Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 65 of 310
Found at i:20800015 original size:18 final size:18
Alignment explanation
Indices: 20799992--20800032 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
20799982 ACTTAGGTAC
20799992 ATAGAAAATAACTAGTGA
1 ATAGAAAATAACTAGTGA
20800010 ATAGAAAATAACTAGTGA
1 ATAGAAAATAACTAGTGA
20800028 A-AGAA
1 ATAGAA
20800033 CTACAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.59, C:0.05, G:0.17, T:0.20
Consensus pattern (18 bp):
ATAGAAAATAACTAGTGA
Found at i:20804415 original size:19 final size:19
Alignment explanation
Indices: 20804393--20804469 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
20804383 AATTTTGTAT
20804393 TTTTAAAAAAATTATAAAA
1 TTTTAAAAAAATTATAAAA
*
20804412 TTTTAAAAAAATCTAAAAAA
1 TTTTAAAAAAAT-TATAAAA
* *
20804432 TATATAAAAAAAGT-T-AAA
1 T-TTTAAAAAAATTATAAAA
**
20804450 TTTTAAAAATTTTATAAAA
1 TTTTAAAAAAATTATAAAA
20804469 T
1 T
20804470 AATAATTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.17
18 5 0.11
19 16 0.35
20 8 0.17
21 9 0.20
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
TTTTAAAAAAATTATAAAA
Found at i:20804792 original size:21 final size:21
Alignment explanation
Indices: 20804768--20804809 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20804758 ACCTTTTCTA
* *
20804768 AAGTTAAAAGTTAAAATTATT
1 AAGTTAAAAGGTAAAACTATT
20804789 AAGTTAAAAGGTAAAACTATT
1 AAGTTAAAAGGTAAAACTATT
20804810 TTGTTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:20807665 original size:58 final size:55
Alignment explanation
Indices: 20807570--20807734 Score: 212
Period size: 58 Copynumber: 3.0 Consensus size: 55
20807560 ACTTCTGATC
* * *
20807570 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
1 AGTG-CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG--A
*
20807628 AGTGGCAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACAAGTG-
1 AGT-GCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
* *
20807683 A-T--AAGTGATAAGTGGTAGATTTAGCTACACTTATCTGATCACTGACAAGTGA
1 AGTGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
20807735 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
51 46 0.47
54 1 0.01
55 1 0.01
58 49 0.50
59 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (55 bp):
AGTGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
Found at i:20807735 original size:51 final size:51
Alignment explanation
Indices: 20807623--20807737 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
20807613 CAGTGATAAG
** * *
20807623 TGACAAGTGGCAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAG
1 TGACAAGTGATAAGTGATAAGTGGTAGATTTAACTACACTTATCTGATCAC
*
20807674 TGACAAGTGATAAGTGATAAGTGGTAGATTTAGCTACACTTATCTGATCAC
1 TGACAAGTGATAAGTGATAAGTGGTAGATTTAACTACACTTATCTGATCAC
20807725 TGACAAGTGATAA
1 TGACAAGTGATAA
20807738 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
TGACAAGTGATAAGTGATAAGTGGTAGATTTAACTACACTTATCTGATCAC
Found at i:20810498 original size:21 final size:21
Alignment explanation
Indices: 20810461--20810500 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20810451 TAAAAAATCA
*
20810461 ATTTTCATTTTAGTTTGTATT
1 ATTTTCATTATAGTTTGTATT
20810482 ATTTT-ATTATAGATTTGTA
1 ATTTTCATTATAG-TTTGTA
20810501 CCAATGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (21 bp):
ATTTTCATTATAGTTTGTATT
Found at i:20815505 original size:4 final size:4
Alignment explanation
Indices: 20815496--20815530 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
20815486 ATATCATTCT
20815496 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
20815531 TCTGTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:20819069 original size:45 final size:45
Alignment explanation
Indices: 20819013--20819101 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
20819003 TAAAACCACT
20819013 TAACATAGGACAGAACATGGGAGAATACATGA-CAGGAATAAGTTG
1 TAACATAGGACAGAACATGGGAGAATACAT-ACCAGGAATAAGTTG
*
20819058 TAACATGGGACAGAACATGGGAGAATACATACCAGGAATAAGTT
1 TAACATAGGACAGAACATGGGAGAATACATACCAGGAATAAGTT
20819102 CTACCATGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (45 bp):
TAACATAGGACAGAACATGGGAGAATACATACCAGGAATAAGTTG
Found at i:20825248 original size:22 final size:22
Alignment explanation
Indices: 20825223--20825278 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
20825213 TCAACGCAAC
20825223 CCTTTCTATTTTTTTAACCTTT
1 CCTTTCTATTTTTTTAACCTTT
* **
20825245 CCTTTCTAGTTTTTTAAGGTTT
1 CCTTTCTATTTTTTTAACCTTT
20825267 CCTTTCTATTTT
1 CCTTTCTATTTT
20825279 AATGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.05, T:0.62
Consensus pattern (22 bp):
CCTTTCTATTTTTTTAACCTTT
Found at i:20826359 original size:39 final size:38
Alignment explanation
Indices: 20826296--20826369 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
20826286 AAAAGAAAGG
* *
20826296 AATTAAATCAAGATAAATGTGTTAATATGGTAAATATT
1 AATTAAATCAAGATAAATGAGTTAATATGGCAAATATT
*
20826334 AATTAAATCATGATCAAATGAGTTAATATGGCAAAT
1 AATTAAATCAAGAT-AAATGAGTTAATATGGCAAAT
20826370 GTTTGGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 13 0.41
39 19 0.59
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (38 bp):
AATTAAATCAAGATAAATGAGTTAATATGGCAAATATT
Found at i:20829756 original size:61 final size:61
Alignment explanation
Indices: 20829637--20829759 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
20829627 TTTAGTCCTA
*
20829637 GTTTTATTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCCTGCT
1 GTTTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCT
20829698 GTTTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCT
1 GTTTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCT
20829759 G
1 G
20829760 ATTTCATGCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (61 bp):
GTTTTATTTAGTTAATTTTGCAATATTCCAATTTTACCCTTAATTTATCAATTTTCCTGCT
Found at i:20839347 original size:21 final size:22
Alignment explanation
Indices: 20839321--20839361 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20839311 GTCATTTTGT
*
20839321 CATCGTTAGTT-ATCGACTTGG
1 CATCGTTAGTTGATCAACTTGG
20839342 CATCGTTAGTTGATCAACTT
1 CATCGTTAGTTGATCAACTT
20839362 TATAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (22 bp):
CATCGTTAGTTGATCAACTTGG
Found at i:20843959 original size:16 final size:16
Alignment explanation
Indices: 20843938--20843973 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20843928 TGGTTCGCTG
* *
20843938 TAATGGATTAGAGTTA
1 TAATGGAATAAAGTTA
20843954 TAATGGAATAAAGTTA
1 TAATGGAATAAAGTTA
20843970 TAAT
1 TAAT
20843974 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (16 bp):
TAATGGAATAAAGTTA
Found at i:20844073 original size:56 final size:56
Alignment explanation
Indices: 20844001--20844193 Score: 163
Period size: 56 Copynumber: 3.3 Consensus size: 56
20843991 GGTTGAATGG
*
20844001 AATGGAATAGAATTGTAATGATATTCTTATGTTTGGTTGCACGTTTGGTTCGCTGT
1 AATGGAATAGAACTGTAATGATATTCTTATGTTTGGTTGCACGTTTGGTTCGCTGT
** ** *** ** ** * * *
20844057 AATGGAATAGAGTTGTAATAGAATAAAGCTGTAATCAATAATT-CAATTATTTGGTTGGATGA
1 AATGGAATAGAACTGTAAT-G-AT-ATTCT-T-ATGTTTGGTTGC-A-CGTTTGGTTCGCTGT
*
20844119 AATCGAATAGAACTGTAATGATATTCTTATGTTTGGTTGCACGTTTGGTTCGCTGT
1 AATGGAATAGAACTGTAATGATATTCTTATGTTTGGTTGCACGTTTGGTTCGCTGT
*
20844175 AATGGAATAGAGCTGTAAT
1 AATGGAATAGAACTGTAAT
20844194 AGAATAAAGC
Statistics
Matches: 99, Mismatches: 30, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
56 45 0.45
57 7 0.07
58 4 0.04
59 6 0.06
60 4 0.04
61 7 0.07
62 26 0.26
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (56 bp):
AATGGAATAGAACTGTAATGATATTCTTATGTTTGGTTGCACGTTTGGTTCGCTGT
Found at i:20844075 original size:16 final size:16
Alignment explanation
Indices: 20844052--20844091 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20844042 CGTTTGGTTC
* *
20844052 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAAA
*
20844068 GTTGTAATAGAATAAA
1 GCTGTAATAGAATAAA
20844084 GCTGTAAT
1 GCTGTAAT
20844092 CAATAATTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATAGAATAAA
Found at i:20844127 original size:118 final size:118
Alignment explanation
Indices: 20843919--20844275 Score: 579
Period size: 118 Copynumber: 3.0 Consensus size: 118
20843909 AAGAAAACAC
* * * *
20843919 TTGCACGTTTGGTTCGCTGTAATGGATTAGAGTTATAATGGAATAAAGTTATAATCAGTAATTCA
1 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATAGAATAAAGCTATAATCAGTAATTCA
20843984 ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
66 ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
* *
20844037 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATAGAATAAAGCTGTAATCAATAATTCA
1 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATAGAATAAAGCTATAATCAGTAATTCA
* * * * *
20844102 ATTATTTGGTTGGATGAAATCGAATAGAACTGTAATGATATTCTTATGTTTGG
66 ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
* * *
20844155 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGCTGTAATAGAATAAAGCTTTAATTAGTAATTCA
1 TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATAGAATAAAGCTATAATCAGTAATTCA
*
20844220 ATTGTTTAGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
66 ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
20844273 TTG
1 TTG
20844276 AATGAAATGA
Statistics
Matches: 218, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 218 1.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (118 bp):
TTGCACGTTTGGTTCGCTGTAATGGAATAGAGTTGTAATAGAATAAAGCTATAATCAGTAATTCA
ATTGTTTGGTTGAATGGAATGGAATAGAATTGTAATGATATTCTTATGTTTGG
Found at i:20844191 original size:16 final size:16
Alignment explanation
Indices: 20844170--20844209 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20844160 CGTTTGGTTC
* *
20844170 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAAA
20844186 GCTGTAATAGAATAAA
1 GCTGTAATAGAATAAA
*
20844202 GCTTTAAT
1 GCTGTAAT
20844210 TAGTAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (16 bp):
GCTGTAATAGAATAAA
Found at i:20844468 original size:61 final size:63
Alignment explanation
Indices: 20844396--20844515 Score: 176
Period size: 62 Copynumber: 1.9 Consensus size: 63
20844386 TATTAAAATG
20844396 ATAAATAATTTAA-T-CATGTTTTAATATAATTATTACTAA-ATAT-AATTAAATAAAAATAAAA
1 ATAAATAATTTAATTACAT-TTTTAATATAATTATTACTAATATATGAATT-AATAAAAATAAAA
* *
20844457 ATAAATAATTTAATTACATTTTTAATATAATTTTTATTAATATATGAATTAATAAAAAT
1 ATAAATAATTTAATTACATTTTTAATATAATTATTACTAATATATGAATTAATAAAAAT
20844516 CATAACATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
61 13 0.25
62 20 0.38
63 16 0.30
64 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (63 bp):
ATAAATAATTTAATTACATTTTTAATATAATTATTACTAATATATGAATTAATAAAAATAAAA
Found at i:20844526 original size:61 final size:58
Alignment explanation
Indices: 20844390--20844526 Score: 152
Period size: 62 Copynumber: 2.3 Consensus size: 58
20844380 AATTATTATT
*
20844390 AAAATGATAAATAATTTAATCATGTTTTAATATAATTATTACTAAATATAATTAAATA
1 AAAATAATAAATAATTTAATCATGTTTTAATATAATTATTACTAAATATAATTAAATA
* *
20844448 AAAATAAAAATAAATAATTTAATTACAT-TTTTAATATAATTTTTATTAATATATGAATT-AATA
1 AAAAT---AATAAATAATTTAA-T-CATGTTTTAATATAATTATTACTAA-ATAT-AATTAAATA
*
20844511 AAAATCATAACATAAT
1 AAAATAATAA-ATAAT
20844527 CTTATGACCA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
58 5 0.07
60 4 0.06
61 18 0.27
62 20 0.30
63 16 0.24
64 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (58 bp):
AAAATAATAAATAATTTAATCATGTTTTAATATAATTATTACTAAATATAATTAAATA
Found at i:20849350 original size:5 final size:5
Alignment explanation
Indices: 20849340--20849381 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
20849330 GACATTTGTG
20849340 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- AATAA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAA
20849382 GAACACACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20855805 original size:23 final size:24
Alignment explanation
Indices: 20855749--20855793 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
20855739 AGTCCAAAAT
* *
20855749 ACAAACAAATTACAAACCCATTTC
1 ACAACCAAATTACAAACCCAATTC
20855773 ACAACC-AATTA-AAACCCAATT
1 ACAACCAAATTACAAACCCAATT
20855794 ACATGCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (24 bp):
ACAACCAAATTACAAACCCAATTC
Found at i:20857173 original size:28 final size:27
Alignment explanation
Indices: 20857141--20857199 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
20857131 TATTCTTATA
* *
20857141 TATGTATTATTTATTCCAAATTACTTTT
1 TATGTAATATTTATTCCAAATT-CTCTT
*
20857169 TATGTAATATTTATTCTAAATTCTCTT
1 TATGTAATATTTATTCCAAATTCTCTT
20857196 TATG
1 TATG
20857200 ACATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (27 bp):
TATGTAATATTTATTCCAAATTCTCTT
Found at i:20858578 original size:11 final size:10
Alignment explanation
Indices: 20858537--20858588 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
20858527 TATTTTTAAG
20858537 AAAAATTATA
1 AAAAATTATA
**
20858547 AAATTTTA-A
1 AAAAATTATA
*
20858556 AAAAATTCTA
1 AAAAATTATA
20858566 AAAAATATATA
1 AAAAAT-TATA
20858577 AAAAAGTTATA
1 AAAAA-TTATA
20858588 A
1 A
20858589 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 6 0.18
10 13 0.39
11 13 0.39
12 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:20860157 original size:126 final size:126
Alignment explanation
Indices: 20860008--20860283 Score: 421
Period size: 126 Copynumber: 2.2 Consensus size: 126
20859998 TTAGGGTTAA
20860008 TCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCAA
1 TCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCAA
* * *
20860073 AAACACTTCAAGAAAGATGCACTGTCAGCAAAATTACGGAAAAAAGCTCCCACGTGGACGC
66 AAACACTTCAAGAAAGATACACTGTCAGCAAAATTACGGAAAAAAGCTCCCACATGGACAC
* * * * *
20860134 TCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCTAATAGTGTCAA
1 TCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCAA
* * * *
20860199 AAACGCTTCAAGAAGGATACACTGTCAGCAAAATTATGGAAAAAAGCTCCCATATGGACAC
66 AAACACTTCAAGAAAGATACACTGTCAGCAAAATTACGGAAAAAAGCTCCCACATGGACAC
*
20860260 TCTTTT-CTACAGTAGTATCT-AAAA
1 TCTTTTGCTATAGTAGTATCTGAAAA
20860284 TGGGCTTAGA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
124 4 0.03
125 13 0.09
126 120 0.88
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
TCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCAA
AAACACTTCAAGAAAGATACACTGTCAGCAAAATTACGGAAAAAAGCTCCCACATGGACAC
Found at i:20863316 original size:10 final size:9
Alignment explanation
Indices: 20863297--20863329 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
20863287 ATTTATATTT
20863297 TATTAAAAA
1 TATTAAAAA
20863306 TATTAAAAAA
1 TATT-AAAAA
20863316 TATTAAAAA
1 TATTAAAAA
20863325 TATTA
1 TATTA
20863330 CCGTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TATTAAAAA
Found at i:20863653 original size:128 final size:129
Alignment explanation
Indices: 20863354--20863729 Score: 587
Period size: 128 Copynumber: 2.9 Consensus size: 129
20863344 ACATTTATTT
* *
20863354 TAATAAAAATTATTGGCTAACTTAAAAGAACATTTATTGTT-TTAAAATTAAAAAAAAGTAAAGT
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATT-TTAATAAAATT-AAAAAAAGTAAAGT
*
20863418 TCAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAA
63 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAA
20863483 AA
128 AA
* *
20863485 TAATAAAAATATTGGATAATTTCAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
* *
20863550 ATTAAAATATTAAAAATAACTTTTATTTTGTTAATTAAAACTATATAAAAAATAAATAT-AAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
* * *
20863613 TACTAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAATGTAAA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
* *
20863678 ATTAAAATATTAAAAACGACTTTTATTTTATT-ATATGAAACTATATAAAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TAAAACTATATAAAAAA
20863730 AGTTTCTACA
Statistics
Matches: 227, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
127 2 0.01
128 109 0.48
129 75 0.33
130 32 0.14
131 9 0.04
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (129 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
Found at i:20865938 original size:22 final size:22
Alignment explanation
Indices: 20865913--20865955 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20865903 TATCCAAACA
20865913 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
20865935 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
20865956 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:20865959 original size:11 final size:11
Alignment explanation
Indices: 20865920--20865960 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
20865910 ACAATAACAA
20865920 CAAAATAGTAG
1 CAAAATAGTAG
* *
20865931 CAACATAATAG
1 CAAAATAGTAG
*
20865942 TAAAATAGTAG
1 CAAAATAGTAG
20865953 CAAAATAG
1 CAAAATAG
20865961 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:20866587 original size:11 final size:11
Alignment explanation
Indices: 20866558--20866599 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
20866548 GACAAAAATT
20866558 GAAAGAAATTT-
1 GAAAG-AATTTA
20866569 GAAAGAATTTA
1 GAAAGAATTTA
20866580 GAAAGAATTTA
1 GAAAGAATTTA
*
20866591 GAGAGAATT
1 GAAAGAATT
20866600 GTGATAAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 5 0.17
11 24 0.83
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.26
Consensus pattern (11 bp):
GAAAGAATTTA
Found at i:20872980 original size:42 final size:42
Alignment explanation
Indices: 20872838--20872980 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 42
20872828 AGATTCTGTA
* * *
20872838 TAAGACCATATCTGGGATATGATATCGGCATGCGATTTAATG
1 TAAGACCATAGCTGGGATATGACATCGGCATGCGATTTCATG
* * * * ** * * * *
20872880 TAAGACCA-CGTCTGGGACATGGCTTCGAAAATGAGACTTCGTA
1 TAAGACCATAG-CTGGGATATGACATCG-GCATGCGATTTCATG
* *
20872923 TAAGGCCATATCTGGGATATGACATCGGCATGCGATTTCATG
1 TAAGACCATAGCTGGGATATGACATCGGCATGCGATTTCATG
20872965 TAAGACCATAGCTGGG
1 TAAGACCATAGCTGGG
20872981 CTATTGGCAT
Statistics
Matches: 71, Mismatches: 27, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
42 43 0.61
43 28 0.39
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
TAAGACCATAGCTGGGATATGACATCGGCATGCGATTTCATG
Found at i:20875881 original size:20 final size:20
Alignment explanation
Indices: 20875847--20875888 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20875837 AACTATTTAA
** *
20875847 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
20875867 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
20875887 AT
1 AT
20875889 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:20876088 original size:23 final size:23
Alignment explanation
Indices: 20876062--20876108 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
20876052 TTAGATTATC
20876062 CTATAAAGTATTACTGTAGAAAT
1 CTATAAAGTATTACTGTAGAAAT
20876085 CTATAAAGTATTACTGTAGAAAT
1 CTATAAAGTATTACTGTAGAAAT
20876108 C
1 C
20876109 CTTTATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (23 bp):
CTATAAAGTATTACTGTAGAAAT
Found at i:20878735 original size:15 final size:15
Alignment explanation
Indices: 20878717--20878757 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
20878707 TTTTTAAATA
20878717 TTTATATTATTTAAT
1 TTTATATTATTTAAT
*
20878732 TTTATATT-TAATAAT
1 TTTATATTAT-TTAAT
20878747 TTTATA-TATTT
1 TTTATATTATTT
20878758 TTCTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATATTATTTAAT
Found at i:20878751 original size:25 final size:26
Alignment explanation
Indices: 20878723--20878779 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
20878713 AATATTTATA
20878723 TTATTTAATTTTATATTTAAT-AATT
1 TTATTTAATTTTATATTTAATAAATT
* * * *
20878748 TTATATATTTTTCTATTTATTAAATT
1 TTATTTAATTTTATATTTAATAAATT
20878774 TT-TTTA
1 TTATTTA
20878780 TATTGTCATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATTTAATTTTATATTTAATAAATT
Found at i:20878889 original size:5 final size:5
Alignment explanation
Indices: 20878869--20878905 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
20878859 TATAAATTAC
*
20878869 ATAAT AT-AT A-AAT ATAAT ATAAT ATAAT ATATT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
20878906 ATTTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
4 6 0.21
5 22 0.79
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:20886783 original size:19 final size:19
Alignment explanation
Indices: 20886761--20886836 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 19
20886751 ATATTTTTTC
20886761 ATTTATGTAATTTTAATTA
1 ATTTATGTAATTTTAATTA
20886780 ATTTTAT-T-A-TTTAA--A
1 A-TTTATGTAATTTTAATTA
* * * ** *
20886795 TTTTATTTTATTTTTTTTC
1 ATTTATGTAATTTTAATTA
20886814 ATTTATGTAATTTTAATTA
1 ATTTATGTAATTTTAATTA
20886833 ATTT
1 ATTT
20886837 TTATTTTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
14 5 0.12
15 2 0.05
16 1 0.02
17 8 0.20
18 1 0.02
19 19 0.46
20 5 0.12
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTATGTAATTTTAATTA
Found at i:20886825 original size:29 final size:29
Alignment explanation
Indices: 20886744--20886838 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
20886734 ATGTTAAAAA
*
20886744 TTATTTAATATTTTTTCATTTATGTAATT
1 TTATTTAATTTTTTTTCATTTATGTAATT
* *
20886773 TTAATTAA-TTTTATT-ATTTA---AATT
1 TTATTTAATTTTTTTTCATTTATGTAATT
*
20886797 TTATTTTATTTTTTTTCATTTATGTAATT
1 TTATTTAATTTTTTTTCATTTATGTAATT
*
20886826 TTAATTAATTTTT
1 TTATTTAATTTTT
20886839 ATTTTATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
24 10 0.19
25 6 0.11
26 5 0.09
27 5 0.09
28 5 0.09
29 22 0.42
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
TTATTTAATTTTTTTTCATTTATGTAATT
Found at i:20887723 original size:85 final size:85
Alignment explanation
Indices: 20887575--20887744 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 85
20887565 ATAACGAGGT
* ** *
20887575 AAAATTTTTATTTGATTTTACAATTATTGTATAGATTTAAAATAAAATTATATGCTGAAAATTTA
1 AAAAATTTTATTTGATTTTACAATTATTCCATAGATATAAAATAAAATTATATGCTGAAAATTTA
20887640 TTTAATTAAGTGGAACCATC
66 TTTAATTAAGTGGAACCATC
*
20887660 AAAAATTTTATTTGATTTTACAATTATTCCATAGATATAAAATAAAATTGTATGCTGAAAATTTA
1 AAAAATTTTATTTGATTTTACAATTATTCCATAGATATAAAATAAAATTATATGCTGAAAATTTA
20887725 TTTAATTAAGTGGAACCATC
66 TTTAATTAAGTGGAACCATC
20887745 CGGCAAGTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (85 bp):
AAAAATTTTATTTGATTTTACAATTATTCCATAGATATAAAATAAAATTATATGCTGAAAATTTA
TTTAATTAAGTGGAACCATC
Found at i:20888454 original size:30 final size:30
Alignment explanation
Indices: 20888386--20888475 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
20888376 GATGGGACGA
* * *
20888386 GCCCATCAATAGCGCCCACACAATTATCGA
1 GCCCATCAATAGCGCCCACACAATCACCGG
20888416 GCCCATCAATAGCGCCCACACAATCACCGG
1 GCCCATCAATAGCGCCCACACAATCACCGG
* * **
20888446 GCCTATCAACAGTACCCACACAATCACCGG
1 GCCCATCAATAGCGCCCACACAATCACCGG
20888476 ATCCAATGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.32, C:0.40, G:0.14, T:0.13
Consensus pattern (30 bp):
GCCCATCAATAGCGCCCACACAATCACCGG
Found at i:20889516 original size:16 final size:17
Alignment explanation
Indices: 20889487--20889527 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
20889477 ATATATATAT
*
20889487 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
20889504 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
20889521 AAAGAAA
1 AAAGAAA
20889528 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:20889579 original size:16 final size:16
Alignment explanation
Indices: 20889558--20889589 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20889548 AAAGCAGGGG
20889558 GAAGGAAAAAAAGAAA
1 GAAGGAAAAAAAGAAA
*
20889574 GAAGGAAAAAGAGAAA
1 GAAGGAAAAAAAGAAA
20889590 AATTGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
GAAGGAAAAAAAGAAA
Found at i:20892456 original size:46 final size:46
Alignment explanation
Indices: 20891613--20892440 Score: 1620
Period size: 46 Copynumber: 18.0 Consensus size: 46
20891603 AGTTTGCTCT
** *
20891613 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
20891659 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891705 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891751 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891797 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891843 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891889 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891935 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20891981 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892027 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892073 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892119 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892165 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892211 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892257 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892303 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892349 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892395 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
20892441 ATGACAGAAA
Statistics
Matches: 777, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 777 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20905691 original size:46 final size:46
Alignment explanation
Indices: 20905624--20905715 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
20905614 TCGTAAACTC
20905624 CGGTAATGCCTCGTACCCTATTCCGGCAATGAATACGGGTAGGGGT
1 CGGTAATGCCTCGTACCCTATTCCGGCAATGAATACGGGTAGGGGT
* *
20905670 CGGTAATGCCTCGTACCCTATTCTGGCAATGAATACTGGTAGGGGT
1 CGGTAATGCCTCGTACCCTATTCCGGCAATGAATACGGGTAGGGGT
20905716 ATTACAAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (46 bp):
CGGTAATGCCTCGTACCCTATTCCGGCAATGAATACGGGTAGGGGT
Found at i:20910057 original size:31 final size:32
Alignment explanation
Indices: 20910016--20910078 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
20910006 TTATTTATAA
*
20910016 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
20910047 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
20910079 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:20912010 original size:59 final size:53
Alignment explanation
Indices: 20911886--20912005 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
20911876 ACTGTTACCA
* *
20911886 TTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
1 TTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
* * *
20911939 TTACTGTTACTGTTTCGAATTTGTTCTGATGAGGTACTCTGTGTACCATACTG
1 TTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
*
20911992 CTACTGTTACTGTT
1 TTACTGTTACTGTT
20912006 ACTGTTTCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (53 bp):
TTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
Found at i:20912156 original size:18 final size:18
Alignment explanation
Indices: 20912127--20912193 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
20912117 AAAGATCGAC
20912127 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
20912145 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
20912163 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
20912181 TGTTACTGAATAA
1 TGTTACTGAATAA
20912194 ATAATCATTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:20913906 original size:127 final size:126
Alignment explanation
Indices: 20913311--20914067 Score: 1268
Period size: 126 Copynumber: 6.0 Consensus size: 126
20913301 GGCCAAGCAT
20913311 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
20913376 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
20913437 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
20913502 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
20913563 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
20913628 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
20913689 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAG-TTTTTTTCAGAAATTTTGCTGACAGTGCAT
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTT-AGAAATTTTGCTGACAGTGCAT
* * *
20913753 CCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAG
65 TCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * **
20913815 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGATTTTTTTCTATAATTTTGCTGACAGTGCA-
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGA-AATTTTGCTGACAGTGCAT
* * * * *
20913879 TCATTCTTGAAGTATTTTTTACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTTAG
65 TC-TGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * **
20913942 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGATTTTTTTCTATAATTTTGCTGACAGTGCA-
1 GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGA-AATTTTGCTGACAGTGCAT
* * * *
20914006 TCATTCTTGAAGTATTTTTTACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCA
65 TC-TGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
20914068 ATGTCTAAAT
Statistics
Matches: 616, Mismatches: 11, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
125 7 0.01
126 402 0.65
127 207 0.34
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGGGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTGACAGTGCATT
CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:20914193 original size:30 final size:29
Alignment explanation
Indices: 20914120--20914207 Score: 108
Period size: 28 Copynumber: 3.0 Consensus size: 29
20914110 TTATTTTTAA
*
20914120 AAAAAACTAAACCCTAATTT-AATTAATTT
1 AAAACACTAAACCCTAATTTAAATT-ATTT
* *
20914149 TAACCA-TAAACCCTAATTTAAATTATTT
1 AAAACACTAAACCCTAATTTAAATTATTT
*
20914177 AAAACACTAGAACCCTAATTTAATTTATTT
1 AAAACACTA-AACCCTAATTTAAATTATTT
20914207 A
1 A
20914208 TTTAAACACC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 21 0.42
29 9 0.18
30 20 0.40
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAACACTAAACCCTAATTTAAATTATTT
Found at i:20928329 original size:16 final size:15
Alignment explanation
Indices: 20928310--20928355 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
20928300 ACTAAAATTT
20928310 AAAAATTAAAAAATA
1 AAAAATTAAAAAATA
20928325 CAAAAATT-AAAAATA
1 -AAAAATTAAAAAATA
*
20928340 ATCAAATTAAAAAATA
1 A-AAAATTAAAAAATA
20928356 GGGAGTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 12 0.44
16 14 0.52
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATTAAAAAATA
Found at i:20941799 original size:4 final size:4
Alignment explanation
Indices: 20941790--20941820 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
20941780 ATTCTTTTAT
*
20941790 TTTC TTTC TTTC TTTC TTTC TTCC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
20941821 TTGTGAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:20942909 original size:131 final size:131
Alignment explanation
Indices: 20942675--20942931 Score: 365
Period size: 131 Copynumber: 2.0 Consensus size: 131
20942665 GTTTATTATA
* *
20942675 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
*
20942740 ATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGC
66 ATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAGA-TTACAGCAGAGTAGATCGC
20942804 AT
130 AT
* ** * *
20942806 CAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
* * * * *
20942871 GTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGAT
66 ATTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCTCTGAGATTACAGCAGAGTAGAT
20942932 TGAAGCTAGT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 2 0.02
131 108 0.97
132 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (131 bp):
CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
ATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAGATTACAGCAGAGTAGATCGCA
T
Found at i:20942914 original size:44 final size:44
Alignment explanation
Indices: 20942722--20943754 Score: 578
Period size: 44 Copynumber: 22.8 Consensus size: 44
20942712 AAAGAATTTC
* * ** *
20942722 AGATCCTATCTCCCTG-AGATTACAGTGGAGCAGATT-AAAATAA
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
** * * * *
20942765 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC-AG
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * * * * ** * **
20942809 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAG--CTAG
* * *
20942853 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
20942897 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* * ** *
20942941 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
** * * * *
20942984 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC-AG
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * * * * ** * **
20943028 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAG--CTAG
* * *
20943072 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
20943116 AGATCTTATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* * ** *
20943160 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
20943203 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * * ** ** **
20943258 AGATCTTATCTCCCTG-AGATTGCAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTG--AAGCTAG
* * *
20943304 AGATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
20943348 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
20943392 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
20943435 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
20943490 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
20943534 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
20943577 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
20943632 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
20943676 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
20943719 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
20943755 CACATCAGAT
Statistics
Matches: 756, Mismatches: 164, Indels: 139
0.71 0.15 0.13
Matches are distributed among these distances:
41 58 0.08
42 7 0.01
43 23 0.03
44 438 0.58
45 18 0.02
46 99 0.13
47 7 0.01
51 5 0.01
52 3 0.00
53 5 0.01
54 81 0.11
55 12 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:20943103 original size:219 final size:219
Alignment explanation
Indices: 20942724--20943478 Score: 1242
Period size: 219 Copynumber: 3.4 Consensus size: 219
20942714 AGAATTTCAG
* *
20942724 ATCCTATCTCCCTG-AGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 ATCCTATCTCTCTGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
20942788 CAGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTC
65 CAGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTC
20942853 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
130 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
20942918 ACAGCGGAGTAGATTGAAGCTAGTA
195 ACAGCGGAGTAGATTGAAGCTAGTA
20942943 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
20943008 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
66 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
20943073 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
131 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
20943138 CAGCGGAGTAGATTGAAGCTAGTA
196 CAGCGGAGTAGATTGAAGCTAGTA
20943162 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* * * * * * **
20943227 AGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTGCAGTGGAACAGA
66 AGCAGAGTAGAT--C-GC--A-T-----CAG-G-TCTTATCACCCTGAGGTTACAGGGGAGTAGA
* *
20943292 CCGAAAAATTTCAGATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTAT
118 CCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTAT
*
20943357 CTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTA
183 CTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
20943394 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* *
20943459 AGTAGAGTAGATCACATCAG
66 AGCAGAGTAGATCGCATCAG
20943479 ATTGAAGCCA
Statistics
Matches: 508, Mismatches: 14, Indels: 26
0.93 0.03 0.05
Matches are distributed among these distances:
219 290 0.57
220 2 0.00
221 4 0.01
222 1 0.00
224 1 0.00
225 1 0.00
226 1 0.00
227 1 0.00
229 1 0.00
230 4 0.01
231 1 0.00
232 201 0.40
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (219 bp):
ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
CAGCGGAGTAGATTGAAGCTAGTA
Found at i:20943435 original size:232 final size:232
Alignment explanation
Indices: 20943029--20943514 Score: 873
Period size: 232 Copynumber: 2.1 Consensus size: 232
20943019 TCGCATCAGG
* * ** *
20943029 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
*
20943094 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
20943159 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
20943224 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* * *
20943261 TCTTATCTCCCTGAGATTGCAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGATGTTA
1 TCTTATCTCCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
20943326 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
20943391 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
20943456 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
20943493 TCTTATCTCTCTGAAATTACAG
1 TCTTATCTCCCTGAGATTACAG
20943515 CGGAGTAGAT
Statistics
Matches: 242, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 242 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:20943501 original size:142 final size:142
Alignment explanation
Indices: 20943334--20943790 Score: 905
Period size: 142 Copynumber: 3.2 Consensus size: 142
20943324 TACAGTGGAG
20943334 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
20943399 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
20943464 AGTAGATCACAT
131 AGTAGATCACAT
20943476 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
20943541 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
20943606 AGTAGATCACAT
131 AGTAGATCACAT
20943618 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
20943683 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
20943748 AGTAGATCACAT
131 AGTAGATCACAT
*
20943760 CAGATTGAAGCCAGAGATCTTATCTCCCTGA
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGA
20943791 TGTTGCAGTG
Statistics
Matches: 314, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 314 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:20946445 original size:32 final size:33
Alignment explanation
Indices: 20946404--20946479 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 33
20946394 AATTTTAAAA
20946404 AGTTGAGTGACTAAATAAATA-AAAAAAC-TAAT
1 AGTTGAGTGACTAAA-AAATAGAAAAAACTTAAT
* *
20946436 AGTTGAGTGAC--CAAAATAGAACAAACTTAAT
1 AGTTGAGTGACTAAAAAATAGAAAAAACTTAAT
*
20946467 AGTTGGGTGACTA
1 AGTTGAGTGACTA
20946480 TTCTTGTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 5 0.14
30 7 0.19
31 14 0.38
32 11 0.30
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (33 bp):
AGTTGAGTGACTAAAAAATAGAAAAAACTTAAT
Found at i:20949115 original size:29 final size:31
Alignment explanation
Indices: 20949083--20949145 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
20949073 TTTAAATTTA
* *
20949083 ATAAAAAATGTTTAAA-ATTATAGAAAAT-T
1 ATAAAAAATATTTAAAGATTATAAAAAATAT
20949112 AT-AAAAATATTTAAAGATTATAAAAAATAT
1 ATAAAAAATATTTAAAGATTATAAAAAATAT
20949142 ATAA
1 ATAA
20949146 GTGCAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.41
29 13 0.45
30 3 0.10
31 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (31 bp):
ATAAAAAATATTTAAAGATTATAAAAAATAT
Found at i:20949118 original size:9 final size:9
Alignment explanation
Indices: 20949096--20949218 Score: 56
Period size: 9 Copynumber: 13.4 Consensus size: 9
20949086 AAAAATGTTT
20949096 AAAATTATA
1 AAAATTATA
20949105 GAAAATTATA
1 -AAAATTATA
*
20949115 AAAATATTTA
1 AAAAT-TATA
*
20949125 AAGATTATA
1 AAAATTATA
*
20949134 AAAAATATA
1 AAAATTATA
* * *
20949143 TAAGTGCA-A
1 AAAAT-TATA
*
20949152 CAAA--ATA
1 AAAATTATA
20949159 AAAATTA-A
1 AAAATTATA
20949167 AAAACTTATA
1 AAAA-TTATA
*
20949177 AAAAATATTA
1 AAAATTA-TA
* *
20949187 TAAATGACTA
1 AAAATTA-TA
*
20949197 AAAAATATA
1 AAAATTATA
*
20949206 TAAATTATA
1 AAAATTATA
20949215 AAAA
1 AAAA
20949219 CTATTTGTTT
Statistics
Matches: 82, Mismatches: 23, Indels: 17
0.67 0.19 0.14
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 5 0.06
9 38 0.46
10 34 0.41
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:20949118 original size:19 final size:18
Alignment explanation
Indices: 20949096--20949218 Score: 56
Period size: 19 Copynumber: 6.7 Consensus size: 18
20949086 AAAAATGTTT
20949096 AAAATTATAGAAAATTATA
1 AAAATTATA-AAAATTATA
* *
20949115 AAAATATTTAAAGATTATA
1 AAAAT-TATAAAAATTATA
* * * *
20949134 AAAAATATATAAGTGCA-A
1 AAAATTATAAAAAT-TATA
*
20949152 CAAA--ATAAAAATTA-A
1 AAAATTATAAAAATTATA
*
20949167 AAAACTTATAAAAAATATTA
1 AAAA-TTATAAAAATTA-TA
* * *
20949187 TAAATGACTAAAAAATATA
1 AAAATTA-TAAAAATTATA
*
20949206 TAAATTATAAAAA
1 AAAATTATAAAAA
20949219 CTATTTGTTT
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.06
16 6 0.08
18 24 0.30
19 28 0.35
20 16 0.20
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAAATTATA
Found at i:20949124 original size:28 final size:30
Alignment explanation
Indices: 20949086--20949145 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
20949076 AAATTTAATA
* *
20949086 AAAAATGTTTAAA-ATTATAGAAAAT-TAT
1 AAAAATATTTAAAGATTATAAAAAATATAT
20949114 AAAAATATTTAAAGATTATAAAAAATATAT
1 AAAAATATTTAAAGATTATAAAAAATATAT
20949144 AA
1 AA
20949146 GTGCAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 11 0.39
30 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAAATATTTAAAGATTATAAAAAATATAT
Found at i:20949198 original size:20 final size:19
Alignment explanation
Indices: 20949174--20949223 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
20949164 TAAAAAACTT
20949174 ATAAAAAATATTATAAATG
1 ATAAAAAATATTATAAATG
*
20949193 ACTAAAAAATA-TATAAATT
1 A-TAAAAAATATTATAAATG
*
20949212 ATAAAAACTATT
1 ATAAAAAATATT
20949224 TGTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 10 0.37
20 9 0.33
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAAAATATTATAAATG
Found at i:20949427 original size:8 final size:9
Alignment explanation
Indices: 20949244--20949429 Score: 56
Period size: 9 Copynumber: 18.8 Consensus size: 9
20949234 ATATAAACTA
20949244 TAAAAATAT
1 TAAAAATAT
*
20949253 TATATAATTAT
1 TA-A-AAATAT
*
20949264 GAAAAAT-T
1 TAAAAATAT
*
20949272 GTAAAATTTAT
1 -TAAAA-ATAT
*
20949283 GAAAATATAT
1 TAAAA-ATAT
20949293 TAAAAATA-
1 TAAAAATAT
*
20949301 TAGGAAATTAT
1 TA--AAAATAT
20949312 TAAAAATAT
1 TAAAAATAT
**
20949321 TTTAAA-AT
1 TAAAAATAT
*
20949329 TAAGTTAAT-T
1 TAA--AAATAT
20949339 TAAAAATAT
1 TAAAAATAT
20949348 TAAAAATAT
1 TAAAAATAT
* *
20949357 TATTAAAAAAA
1 TA--AAAATAT
20949368 TAAAAATCAT
1 TAAAAAT-AT
*
20949378 AAAAACCAATTAT
1 -TAAA--AA-TAT
20949391 TAATGAAAGATATT
1 T-A--AAA-ATA-T
20949405 TAAAAATAT
1 TAAAAATAT
20949414 TAAAAATAT
1 TAAAAATAT
20949423 TAAAAAT
1 TAAAAAT
20949430 TGATTTAATT
Statistics
Matches: 131, Mismatches: 22, Indels: 48
0.65 0.11 0.24
Matches are distributed among these distances:
8 9 0.07
9 55 0.42
10 30 0.23
11 22 0.17
13 9 0.07
14 4 0.03
15 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
TAAAAATAT
Found at i:20949680 original size:20 final size:19
Alignment explanation
Indices: 20949655--20949692 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
20949645 TTTCTTACAC
20949655 TTTTATATATTTTTGTAATT
1 TTTTATATATTTTT-TAATT
*
20949675 TTTTATTTATTTTTTAAT
1 TTTTATATATTTTTTAAT
20949693 GACTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTATATATTTTTTAATT
Found at i:20952944 original size:35 final size:35
Alignment explanation
Indices: 20952878--20952944 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
20952868 TTACAAAAGC
* *
20952878 TATATATATATAAATTATTAAATTTACAAAAAAAA
1 TATATATATATAAATTATAAAATATACAAAAAAAA
* *
20952913 TATATGTATATAAATTCTAAAAGTATA-AAAAA
1 TATATATATATAAATTATAAAA-TATACAAAAA
20952945 TTCTAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (35 bp):
TATATATATATAAATTATAAAATATACAAAAAAAA
Found at i:20969657 original size:25 final size:25
Alignment explanation
Indices: 20969629--20969676 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
20969619 ATTTACTATT
20969629 AATTT-ATCTGTTTGAGATTATTTTA
1 AATTTAATCTGTTTGAGA-TATTTTA
20969654 AATTTAATCTGTTTGAGATATTT
1 AATTTAATCTGTTTGAGATATTT
20969677 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.54
Consensus pattern (25 bp):
AATTTAATCTGTTTGAGATATTTTA
Found at i:20973188 original size:45 final size:45
Alignment explanation
Indices: 20973131--20973308 Score: 183
Period size: 45 Copynumber: 4.0 Consensus size: 45
20973121 TATGAAATGA
*
20973131 TATAAACGAAAAGT-AAAAGATCATAGTTGAAAGATACTATGACAT
1 TATAATCGAAAA-TAAAAAGATCATAGTTGAAAGATACTATGACAT
* * *
20973176 TATATTCGAAAAGAAAAAG-TCCATAGTTGAAAGATACAATGACAT
1 TATAATCGAAAATAAAAAGAT-CATAGTTGAAAGATACTATGACAT
*
20973221 TATAAT--AATAATAAAAAAGACCATAGTTGAAAGATACTAT-AGCAT
1 TATAATCGAA-AAT-AAAAAGATCATAGTTGAAAGATACTATGA-CAT
* *
20973266 TA-AATCGAAAATGAAAA-A-CAATAGTTGAAAGATAATATGACAT
1 TATAATCGAAAATAAAAAGATC-ATAGTTGAAAGATACTATGACAT
20973309 CTTTTGGGGA
Statistics
Matches: 113, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
42 1 0.01
43 23 0.20
44 12 0.11
45 75 0.66
46 2 0.02
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (45 bp):
TATAATCGAAAATAAAAAGATCATAGTTGAAAGATACTATGACAT
Found at i:20973247 original size:90 final size:88
Alignment explanation
Indices: 20973145--20973308 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 88
20973135 AACGAAAAGT
* * *
20973145 AAAAGATCATAGTTGAAAGATACTAT-GACATTATATTCGAAAA-GAAAAAGTCCATAGTTGAAA
1 AAAAGACCATAGTTGAAAGATACTATAG-CATTA-AATCGAAAATGAAAAA--CAATAGTTGAAA
20973208 GATACA-ATGACATTATAATAATAATAA
62 GATA-ATATGACATTATAATAATAATAA
20973235 AAAAGACCATAGTTGAAAGATACTATAGCATTAAATCGAAAATGAAAAACAATAGTTGAAAGATA
1 AAAAGACCATAGTTGAAAGATACTATAGCATTAAATCGAAAATGAAAAACAATAGTTGAAAGATA
20973300 ATATGACAT
66 ATATGACAT
20973309 CTTTTGGGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
87 1 0.01
88 22 0.32
89 8 0.12
90 36 0.53
91 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (88 bp):
AAAAGACCATAGTTGAAAGATACTATAGCATTAAATCGAAAATGAAAAACAATAGTTGAAAGATA
ATATGACATTATAATAATAATAA
Found at i:20973677 original size:17 final size:17
Alignment explanation
Indices: 20973655--20973702 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
20973645 CCCGGCCCGA
20973655 TTTTAATATTAAATTAT
1 TTTTAATATTAAATTAT
* ***
20973672 TTTTAAAATTTTTTTAT
1 TTTTAATATTAAATTAT
*
20973689 TTTTAATTTTAAAT
1 TTTTAATATTAAAT
20973703 AACTTTAGTA
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATATTAAATTAT
Found at i:20973922 original size:19 final size:20
Alignment explanation
Indices: 20973894--20973932 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20973884 GTCCCATTTT
20973894 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
20973913 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
20973933 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:20973950 original size:25 final size:23
Alignment explanation
Indices: 20973913--20973958 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
20973903 TTTGTTTTAA
*
20973913 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
20973936 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
20973959 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:20975744 original size:18 final size:18
Alignment explanation
Indices: 20975721--20975761 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20975711 ACATTGTTTT
* *
20975721 TAAAAAGCACTTTTGCGA
1 TAAAAAACACTTTTGAGA
*
20975739 TAAAAAATACTTTTGAGA
1 TAAAAAACACTTTTGAGA
20975757 TAAAA
1 TAAAA
20975762 GTATTGCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
TAAAAAACACTTTTGAGA
Found at i:20979339 original size:22 final size:20
Alignment explanation
Indices: 20979304--20979343 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
20979294 CGATTATTAG
20979304 CACATTTGTGCTCTCTGTAT
1 CACATTTGTGCTCTCTGTAT
20979324 CACACTTTAGTGCTCTCTGT
1 CACA-TTT-GTGCTCTCTGT
20979344 TTAATAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (20 bp):
CACATTTGTGCTCTCTGTAT
Found at i:20979578 original size:28 final size:28
Alignment explanation
Indices: 20979533--20979586 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
20979523 AACTTGTATG
20979533 TGTGTAAATATATATTAGTTGAATAAAT
1 TGTGTAAATATATATTAGTTGAATAAAT
*
20979561 TGTGTAAATATGCT-TTAGTTGAATAA
1 TGTGTAAATAT-ATATTAGTTGAATAA
20979587 GTTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (28 bp):
TGTGTAAATATATATTAGTTGAATAAAT
Found at i:20989989 original size:40 final size:40
Alignment explanation
Indices: 20989891--20990153 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
20989881 TCCTCGTTCA
* * * *
20989891 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
20989930 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
20989970 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
20990010 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
20990050 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * * * *
20990090 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
20990130 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20990154 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:20997942 original size:40 final size:40
Alignment explanation
Indices: 20997844--20998106 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
20997834 TCCTCGTTCA
* * * * *
20997844 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20997883 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20997923 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20997963 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20998003 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20998043 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
20998083 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20998107 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20999892 original size:39 final size:38
Alignment explanation
Indices: 20999824--20999905 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
20999814 ACTTGCGTAC
*
20999824 CTGGAAAAGAAAAAAAGAACAAAATTAAAAGTTTTGAT
1 CTGGAAAAGAAAAAAAAAACAAAATTAAAAGTTTTGAT
*
20999862 CTGGAAAA-ATAAAATAAAAACAGAATTAAAAGTTTTGAT
1 CTGGAAAAGA-AAAA-AAAAACAAAATTAAAAGTTTTGAT
20999901 -TGGAA
1 CTGGAA
20999906 TTTCAAAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 1 0.03
38 17 0.43
39 22 0.55
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (38 bp):
CTGGAAAAGAAAAAAAAAACAAAATTAAAAGTTTTGAT
Found at i:21000659 original size:10 final size:10
Alignment explanation
Indices: 21000632--21000681 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
21000622 TTAAATTCCA
21000632 AAAGATAAAT
1 AAAGATAAAT
*
21000642 ACAA-ATAATT
1 A-AAGATAAAT
21000652 AAAGATAAAT
1 AAAGATAAAT
21000662 AAAGATAAAT
1 AAAGATAAAT
*
21000672 AAAAATAAAT
1 AAAGATAAAT
21000682 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21002484 original size:3 final size:3
Alignment explanation
Indices: 21002478--21002520 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
21002468 TTAATAATAG
21002478 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
21002521 AATGTAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21003258 original size:15 final size:14
Alignment explanation
Indices: 21003231--21003270 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
21003221 TCTCCTCCTA
*
21003231 TTCTTCTTCTTTTTC
1 TTCTT-TTCTTTTTT
21003246 TTCTTTTCTTTTTT
1 TTCTTTTCTTTTTT
21003260 TTCCTTTTCTT
1 TT-CTTTTCTT
21003271 AAACCTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTTTTT
Found at i:21017081 original size:26 final size:26
Alignment explanation
Indices: 21017052--21017159 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21017042 TGGTACAAAT
21017052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
21017078 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21017104 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21017130 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21017156 TGAT
1 TGAT
21017160 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21018337 original size:27 final size:27
Alignment explanation
Indices: 21018297--21018386 Score: 162
Period size: 27 Copynumber: 3.3 Consensus size: 27
21018287 AGGAAGCGTC
* *
21018297 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
21018324 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
21018351 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
21018378 CTGGTGGCT
1 CTGGTGGCT
21018387 GTTTTGGTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:21025533 original size:26 final size:26
Alignment explanation
Indices: 21025504--21025611 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21025494 TGGTACAAAT
21025504 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
21025530 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21025556 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21025582 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21025608 TGAT
1 TGAT
21025612 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21032660 original size:26 final size:26
Alignment explanation
Indices: 21032624--21032679 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
21032614 TGATAAAAAT
21032624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21032650 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21032676 TGAT
1 TGAT
21032680 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21034148 original size:27 final size:27
Alignment explanation
Indices: 21034107--21034185 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
21034097 NNNNNNNNNN
*
21034107 TCTGGTGGCTATGCCACGATTATCTG-A
1 TCTGGTGGCTATGCCAC-AATATCTGTA
*
21034134 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTATGCCACAATATCTGTA
* *
21034161 TCTGGTGACT-TCGTCACAATATCTG
1 TCTGGTGGCTAT-GCCACAATATCTG
21034186 GCAGTCTCGC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAATATCTGTA
Found at i:21039702 original size:20 final size:22
Alignment explanation
Indices: 21039677--21039716 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
21039667 TAAATATATT
21039677 AATATATTAT-TTA-ATTATAA
1 AATATATTATATTATATTATAA
21039697 AATATATTATATTATATTAT
1 AATATATTATATTATATTAT
21039717 GTAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:21039953 original size:23 final size:23
Alignment explanation
Indices: 21039913--21039962 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
21039903 AACGAAACAG
*
21039913 AGAAAGGAAAGAAGGAAAAAGAA
1 AGAAAGGAAAGAAAGAAAAAGAA
*
21039936 AGAAA-GAAAGAAAAGAAAAAGAG
1 AGAAAGGAAAG-AAAGAAAAAGAA
21039959 AGAA
1 AGAA
21039963 TTAAGGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (23 bp):
AGAAAGGAAAGAAAGAAAAAGAA
Found at i:21043995 original size:21 final size:21
Alignment explanation
Indices: 21043935--21043985 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
21043925 GGGATTTATT
21043935 TGTTAAAATAGTAAAATTTCA
1 TGTTAAAATAGTAAAATTTCA
21043956 TGTTAAAATAGTAAAATTTCA
1 TGTTAAAATAGTAAAATTTCA
21043977 TGTTAAAAT
1 TGTTAAAAT
21043986 TATGAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (21 bp):
TGTTAAAATAGTAAAATTTCA
Found at i:21046664 original size:7 final size:7
Alignment explanation
Indices: 21046652--21046700 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
21046642 ATAACTCTTT
21046652 TTTAGGG
1 TTTAGGG
21046659 TTTAGGG
1 TTTAGGG
*
21046666 TTTAGAG
1 TTTAGGG
21046673 TTTA-GG
1 TTTAGGG
*
21046679 TTTAAGAG
1 TTT-AGGG
21046687 TTTAGGG
1 TTTAGGG
21046694 TTTAGGG
1 TTTAGGG
21046701 ACCATTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 4 0.11
7 28 0.78
8 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:21056663 original size:46 final size:46
Alignment explanation
Indices: 21056565--21056783 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 46
21056555 AGATGCCGAT
* * *
21056565 GCCGATGCCATGTCCGAGACATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AG
* * *
21056613 GCCGATGTATGTCCCAGACATGTCTTAAACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * *
21056659 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* *
21056705 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
21056753 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
21056784 AACCAACAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.01
46 72 0.49
47 40 0.27
48 32 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:21056757 original size:94 final size:92
Alignment explanation
Indices: 21056565--21056784 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 92
21056555 AGATGCCGAT
* *
21056565 GCCGATGCCATGTCCGAGACATGGTCTTACACT-GACTATCATCTCGTAGCCGATGTATGTCCCA
1 GCCGATG-CATGTCC-AGACAT-GTCTTACACTAGACTATCATCTCATAGCCGATGCATGTCCCA
* *
21056629 GACATGTCTTAAACTGGCTTACGTCTCGAG
63 GACATGTCTTAAACTGGCTTACATATCGAG
*
21056659 GCCGATGCATGTCTCAGACATGTCTTACACTAG-CTCTCATCTCA-ATGCCGATGCCATGTCCCA
1 GCCGATGCATGTC-CAGACATGTCTTACACTAGACTATCATCTCATA-GCCGATG-CATGTCCCA
* *
21056722 GACATGGTCTTACACTGGCTCT-CATAAT-GTG
63 GACAT-GTCTTAAACTGGCT-TACAT-ATCGAG
21056753 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGT-CCAGACATGTCTTACACTA
21056785 ACCAACAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
91 1 0.01
92 26 0.23
93 26 0.23
94 55 0.50
95 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCAGACATGTCTTACACTAGACTATCATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTAAACTGGCTTACATATCGAG
Found at i:21060058 original size:14 final size:14
Alignment explanation
Indices: 21060039--21060065 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21060029 TATGTGTTAT
21060039 ATTTATTTTTAATA
1 ATTTATTTTTAATA
21060053 ATTTATTTTTAAT
1 ATTTATTTTTAAT
21060066 TTTTAAATCT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATTTTTAATA
Found at i:21061554 original size:15 final size:13
Alignment explanation
Indices: 21061525--21061552 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21061515 AGACTTATGA
21061525 ATGTAAAATTTAT
1 ATGTAAAATTTAT
21061538 ATGTAAAATTTAT
1 ATGTAAAATTTAT
21061551 AT
1 AT
21061553 ATTATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATGTAAAATTTAT
Found at i:21064208 original size:15 final size:15
Alignment explanation
Indices: 21064190--21064230 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 15
21064180 AAAAAATAAT
21064190 AATTAAAATCAAACA
1 AATTAAAATCAAACA
21064205 AATT--AATC-AACA
1 AATTAAAATCAAACA
21064217 AATTAGAAATCAAA
1 AATTA-AAATCAAA
21064231 TTAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
15 8 0.36
16 2 0.09
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (15 bp):
AATTAAAATCAAACA
Found at i:21073051 original size:12 final size:12
Alignment explanation
Indices: 21073034--21073066 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21073024 CTGCCCACCC
21073034 ATATTAATTTTT
1 ATATTAATTTTT
21073046 ATATT-ATTTTT
1 ATATTAATTTTT
21073057 ATA-TAATTTT
1 ATATTAATTTT
21073067 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:21073091 original size:18 final size:18
Alignment explanation
Indices: 21073068--21073107 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21073058 TATAATTTTA
*
21073068 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
21073086 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
21073104 AAAA
1 AAAA
21073108 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:21073226 original size:30 final size:30
Alignment explanation
Indices: 21073190--21073252 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21073180 ACTTAACAAG
*
21073190 CAAATGTCTCTAAACTAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
21073220 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
21073250 CAA
1 CAA
21073253 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:21085298 original size:14 final size:15
Alignment explanation
Indices: 21085273--21085308 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
21085263 AACACAAATT
*
21085273 AAAAAGAGAGAGAGAG
1 AAAAAGAGAGAGAG-C
21085289 AAAAAGAGAGAGAGC
1 AAAAAGAGAGAGAGC
21085304 AAAAA
1 AAAAA
21085309 TTATTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.67, C:0.03, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAGAGAGC
Found at i:21095678 original size:30 final size:29
Alignment explanation
Indices: 21095635--21095695 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
21095625 CAAGTAGCCG
21095635 AAGCTAGTTAAATCGCACACTTAGTGCTA
1 AAGCTAGTTAAATCGCACACTTAGTGCTA
21095664 AAGCTAGTTTAAATCGCACACTTAGTGCTA
1 AAGCTAG-TTAAATCGCACACTTAGTGCTA
21095694 AA
1 AA
21095696 ACTTCCTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCTA
Found at i:21100600 original size:11 final size:11
Alignment explanation
Indices: 21100578--21100610 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21100568 AAAATAGAAA
21100578 GATTTGATTTT
1 GATTTGATTTT
21100589 GATTTTGA-TTT
1 GA-TTTGATTTT
21100600 GATTTGATTTT
1 GATTTGATTTT
21100611 ATTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (11 bp):
GATTTGATTTT
Found at i:21101192 original size:29 final size:28
Alignment explanation
Indices: 21101160--21101222 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
21101150 ATTTATTTTG
*
21101160 TTATTCTAATGCTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
21101189 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
21101218 TTATT
1 TTATT
21101223 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:21101218 original size:43 final size:43
Alignment explanation
Indices: 21101129--21101243 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
21101119 TTATTGCTAT
** * *
21101129 TATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATGC
1 TATTATTATGTTTCTATTTATATTTATACTATTATTATAATGC
* * *
21101172 TATTATTAT-TTATCTATTTATATTTCTACTATTATTATATTTC
1 TATTATTATGTT-TCTATTTATATTTATACTATTATTATAATGC
* * *
21101215 TATTTATTATATTTTTATTTCTATTTATA
1 TA-TTATTATGTTTCTATTTATATTTATA
21101244 TACTAATATT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 2 0.03
43 35 0.59
44 20 0.34
45 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (43 bp):
TATTATTATGTTTCTATTTATATTTATACTATTATTATAATGC
Found at i:21101221 original size:15 final size:15
Alignment explanation
Indices: 21101189--21101234 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
21101179 ATTTATCTAT
21101189 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
21101206 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
21101221 TTATATTTTTATTT
1 TTATATTTCTATTT
21101235 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:21101350 original size:24 final size:24
Alignment explanation
Indices: 21101309--21101362 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
21101299 TAACATTCTA
* *
21101309 TTTATTTATTTATTTATTTTACATTT
1 TTTA-TTATTTATCTATTTTA-ACTT
21101335 TTTATTA-TTATCTATTTTAACTT
1 TTTATTATTTATCTATTTTAACTT
21101358 TTTAT
1 TTTAT
21101363 ATAATGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 11 0.42
25 3 0.12
26 4 0.15
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATTATTTATCTATTTTAACTT
Found at i:21101374 original size:24 final size:23
Alignment explanation
Indices: 21101322--21101387 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
21101312 ATTTATTTAT
* *
21101322 TTATTTTACATTTTTTATTATTATC
1 TTATTTTA-AATTTTTA-TATAATC
*
21101347 -TATTTTAACTTTTTATATAATGC
1 TTATTTTAAATTTTTATATAAT-C
*
21101370 TTATTTCAAATTTTTATA
1 TTATTTTAAATTTTTATA
21101388 CATTATTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 8 0.23
24 22 0.63
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTTTAAATTTTTATATAATC
Found at i:21101433 original size:25 final size:24
Alignment explanation
Indices: 21101371--21101451 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
21101361 ATATAATGCT
* *
21101371 TATTTCAAATTTTTATACATTATT
1 TATTTCAAATTTTCATACATTATG
*
21101395 TACTTT-AATATTTTCATATATTATG
1 TA-TTTCAA-ATTTTCATACATTATG
* *
21101420 TATTTCAAACTTTTTTCACACATTATA
1 TATTTCAAA---TTTTCATACATTATG
21101447 TATTT
1 TATTT
21101452 TGAATTGTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 8 0.18
25 20 0.44
27 17 0.38
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.56
Consensus pattern (24 bp):
TATTTCAAATTTTCATACATTATG
Found at i:21107269 original size:3 final size:3
Alignment explanation
Indices: 21107261--21107287 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21107251 TAAAATTTTA
21107261 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
21107288 TTTACCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21107321 original size:23 final size:22
Alignment explanation
Indices: 21107283--21107326 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21107273 ATTATTATTA
*
21107283 TTATTTTTACCATTTTTAATAG
1 TTATTTTTACCATTTTAAATAG
*
21107305 TTATTTTTACTATTTTTAAATA
1 TTATTTTTACCA-TTTTAAATA
21107327 AAATTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATTTTTACCATTTTAAATAG
Found at i:21107332 original size:22 final size:22
Alignment explanation
Indices: 21107285--21107332 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
21107275 TATTATTATT
**
21107285 ATTTTTACCATTTTTAATAGTT
1 ATTTTTACCATTTTTAATAGAA
*
21107307 ATTTTTACTATTTTTAAATA-AA
1 ATTTTTACCATTTTT-AATAGAA
21107329 ATTT
1 ATTT
21107333 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTACCATTTTTAATAGAA
Found at i:21109607 original size:21 final size:21
Alignment explanation
Indices: 21109578--21109628 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
21109568 TTATGCCACA
21109578 TCAGTATTTTTATCCTGAATT
1 TCAGTATTTTTATCCTGAATT
*
21109599 TCAGGA-TTTTATCCTGAATT
1 TCAGTATTTTTATCCTGAATT
*
21109619 TTAGTATTTT
1 TCAGTATTTT
21109629 AATTTGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TCAGTATTTTTATCCTGAATT
Found at i:21109859 original size:15 final size:15
Alignment explanation
Indices: 21109820--21109857 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21109810 TATGTGATAA
*
21109820 TAATATAAATATTTT
1 TAATATAAATATTAT
21109835 TAAT-TAAATATTAAT
1 TAATATAAATATT-AT
21109850 TAATATAA
1 TAATATAA
21109858 TAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 9 0.45
16 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATAAATATTAT
Found at i:21111399 original size:90 final size:89
Alignment explanation
Indices: 21111121--21111399 Score: 261
Period size: 90 Copynumber: 3.1 Consensus size: 89
21111111 TAAGCCACAA
* ** * * * * * * * *
21111121 AAGTTACAGGTCAATACGCTGGCAAATGGTTGTGAGTGCACAACATAATTGCAGATGAGAGCGAC
1 AAGTTGCAGGTCAATACGCTACCAGATGGTTGTAAATACACAACATAATTGCAAATAAAAGCTAC
**
21111186 CAAAATGTGGGTGGATGAACCACC
66 CAAAAAATGGGTGGATGAACCACC
* * * * * * ** *
21111210 ATTGTTGCAAGTTAATATGTTGCCAGATGGTTGTGGATACACAACATAATTGCAAATAAAAGCTG
1 A-AGTTGCAGGTCAATACGCTACCAGATGGTTGTAAATACACAACATAATTGCAAATAAAAGCTA
21111275 CCAAAAAATGGGTGGATGAACCACC
65 CCAAAAAATGGGTGGATGAACCACC
* ** *
21111300 AATGTTGCAGGTCAATACGCTACCAGATGGTTGTAAATGCACAACATTTTTGCATATAAAAGCTA
1 AA-GTTGCAGGTCAATACGCTACCAGATGGTTGTAAATACACAACATAATTGCAAATAAAAGCTA
* * **
21111365 CCAGATAATTTGTGGATGAACCACC
65 CCAAAAAATGGGTGGATGAACCACC
21111390 AGAGTTGCAG
1 A-AGTTGCAG
21111400 ATTATTAATT
Statistics
Matches: 152, Mismatches: 35, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
89 1 0.01
90 150 0.99
91 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (89 bp):
AAGTTGCAGGTCAATACGCTACCAGATGGTTGTAAATACACAACATAATTGCAAATAAAAGCTAC
CAAAAAATGGGTGGATGAACCACC
Found at i:21113364 original size:13 final size:13
Alignment explanation
Indices: 21113346--21113384 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21113336 CTAAATCATA
21113346 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
*
21113359 ATTTTAGTAAAAC
1 ATTTTAGTAAAAT
* *
21113372 CTTTTTGTAAAAT
1 ATTTTAGTAAAAT
21113385 CAAGAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:21115300 original size:29 final size:28
Alignment explanation
Indices: 21115258--21115314 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
21115248 AGATTAGTTT
21115258 TTTTTTAAAATTTTAAGTT-TTTTTTGGG
1 TTTTTTAAAATTTTAA-TTATTTTTTGGG
*
21115286 TTTTTTAAAATTTTTTATTATTTTTTGGG
1 TTTTTTAAAA-TTTTAATTATTTTTTGGG
21115315 AATTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (28 bp):
TTTTTTAAAATTTTAATTATTTTTTGGG
Found at i:21115320 original size:29 final size:28
Alignment explanation
Indices: 21115260--21115339 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
21115250 ATTAGTTTTT
**
21115260 TTTTAAAATTTTAAGTTTTTTTTGGGTT
1 TTTTAAAATTTTAAGTTTTTTTTGGGAA
*
21115288 TTTTAAAATTTTTTA-TTATTTTTTGGGAA
1 TTTTAAAA-TTTTAAGTT-TTTTTTGGGAA
*
21115317 TTTTAATTAGTTTT-AGTTTTTTT
1 TTTTAA--AATTTTAAGTTTTTTT
21115340 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 10 0.23
29 26 0.60
30 6 0.14
31 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (28 bp):
TTTTAAAATTTTAAGTTTTTTTTGGGAA
Found at i:21116537 original size:21 final size:20
Alignment explanation
Indices: 21116503--21116542 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
21116493 GCCTAATAGG
21116503 AAGTCTTAAGAACTTAGATTC
1 AAGTCTTAAGAACTT-GATTC
21116524 AAGTCTTATA-AACTTGATT
1 AAGTCTTA-AGAACTTGATT
21116543 TTATCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
AAGTCTTAAGAACTTGATTC
Found at i:21126906 original size:7 final size:8
Alignment explanation
Indices: 21126886--21126915 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
21126876 TTGGTATCTC
21126886 ATTTTTGA
1 ATTTTTGA
21126894 ATTTTTGA
1 ATTTTTGA
21126902 ATTTTTGA
1 ATTTTTGA
21126910 ATTTTT
1 ATTTTT
21126916 TATATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (8 bp):
ATTTTTGA
Found at i:21133919 original size:20 final size:21
Alignment explanation
Indices: 21133877--21133920 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21133867 TTTTTTAAAA
*
21133877 ATTTTAAAAAATTAAATATTT
1 ATTTTAAAAAATTAAATAATT
21133898 ATTTTAAAAAATTAAA-AATT
1 ATTTTAAAAAATTAAATAATT
21133918 ATT
1 ATT
21133921 AAAAGAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTTAAAAAATTAAATAATT
Found at i:21141829 original size:22 final size:23
Alignment explanation
Indices: 21141804--21141846 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21141794 ATTCATCATT
*
21141804 CAATTATTA-AATAAAATAAACC
1 CAATAATTATAATAAAATAAACC
*
21141826 CAATAATTATATTAAAATAAA
1 CAATAATTATAATAAAATAAA
21141847 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
CAATAATTATAATAAAATAAACC
Found at i:21143434 original size:30 final size:30
Alignment explanation
Indices: 21143400--21143475 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
21143390 CTATAGTTTA
21143400 AAAATTTAATTTAGTTCA-CTATAAATAA-TC
1 AAAATTTAATTTA-TTCATC-ATAAATAATTC
* * * *
21143430 AAAATCTCATTCATTCATCATAAATAATTT
1 AAAATTTAATTTATTCATCATAAATAATTC
21143460 AAAATTTCAATTTATT
1 AAAATTT-AATTTATT
21143476 TATTTATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
29 12 0.33
30 18 0.50
31 6 0.17
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (30 bp):
AAAATTTAATTTATTCATCATAAATAATTC
Found at i:21154163 original size:165 final size:165
Alignment explanation
Indices: 21153891--21154221 Score: 644
Period size: 165 Copynumber: 2.0 Consensus size: 165
21153881 GACGTAAAAT
* *
21153891 ATTCAGAAGCCAAGTCTCACTTCAGATGATCATTTGAGATCGCTTCATCAGTTTAATTCCCATAG
1 ATTCAGAAGCCAAGTCTCACTTCAGATGATCATTCGAGATCACTTCATCAGTTTAATTCCCATAG
21153956 GAAATGATACACCAATACGACAGAAAAACTAGAATGCTTAACCAACAGAGGGGTCCATTGAAGGA
66 GAAATGATACACCAATACGACAGAAAAACTAGAATGCTTAACCAACAGAGGGGTCCATTGAAGGA
21154021 CAAAGTATTGTTTCAACTAGCAGCTTTCAGCGAAA
131 CAAAGTATTGTTTCAACTAGCAGCTTTCAGCGAAA
21154056 ATTCAGAAGCCAAGTCTCACTTCAGATGATCATTCGAGATCACTTCATCAGTTTAATTCCCATAG
1 ATTCAGAAGCCAAGTCTCACTTCAGATGATCATTCGAGATCACTTCATCAGTTTAATTCCCATAG
21154121 GAAATGATACACCAATACGACAGAAAAACTAGAATGCTTAACCAACAGAGGGGTCCATTGAAGGA
66 GAAATGATACACCAATACGACAGAAAAACTAGAATGCTTAACCAACAGAGGGGTCCATTGAAGGA
21154186 CAAAGTATTGTTTCAACTAGCAGCTTTCAGCGAAA
131 CAAAGTATTGTTTCAACTAGCAGCTTTCAGCGAAA
21154221 A
1 A
21154222 GATATGCTGA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 164 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (165 bp):
ATTCAGAAGCCAAGTCTCACTTCAGATGATCATTCGAGATCACTTCATCAGTTTAATTCCCATAG
GAAATGATACACCAATACGACAGAAAAACTAGAATGCTTAACCAACAGAGGGGTCCATTGAAGGA
CAAAGTATTGTTTCAACTAGCAGCTTTCAGCGAAA
Done.