAA
*
9990527 ATTTTCCTCTAAAACCC
1 ATTTTCCTCGAAAACCC
*
9990544 ATTTTCCTCGAAAACTC
1 ATTTTCCTCGAAAACCC
9990561 ATTT
1 ATTT
9990565 GAAACCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTTCCTCGAAAACCC
Found at i:9991462 original size:18 final size:19
Alignment explanation
Indices: 9991441--9991477 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9991431 ACCAAAACAA
9991441 AATAA-ATTTTGAAAATAG
1 AATAACATTTTGAAAATAG
*
9991459 AATAACATTTTGGAAATAG
1 AATAACATTTTGAAAATAG
9991478 CTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATAACATTTTGAAAATAG
Found at i:9997514 original size:51 final size:51
Alignment explanation
Indices: 9997449--9997603 Score: 186
Period size: 51 Copynumber: 3.0 Consensus size: 51
9997439 TGGATAAGAA
* * *
9997449 GACTTACAAAAGAAGAATTCTAAAAAAAGAATATTTTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAAAGAAGATTCTTAATAGGTAAGTTT
* * *
9997500 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAA-A-AAAAGAAGATTCTTAATAGGTAAGTTT
* * * * *
9997552 GACTTATAGGAGAAGAATTCTAAAAAAAAAAGATTCTTAATAAGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAAAGAAGATTCTTAATAGGTAAGTTT
9997603 G
1 G
9997604 TATAGTTATA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 3 0.03
51 41 0.47
52 39 0.45
53 4 0.05
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.28
Consensus pattern (51 bp):
GACTTACAAGAGAAGAATTCTAAAAAAAGAAGATTCTTAATAGGTAAGTTT
Found at i:9998121 original size:32 final size:31
Alignment explanation
Indices: 9998085--9998158 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
9998075 TTGACCTAAT
* *
9998085 AAGTGGTATCAGAGCTGTGATGATTTTTAAAC
1 AAGTGGTATCAGAGCTGTGATGA-TCTCAAAC
* * * *
9998117 AAGTGATATTAGAGCTGTGGTGATCTCCAAC
1 AAGTGGTATCAGAGCTGTGATGATCTCAAAC
9998148 AAGTGGTATCA
1 AAGTGGTATCA
9998159 AAGTTGAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 14 0.41
32 20 0.59
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (31 bp):
AAGTGGTATCAGAGCTGTGATGATCTCAAAC
Found at i:9998193 original size:25 final size:24
Alignment explanation
Indices: 9998165--9998237 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
9998155 ATCAAAGTTG
*
9998165 AAGGTTCAAGATATGAGAAGATCTA
1 AAGGTTCAAGATATG-GAAGAGCTA
* *
9998190 AAGGTTCGAGATGTGGAAAGAGCTA
1 AAGGTTCAAGATATGG-AAGAGCTA
*
9998215 AAAGTTCAAGATATGGGAAGAGC
1 AAGGTTCAAGATAT-GGAAGAGC
9998238 ATGGTTCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.30, T:0.21
Consensus pattern (24 bp):
AAGGTTCAAGATATGGAAGAGCTA
Found at i:9998637 original size:52 final size:52
Alignment explanation
Indices: 9998535--9998638 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
9998525 TGGACAAGAA
* *
9998535 AACTTGCAAAAGAAGAATTCTAAGAGAAAGATAATTCTTAATATGTAAGTTT
1 AACTTGCAAAAGAAGAATTCTAAGAGAAAGATAATTCTTAATAAGCAAGTTT
* * *
9998587 AACTTGCAAGAGAAGAATTCTAAGAGGAAAG-TGATTCTTAGTAAGCAAGTTT
1 AACTTGCAAAAGAAGAATTCTAAGA-GAAAGATAATTCTTAATAAGCAAGTTT
9998639 GTATGGTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 41 0.89
53 5 0.11
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (52 bp):
AACTTGCAAAAGAAGAATTCTAAGAGAAAGATAATTCTTAATAAGCAAGTTT
Found at i:10000200 original size:3 final size:3
Alignment explanation
Indices: 10000192--10000220 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10000182 TCAAGGCTAT
10000192 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
10000221 TTCTCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:10002928 original size:2 final size:2
Alignment explanation
Indices: 10002921--10002956 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10002911 TTCTTTCTTC
10002921 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10002957 GTGTCTTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10004568 original size:2 final size:2
Alignment explanation
Indices: 10004561--10004593 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10004551 GATAGATAAC
10004561 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10004594 GTTACCAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10011085 original size:29 final size:29
Alignment explanation
Indices: 10011048--10011106 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10011038 AGTTAATAAA
* *
10011048 TTTATAATTCATAA-ATCACATTAGATATT
1 TTTAAAATTCA-AATATCACATTAAATATT
*
10011077 TTTAAAATTCAAATATTACATTAAATATT
1 TTTAAAATTCAAATATCACATTAAATATT
10011106 T
1 T
10011107 CATTGTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (29 bp):
TTTAAAATTCAAATATCACATTAAATATT
Found at i:10015607 original size:189 final size:188
Alignment explanation
Indices: 10015272--10015651 Score: 593
Period size: 189 Copynumber: 2.0 Consensus size: 188
10015262 ATAATAATAC
* *
10015272 ATACTCACACTATTCTTTACAGATTGCATCCAGTTCCTCTACCATGAAGCTTTTTTTACTCTCCC
1 ATACTCACACCATTCTTTACAGATTGCATCCAGTTCCTCTACCATGAAGCTTTCTTTACTCTCCC
*
10015337 ACTAAAAAAATATCAAAAGTAAATGTTAATTAATGAGAACATAATTTATCTTTTTATTTTTTTGA
66 ACTAAAAAAATATCAAAAGTAAATGTTAATAAATGAGAACATAATTTATCTTTTTATTTTTTTGA
* * *
10015402 AGATATTACAAGTTTATGAAATTTATCCTAACCTTGAATGGTGTGGTCATAAAATCAT
131 AGATATAACAAGTTTATGAAATTTATACTAACCTTGAATGCTGTGGTCATAAAATCAT
* * *
10015460 ATACTCACACCATTCTTTACGGATTTCATCCAGTTCCTCTACCGTGAAGCTTTCTTTA-TACTCC
1 ATACTCACACCATTCTTTACAGATTGCATCCAGTTCCTCTACCATGAAGCTTTCTTTACT-CTCC
*
10015524 CACTAAAAAAAATATCAGAAGTAAATGTTAATAAATGAGAACATAATTTAGT-TTTTTATTTTTT
65 CACT-AAAAAAATATCAAAAGTAAATGTTAATAAATGAGAACATAATTTA-TCTTTTTATTTTTT
* ** *
10015588 TGAATATATAATGAGTTTATGAAATTTATACTACCCTTGAATGCTGTGGTCATAAAATCAT
128 TGAAGATATAACAAGTTTATGAAATTTATACTAACCTTGAATGCTGTGGTCATAAAATCAT
10015649 ATA
1 ATA
10015652 AAACTATCTC
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
187 1 0.01
188 61 0.35
189 112 0.64
190 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (188 bp):
ATACTCACACCATTCTTTACAGATTGCATCCAGTTCCTCTACCATGAAGCTTTCTTTACTCTCCC
ACTAAAAAAATATCAAAAGTAAATGTTAATAAATGAGAACATAATTTATCTTTTTATTTTTTTGA
AGATATAACAAGTTTATGAAATTTATACTAACCTTGAATGCTGTGGTCATAAAATCAT
Found at i:10018386 original size:12 final size:12
Alignment explanation
Indices: 10018369--10018408 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
10018359 ATCATTTAGT
*
10018369 ATACGATTCAAC
1 ATACGATTCAGC
*
10018381 ATACGATTTAGC
1 ATACGATTCAGC
*
10018393 ATATGATTCAGC
1 ATACGATTCAGC
10018405 ATAC
1 ATAC
10018409 TAATATCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (12 bp):
ATACGATTCAGC
Found at i:10018389 original size:24 final size:23
Alignment explanation
Indices: 10018345--10018408 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
10018335 CCATTCAGAA
* * *
10018345 ATACCATTCAACAAATCATTTAGT
1 ATACGATTCAACATA-CATTTAGC
10018369 ATACGATTCAACATACGATTTAGC
1 ATACGATTCAACATAC-ATTTAGC
* *
10018393 ATATGATTCAGCATAC
1 ATACGATTCAACATAC
10018409 TAATATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
ATACGATTCAACATACATTTAGC
Found at i:10019566 original size:187 final size:183
Alignment explanation
Indices: 10019170--10020102 Score: 915
Period size: 187 Copynumber: 5.0 Consensus size: 183
10019160 ATTAAACGAC
* * *
10019170 GCCTTTAATAATCCTAAATATTTTTAAAAGAAAATTATTGAAGGCATTTGTTCTCAAAAATTACC
1 GCCTTTAATAATCCTAAAAATTTTTAAAAG-AAATTATTGAAGGCGTTTGTTCT-AAAAAATACC
* * * *
10019235 TTCAATAATTATGTATAAAATTTAAAAGAAATTATTGAAAGTATTTTTTTGGAATAAAATGCCTT
64 TTCAATAATTATGTACAAAATTTAAAAG-AATTAGTGAAAGTATTTTTCTAGAAT-AAATG-CTT
* ** * *
10019300 CACTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGTATATTTCACTAGAAAAT
126 CACTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * *
10019358 GCTTTTAATAAT-CTCAAAAATTTTTAAAATGAAATTATTGAAGGCCTTTATTCTGAAAAAATGC
1 GCCTTTAATAATCCT-AAAAATTTTTAAAA-GAAATTATTGAAGGCGTTTGTTCT-AAAAAATAC
* * * * * *
10019422 CTTCAATATTTATGTACATAAA-TTAAATAGAATCAGTGAAAGTGTTTTCCTAAAATAACTGCAT
63 CTTCAATAATTATGTACA-AAATTTAAA-AGAATTAGTGAAAGTATTTTTCTAGAATAAATGC-T
* * *
10019486 TTACTAACCGTCTTAAAATTTGAGTAGTGAAATATTAAAGGTATTTTTCACTAGAAGAT
125 TCACTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* **
10019545 GCCTTTAATAATCCTAAAAATTTTTAAAAGAAAATTATTGAAGGCTTTTGTTCTAAAAGAACGCC
1 GCCTTTAATAATCCTAAAAATTTTTAAAAG-AAATTATTGAAGGCGTTTGTTCTAAAA-AATACC
* *
10019610 TTCAATAATTATGTACAAAATTTAAAAGAAATTA-TTAAAGGTATTTTTCTAGAATAAACGTCTT
64 TTCAATAATTATGTACAAAATTTAAAAG-AATTAGTGAAA-GTATTTTTCTAGAATAAATG-CTT
* * * *
10019674 CACTAATCAAT-TTAAAATTTGAGTACT-AGTATATTGAAGGTGTTTTTCACTAGAAGAT
126 CACTAA-CCATCTTAAAATTTGAGTAGTGA-AATATTGAAGGTATTTTTCACTAGAAGAT
** * *
10019732 ATCTTTAATAATCCTAAAAATTTTTAAAATAAAATTATTTAAGGCGTTTGTTCTCAAAAAAATAC
1 GCCTTTAATAATCCTAAAAATTTTTAAAA-GAAATTATTGAAGGCGTTTGTTCT--AAAAAATAC
* * * * * *
10019797 CTTCAATAATTATGTACATAAA-ATAAATAGAATCAGTGAAGGTGTTTTCCTATAATAAATGCTT
63 CTTCAATAATTATGTACA-AAATTTAAA-AGAATTAGTGAAAGTATTTTTCTAGAATAAATGC-T
* * * * * * * * *
10019861 TCATTAACCATATTAAAATTTGAATAGTAAAATATTAAAGGCATTTTTTACTGGAAGAC
125 TCACTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * * * * *
10019920 GCCTTTAATAATCCCAAAAATTTTAAAAACAAATTATTAAAGGTGTTTATTCTTAAAAAACACCT
1 GCCTTTAATAATCCTAAAAATTTTTAAAAGAAATTATTGAAGGCGTTTGTTC-TAAAAAATACCT
** * * * *
10019985 TCAATAATTACATACAAAATTTAAAAAGAATTAGTGAAGGCATTTTTTTTATAATAAATGCTTCA
65 TCAATAATTATGTACAAAATTT-AAAAGAATTAGTGAAAGTA-TTTTTCTAGAATAAATGCTTCA
**** * ** *
10020050 CTATTTGTCTTAAAATTTAAGTAGTGAAATATTGAAGGCGTTTTGCACTAGAA
128 CTAACCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAA
10020103 AACGTCTTCA
Statistics
Matches: 617, Mismatches: 101, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
185 3 0.00
186 97 0.16
187 287 0.47
188 211 0.34
189 19 0.03
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (183 bp):
GCCTTTAATAATCCTAAAAATTTTTAAAAGAAATTATTGAAGGCGTTTGTTCTAAAAAATACCTT
CAATAATTATGTACAAAATTTAAAAGAATTAGTGAAAGTATTTTTCTAGAATAAATGCTTCACTA
ACCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
Found at i:10020065 original size:374 final size:371
Alignment explanation
Indices: 10019167--10020104 Score: 1156
Period size: 375 Copynumber: 2.5 Consensus size: 371
10019157 CATATTAAAC
* * * **
10019167 GACGCCTTTAATAATCCTAAATATTTTTAAAAGAAAATTATTGAAGGCATTTGTTCTCAAAAATT
1 GACGCCTTTAATAATCCTAAA-AATTTTAAAAGAAAATTATTGAAGG-TTTTGTTCTTAAAAAAC
* * *
10019232 ACCTTCAATAATTATGTATAAAATTTAAAAGAAATTATTGAAAGTATTTTTTTGGAATAAAATGC
64 ACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTATTTTTTTAGAAT-AAATGC
* * * * *
10019297 CTTCACTAACCATCTTAAAATTTGAGTATTGGTATATTGAAGGTATATTTCACTAGAAAATGCTT
128 CTTCACTATCAATCTTAAAATTTGAGTACT-GTATATTGAAGGTGTTTTTCACTAGAAAATGCTT
* * *
10019362 TTAATAATCTCAAAAATTTTTAAAATGAAATTATTGAAGGCCTTTATTCTGAAAAAATGCCTTCA
192 TTAATAATCTCAAAAATTTTTAAAATAAAATTATTGAAGGCCTTTATTCTAAAAAAATACCTTCA
* * *
10019427 ATATTTATGTACATAAATTAAATAGAATCAGTGAAAGTGTTTTCCTAAAATAACTGCATTTACTA
257 ATAATTATGTACATAAAATAAATAGAATCAGTGAAAGTGTTTTCCTAAAATAAATGCATTTACTA
* * * * *
10019492 ACCGTCTTAAAATTTGAGTAGTGAAATATTAAAGGTATTTTTCACTAGAA
322 ACCATATTAAAATTTGAATAGTAAAATATTAAAGGCATTTTTCACTAGAA
*
10019542 GATGCCTTTAATAATCCTAAAAATTTTTAAAAGAAAATTATTGAAGGCTTTTGTTC-TAAAAGAA
1 GACGCCTTTAATAATCCTAAAAA-TTTTAAAAGAAAATTATTGAAGG-TTTTGTTCTTAAAA-AA
* * * * *
10019606 CGCCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTCTAGAATAAACGT
63 CACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTATTTTTTTAGAATAAATGC
10019671 CTTCACTAATCAAT-TTAAAATTTGAGTACTAGTATATTGAAGGTGTTTTTCACTAGAAGATAT-
128 CTTCACT-ATCAATCTTAAAATTTGAGTACT-GTATATTGAAGGTGTTTTTCACTAGAA-A-ATG
* * *
10019734 C-TTTAATAATC-CTAAAAATTTTTAAAATAAAATTATTTAAGGCGTTTGTTCTCAAAAAAATAC
189 CTTTTAATAATCTC-AAAAATTTTTAAAATAAAATTATTGAAGGCCTTTATTCT-AAAAAAATAC
* *
10019797 CTTCAATAATTATGTACATAAAATAAATAGAATCAGTGAAGGTGTTTTCCTATAATAAATGC-TT
252 CTTCAATAATTATGTACATAAAATAAATAGAATCAGTGAAAGTGTTTTCCTAAAATAAATGCATT
* * *
10019861 TCATTAACCATATTAAAATTTGAATAGTAAAATATTAAAGGCATTTTTTACTGGAA
317 T-ACTAACCATATTAAAATTTGAATAGTAAAATATTAAAGGCATTTTTCACTAGAA
* * *
10019917 GACGCCTTTAATAATCCCAAAAATTTTAAAA-ACAAATTATTAAAGGTGTTTATTCTTAAAAAAC
1 GACGCCTTTAATAATCCTAAAAATTTTAAAAGA-AAATTATTGAAGGT-TTTGTTCTTAAAAAAC
** * * *
10019981 ACCTTCAATAATTACATACAAAATTTAAAA-AGAATTAGTGAAGGCATTTTTTTTATAATAAATG
64 ACCTTCAATAATTATGTACAAAATTTAAAAGA-AATTATTGAAGGTA-TTTTTTTAGAATAAATG
*** * * * * *
10020045 -CTTCACTATTTGTCTTAAAATTTAAGTAGTGAAATATTGAAGGCGTTTTGCACTAGAAAA
127 CCTTCACTATCAATCTTAAAATTTGAGTACTG-TATATTGAAGGTGTTTTTCACTAGAAAA
10020105 CGTCTTCAAT
Statistics
Matches: 488, Mismatches: 60, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
372 1 0.00
373 9 0.02
374 215 0.44
375 261 0.53
376 2 0.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (371 bp):
GACGCCTTTAATAATCCTAAAAATTTTAAAAGAAAATTATTGAAGGTTTTGTTCTTAAAAAACAC
CTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTATTTTTTTAGAATAAATGCCTT
CACTATCAATCTTAAAATTTGAGTACTGTATATTGAAGGTGTTTTTCACTAGAAAATGCTTTTAA
TAATCTCAAAAATTTTTAAAATAAAATTATTGAAGGCCTTTATTCTAAAAAAATACCTTCAATAA
TTATGTACATAAAATAAATAGAATCAGTGAAAGTGTTTTCCTAAAATAAATGCATTTACTAACCA
TATTAAAATTTGAATAGTAAAATATTAAAGGCATTTTTCACTAGAA
Found at i:10020105 original size:125 final size:124
Alignment explanation
Indices: 10019976--10020218 Score: 265
Period size: 124 Copynumber: 2.0 Consensus size: 124
10019966 TTATTCTTAA
** * * *
10019976 AAAACACCTTCAAT-AATTACATACAAAATTTAAAAAGAATTAGTGAAGGCATTTTTTTTATAAT
1 AAAACACCTTCAATAAATT-CATACAAAAAATAAAAAGAATTAGTCAAGGCA-TTTTTCTAGAAT
* **** *
10020040 AAATG-CTTCACTATTTGTCTTAAAATTTAAGTAGTGAAATATTGAAGGCGTTTTGCACTAG
64 AAATGCCTTCAATA-ACCCCTTAAAATTTAAGTAGTGAAATATTAAAGGCGTTTTGCACTAG
** ** * *
10020101 AAAACGTCTTCAATAAATTTTTTCAAAAAATAAAATGAATTAGTCAAGGCATTTTTCTAGAATAA
1 AAAACACCTTCAATAAATTCATACAAAAAATAAAAAGAATTAGTCAAGGCATTTTTCTAGAATAA
* * *
10020166 ATGCCTTCAATAACCCCTTAAAATTTTAGTAGTGTAATATTAAATGCGTTTTG
66 ATGCCTTCAATAACCCCTTAAAATTTAAGTAGTGAAATATTAAAGGCGTTTTG
10020219 TACAAACGAC
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
124 48 0.50
125 44 0.46
126 4 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (124 bp):
AAAACACCTTCAATAAATTCATACAAAAAATAAAAAGAATTAGTCAAGGCATTTTTCTAGAATAA
ATGCCTTCAATAACCCCTTAAAATTTAAGTAGTGAAATATTAAAGGCGTTTTGCACTAG
Found at i:10025472 original size:179 final size:179
Alignment explanation
Indices: 10025021--10025478 Score: 668
Period size: 179 Copynumber: 2.6 Consensus size: 179
10025011 TCTTGTGTAG
*
10025021 GGAAAATTGATACTTTCAACTTTTCC-CTAAAATA-TTTTTTTG-AAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
10025083 TTGATACTTTC-ACTTTTCCCCAAAAATA----TTTTTTGGAAATTTATTTCTCAGGAAAATTGA
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
*
10025143 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTATAA
131 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTATAA
* * * *
10025192 GAAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAAGGAAA
* ** ** *
10025257 ATTGATACTTTCAACTTTT-TCTCAAAAACCTTTTTTTTTTTTAAATTTATTTTTAAGGAAAATT
65 ATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTTGGAAATTTATTTCTAAGGAAAATT
* *
10025321 GATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGGAAATTTATTTCTAA
129 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTATAA
10025371 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAAATTTATTTTTAAGGAAA
10025436 ATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTGGAA
65 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAA
10025479 TTTTTCATTT
Statistics
Matches: 250, Mismatches: 25, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
171 24 0.10
172 7 0.03
173 8 0.03
174 5 0.02
175 25 0.10
176 11 0.04
178 11 0.04
179 90 0.36
180 69 0.28
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (179 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTATAA
Found at i:10025475 original size:60 final size:58
Alignment explanation
Indices: 10025021--10025473 Score: 655
Period size: 60 Copynumber: 7.7 Consensus size: 58
10025011 TCTTGTGTAG
*
10025021 GGAAAATTGATACTTTCAACTTTTCC-CTAAAATA-TTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
* * * *
10025077 GGAAAATTGATACTTTC-ACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTCA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
* *
10025133 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAATTTATTTTTAA
* * *
10025192 GAAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA-TTT-ATTTTTAA
* * *
10025252 GGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTTTTTAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTTGAAATTTATTTTTAA
* *
10025313 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
10025371 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTG-AAATTTATTTTTAA
10025431 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTT
10025474 TGGAATTTTT
Statistics
Matches: 360, Mismatches: 25, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
55 8 0.02
56 60 0.17
57 17 0.05
58 68 0.19
59 71 0.20
60 82 0.23
61 39 0.11
62 3 0.01
63 12 0.03
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTTTAA
Found at i:10025481 original size:119 final size:117
Alignment explanation
Indices: 10025021--10025472 Score: 693
Period size: 119 Copynumber: 3.9 Consensus size: 117
10025011 TCTTGTGTAG
*
10025021 GGAAAATTGATACTTTCAACTTTTCC-CTAAAATA--TTTTTTTGAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTTTAAGGAAAA
* *
10025083 TTGATACTTTC-ACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTCA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
* * *
10025133 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTATAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTTTAAGGAAAA
* *
10025198 TTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTT-TCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAA-TTT-ATTTCT-AA
* * *
10025252 GGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTTTTTTTAAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTTTGAAATTTATTTTTAAGGAA
10025317 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
64 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
10025371 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AAATTTATTTTTAAGGAAA
10025436 ATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTT
65 ATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT
10025473 TTGGAATTTT
Statistics
Matches: 309, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
112 26 0.08
113 7 0.02
115 36 0.12
116 16 0.05
117 21 0.07
118 58 0.19
119 74 0.24
120 4 0.01
121 67 0.22
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:10025525 original size:11 final size:11
Alignment explanation
Indices: 10025509--10025579 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
10025499 AAAATAGAAT
10025509 AATAAAGATAA
1 AATAAAGATAA
10025520 AATAAA-AT--
1 AATAAAGATAA
10025528 AA-AAA-AT-A
1 AATAAAGATAA
10025536 AATAAAG--AA
1 AATAAAGATAA
*
10025545 AATAAAAAT-A
1 AATAAAGATAA
*
10025555 AATAAAAAATAA
1 AAT-AAAGATAA
10025567 AATAAAGATAA
1 AATAAAGATAA
10025578 AA
1 AA
10025580 AGAATATTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
7 5 0.10
8 4 0.08
9 10 0.20
10 6 0.12
11 21 0.42
12 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (11 bp):
AATAAAGATAA
Found at i:10025530 original size:16 final size:15
Alignment explanation
Indices: 10025494--10025579 Score: 65
Period size: 16 Copynumber: 5.7 Consensus size: 15
10025484 CATTTTTATT
*
10025494 TAAAGAAAATAGAATAA
1 TAAAGAAAA-ATAA-AA
10025511 TAAAGATAAAATAAAA
1 TAAAGA-AAAATAAAA
10025527 T--A-AAAAAT-AAA
1 TAAAGAAAAATAAAA
10025538 TAAAG-AAAATAAAAA
1 TAAAGAAAAAT-AAAA
*
10025553 TAAATAAAAAATAAAA
1 TAAA-GAAAAATAAAA
10025569 TAAAGATAAAA
1 TAAAGA-AAAA
10025580 AGAATATTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
13 7 0.12
14 1 0.02
15 8 0.14
16 15 0.26
17 14 0.25
18 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
TAAAGAAAAATAAAA
Found at i:10025591 original size:30 final size:27
Alignment explanation
Indices: 10025509--10025592 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 27
10025499 AAAATAGAAT
10025509 AATAAAGATAAAATAAA-ATAAAAAATA
1 AATAAAGATAAAA-AAATATAAAAAATA
*
10025536 AATAAAGAAAATAAAAATAAATAAAAAATAA
1 AATAAAGATAA-AAAAAT--ATAAAAAAT-A
*
10025567 AATAAAGATAAAAAGAATATTAAAAA
1 AATAAAGATAAAAA-AATATAAAAAA
10025593 CCTAATCTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
27 13 0.27
28 2 0.04
29 7 0.15
30 12 0.25
31 14 0.29
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (27 bp):
AATAAAGATAAAAAAATATAAAAAATA
Found at i:10025639 original size:5 final size:5
Alignment explanation
Indices: 10025631--10025669 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
10025621 AAAACTGGAG
10025631 CGGCT CGGCTAT CGG-T CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGC--T CGGCT CGGCT CGGCT CGGCT CGGCT CGG
10025670 AGGAGGGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
7 4 0.13
ACGTcount: A:0.03, C:0.36, G:0.41, T:0.21
Consensus pattern (5 bp):
CGGCT
Done.