Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 132 of 190
Found at i:21212970 original size:15 final size:13
Alignment explanation
Indices: 21212934--21213006 Score: 67
Period size: 13 Copynumber: 5.4 Consensus size: 13
21212924 TCTTTAACTC
*
21212934 TTTTT-TTTTCCT
1 TTTTTCTTTTTCT
*
21212946 TTTTCCTTTTTCT
1 TTTTTCTTTTTCT
*
21212959 TCTTTCGTTTTTGCT
1 TTTTTC-TTTTT-CT
21212974 TTTTACTCTTTTTCT
1 TTTT--TCTTTTTCT
21212989 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
*
21213002 CTTTT
1 TTTTT
21213007 GTTAACACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
12 4 0.08
13 23 0.46
14 5 0.10
15 11 0.22
16 5 0.10
17 2 0.04
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:21213006 original size:21 final size:21
Alignment explanation
Indices: 21212938--21213006 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
21212928 TAACTCTTTT
21212938 TTTTTCCTTTTTCCTTTTTCT-
1 TTTTT-CTTTTTCCTTTTTCTC
* *
21212959 TCTTTCGTTTTTGCTTTTTACTC
1 TTTTTC-TTTTTCCTTTTT-CTC
*
21212982 TTTTTCTTTTTTCTTTTTCTC
1 TTTTTCTTTTTCCTTTTTCTC
21213003 TTTT
1 TTTT
21213007 GTTAACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.02
21 22 0.54
22 13 0.32
23 5 0.12
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTCTTTTTCCTTTTTCTC
Found at i:21213006 original size:30 final size:27
Alignment explanation
Indices: 21212934--21213006 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 27
21212924 TCTTTAACTC
21212934 TTTT-TTTTTCCTTTTTCCTTTTTCTT
1 TTTTCTTTTTCCTTTTTCCTTTTTCTT
* *
21212960 CTTTCGTTTTTGCTTTTTACTCTTTTTCTT
1 TTTTC-TTTTTCCTTTTT-C-CTTTTTCTT
21212990 TTTTCTTTTTCTCTTTT
1 TTTTCTTTTTC-CTTTT
21213007 GTTAACACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 3 0.08
28 11 0.29
29 6 0.16
30 18 0.47
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTTCTTTTTCCTTTTTCCTTTTTCTT
Found at i:21216594 original size:37 final size:37
Alignment explanation
Indices: 21216534--21216622 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
21216524 ATTAGTAAAG
* *
21216534 TCTCCCAATAGTTTAGTAGGACTTACTTTAAAATAGA
1 TCTCCCAATAGTTTGGTAGGACTTACTTTAAAACAGA
* * * *
21216571 TCTTCTAATAGTTTGGTATGACTTACTTTAAAGCAGA
1 TCTCCCAATAGTTTGGTAGGACTTACTTTAAAACAGA
21216608 TCTCCCAATAGTTTG
1 TCTCCCAATAGTTTG
21216623 CTGAGATTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (37 bp):
TCTCCCAATAGTTTGGTAGGACTTACTTTAAAACAGA
Found at i:21216886 original size:19 final size:17
Alignment explanation
Indices: 21216862--21216942 Score: 56
Period size: 17 Copynumber: 4.5 Consensus size: 17
21216852 TTTGTAGGGA
21216862 TTTTTATTTAAAAAAGATT
1 TTTTTA-TT-AAAAAGATT
*
21216881 TTTTTATTGAAAAGATT
1 TTTTTATTAAAAAGATT
* *
21216898 TTTTT-TTATAAATATCT
1 TTTTTATTAAAAAGAT-T
**
21216915 TTTGAAAACTTAAAAAGATT
1 TTT--TTA-TTAAAAAGATT
21216935 TTTTTATT
1 TTTTTATT
21216943 TTTTTGTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
16 7 0.15
17 19 0.40
18 3 0.06
19 6 0.13
20 4 0.09
21 8 0.17
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTTTATTAAAAAGATT
Found at i:21216996 original size:22 final size:22
Alignment explanation
Indices: 21216954--21216996 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21216944 TTTTGTATTA
*
21216954 TTTTTTATTTTATCTTGAAAAC
1 TTTTTTATTTTATCTTAAAAAC
*
21216976 TTTTTTATGTTTTTC-TAAAAA
1 TTTTTTAT-TTTATCTTAAAAA
21216997 GAAAAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTTTTATTTTATCTTAAAAAC
Found at i:21217090 original size:17 final size:16
Alignment explanation
Indices: 21217059--21217132 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 16
21217049 CCAGTAAAAT
*
21217059 AAAACAAAAAAAATTG
1 AAAATAAAAAAAATTG
*
21217075 AAAATAAAACAAAATTT
1 AAAATAAAA-AAAATTG
*
21217092 AAAATATGAAAATAAA-TA
1 AAAATA--AAAA-AAATTG
21217110 AAAAT-AAAAAAA-T-
1 AAAATAAAAAAAATTG
21217123 AAAATAAAAA
1 AAAATAAAAA
21217133 TGGAAAAGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.10
14 8 0.16
15 4 0.08
16 8 0.16
17 12 0.24
18 7 0.14
19 6 0.12
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAAAATTG
Found at i:21217101 original size:25 final size:23
Alignment explanation
Indices: 21217054--21217131 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 23
21217044 AAAGACCAGT
21217054 AAAATAAAACAAAA-AAAAT-TG
1 AAAATAAAACAAAATAAAATATG
21217075 AAAATAAAACAAAATTTAAAATATG
1 AAAATAAAACAAAA--TAAAATATG
*
21217100 AAAATAAATA-AAAATAAAAAAAT-
1 AAAATAAA-ACAAAAT-AAAATATG
21217123 AAAATAAAA
1 AAAATAAAA
21217132 ATGGAAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
21 14 0.28
22 1 0.02
23 9 0.18
24 11 0.22
25 14 0.28
26 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (23 bp):
AAAATAAAACAAAATAAAATATG
Found at i:21217133 original size:25 final size:25
Alignment explanation
Indices: 21217053--21217131 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 25
21217043 TAAAGACCAG
21217053 TAAAATAAAACA-AAAAAAATTGAAAA
1 TAAAATAAAA-ATAAAAAAA-TGAAAA
* * * *
21217079 TAAAACAAAATTTAAAATATGAAAA
1 TAAAATAAAAATAAAAAAATGAAAA
21217104 T-AAATAAAAATAAAAAAAT-AAAA
1 TAAAATAAAAATAAAAAAATGAAAA
21217127 TAAAA
1 TAAAA
21217132 ATGGAAAAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 5 0.12
24 17 0.40
25 7 0.16
26 14 0.33
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (25 bp):
TAAAATAAAAATAAAAAAATGAAAA
Found at i:21217139 original size:18 final size:18
Alignment explanation
Indices: 21217092--21217133 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21217082 AACAAAATTT
*
21217092 AAAATATGAAAATAAATA
1 AAAATAAGAAAATAAATA
*
21217110 AAAATAAAAAAATAAAATA
1 AAAATAAGAAAAT-AAATA
21217129 AAAAT
1 AAAAT
21217134 GGAAAAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAGAAAATAAATA
Found at i:21219065 original size:52 final size:50
Alignment explanation
Indices: 21218993--21219089 Score: 122
Period size: 52 Copynumber: 1.9 Consensus size: 50
21218983 AAAGATGAAT
* *
21218993 AATTTTTTTAGTTGTTGAGCCTTTACCTAGAAAAGCCTTTTTCAAAATGA
1 AATTTTTTTAGTCGTTGAGCCTCTACCTAGAAAAGCCTTTTTCAAAATGA
* * **
21219043 AATTTTTTTAAAGTCGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAA
1 AATTTTTTT--AGTCGTTGAGCCTCTACCTAGAAAAGCCTTTTTCAA
21219090 GATAGAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 9 0.23
52 30 0.77
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (50 bp):
AATTTTTTTAGTCGTTGAGCCTCTACCTAGAAAAGCCTTTTTCAAAATGA
Found at i:21219171 original size:49 final size:50
Alignment explanation
Indices: 21218993--21219352 Score: 213
Period size: 49 Copynumber: 7.1 Consensus size: 50
21218983 AAAGATGAAT
* * * *
21218993 AATTTTTTT-AGTTGTTGAGCCTTTACCTAGAAAAGCCTTTTTCAAAATGA
1 AATTTTTTTAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTCAAGAT-A
* * *
21219043 AATTTTTTTAAAGTCGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAGATA
1 AATTTTTTT-AAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTCAAGATA
* ** * *
21219094 GAA-TTTTTAAAACTGTTAAGCCTCTACTTAGAAGAG-CTTTTGCAAGGA-A
1 -AATTTTTTTAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTCAA-GATA
* * * *
21219143 AATTTTTTTAAGTTGTTGAGTCTTTACTT-GAATGAG-CTTTTCCAAGATG
1 AATTTTTTTAAGTTGTTGAGCCTCTACTTAGAA-GAGCCTTTTTCAAGATA
* * * * * * *
21219192 AA-TTTTTAAAG-TATTAAGCCTTTGA-GTAGATGAG-CTTTTCCAAGATGA
1 AATTTTTTTAAGTTGTTGAGCCTCT-ACTTAGAAGAGCCTTTTTCAAGAT-A
* * * * * *
21219240 AA-TTTTTAAAGTTCTTTAGCTTCTACCTAGATGAGCCTTTTTCAAGATGA
1 AATTTTTTTAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTCAAGAT-A
* * *
21219290 TACCTTTTTTTTAAAAGTTTTTGAGCCTCTACTTAAAAGAGCCCTTTTT-AAGATGA
1 -A--ATTTTTTT--AAGTTGTTGAGCCTCTACTTAGAAGAG-CCTTTTTCAAGAT-A
21219346 AATTTTT
1 AATTTTT
21219353 AAAGTCATTG
Statistics
Matches: 245, Mismatches: 45, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
47 25 0.10
48 30 0.12
49 58 0.24
50 45 0.18
51 7 0.03
52 34 0.14
53 5 0.02
54 5 0.02
55 1 0.00
56 28 0.11
57 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (50 bp):
AATTTTTTTAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTTTCAAGATA
Found at i:21222251 original size:370 final size:373
Alignment explanation
Indices: 21221561--21222303 Score: 1152
Period size: 370 Copynumber: 2.0 Consensus size: 373
21221551 TGTTTTGCAA
21221561 ACCCTAAAATCATCTTTTTAATAAATTTTAAGATTTTATTAAAAGCATAAATTTTAATAGGTGAC
1 ACCCTAAAATCATCTTTTTAATAAATTTTAAGATTTTATTAAAAGCATAAATTTTAATAGGTGAC
* * *
21221626 CAATTGTACCTAACCCAAAAAGATTGGTGGCGATTCCCATTTTCTTCATCTTTTTAATTTTTGCT
66 CAATCGCACCTAACCAAAAAAGATTGGTGGCGATTCCCATTTTCTTCATCTTTTTAATTTTTGCT
** * * *
21221691 TCCAAATTTGTTAGGCGGCTTCAAAATAATTGTCATGACAATTACATATCTTAAGGTAGTGTCAA
131 TCCAAATTCATCAGGCAGCTTCAAAATAATTGACA-GACAATTACATATCTTAAGGTAGTGTCAA
* *
21221756 CCTTATTAAGCCAGCACAACACTTGTATTGCATTCTGTGAAGACATATCTCATGCAAATAATATG
195 CCTAATTAAGCCAGCACAACACTTGTATTGCATTCCGTGAAGACATATCTCATGCAAATAATATG
* **
21221821 TCTGTGCATTTCATACAAGTATGTTGCATTAGTTATACGTATACATCTCATCACTCATGAAAGTT
260 TCCGTGCATTTCATACAAGTATGTTGCAACAGTTATACGTATACATCTCATCACTCATGAAAGTT
21221886 TGTCATTGCATTTCATGCATATGGATTCATGAATGGTAAGGTTTTATAG
325 TGTCATTGCATTTCATGCATATGGATTCATGAATGGTAAGGTTTTATAG
21221935 ACCCTAAAATCATCTTTTTAATAAATTTTAAGATTTTATTAAAAGCATAAATTTTAATAGGT-AG
1 ACCCTAAAATCATCTTTTTAATAAATTTTAAGATTTTATTAAAAGCATAAATTTTAATAGGTGA-
** * * * * * *
21221999 CCAATCGCACCTAGTCAAAAAAGATTGGTGGTGATTCCCTTTTTTTTCATTTTTTTTATTTTTGT
65 CCAATCGCACCTAACCAAAAAAGATTGGTGGCGATTCCCATTTTCTTCATCTTTTTAATTTTTGC
* * *
21222064 TTCCAAATTCATCGGGCAGCTTCAAAATCATT-ACA-ATAA-TACATATCTTAAGGTAGTGTCAA
130 TTCCAAATTCATCAGGCAGCTTCAAAATAATTGACAGACAATTACATATCTTAAGGTAGTGTCAA
* * * *
21222126 CCTAATTAAGCCAGTATAACACTTGTATTGCATTCCGTGAAGACATATCTCATTCATATAATATG
195 CCTAATTAAGCCAGCACAACACTTGTATTGCATTCCGTGAAGACATATCTCATGCAAATAATATG
* * *
21222191 TCCGTGCATTTCATACAAGTATGTTGCAACAGTTATAGGTATACATCTTATCATTCATGAAAGTT
260 TCCGTGCATTTCATACAAGTATGTTGCAACAGTTATACGTATACATCTCATCACTCATGAAAGTT
*
21222256 TGTCATTGCATTTCATGCATATGGATTCATGAATGGTAGGGTTTTATA
325 TGTCATTGCATTTCATGCATATGGATTCATGAATGGTAAGGTTTTATA
21222304 AAACATGCAT
Statistics
Matches: 336, Mismatches: 32, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
370 188 0.56
371 3 0.01
373 3 0.01
374 142 0.42
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (373 bp):
ACCCTAAAATCATCTTTTTAATAAATTTTAAGATTTTATTAAAAGCATAAATTTTAATAGGTGAC
CAATCGCACCTAACCAAAAAAGATTGGTGGCGATTCCCATTTTCTTCATCTTTTTAATTTTTGCT
TCCAAATTCATCAGGCAGCTTCAAAATAATTGACAGACAATTACATATCTTAAGGTAGTGTCAAC
CTAATTAAGCCAGCACAACACTTGTATTGCATTCCGTGAAGACATATCTCATGCAAATAATATGT
CCGTGCATTTCATACAAGTATGTTGCAACAGTTATACGTATACATCTCATCACTCATGAAAGTTT
GTCATTGCATTTCATGCATATGGATTCATGAATGGTAAGGTTTTATAG
Found at i:21227209 original size:13 final size:12
Alignment explanation
Indices: 21227186--21227219 Score: 50
Period size: 12 Copynumber: 2.7 Consensus size: 12
21227176 AAATGTTTTA
21227186 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
21227199 CAAAAAAAAAAAG
1 -AAAAAAAAAAAG
21227212 AAAAAAAA
1 AAAAAAAA
21227220 GTAAAGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 6 0.30
14 6 0.30
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:21229366 original size:22 final size:21
Alignment explanation
Indices: 21229328--21229409 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
21229318 AGCACCCATG
* *
21229328 ATAATCTTTAAGGCCTCAAAGC
1 ATAATCCTTAAGACCTC-AAGC
* *
21229350 ATAATCCTTAATACCTCTAGAC
1 ATAATCCTTAAGACCTCAAG-C
* *
21229372 ATAATTCTTAAGACCTCTGAGC
1 ATAATCCTTAAGACCTC-AAGC
* *
21229394 ATAAACTTTAAGACCT
1 ATAATCCTTAAGACCT
21229410 TCGGGTAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
21 2 0.04
22 44 0.92
23 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
ATAATCCTTAAGACCTCAAGC
Found at i:21229522 original size:21 final size:22
Alignment explanation
Indices: 21229484--21229578 Score: 111
Period size: 22 Copynumber: 4.4 Consensus size: 22
21229474 TTGAAATATG
* *
21229484 TAAGACCTCCAAGCATAATCTT
1 TAAGACCTCTAGGCATAATCTT
* *
21229506 TAAGACCT-TGGGCATAATCCT
1 TAAGACCTCTAGGCATAATCTT
*
21229527 TAAGACCTCTAGACATAATCTT
1 TAAGACCTCTAGGCATAATCTT
* **
21229549 TAAGACCTCTAAGCATAATCGG
1 TAAGACCTCTAGGCATAATCTT
21229571 TAAGACCT
1 TAAGACCT
21229579 AGGGCAACAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 17 0.28
22 44 0.72
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATCTT
Found at i:21232790 original size:23 final size:25
Alignment explanation
Indices: 21232746--21232796 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
21232736 TTTTGCGCAT
*
21232746 TTTTTCTGCTTAGTTTTCAATTATG
1 TTTTTCTGCCTAGTTTTCAATTATG
*
21232771 TTTTTCT-CCTAG-TTTCAATTTTG
1 TTTTTCTGCCTAGTTTTCAATTATG
21232794 TTT
1 TTT
21232797 GGGTGAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 4 0.17
25 7 0.29
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.63
Consensus pattern (25 bp):
TTTTTCTGCCTAGTTTTCAATTATG
Found at i:21239540 original size:23 final size:25
Alignment explanation
Indices: 21239493--21239545 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
21239483 ACTTCCATGC
*
21239493 ATTTTTCTCATTAGTTTTCAATTCT
1 ATTTTTCTCACTAGTTTTCAATTCT
*
21239518 ATTTTTCTC-CTAG-TTTCAGTTCT
1 ATTTTTCTCACTAGTTTTCAATTCT
21239541 ATTTT
1 ATTTT
21239546 GGTGAAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 14 0.54
24 3 0.12
25 9 0.35
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTTTTCTCACTAGTTTTCAATTCT
Found at i:21250644 original size:29 final size:30
Alignment explanation
Indices: 21250583--21250644 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
21250573 TTTAATTTTA
*
21250583 TATTTATATATATTATATTAATAAAATTGT
1 TATTTATATATATTATATTAATAAAATTAT
21250613 TATTTA-ATATATTA-ATTTAAT-AAATATAT
1 TATTTATATATATTATA-TTAATAAAAT-TAT
21250642 TAT
1 TAT
21250645 ATCTATGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.17
29 18 0.62
30 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TATTTATATATATTATATTAATAAAATTAT
Found at i:21251672 original size:7 final size:7
Alignment explanation
Indices: 21251654--21251719 Score: 52
Period size: 6 Copynumber: 9.6 Consensus size: 7
21251644 TTTCCTTTTA
21251654 TTTTCA-
1 TTTTCAT
21251660 TTTTCAT
1 TTTTCAT
21251667 TTTTCACT
1 TTTTCA-T
21251675 TTTTCACT
1 TTTTCA-T
21251683 TTTTCACTT
1 TTTTCA--T
*
21251692 TTTTCTT
1 TTTTCAT
21251699 TTTTC-T
1 TTTTCAT
21251705 TTTT--T
1 TTTTCAT
21251710 TTTTC-T
1 TTTTCAT
21251716 TTTT
1 TTTT
21251720 TGGTTTTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
5 5 0.09
6 16 0.30
7 12 0.22
8 15 0.28
9 6 0.11
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCAT
Found at i:21251696 original size:9 final size:8
Alignment explanation
Indices: 21251660--21251694 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
21251650 TTTATTTTCA
21251660 TTTTCA-T
1 TTTTCACT
21251667 TTTTCACT
1 TTTTCACT
21251675 TTTTCACT
1 TTTTCACT
21251683 TTTTCACT
1 TTTTCACT
21251691 TTTT
1 TTTT
21251695 TCTTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTCACT
Found at i:21251706 original size:14 final size:14
Alignment explanation
Indices: 21251689--21251750 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
21251679 CACTTTTTCA
*
21251689 CTTTTTTCTTTTTT
1 CTTTTTTGTTTTTT
21251703 C--TTTT-TTTTTT
1 CTTTTTTGTTTTTT
*
21251714 CTTTTTTGGTTTTT
1 CTTTTTTGTTTTTT
*
21251728 GTTTTTTGTTTTTAT
1 CTTTTTTGTTTTT-T
21251743 GCTTTTTT
1 -CTTTTTT
21251751 TAAGTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 7 0.18
12 4 0.10
13 4 0.10
14 17 0.44
15 1 0.03
16 6 0.15
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.82
Consensus pattern (14 bp):
CTTTTTTGTTTTTT
Found at i:21251710 original size:25 final size:25
Alignment explanation
Indices: 21251682--21251734 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
21251672 ACTTTTTCAC
*
21251682 TTTTTCACTTTTTTCTTTTTTCTTT
1 TTTTTCACTTTTTTCGTTTTTCTTT
** * *
21251707 TTTTTTTCTTTTTTGGTTTTTGTTT
1 TTTTTCACTTTTTTCGTTTTTCTTT
21251732 TTT
1 TTT
21251735 GTTTTTATGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.02, C:0.09, G:0.06, T:0.83
Consensus pattern (25 bp):
TTTTTCACTTTTTTCGTTTTTCTTT
Found at i:21251726 original size:18 final size:18
Alignment explanation
Indices: 21251690--21251732 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
21251680 ACTTTTTCAC
*
21251690 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCGTTT
*
21251708 TTTTTTCTTTTTTGGTTT
1 TTTTTTCTTTTTTCGTTT
21251726 TTGTTTT
1 TT-TTTT
21251733 TTGTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (18 bp):
TTTTTTCTTTTTTCGTTT
Found at i:21257835 original size:25 final size:25
Alignment explanation
Indices: 21257801--21257850 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21257791 AACATTATGA
21257801 ATGAAATGAGCCTACTCAGCTTAGG
1 ATGAAATGAGCCTACTCAGCTTAGG
21257826 ATGAAATGAGCCTACTCAGCTTAGG
1 ATGAAATGAGCCTACTCAGCTTAGG
21257851 CCTTATGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
ATGAAATGAGCCTACTCAGCTTAGG
Found at i:21259703 original size:32 final size:31
Alignment explanation
Indices: 21259684--21259757 Score: 114
Period size: 32 Copynumber: 2.4 Consensus size: 31
21259674 TGTATACTGG
21259684 TTTAAAAATTAAATAAAAAATTCTATATCAT
1 TTTAAAAATTAAATAAAAAATTCTATATCAT
*
21259715 TTTAAAATATTAAATAAAAATTTCTATATCA-
1 TTTAAAA-ATTAAATAAAAAATTCTATATCAT
21259746 TTTAATAAATTA
1 TTTAA-AAATTA
21259758 TTTATTAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 16 0.40
32 24 0.60
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTAAAAATTAAATAAAAAATTCTATATCAT
Found at i:21259719 original size:31 final size:30
Alignment explanation
Indices: 21259636--21259757 Score: 113
Period size: 32 Copynumber: 3.9 Consensus size: 30
21259626 ATCATTTTGA
* *
21259636 AAAAAATTC-ATGTCACTTTAAAAAATTAAGT
1 AAAAAATTCTATATCA-TTT-AAAAATTAAAT
* **
21259667 -AAAAATATGTATACTGGTTTAAAAATTAAAT
1 AAAAAAT-TCTATA-TCATTTAAAAATTAAAT
21259698 AAAAAATTCTATATCATTTTAAAATATTAAAT
1 AAAAAATTCTATATCA-TTTAAAA-ATTAAAT
*
21259730 AAAAATTTCTATATCATTTAATAAATTA
1 AAAAAATTCTATATCATTTAA-AAATTA
21259758 TTTATTAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
30 7 0.09
31 32 0.43
32 35 0.47
33 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (30 bp):
AAAAAATTCTATATCATTTAAAAATTAAAT
Found at i:21259756 original size:63 final size:62
Alignment explanation
Indices: 21259636--21259757 Score: 147
Period size: 63 Copynumber: 2.0 Consensus size: 62
21259626 ATCATTTTGA
* * * **
21259636 AAAAAATTCATGTCACTTTAAAAAATTAAGTAAAAATATGTATACTGGTTTAAAAATTAAAT
1 AAAAAATTCATATCACTTTAAAAAATTAAATAAAAATATCTATACTCATTTAAAAATTAAAT
* * *
21259698 AAAAAATTCTATATCATTTTAAAATATTAAATAAAAATTTCTATA-TCATTTAATAAATTA
1 AAAAAATTC-ATATCACTTTAAAAAATTAAATAAAAATATCTATACTCATTTAA-AAATTA
21259758 TTTATTAATC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
62 15 0.30
63 35 0.70
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (62 bp):
AAAAAATTCATATCACTTTAAAAAATTAAATAAAAATATCTATACTCATTTAAAAATTAAAT
Found at i:21263886 original size:27 final size:27
Alignment explanation
Indices: 21263842--21263911 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
21263832 GAATATTAGA
* * *
21263842 AGTATCAATTCGATTTTTTTTTTTGCT
1 AGTATCAATTGGACTTTTTTTTTTGCC
21263869 AGTATCAATTGGACTTTTTTTTTTGCC
1 AGTATCAATTGGACTTTTTTTTTTGCC
*
21263896 AATATCAATTGGACTT
1 AGTATCAATTGGACTT
21263912 CATTTAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (27 bp):
AGTATCAATTGGACTTTTTTTTTTGCC
Found at i:21271819 original size:104 final size:102
Alignment explanation
Indices: 21271652--21271908 Score: 284
Period size: 104 Copynumber: 2.5 Consensus size: 102
21271642 CTTATTGTTT
* * * * * * *
21271652 TTTTAATTTCATTTTAACAACAATAAAATTTGGTTACAAAAGCCTTTTTCTTAACAGTGTTATTG
1 TTTTAA-TTCATTTTAGCAACCATAAAATTTGGTTACAAAAACCATTTTCATAACAATATTATTG
* * * *
21271717 TGGTTACATAACATATTTCTTAACAATTAAATG-TCATTG
65 TGGTCACATAAAATATTTCGTAACAATTAAATGCTC--CG
* * *
21271756 TTTTAACTTCATTTTAGCAACCATAAAATTTGGTTACAAAAATCATTTTCATAATAATATTATTT
1 TTTTAA-TTCATTTTAGCAACCATAAAATTTGGTTACAAAAACCATTTTCATAACAATATTATTG
*
21271821 TGGTCACATAAAATATTTCGTAATAATTAAATGCTGCCG
65 TGGTCACATAAAATATTTCGTAACAATTAAATGCT-CCG
* *
21271860 TTTTAATTGCATTTTAGCAACCA-AAAACTTTAGTTACAAAAACCTTTTT
1 TTTTAATT-CATTTTAGCAACCATAAAA-TTTGGTTACAAAAACCATTTT
21271909 GTAAAAATAC
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
103 6 0.05
104 122 0.94
105 1 0.01
106 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.42
Consensus pattern (102 bp):
TTTTAATTCATTTTAGCAACCATAAAATTTGGTTACAAAAACCATTTTCATAACAATATTATTGT
GGTCACATAAAATATTTCGTAACAATTAAATGCTCCG
Found at i:21274150 original size:26 final size:26
Alignment explanation
Indices: 21274112--21274191 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 26
21274102 AGCGAATGTT
* * *
21274112 TATTTTCTCATATACATTGAAAACAA
1 TATTTTTTTATATACAATGAAAACAA
* *
21274138 TATTTTTTTATATACAATAAAAATAACA
1 TATTTTTTTATATACAATGAAAA-CA-A
*
21274166 TATTTTTCTATATACAATGAAAACAA
1 TATTTTTTTATATACAATGAAAACAA
21274192 GAATAAAGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 20 0.45
27 2 0.05
28 22 0.50
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (26 bp):
TATTTTTTTATATACAATGAAAACAA
Found at i:21275234 original size:18 final size:18
Alignment explanation
Indices: 21275211--21275246 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21275201 ATAAAAACTT
21275211 TAATAGCAAATTCAATAG
1 TAATAGCAAATTCAATAG
21275229 TAATAGCAAATTCAATAG
1 TAATAGCAAATTCAATAG
21275247 AGCCTTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
TAATAGCAAATTCAATAG
Found at i:21282125 original size:19 final size:21
Alignment explanation
Indices: 21282101--21282142 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
21282091 ACTTAGTAAA
21282101 AAATTGG-TCAAAATC-AGTC
1 AAATTGGATCAAAATCAAGTC
*
21282120 AAATTGGATCAAACTCAAGTC
1 AAATTGGATCAAAATCAAGTC
21282141 AA
1 AA
21282143 CTTTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATTGGATCAAAATCAAGTC
Found at i:21285470 original size:18 final size:18
Alignment explanation
Indices: 21285449--21285504 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
21285439 TTATTTCTTT
21285449 CTTATTTAAATTTCTATG
1 CTTATTTAAATTTCTATG
* *
21285467 CTTATTTTAATTACTATG
1 CTTATTTAAATTTCTATG
*
21285485 -TGATTTAAATTGTC-ATG
1 CTTATTTAAATT-TCTATG
21285502 CTT
1 CTT
21285505 TAATTCATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.54
Consensus pattern (18 bp):
CTTATTTAAATTTCTATG
Found at i:21285590 original size:3 final size:3
Alignment explanation
Indices: 21285572--21285644 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
21285562 TGCGAACATG
* *
21285572 ATA ATA ATC ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21285620 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
21285645 AGGAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21285757 original size:12 final size:13
Alignment explanation
Indices: 21285735--21285783 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
21285725 AGAGAATTAT
21285735 TAAATAATAAAAA
1 TAAATAATAAAAA
21285748 TAAA-AATAAAAA
1 TAAATAATAAAAA
21285760 T-AATAA-AAGCAAA
1 TAAATAATAA--AAA
21285773 TAAAATAATAA
1 T-AAATAATAA
21285784 TAGTAGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.13
12 11 0.37
13 8 0.27
15 5 0.17
16 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:21285790 original size:3 final size:3
Alignment explanation
Indices: 21285784--21285814 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21285774 AAAATAATAA
*
21285784 TAG TAG TAG TAG TAG TAG TAG TAG AAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
21285815 TATATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:21285919 original size:13 final size:13
Alignment explanation
Indices: 21285901--21285938 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21285891 TTATAAAATT
*
21285901 TTAAAATCCTAAA
1 TTAAAACCCTAAA
21285914 TTAAAACCCTAAA
1 TTAAAACCCTAAA
*
21285927 -CAAAACCCTAAA
1 TTAAAACCCTAAA
21285939 ACCCTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (13 bp):
TTAAAACCCTAAA
Found at i:21285940 original size:20 final size:20
Alignment explanation
Indices: 21285915--21285965 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
21285905 AATCCTAAAT
21285915 TAAAACCCTAAACAAAACCC
1 TAAAACCCTAAACAAAACCC
***
21285935 TAAAACCCTAAGTGAAACCC
1 TAAAACCCTAAACAAAACCC
21285955 -AAAACCCTAAA
1 TAAAACCCTAAA
21285966 TTTTAGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.53, C:0.31, G:0.04, T:0.12
Consensus pattern (20 bp):
TAAAACCCTAAACAAAACCC
Found at i:21286049 original size:18 final size:18
Alignment explanation
Indices: 21286022--21286107 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
21286012 ATGTAGACCA
*
21286022 CAAA-CCTAAATGAAATT
1 CAAACCCTAAATGAAACT
* *
21286039 CAAACCCTAAAATATAAACC
1 CAAACCCT-AAAT-GAAACT
*
21286059 CTAAACCCTATAA-GTAGACT
1 C-AAACCCTA-AATG-AAACT
* *
21286079 CAAACCTTAAATGAAATT
1 CAAACCCTAAATGAAACT
21286097 CAAACCCTAAA
1 CAAACCCTAAA
21286108 ATATAAACCC
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
17 4 0.08
18 18 0.35
19 12 0.23
20 9 0.17
21 9 0.17
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (18 bp):
CAAACCCTAAATGAAACT
Found at i:21286076 original size:58 final size:59
Alignment explanation
Indices: 21285986--21286117 Score: 189
Period size: 58 Copynumber: 2.3 Consensus size: 59
21285976 AACCCGAAAT
* **
21285986 CCTAAAAT-GAAACCCTAAACTTTAAAATGTAGACCACAAACC-TAAATGAAATTCAAAC
1 CCTAAAATATAAACCCTAAACCCTAAAATGTAGA-CACAAACCTTAAATGAAATTCAAAC
* *
21286044 CCTAAAATATAAACCCTAAACCCTATAA-GTAGACTCAAACCTTAAATGAAATTCAAAC
1 CCTAAAATATAAACCCTAAACCCTAAAATGTAGACACAAACCTTAAATGAAATTCAAAC
21286102 CCTAAAATATAAACCC
1 CCTAAAATATAAACCC
21286118 ATCATAACGT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 7 0.10
58 45 0.67
59 15 0.22
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.21
Consensus pattern (59 bp):
CCTAAAATATAAACCCTAAACCCTAAAATGTAGACACAAACCTTAAATGAAATTCAAAC
Found at i:21287328 original size:16 final size:17
Alignment explanation
Indices: 21287309--21287353 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
21287299 GTGTGTATAG
21287309 AAAATAAATTGAAT-AA
1 AAAATAAATTGAATAAA
* *
21287325 AAAATAATTTACAATAAA
1 AAAATAAATT-GAATAAA
21287343 AAAATAAATTG
1 AAAATAAATTG
21287354 CATGGAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.39
17 3 0.13
18 11 0.48
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATAAATTGAATAAA
Found at i:21289872 original size:19 final size:20
Alignment explanation
Indices: 21289830--21289873 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
21289820 TTTGTGCAAT
* *
21289830 TTTAACTTTATTTGACTAAT
1 TTTAACTTTATTTGACCAAG
21289850 TTTAACTTTA-TTGACCAAG
1 TTTAACTTTATTTGACCAAG
21289869 TTTAA
1 TTTAA
21289874 GCAGATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTAACTTTATTTGACCAAG
Found at i:21289976 original size:13 final size:14
Alignment explanation
Indices: 21289937--21289983 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
21289927 CTTTATGGGT
*
21289937 TATAAATGGTCTTC
1 TATAAATGGTCTTA
21289951 T-TAAATGGT-TTA
1 TATAAATGGTCTTA
21289963 TAT-AATGGTCTTA
1 TATAAATGGTCTTA
*
21289976 TATGAATG
1 TATAAATG
21289984 AGTTCGGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 9 0.31
13 15 0.52
14 5 0.17
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (14 bp):
TATAAATGGTCTTA
Found at i:21290197 original size:20 final size:19
Alignment explanation
Indices: 21290168--21290217 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
21290158 CCTCCTTCCC
21290168 TTTTTG-TTTTATCTGTTTG
1 TTTTTGTTTTTAT-TGTTTG
* *
21290187 TTTTTGTTTTTATTTTTTT
1 TTTTTGTTTTTATTGTTTG
21290206 TGTTTTGTTTTT
1 T-TTTTGTTTTT
21290218 GTTTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (19 bp):
TTTTTGTTTTTATTGTTTG
Found at i:21290222 original size:20 final size:21
Alignment explanation
Indices: 21290183--21290222 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21290173 GTTTTATCTG
21290183 TTTGTTTTTGTTTTTATTTTT
1 TTTGTTTTTGTTTTTATTTTT
*
21290204 TTTG-TTTTGTTTTTGTTTT
1 TTTGTTTTTGTTTTTATTTT
21290223 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (21 bp):
TTTGTTTTTGTTTTTATTTTT
Found at i:21290408 original size:36 final size:36
Alignment explanation
Indices: 21290368--21290523 Score: 106
Period size: 36 Copynumber: 4.3 Consensus size: 36
21290358 ACAAGGTAGC
*
21290368 AAAATAAAAATGATCTGGACAACACCAATGATTGAA
1 AAAATAAATATGATCTGGACAACACCAATGATTGAA
* * *
21290404 AAAATAAATATAAT-TGGGACAACACCAAT-AGTCAGA
1 AAAATAAATATGATCT-GGACAACACCAATGATTGA-A
* * ** *
21290440 AAAATAGATATGACCAAGACAACACCACA-GGTTGAA
1 AAAATAAATATGATCTGGACAACACCA-ATGATTGAA
* * * *
21290476 AAAATAAAGATGAT-TAGGATAACA-CTATAGGTTAGAA
1 AAAATAAATATGATCT-GGACAACACCAAT-GATT-GAA
21290513 AAAATAAATAT
1 AAAATAAATAT
21290524 AACTAAGACA
Statistics
Matches: 91, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
34 1 0.01
35 5 0.05
36 69 0.76
37 16 0.18
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (36 bp):
AAAATAAATATGATCTGGACAACACCAATGATTGAA
Found at i:21290500 original size:72 final size:72
Alignment explanation
Indices: 21290385--21290561 Score: 171
Period size: 72 Copynumber: 2.4 Consensus size: 72
21290375 AAATGATCTG
* * * * *
21290385 GACAACACCAATGATTGAAAAAATAAATATAATTGGGACAACACCAATA-GTCAG-AAAAATAGA
1 GACAACACCAA-GGTTGAAAAAATAAAGATGATTAGGACAACA-CAATAGGTCAGAAAAAATAAA
*
21290448 TATGACCAA
64 TATAACCAA
* * *
21290457 GACAACACCACAGGTTGAAAAAATAAAGATGATTAGGATAACACTATAGGTTAGAAAAAATAAAT
1 GACAACACCA-AGGTTGAAAAAATAAAGATGATTAGGACAACACAATAGGTCAGAAAAAATAAAT
*
21290522 ATAACTAA
65 ATAACCAA
* * *
21290530 GACAATACCATAGG-TAAAAAGAACAAAGATGA
1 GACAACACCA-AGGTTGAAAA-AATAAAGATGA
21290562 CCAAGACAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
71 4 0.05
72 45 0.52
73 38 0.44
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (72 bp):
GACAACACCAAGGTTGAAAAAATAAAGATGATTAGGACAACACAATAGGTCAGAAAAAATAAATA
TAACCAA
Found at i:21290655 original size:34 final size:35
Alignment explanation
Indices: 21290585--21290664 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
21290575 AACAATCGAG
* * * *
21290585 AAAACAAATATGATTGGGACAACATCGTAGGTCAA
1 AAAATAAAGATGATTGAGACAACATCATAGGTCAA
21290620 AAAATAAAGATGATTGAGACAACA-CATAGGTCAA
1 AAAATAAAGATGATTGAGACAACATCATAGGTCAA
21290654 AATAATAAAGA
1 AA-AATAAAGA
21290665 ATAAAGTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 11 0.28
35 29 0.73
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (35 bp):
AAAATAAAGATGATTGAGACAACATCATAGGTCAA
Found at i:21291149 original size:3 final size:3
Alignment explanation
Indices: 21291070--21291235 Score: 53
Period size: 3 Copynumber: 56.3 Consensus size: 3
21291060 TATTAGATAG
* * * * * *
21291070 TAT TAT TAC TAC TAT TAA TAT TA- TAT CAT ATAA TAT AAT ATAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT
* * *
21291115 TAT TA- TAT TAT T-T TGT AAT CTAT TAG TAT TAT TAT CT-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * * *
21291159 CA- TATT TAT CAT TAT TAT TAAC CA- TAT TA- TAT TAT TAT TAC AAT
1 TAT TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
21291203 TA- TAT TAT TAT TAT TTT TAT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21291236 TTGTTCTTAT
Statistics
Matches: 116, Mismatches: 32, Indels: 30
0.65 0.18 0.17
Matches are distributed among these distances:
2 15 0.13
3 92 0.79
4 9 0.08
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:21291214 original size:17 final size:19
Alignment explanation
Indices: 21291152--21291215 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 19
21291142 ATTATTATCT
*
21291152 TTATTATCATATTTATCATTA
1 TTATTACCATA-TTAT-ATTA
21291173 TTATTAACCATATTATATTA
1 TTATT-ACCATATTATATTA
21291193 TTATTA-CA-ATTATATTA
1 TTATTACCATATTATATTA
21291210 TTATTA
1 TTATTA
21291216 TTTTTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
17 15 0.37
18 2 0.05
19 1 0.02
20 9 0.22
21 9 0.22
22 5 0.12
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTACCATATTATATTA
Found at i:21293099 original size:35 final size:35
Alignment explanation
Indices: 21293049--21293121 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
21293039 GGTTTTTTTC
**
21293049 TTTTCATTGTTTATACTTGCTTAATTATTTATTTA
1 TTTTCATTGCCTATACTTGCTTAATTATTTATTTA
*
21293084 TTTTCATTGCCTATACTTGCTTAATTATTTGTTTA
1 TTTTCATTGCCTATACTTGCTTAATTATTTATTTA
21293119 TTT
1 TTT
21293122 ATGATGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.62
Consensus pattern (35 bp):
TTTTCATTGCCTATACTTGCTTAATTATTTATTTA
Found at i:21296407 original size:45 final size:45
Alignment explanation
Indices: 21296332--21296424 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
21296322 TACCAGACAT
*
21296332 GGTGATGCCACCCAAATTCAAAGTACTAAAATTTAAGAAGTATAAC
1 GGTGATGCCACCCAAATTCAAAGTACTAAAA-TTAAAAAGTATAAC
* * *
21296378 GGTGATGCCA-CCAAATTTAAAGTATTAAAATTAAAAAGTATGAC
1 GGTGATGCCACCCAAATTCAAAGTACTAAAATTAAAAAGTATAAC
21296422 GGT
1 GGT
21296425 ATTAAGTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 15 0.35
45 18 0.42
46 10 0.23
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTGATGCCACCCAAATTCAAAGTACTAAAATTAAAAAGTATAAC
Found at i:21301442 original size:20 final size:20
Alignment explanation
Indices: 21301392--21301443 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
21301382 AAATGGAAAT
*
21301392 GAAAAAGGAAAAGTAACATA
1 GAAAAAGGAAAAATAACATA
* *
21301412 -AAAGAAAGAAAAATAATATA
1 GAAA-AAGGAAAAATAACATA
21301432 GAAAAAGGAAAA
1 GAAAAAGGAAAA
21301444 TGGAAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (20 bp):
GAAAAAGGAAAAATAACATA
Found at i:21303466 original size:21 final size:21
Alignment explanation
Indices: 21303432--21303474 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21303422 TCTTAAGTTC
*
21303432 AGTTTTCATATTACATGCTTT
1 AGTTTCCATATTACATGCTTT
* *
21303453 AGTTTCCATTTTACATGTTTT
1 AGTTTCCATATTACATGCTTT
21303474 A
1 A
21303475 TACATTCGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (21 bp):
AGTTTCCATATTACATGCTTT
Found at i:21304856 original size:13 final size:13
Alignment explanation
Indices: 21304838--21304862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21304828 TTGACACAAA
21304838 TAGCAATGGCTAT
1 TAGCAATGGCTAT
21304851 TAGCAATGGCTA
1 TAGCAATGGCTA
21304863 CTACCATGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (13 bp):
TAGCAATGGCTAT
Found at i:21305198 original size:10 final size:10
Alignment explanation
Indices: 21305183--21305211 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21305173 TATTGTTTTG
21305183 TTTTTATTAT
1 TTTTTATTAT
21305193 TTTTTATTAT
1 TTTTTATTAT
21305203 TTTTTATTA
1 TTTTTATTA
21305212 GAAAAGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:21305684 original size:23 final size:24
Alignment explanation
Indices: 21305640--21305684 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
21305630 AATAAGAATA
*
21305640 TTTTGGAAATAATAGGGTTTTTTT
1 TTTTGGAAATAATAGGGATTTTTT
* *
21305664 TTTTTGAAA-AATTGGGATTTT
1 TTTTGGAAATAATAGGGATTTT
21305685 CTAGAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTTGGAAATAATAGGGATTTTTT
Found at i:21305759 original size:31 final size:31
Alignment explanation
Indices: 21305722--21305789 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
21305712 TTTTCTGACA
* * *
21305722 AAGGTTGAAAATTCTAATAAAGTTTTCGGTG
1 AAGGTTGAAAATTCCAACAAAGTTTTCGATG
* *
21305753 AAGGTTGAAGATTCCAACAAAGTTTTTGATG
1 AAGGTTGAAAATTCCAACAAAGTTTTCGATG
21305784 AAGGTT
1 AAGGTT
21305790 AAATTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (31 bp):
AAGGTTGAAAATTCCAACAAAGTTTTCGATG
Found at i:21306147 original size:13 final size:13
Alignment explanation
Indices: 21306090--21306155 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
21306080 TGTTTTTTGT
21306090 TTTATTTTATTTTA
1 TTTA-TTTATTTTA
21306104 CTTT-TTACTATTTTA
1 -TTTATT--TATTTTA
*
21306119 TTTATTTATTTGA
1 TTTATTTATTTTA
21306132 TTTATTT-TGTTTA
1 TTTATTTAT-TTTA
21306145 TTTAATTTATT
1 TTT-ATTTATT
21306156 ATTTGTCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 1 0.02
13 21 0.49
14 8 0.19
15 13 0.30
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:21306750 original size:25 final size:25
Alignment explanation
Indices: 21306721--21306773 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
21306711 TTATTTATTT
21306721 TTAAATTAAAATAAAATAGA-AAAAA
1 TTAAATTAAAATAAAATA-ATAAAAA
* *
21306746 TTAAATTAAATTAAATTAATAAAAA
1 TTAAATTAAAATAAAATAATAAAAA
21306771 TTA
1 TTA
21306774 GAATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
TTAAATTAAAATAAAATAATAAAAA
Found at i:21309651 original size:22 final size:22
Alignment explanation
Indices: 21309623--21309705 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
21309613 TATTGGTCAT
*
21309623 TAAATAAAAAATAATAAACAAA
1 TAAATAAAAAATAATAAAAAAA
**
21309645 TAAATAAATGATAA-AAATAAAA
1 TAAATAAAAAATAATAAA-AAAA
* * * *
21309667 TAAATATAAACTAAT-AATAAT
1 TAAATAAAAAATAATAAAAAAA
*
21309688 TAATTCAAAAAATAATAA
1 TAAAT-AAAAAATAATAA
21309706 TGTACATACA
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
21 9 0.20
22 35 0.78
23 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (22 bp):
TAAATAAAAAATAATAAAAAAA
Found at i:21309721 original size:22 final size:19
Alignment explanation
Indices: 21309657--21309721 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
21309647 AATAAATGAT
* *
21309657 AAAAATAA-AATAAATATA
1 AAAAATAATAATTAATACA
* *
21309675 AACTAATAATAATTAATTCA
1 AA-AAATAATAATTAATACA
21309695 AAAAATAATAATGTACATACA
1 AAAAATAATAAT-TA-ATACA
21309716 ATAAAA
1 A-AAAA
21309722 CAACAAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.06
19 14 0.39
20 11 0.31
21 5 0.14
22 4 0.11
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATAATAATTAATACA
Found at i:21312061 original size:12 final size:12
Alignment explanation
Indices: 21312020--21312097 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 12
21312010 CCCTAAATTG
21312020 AAACCTTAAAGGTA
1 AAACCTTAAA--TA
* *
21312034 AAACCTTAAGTG
1 AAACCTTAAATA
21312046 AAACCTTAAATA
1 AAACCTTAAATA
*
21312058 AAACCATAAAGTTA
1 AAACCTTAAA--TA
* *
21312072 AAACTTTAAATG
1 AAACCTTAAATA
21312084 AAA-CTTAAA-A
1 AAACCTTAAATA
21312094 AAAC
1 AAAC
21312098 TAAAATCTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 24 0.47
14 19 0.37
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (12 bp):
AAACCTTAAATA
Found at i:21312074 original size:38 final size:38
Alignment explanation
Indices: 21312005--21312097 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
21311995 ATCCTAAAAC
* * * *
21312005 TGAAACCCTAAATTGAAACCTTAAAGGTAAAACCTTAAG
1 TGAAACCTTAAA-TAAAACCATAAAGGTAAAACCTTAAA
* *
21312044 TGAAACCTTAAATAAAACCATAAAGTTAAAACTTTAAA
1 TGAAACCTTAAATAAAACCATAAAGGTAAAACCTTAAA
21312082 TGAAA-CTTAAA-AAAAC
1 TGAAACCTTAAATAAAAC
21312098 TAAAATCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.10
37 6 0.12
38 26 0.54
39 11 0.23
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (38 bp):
TGAAACCTTAAATAAAACCATAAAGGTAAAACCTTAAA
Found at i:21312075 original size:26 final size:25
Alignment explanation
Indices: 21312011--21312092 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
21312001 AAACTGAAAC
21312011 CCTAAA-TTGAAACCTTAAAGGTAAAA
1 CCTAAAGTTGAAACCTTAAA--TAAAA
*
21312037 CCTTAAG-TGAAACCTTAAATAAAA
1 CCTAAAGTTGAAACCTTAAATAAAA
* * *
21312061 CCATAAAGTTAAAACTTTAAATGAAA
1 CC-TAAAGTTGAAACCTTAAATAAAA
*
21312087 CTTAAA
1 CCTAAA
21312093 AAAACTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.15
25 8 0.17
26 32 0.68
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.26
Consensus pattern (25 bp):
CCTAAAGTTGAAACCTTAAATAAAA
Found at i:21312615 original size:305 final size:304
Alignment explanation
Indices: 21312076--21312667 Score: 822
Period size: 305 Copynumber: 1.9 Consensus size: 304
21312066 AAGTTAAAAC
* *
21312076 TTTAAATGAAACTTAAAAAAACTAAAATCTTTAGTGAAACTCGAAATCCTAAATCCTAGGTGGGA
1 TTTAAATGAAACCTAAAAAAACTAAAATCTTAAGTGAAACTCGAAATCCTAAATCCTAGGTGGGA
* * * * * * *
21312141 CCTAAATCCCTAAGCCTTAGTTGAATCCTTAAATTAAATTTTTCAACCTAAACATACCAAAAATA
66 CCCAAATCCCTAAGCCTTAGTCGAACCCCTAAATTAAACTTTGCAACCTAAACATACCAAAAACA
* *
21312206 CCAAAATTCATCTTAAAATTTCAAGGATTTGTATGAAAACCTTTTATGAAATAATTTATTTCCAA
131 CCAAAATTCATCTTAAAATTTCAAGGATTTGTATGAAAACCTTTAATGAAATAATCTATTTCCAA
* * *
21312271 ATGCTGCTTAGATGATAGGGGTATTTAGTAAATTTTATTTTC-TTAAGAATTTTCATATATTTTC
196 ATGCTGCTTAGATGATAGGGGTATTTAGGAAACTTTA-TTTCATTAAAAATTTTCATATATTTTC
21312335 ATAATTTAAAAATAAAGAATAAAGAATAAAAATAATGAAGTGGGAT
260 ATAATTTAAAAATAAAGAATAAA-AATAAAAATAATGAAGTGGGAT
* *
21312381 TTTAAATGAAAGCCT-AAAAAACTGAAATCTTAAGTGAAACTCGAAATCCTAAATCCTTGGT-GG
1 TTTAAATGAAA-CCTAAAAAAACTAAAATCTTAAGTGAAACTCGAAATCCTAAATCCTAGGTGGG
*
21312444 AGCCCAAATCCCTAGGCCTTAGTCGAACCCCTAAATTAAACTTTGCAACCTTAAACATATCCAAA
65 A-CCCAAATCCCTAAGCCTTAGTCGAACCCCTAAATTAAACTTTGCAACC-TAAACATA-CCAAA
* * *
21312509 ACCCCCAAAAATT-ATCTTAAAATTTTAAGGATTTGTATGAAAACCTTTAATGAAATAATCTA-T
127 AACACC-AAAATTCATCTTAAAATTTCAAGGATTTGTATGAAAACCTTTAATGAAATAATCTATT
** *
21312572 TCTTGAATGTTGC-TAGAT-AGT-GGGGTATTTAGGAAACTTTATTTCATTAAAAATTTTCATAT
191 TC-CAAATGCTGCTTAGATGA-TAGGGGTATTTAGGAAACTTTATTTCATTAAAAATTTTCATAT
**
21312634 ATTTTTGTAATTTAAAAATAAAGAATAAAAATAA
254 ATTTTCATAATTTAAAAATAAAGAATAAAAATAA
21312668 TAAAATAAAA
Statistics
Matches: 254, Mismatches: 25, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
304 12 0.05
305 156 0.61
306 19 0.07
307 61 0.24
308 6 0.02
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (304 bp):
TTTAAATGAAACCTAAAAAAACTAAAATCTTAAGTGAAACTCGAAATCCTAAATCCTAGGTGGGA
CCCAAATCCCTAAGCCTTAGTCGAACCCCTAAATTAAACTTTGCAACCTAAACATACCAAAAACA
CCAAAATTCATCTTAAAATTTCAAGGATTTGTATGAAAACCTTTAATGAAATAATCTATTTCCAA
ATGCTGCTTAGATGATAGGGGTATTTAGGAAACTTTATTTCATTAAAAATTTTCATATATTTTCA
TAATTTAAAAATAAAGAATAAAAATAAAAATAATGAAGTGGGAT
Found at i:21312863 original size:20 final size:19
Alignment explanation
Indices: 21312831--21312868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21312821 TAATGCATAT
*
21312831 ATGTTTATTTTAATTATTA
1 ATGTTTATATTAATTATTA
21312850 ATGTTTAATATTAATTATT
1 ATGTTT-ATATTAATTATT
21312869 TCATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
ATGTTTATATTAATTATTA
Found at i:21316478 original size:3 final size:3
Alignment explanation
Indices: 21316470--21316511 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
21316460 AAAAACAAAT
* *
21316470 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21316512 ACATTATACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:21319734 original size:37 final size:37
Alignment explanation
Indices: 21319686--21319759 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21319676 TTTTTGAGAT
21319686 AGTAAGTCCTACATATGTTGGAAAAGGGTCAATGATA
1 AGTAAGTCCTACATATGTTGGAAAAGGGTCAATGATA
21319723 AGTAAGTCCTACATATGTTGGAAAAGGGTCAATGATA
1 AGTAAGTCCTACATATGTTGGAAAAGGGTCAATGATA
21319760 CTTGTGCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (37 bp):
AGTAAGTCCTACATATGTTGGAAAAGGGTCAATGATA
Found at i:21324929 original size:19 final size:19
Alignment explanation
Indices: 21324905--21324974 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
21324895 TTCAGGGTTT
21324905 GGTTTAAGGTTTAGGACTA
1 GGTTTAAGGTTTAGGACTA
* **
21324924 GGTTTATGGTTT-GGTGTAA
1 GGTTTAAGGTTTAGGACT-A
*
21324943 GGTTTAAGGTTTAGGGCTA
1 GGTTTAAGGTTTAGGACTA
* *
21324962 GATTTAGGGTTTA
1 GGTTTAAGGTTTA
21324975 AAGTTTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.07
19 35 0.85
20 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.41
Consensus pattern (19 bp):
GGTTTAAGGTTTAGGACTA
Found at i:21325050 original size:20 final size:19
Alignment explanation
Indices: 21325013--21325068 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
21325003 GACTTCATGC
21325013 TTAGGGTTTTAGGATTTGATT
1 TTAGGG-TTTAGG-TTTGATT
*
21325034 TTGGGGTTTAGAGTTTGATT
1 TTAGGGTTTAG-GTTTGATT
*
21325054 TTAGTGTTTAGGTTT
1 TTAGGGTTTAGGTTT
21325069 AAAGTTTGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 21 0.68
21 6 0.19
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (19 bp):
TTAGGGTTTAGGTTTGATT
Found at i:21325074 original size:26 final size:26
Alignment explanation
Indices: 21325038--21325094 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
21325028 TTGATTTTGG
* *
21325038 GGTTTAGAGTTTGATTTTAGTGTTTA
1 GGTTTAAAGTTTGACTTTAGTGTTTA
21325064 GGTTTAAAGTTTGACTTTAGTGTTTA
1 GGTTTAAAGTTTGACTTTAGTGTTTA
21325090 GGTTT
1 GGTTT
21325095 TAACTTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.53
Consensus pattern (26 bp):
GGTTTAAAGTTTGACTTTAGTGTTTA
Found at i:21325114 original size:26 final size:26
Alignment explanation
Indices: 21325038--21325102 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
21325028 TTGATTTTGG
* * *
21325038 GGTTTAGAGTTTGATTTTAGTGTTTA
1 GGTTTAAACTTTGACTTTAGTGTTTA
*
21325064 GGTTTAAAGTTTGACTTTAGTGTTTA
1 GGTTTAAACTTTGACTTTAGTGTTTA
*
21325090 GGTTTTAACTTTG
1 GGTTTAAACTTTG
21325103 GGTTTAGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (26 bp):
GGTTTAAACTTTGACTTTAGTGTTTA
Found at i:21325133 original size:20 final size:20
Alignment explanation
Indices: 21325110--21325154 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21325100 TTGGGTTTAG
*
21325110 GGTTTGACTTTAGGACTTAA
1 GGTTTGAATTTAGGACTTAA
**
21325130 GGTTTGAATTTAGGGTTTAA
1 GGTTTGAATTTAGGACTTAA
21325150 GGTTT
1 GGTTT
21325155 ACCAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.44
Consensus pattern (20 bp):
GGTTTGAATTTAGGACTTAA
Found at i:21328097 original size:33 final size:33
Alignment explanation
Indices: 21328050--21328257 Score: 154
Period size: 33 Copynumber: 6.3 Consensus size: 33
21328040 ATGACACAAT
* * ** *
21328050 CTAGATTAAACTGAAGTTGGCAAATAAAATGAC
1 CTAGACTAAGCTGAAGTTGAAAAATAACATGAC
* * * *
21328083 CTAGATTGAGCTGAAGCCTT--AAAATGATATGAC
1 CTAGACTAAGCTGAAG--TTGAAAAATAACATGAC
** *
21328116 CTAGACTAAGCTGAAGCCGATAAATAACATGAC
1 CTAGACTAAGCTGAAGTTGAAAAATAACATGAC
* * *
21328149 CTAGACTGAGCTGAGGTCT-AAAAATGACATGAC
1 CTAGACTAAGCTGAAGT-TGAAAAATAACATGAC
* * *
21328182 CTAGATTAAGCTGAAGTTGAAAAAATTATATGAC
1 CTAGACTAAGCTGAAGTTG-AAAAATAACATGAC
* * *
21328216 CTAGACTAAGCTGAAGTCT-AAAAGTCACATTAC
1 CTAGACTAAGCTGAAGT-TGAAAAATAACATGAC
21328249 CTAGACTAA
1 CTAGACTAA
21328258 ATTGAAGCCA
Statistics
Matches: 139, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
32 1 0.01
33 107 0.77
34 28 0.20
35 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (33 bp):
CTAGACTAAGCTGAAGTTGAAAAATAACATGAC
Found at i:21328120 original size:66 final size:66
Alignment explanation
Indices: 21328050--21328339 Score: 222
Period size: 66 Copynumber: 4.4 Consensus size: 66
21328040 ATGACACAAT
* * * * *
21328050 CTAGATTAAACTGAAGTTGGCAAATAAAATGACCTAGATTGAGCTGAAGCCTTAAAATGATATGA
1 CTAGATTAAGCTGAAGTTGACAAATAAAATGACCTAGACTGAGCTGAAGCCTAAAAATGACATGA
21328115 C
66 C
* ** * * * *
21328116 CTAGACTAAGCTGAAGCCGATAAATAACATGACCTAGACTGAGCTGAGGTCTAAAAATGACATGA
1 CTAGATTAAGCTGAAGTTGACAAATAAAATGACCTAGACTGAGCTGAAGCCTAAAAATGACATGA
21328181 C
66 C
* * * * * * * *
21328182 CTAGATTAAGCTGAAGTTGAAAAAATTATATGACCTAGACTAAGCTGAAGTCTAAAAGTCACATT
1 CTAGATTAAGCTGAAGTTG-ACAAATAAAATGACCTAGACTGAGCTGAAGCCTAAAAATGACATG
21328247 AC
65 AC
* ** *** * * * * * * * *
21328249 CTAGACTAAATTGAAGCCAACAAATGACATAACTTAGATTGAGC-AAAGGTCTGAAAATGACATG
1 CTAGATTAAGCTGAAGTTGACAAATAAAATGACCTAGACTGAGCTGAA-GCCTAAAAATGACATG
21328313 AC
65 AC
* * *
21328315 CTAGACTAAGCTAAAGTTTACAAAT
1 CTAGATTAAGCTGAAGTTGACAAAT
21328340 GACTGGACAA
Statistics
Matches: 175, Mismatches: 47, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
65 2 0.01
66 121 0.69
67 52 0.30
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (66 bp):
CTAGATTAAGCTGAAGTTGACAAATAAAATGACCTAGACTGAGCTGAAGCCTAAAAATGACATGA
C
Found at i:21328265 original size:133 final size:132
Alignment explanation
Indices: 21328050--21328332 Score: 325
Period size: 133 Copynumber: 2.1 Consensus size: 132
21328040 ATGACACAAT
* ** * * * *
21328050 CTAGATTAAACTGAAGTTGGCAAATAAAATGACCTAGATTGAGCTGAAGCCTTAAAATGATATGA
1 CTAGATTAAGCTGAAGTTGAAAAATAAAATGACCTAGACTAAGCTGAAGCCTTAAAATCACATGA
* * * * **
21328115 CCTAGACTAAGCTGAAGCCGATAAATAACATGACCTAGACTGAGCTGAGGTCTAAAAATGACATG
66 CCTAGACTAAACTGAAGCCAACAAATAACATAACCTAGACTGAGCAAAGGTCTAAAAATGACATG
21328180 AC
131 AC
* * *
21328182 CTAGATTAAGCTGAAGTTGAAAAAATTATATGACCTAGACTAAGCTGAAGTC-TAAAAGTCACAT
1 CTAGATTAAGCTGAAGTTG-AAAAATAAAATGACCTAGACTAAGCTGAAGCCTTAAAA-TCACAT
* * * * * *
21328246 TACCTAGACTAAATTGAAGCCAACAAATGACATAACTTAGATTGAGCAAAGGTCTGAAAATGACA
64 GACCTAGACTAAACTGAAGCCAACAAATAACATAACCTAGACTGAGCAAAGGTCTAAAAATGACA
21328311 TGAC
129 TGAC
* *
21328315 CTAGACTAAGCTAAAGTT
1 CTAGATTAAGCTGAAGTT
21328333 TACAAATGAC
Statistics
Matches: 125, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
132 23 0.18
133 102 0.82
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (132 bp):
CTAGATTAAGCTGAAGTTGAAAAATAAAATGACCTAGACTAAGCTGAAGCCTTAAAATCACATGA
CCTAGACTAAACTGAAGCCAACAAATAACATAACCTAGACTGAGCAAAGGTCTAAAAATGACATG
AC
Found at i:21328340 original size:33 final size:32
Alignment explanation
Indices: 21328078--21328467 Score: 193
Period size: 33 Copynumber: 12.0 Consensus size: 32
21328068 GGCAAATAAA
* * * *
21328078 ATGACCTAGATTGAGCTGAAGCCTTAAAATGAT
1 ATGACCTAGACTAAGCTGAAGTC-TAAAATGAC
* * *
21328111 ATGACCTAGACTAAGCTGAAGCCGATAAATAAC
1 ATGACCTAGACTAAGCTGAAGTCTA-AAATGAC
* *
21328144 ATGACCTAGACTGAGCTGAGGTCTAAAAATGAC
1 ATGACCTAGACTAAGCTGAAGTCT-AAAATGAC
* * *
21328177 ATGACCTAGATTAAGCTGAAGT-TGAAAAAATTAT
1 ATGACCTAGACTAAGCTGAAGTCT---AAAATGAC
*
21328211 ATGACCTAGACTAAGCTGAAGTCTAAAAGTCAC
1 ATGACCTAGACTAAGCTGAAGTCTAAAA-TGAC
* ** * *
21328244 ATTACCTAGACTAAATTGAAGCCAACAAATGAC
1 ATGACCTAGACTAAGCTGAAGTCTA-AAATGAC
* * * * *
21328277 ATAACTTAGATTGAGC-AAAGGTCTGAAAATGAC
1 ATGACCTAGACTAAGCTGAA-GTCT-AAAATGAC
* *
21328310 ATGACCTAGACTAAGCTAAAGTTTACAAATGAC
1 ATGACCTAGACTAAGCTGAAGTCTA-AAATGAC
* * ** *
21328343 -TG-----GACAAACCCAAAGTCTAAAAATGAT
1 ATGACCTAGACTAAGCTGAAGTCT-AAAATGAC
* * * * * *
21328370 ATGACATAGACCAAGCTAAAATCAACAAATGGC
1 ATGACCTAGACTAAGCTGAAGTCTA-AAATGAC
* * * * * *
21328403 ATAACCTAGATTGATCTGAATTCGACAAATGAC
1 ATGACCTAGACTAAGCTGAAGTCTA-AAATGAC
* * *
21328436 ATCACCTAAACAAAGCTGAAGTCTAAAATGAC
1 ATGACCTAGACTAAGCTGAAGTCTAAAATGAC
21328468 CTATGAATTA
Statistics
Matches: 270, Mismatches: 68, Indels: 39
0.72 0.18 0.10
Matches are distributed among these distances:
27 18 0.07
28 3 0.01
32 19 0.07
33 193 0.71
34 36 0.13
35 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (32 bp):
ATGACCTAGACTAAGCTGAAGTCTAAAATGAC
Found at i:21329039 original size:21 final size:21
Alignment explanation
Indices: 21329015--21329076 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
21329005 TTTTACAAGT
21329015 GATCCCTAAAGTTTTAGAAAC
1 GATCCCTAAAGTTTTAGAAAC
* * *
21329036 GATCCTTAAGGTTTTA-AAAT
1 GATCCCTAAAGTTTTAGAAAC
* *
21329056 GATGCCTAGAAGCTTTAGAAA
1 GATCCCTA-AAGTTTTAGAAA
21329077 ATTTTACCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 9 0.28
21 20 0.62
22 3 0.09
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
GATCCCTAAAGTTTTAGAAAC
Found at i:21329185 original size:44 final size:44
Alignment explanation
Indices: 21329117--21329297 Score: 208
Period size: 44 Copynumber: 4.1 Consensus size: 44
21329107 GGAGCCTCTG
*
21329117 AAAAA-TTTACCATGAAGTCTTAGAAATTATG-CTTAAAGGCTTT
1 AAAAATTTTACCTTGAAGTCTTAGAAATTATGCCTT-AAGGCTTT
* * * *
21329160 CAAAATTTTACCTTGAAGTCCTAGAAACTATGCCTTGAGGCTTT
1 AAAAATTTTACCTTGAAGTCTTAGAAATTATGCCTTAAGGCTTT
* * * * *
21329204 GAAAATTTTACCTAGAAATCTTAAAAATTATGCCATAAGGCTTT
1 AAAAATTTTACCTTGAAGTCTTAGAAATTATGCCTTAAGGCTTT
*
21329248 AAAAATTTTACGTTG-AGTTCTTAGAAATTATGTCC-TAAGGCTTT
1 AAAAATTTTACCTTGAAG-TCTTAGAAATTATG-CCTTAAGGCTTT
21329292 AAAAAT
1 AAAAAT
21329298 GATGCACTTA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
43 5 0.04
44 106 0.91
45 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (44 bp):
AAAAATTTTACCTTGAAGTCTTAGAAATTATGCCTTAAGGCTTT
Found at i:21329295 original size:66 final size:66
Alignment explanation
Indices: 21329224--21329606 Score: 205
Period size: 66 Copynumber: 5.8 Consensus size: 66
21329214 CCTAGAAATC
* * * * *
21329224 TTAAAAATTATGC-CATAAGGCTTTAAAAATTTTACGTTGA-GTTCTTAGAAATTATGTCC-TAA
1 TTAAAAATTATGCAC-TAAGACTTTAAAAATTTGACCTTAAGGTT-TTAAAAATTATG-CCTTAA
21329286 GGCT
63 GGCT
* * *
21329290 TTAAAAATGATGCACTTAGACTTTGAAAATTTGACCTTAAGGTTTTAAAAATTATGCCTTAAGGC
1 TTAAAAATTATGCACTAAGACTTTAAAAATTTGACCTTAAGGTTTTAAAAATTATGCCTTAAGGC
21329355 T
66 T
* * * * * * * *
21329356 TTGAAAATTTTACTCTAAGA-TCTTAAAAATTATG-TCTTGAA-GCTTTAAAAATTTTACCATT-
1 TTAAAAATTATGCACTAAGACT-TTAAAAATT-TGACCTT-AAGGTTTTAAAAATTATGCC-TTA
*
21329417 AGGTT
62 AGGCT
* * ** * * * * * *
21329422 TTAGAAATTATGTA-TGAAGGTTTTGAAATTTTCAACTTGAA-GTATTAAAAATTATGCCTTGAG
1 TTAAAAATTATGCACT-AAGACTTTAAAAATTTGACCTT-AAGGTTTTAAAAATTATGCCTTAAG
*
21329485 GTT
64 GCT
* * * * * *
21329488 TTGAAAATTATTC-CTTGAGACTTTAAAAATTTTACCATAAGGTTTTAAAAATTATGCCTTAATG
1 TTAAAAATTATGCAC-TAAGACTTTAAAAATTTGACCTTAAGGTTTTAAAAATTATGCCTTAAGG
21329552 CT
65 CT
* * * * * * *
21329554 TTGAAAATTTTACCCTAA-ACTCTTAGAAATTATG-CCTTAAGGCTTTGAAAATT
1 TTAAAAATTATGCACTAAGACT-TTAAAAATT-TGACCTTAAGGTTTTAAAAATT
21329607 TTCAAAATCA
Statistics
Matches: 241, Mismatches: 59, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
65 12 0.05
66 215 0.89
67 14 0.06
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (66 bp):
TTAAAAATTATGCACTAAGACTTTAAAAATTTGACCTTAAGGTTTTAAAAATTATGCCTTAAGGC
T
Found at i:21329382 original size:44 final size:44
Alignment explanation
Indices: 21329283--21329496 Score: 168
Period size: 44 Copynumber: 4.9 Consensus size: 44
21329273 AATTATGTCC
* * * * *
21329283 TAAGGCTTTAAAAATGATGCACTT-AGACTTTGAAAATTTGACCT
1 TAAGGTTTTAAAAATTATGC-CTTAAGGCTTTGAAAATTTTACCA
21329327 TAAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATTTTACTC-
1 TAAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATTTTAC-CA
* * * *
21329371 TAAGATCTTAAAAATTATGTCTTGAA-GCTTTAAAAATTTTACCA
1 TAAGGTTTTAAAAATTATGCCTT-AAGGCTTTGAAAATTTTACCA
* * ** * * * *
21329415 TTAGGTTTTAGAAATTATGTATGAAGGTTTTG-AAATTTTCAACT
1 TAAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATTTT-ACCA
* * *
21329459 TGAA-GTATTAAAAATTATGCCTTGAGGTTTTGAAAATT
1 T-AAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATT
21329497 ATTCCTTGAG
Statistics
Matches: 137, Mismatches: 25, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
43 13 0.09
44 115 0.84
45 9 0.07
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (44 bp):
TAAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATTTTACCA
Found at i:21329473 original size:154 final size:154
Alignment explanation
Indices: 21329188--21329605 Score: 424
Period size: 154 Copynumber: 2.7 Consensus size: 154
21329178 TCCTAGAAAC
* *
21329188 TATGCCTTGAGGCTTTGAAAATTTTACCTAGAAATCTTAAAAATTATGCCATAAGGCTTTAAAAA
1 TATGCCTTGAGGCTTTGAAAATTTTACCTA-AGATCTTAAAAATTATGCCTTAAGGCTTTAAAAA
* * *
21329253 TTTTA-CGTTGAGTTCTTAGAAATTATGTCCTAAGGCTTTAAAAATGATGCACTTAGACTTTGAA
65 TTTTACCATTGAGTTCTTAGAAATTATGTCATAAGGCTTTAAAAATGATGCACTTAGACTTTAAA
21329317 AATT-TGACCTTAAGGTTTTAAAAAT
130 AATTATG-CCTTAAGGTTTTAAAAAT
* *
21329342 TATGCCTTAAGGCTTTGAAAATTTTACTCTAAGATCTTAAAAATTATGTCTTGAA-GCTTTAAAA
1 TATGCCTTGAGGCTTTGAAAATTTTAC-CTAAGATCTTAAAAATTATGCCTT-AAGGCTTTAAAA
** * * *
21329406 ATTTTACCATT-AGGTT-TTAGAAATTATGT-ATGAAGG-TTTTGAAAT-TTTCAACTT-GAAGT
64 ATTTTACCATTGA-GTTCTTAGAAATTATGTCAT-AAGGCTTTAAAAATGATGC-ACTTAG-ACT
* *
21329465 ATTAAAAATTATGCCTTGAGGTTTTGAAAAT
125 -TTAAAAATTATGCCTTAAGGTTTTAAAAAT
* * * * * * *
21329496 TATTCCTTGAGACTTTAAAAATTTTACCATAAGGTTTTAAAAATTATGCCTTAATGCTTTGAAAA
1 TATGCCTTGAGGCTTTGAAAATTTTACC-TAAGATCTTAAAAATTATGCCTTAAGGCTTTAAAAA
* * ** * * *
21329561 TTTTACC-CTAAACTCTTAGAAATTATGCCTTAAGGCTTTGAAAAT
65 TTTTACCATTGAGTTCTTAGAAATTATGTCATAAGGCTTTAAAAAT
21329606 TTTCAAAATC
Statistics
Matches: 220, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
152 3 0.01
153 19 0.09
154 177 0.80
155 21 0.10
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (154 bp):
TATGCCTTGAGGCTTTGAAAATTTTACCTAAGATCTTAAAAATTATGCCTTAAGGCTTTAAAAAT
TTTACCATTGAGTTCTTAGAAATTATGTCATAAGGCTTTAAAAATGATGCACTTAGACTTTAAAA
ATTATGCCTTAAGGTTTTAAAAAT
Found at i:21329495 original size:88 final size:88
Alignment explanation
Indices: 21329310--21329496 Score: 211
Period size: 88 Copynumber: 2.1 Consensus size: 88
21329300 TGCACTTAGA
* *
21329310 CTTTGAAAATTTGACCTTAAGGTTTTAAAAATTATGCCTTAAGGCTTTGAAAATTTTACTCTAAG
1 CTTTGAAAATTTGACCTTAAGGTTTTAAAAATTATGCATGAAGGCTTTGAAAATTTTACTCTAAG
* *
21329375 ATCTTAAAAATTATGTCTTGAAG
66 ATATTAAAAATTATGCCTTGAAG
* * * * *
21329398 CTTTAAAAATTTTACCATT-AGGTTTTAGAAATTATGTATGAAGGTTTTG-AAATTTTCAACT-T
1 CTTTGAAAATTTGACC-TTAAGGTTTTAAAAATTATGCATGAAGGCTTTGAAAATTTT--ACTCT
*
21329460 GAAG-TATTAAAAATTATGCCTTGAGG
63 -AAGATATTAAAAATTATGCCTTGAAG
*
21329486 TTTTGAAAATT
1 CTTTGAAAATT
21329497 ATTCCTTGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
87 7 0.08
88 68 0.82
89 8 0.10
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.41
Consensus pattern (88 bp):
CTTTGAAAATTTGACCTTAAGGTTTTAAAAATTATGCATGAAGGCTTTGAAAATTTTACTCTAAG
ATATTAAAAATTATGCCTTGAAG
Found at i:21329531 original size:44 final size:44
Alignment explanation
Indices: 21329483--21329608 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 44
21329473 TTATGCCTTG
* * *
21329483 AGGTTTTGAAAATTATTCCTTGA-GACTTTAAAAATTTTACCATA
1 AGGTTTTAAAAATTATGCCTTAATG-CTTTAAAAATTTTACCATA
* *
21329527 AGGTTTTAAAAATTATGCCTTAATGCTTTGAAAATTTTACCCTA
1 AGGTTTTAAAAATTATGCCTTAATGCTTTAAAAATTTTACCATA
** * * * *
21329571 AACTCTTAGAAATTATGCCTTAAGGCTTTGAAAATTTT
1 AGGTTTTAAAAATTATGCCTTAATGCTTTAAAAATTTT
21329609 CAAAATCATT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 70 0.99
45 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (44 bp):
AGGTTTTAAAAATTATGCCTTAATGCTTTAAAAATTTTACCATA
Found at i:21335135 original size:21 final size:21
Alignment explanation
Indices: 21335111--21335154 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
21335101 GAAGACCTAC
* *
21335111 AAGAGGAAGAACTATAAGAAA
1 AAGAAGAAAAACTATAAGAAA
* *
21335132 AAGAAGAAAAAGTCTAAGAAA
1 AAGAAGAAAAACTATAAGAAA
21335153 AA
1 AA
21335155 AGTGTAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.20, T:0.09
Consensus pattern (21 bp):
AAGAAGAAAAACTATAAGAAA
Found at i:21339198 original size:40 final size:40
Alignment explanation
Indices: 21339154--21339295 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 40
21339144 AGGGTTTCAG
*
21339154 TTAAGGTTTGACTTTTGGGTTTACGATTTAACTTTTGAGT
1 TTAAGGTTTGACTTTTGGGTTTACGATTTGACTTTTGAGT
* * * * * *
21339194 TTAAGATTTGACTTTAGGGTTTAAGGTTTGCCTTTAGCA-T
1 TTAAGGTTTGACTTTTGGGTTTACGATTTGACTTTTG-AGT
* * * *
21339234 TTAGGGTTTGA-TTTTCGGTTTACGTTTTGACTTTATG-GC
1 TTAAGGTTTGACTTTTGGGTTTACGATTTGACTTT-TGAGT
*
21339273 TTAAGGTTTGACTTTGGGGTTTA
1 TTAAGGTTTGACTTTTGGGTTTA
21339296 GGGTTTATCA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
39 28 0.35
40 50 0.63
41 1 0.01
ACGTcount: A:0.18, C:0.08, G:0.25, T:0.49
Consensus pattern (40 bp):
TTAAGGTTTGACTTTTGGGTTTACGATTTGACTTTTGAGT
Found at i:21339223 original size:20 final size:20
Alignment explanation
Indices: 21339154--21339301 Score: 118
Period size: 20 Copynumber: 7.5 Consensus size: 20
21339144 AGGGTTTCAG
*
21339154 TTAAGGTTTGACTTTTGGGT
1 TTAAGGTTTGACTTTAGGGT
* * * * *
21339174 TTACGATTTAACTTTTGAGT
1 TTAAGGTTTGACTTTAGGGT
*
21339194 TTAAGATTTGACTTTAGGGT
1 TTAAGGTTTGACTTTAGGGT
* **
21339214 TTAAGGTTTGCCTTTAGCAT
1 TTAAGGTTTGACTTTAGGGT
* **
21339234 TTAGGGTTTGA-TTTTCGGT
1 TTAAGGTTTGACTTTAGGGT
* * * *
21339253 TTACGTTTTGACTTTATGGC
1 TTAAGGTTTGACTTTAGGGT
*
21339273 TTAAGGTTTGACTTTGGGGT
1 TTAAGGTTTGACTTTAGGGT
*
21339293 TTAGGGTTT
1 TTAAGGTTT
21339302 ATCATGATTT
Statistics
Matches: 98, Mismatches: 29, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
19 13 0.13
20 85 0.87
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.49
Consensus pattern (20 bp):
TTAAGGTTTGACTTTAGGGT
Found at i:21340413 original size:20 final size:20
Alignment explanation
Indices: 21340390--21340436 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
21340380 CCAAGATTCT
* *
21340390 TTTTCTTAGACCTTTAATCA
1 TTTTCATAGACCTTCAATCA
*
21340410 TTTTCATCGACCTTCAATCA
1 TTTTCATAGACCTTCAATCA
21340430 TTTTCAT
1 TTTTCAT
21340437 CTAATGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTTCATAGACCTTCAATCA
Found at i:21340437 original size:20 final size:20
Alignment explanation
Indices: 21340398--21340437 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21340388 CTTTTTCTTA
*
21340398 GACCTTTAATCATTTTCATC
1 GACCTTCAATCATTTTCATC
21340418 GACCTTCAATCATTTTCATC
1 GACCTTCAATCATTTTCATC
21340438 TAATGGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (20 bp):
GACCTTCAATCATTTTCATC
Found at i:21342380 original size:16 final size:15
Alignment explanation
Indices: 21342342--21342383 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
21342332 AGTACAAATC
21342342 AAGTAAATTGCAAGA
1 AAGTAAATTGCAAGA
*
21342357 ACAATAAATTGCAAGGA
1 A-AGTAAATTGCAA-GA
21342374 AAGTAAATTG
1 AAGTAAATTG
21342384 AAAATAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.04
16 19 0.83
17 3 0.13
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.21
Consensus pattern (15 bp):
AAGTAAATTGCAAGA
Found at i:21346061 original size:32 final size:33
Alignment explanation
Indices: 21346015--21346094 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
21346005 GTTCAACAAG
* * *
21346015 CAAATTTGATTTTTTTTTGGC-CAAGTAAGCAGT
1 CAAATTT-AATTTTTTTTCGCTCAAGTAAGCAAT
* *
21346048 CAAATTTAATTTTTTTTCTCTCAAGTCAGCAAT
1 CAAATTTAATTTTTTTTCGCTCAAGTAAGCAAT
21346081 CAAATTT-ATTTTTT
1 CAAATTTAATTTTTT
21346095 GCCAACTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.41
33 24 0.59
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (33 bp):
CAAATTTAATTTTTTTTCGCTCAAGTAAGCAAT
Found at i:21346373 original size:25 final size:25
Alignment explanation
Indices: 21346344--21346392 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
21346334 AACACCTAGA
*
21346344 ATTTTTATTTTAT-ATTTTAAAAAT
1 ATTTTTATTTTATGATATTAAAAAT
*
21346368 ATTTTTATTTTTTGATATTAAAAAT
1 ATTTTTATTTTATGATATTAAAAAT
21346393 TATAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTTATTTTATGATATTAAAAAT
Found at i:21346413 original size:16 final size:16
Alignment explanation
Indices: 21346392--21346426 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21346382 ATATTAAAAA
* *
21346392 TTATAAAACTTTAATT
1 TTATAAAAATTTAAAT
21346408 TTATAAAAATTTAAAT
1 TTATAAAAATTTAAAT
21346424 TTA
1 TTA
21346427 ATTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAAAATTTAAAT
Found at i:21346504 original size:13 final size:13
Alignment explanation
Indices: 21346483--21346512 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21346473 AATAACATTC
*
21346483 AAAAGACAAAAAA
1 AAAAAACAAAAAA
21346496 AAAAAACAAAAAA
1 AAAAAACAAAAAA
21346509 AAAA
1 AAAA
21346513 GAAAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:21346706 original size:11 final size:11
Alignment explanation
Indices: 21346690--21346728 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
21346680 TCACTTAAAA
21346690 ATATAAATTTT
1 ATATAAATTTT
21346701 ATATAAATTTT
1 ATATAAATTTT
* *
21346712 TTATATATTTT
1 ATATAAATTTT
21346723 ATATAA
1 ATATAA
21346729 TATTAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATAAATTTT
Found at i:21346757 original size:19 final size:18
Alignment explanation
Indices: 21346730--21346766 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21346720 TTTATATAAT
21346730 ATTAAATTATAATTAATTA
1 ATTAAATTATAA-TAATTA
*
21346749 ATTATATTATAATAATTA
1 ATTAAATTATAATAATTA
21346767 TAAGTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTAAATTATAATAATTA
Found at i:21347281 original size:8 final size:8
Alignment explanation
Indices: 21347265--21347322 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
21347255 TTATATATAA
*
21347265 ATTTGATT
1 ATTTAATT
21347273 ATTTAATT
1 ATTTAATT
21347281 ATATT-ATAT
1 AT-TTAAT-T
*
21347290 ATTTGATT
1 ATTTAATT
21347298 ATTTAATT
1 ATTTAATT
*
21347306 ATTTAATG
1 ATTTAATT
21347314 ATTGTAATT
1 ATT-TAATT
21347323 TAATTTTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 31 0.74
9 11 0.26
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (8 bp):
ATTTAATT
Found at i:21347980 original size:22 final size:22
Alignment explanation
Indices: 21347938--21347980 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21347928 CTTAATTAAA
* *
21347938 AAATATTATTTACTTACTAATG
1 AAATATTATTTACATAATAATG
21347960 AAATATTATCTTA-ATAATAAT
1 AAATATTAT-TTACATAATAAT
21347981 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATTATTTACATAATAATG
Found at i:21348440 original size:63 final size:64
Alignment explanation
Indices: 21348358--21348479 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 64
21348348 AAATTGGAAT
*
21348358 GATTATTAAAGGCATTTTTGGTAGAAAACACATTGAATAATCCCCTCAT-AAAAATAGATAAGG
1 GATTATTAAAGGCATTTTTGATAGAAAACACATTGAATAATCCCCTCATAAAAAATAGATAAGG
* * * ** * *
21348421 GATTATTAGAGGCGTTTTTGATAGACAATGCTTTGAATAATCCCTTCATAAAAAATAGA
1 GATTATTAAAGGCATTTTTGATAGAAAACACATTGAATAATCCCCTCATAAAAAATAGA
21348480 GGTGATTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 41 0.82
64 9 0.18
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (64 bp):
GATTATTAAAGGCATTTTTGATAGAAAACACATTGAATAATCCCCTCATAAAAAATAGATAAGG
Found at i:21348893 original size:46 final size:46
Alignment explanation
Indices: 21348841--21348934 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 46
21348831 CAAAAAAGCC
* *
21348841 TTCAATAATCCTT-ACAAAAAATTTTGGAA-GGATTATTGAAGGTGTT
1 TTCAATAAT-CTTCA-AAAAAATTTTGAAAGGGATTATTAAAGGTGTT
*
21348887 TTCAATAATCTTCAAAAAAATTTTGAAAGGGATTATTAAATGTGTT
1 TTCAATAATCTTCAAAAAAATTTTGAAAGGGATTATTAAAGGTGTT
21348933 TT
1 TT
21348935 TGATTGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 16 0.37
46 27 0.63
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (46 bp):
TTCAATAATCTTCAAAAAAATTTTGAAAGGGATTATTAAAGGTGTT
Found at i:21350890 original size:21 final size:22
Alignment explanation
Indices: 21350840--21350894 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
21350830 CAAAGCTACG
*
21350840 AGTCGTTGCTATTACTCATTCA
1 AGTCGTTGCTTTTACTCATTCA
*
21350862 AG-CGTTGCTTTTAGTCA-TCA
1 AGTCGTTGCTTTTACTCATTCA
*
21350882 AGTCTTTGCTTTT
1 AGTCGTTGCTTTT
21350895 GTTGCTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.17
21 22 0.76
22 2 0.07
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (22 bp):
AGTCGTTGCTTTTACTCATTCA
Found at i:21352332 original size:12 final size:12
Alignment explanation
Indices: 21352290--21352342 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
21352280 GTTCAAAAAC
21352290 ACCATTCAGCAA
1 ACCATTCAGCAA
* * *
21352302 ACCGTTTAGAAA
1 ACCATTCAGCAA
*
21352314 CACCATTCAGTAA
1 -ACCATTCAGCAA
21352327 ACCATTCAGCAA
1 ACCATTCAGCAA
21352339 ACCA
1 ACCA
21352343 ATATCATACA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 24 0.73
13 9 0.27
ACGTcount: A:0.42, C:0.30, G:0.09, T:0.19
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:21352359 original size:28 final size:28
Alignment explanation
Indices: 21352327--21352404 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 28
21352317 CATTCAGTAA
*
21352327 ACCATTCAGCAAACCAATATCATACAAT
1 ACCATTAAGCAAACCAATATCATACAAT
* *
21352355 ACCATTTAGTAAACCAATATCATACAAT
1 ACCATTAAGCAAACCAATATCATACAAT
21352383 ACCATTAAGCAAATCACAATAT
1 ACCATTAAGCAAA-C-CAATAT
21352405 TTAAATCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 37 0.84
29 1 0.02
30 6 0.14
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (28 bp):
ACCATTAAGCAAACCAATATCATACAAT
Found at i:21353166 original size:49 final size:47
Alignment explanation
Indices: 21353089--21353196 Score: 121
Period size: 49 Copynumber: 2.3 Consensus size: 47
21353079 TTGGGATTAG
*
21353089 TCAAGGCATTTTTGCCTAAAAACACCTTGAATATTCCATTACAAA-AAAT
1 TCAAGGCATTTTTACCTAAAAACACCTTGAATATT--ATTA-AAAGAAAT
* **
21353138 TGAAGGCATTTTCTACC-AAAAATGCCTTGAATATTATTAAAAGAAAT
1 TCAAGGCATTTT-TACCTAAAAACACCTTGAATATTATTAAAAGAAAT
*
21353185 TCAAGACATTTT
1 TCAAGGCATTTT
21353197 ATGCCCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
46 3 0.06
47 18 0.35
49 27 0.53
50 3 0.06
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (47 bp):
TCAAGGCATTTTTACCTAAAAACACCTTGAATATTATTAAAAGAAAT
Found at i:21358317 original size:13 final size:13
Alignment explanation
Indices: 21358299--21358335 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21358289 CTTTTCAATG
21358299 TCTTTATATATGT
1 TCTTTATATATGT
*
21358312 TCTTTACATATGT
1 TCTTTATATATGT
*
21358325 TTTTTATATAT
1 TCTTTATATAT
21358336 TCGCTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:21360025 original size:162 final size:161
Alignment explanation
Indices: 21359454--21360376 Score: 902
Period size: 160 Copynumber: 5.8 Consensus size: 161
21359444 TTTTTGTGTT
* * ** * * *
21359454 GTTAAAAGGTAAAAATGCAAATTAAC-AGTTATTGTTCTATTTTAATAGTTTTGATAGTTTCAAT
1 GTTAAAAGGCAAAAATACAAATTTGCTA-TTATTGTTCTATTTTAACAGTTTGGATAGCTTCAAT
* * * * * *
21359518 ACATGATATTTAACTTATCCAAATTATTGAACTTAGTTTCCACGGTTGATATGTATGAAAAAGTT
65 ACATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAAAAGTT
** * *
21359583 ATTGTTTATGTCTATTTAGGACTTTTTATGCC
130 ATTGTTTACATCTGTTTAGGACTTTTTTTGCC
* * ** * *
21359615 GTTAATAGGTAAAAATACAAATTTATTATTATTGTTCTATTTTAAGAGTTTGCATAGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * ** * **
21359680 TATAATATTAAACTTTT-CGGATAATTGAACTTGGTATCCACAGTTGATATGTGTGAAAAAGTTA
66 CATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAAAAGTTA
*** * * * *
21359744 ACATTTACATATGTTT-GCAACTTTTTATGCT
131 TTGTTTACATCTGTTTAG-GACTTTTTTTGCC
* * * * *
21359775 GTTAAAAGGC-AAAATGCAAATTTGATATTATTGTTTTGTTTCAACAGTTTGGATAGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * *
21359839 CATAATATTAAACTTGTCCAAATAATTGAACTTGGTTTCTATGGTTGATATGTGTGAAAAAGTTA
66 CATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAAAAGTTA
* *
21359904 TTGTTTACATCTATTTAGGACTTATTTTTGTC
131 TTGTTTACATCTGTTTAGGACTT-TTTTTGCC
* ** *
21359936 GTTTAAAGGCAAAAATACAAATTTGCTATTATAATTCTATTTTAACAGTTTGGATGGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * * *
21360001 CATGATATTAAATTTTTTCAAATAATTGAACTTGGTTT--TTGCAATTGATATATGTGAAAAAGT
66 CATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATG--GTTGATATGTGTGAAAAAGT
* * *
21360064 TGTTGTTTACCTCTGTTTAGGATTTTTTTGTGCC
129 TATTGTTTACATCTGTTTAGGACTTTTTT-TGCC
* * * * * *
21360098 GTTCAAAA-GCAAAAATAC-AA-TTGCTGTTATTATTCTATTTTTACAATTTGGATAGCTTTAAA
1 GTT-AAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAAT
*** * * *
21360160 ACATGATATTAAACTTTTTTGAATAATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAG--
65 ACATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAAAAGTT
* *
21360223 -TTGTTTACCTTTGTTTAGGTA-TTTTTTT-CC
130 ATTGTTTACATCTGTTTAGG-ACTTTTTTTGCC
* * * * * * * *
21360253 GTTAAAAGACAAAAGTACAAAGTTGTTGTTTTTGTTCTATTTTAATAGTTTGGATGGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * * *
21360318 TATGATATTAAACTTGTCCAAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAA
66 CATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAA
21360377 GGCCAAAATG
Statistics
Matches: 633, Mismatches: 113, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
154 4 0.01
155 13 0.02
156 3 0.00
157 106 0.17
158 1 0.00
159 62 0.10
160 215 0.34
161 89 0.14
162 137 0.22
163 3 0.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (161 bp):
GTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
CATGATATTAAACTTTTCCAAATAATTGAACTTGGTTTCCATGGTTGATATGTGTGAAAAAGTTA
TTGTTTACATCTGTTTAGGACTTTTTTTGCC
Found at i:21360935 original size:19 final size:19
Alignment explanation
Indices: 21360907--21360955 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
21360897 AAGAAAGACA
21360907 TGGA-TGGGTCCGAGGCCT
1 TGGATTGGGTCCGAGGCCT
21360925 TGGATTGGGTCCGAGGCCT
1 TGGATTGGGTCCGAGGCCT
21360944 TGGATTGGGTCC
1 TGGATTGGGTCC
21360956 AACACCATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.10, C:0.20, G:0.43, T:0.27
Consensus pattern (19 bp):
TGGATTGGGTCCGAGGCCT
Found at i:21363508 original size:46 final size:46
Alignment explanation
Indices: 21363456--21363544 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
21363446 ATCCTAACAA
*
21363456 CTACCATTGCCATCATTACTCATCACTAACACCACTACTGAAATAG
1 CTACCATTGCCATCATTACCCATCACTAACACCACTACTGAAATAG
*
21363502 CTACCATTGCCATCATTACCCATCCCTAACACCACTACTGAAA
1 CTACCATTGCCATCATTACCCATCACTAACACCACTACTGAAA
21363545 CTATTAGCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (46 bp):
CTACCATTGCCATCATTACCCATCACTAACACCACTACTGAAATAG
Found at i:21365439 original size:55 final size:54
Alignment explanation
Indices: 21365252--21365561 Score: 184
Period size: 55 Copynumber: 5.8 Consensus size: 54
21365242 AATAAATACT
* * *
21365252 AAAAAGTTGAAATATCAA-TTTTCCTTAAACAAAAATAATTTCAAAAAAATT-TAA
1 AAAAAATTAAAATATTAATTTTTCCTTAAACAAAAATAATTTC--AAAAATTGTAA
* * **
21365306 AGAAAAATTAAAATATAAAATTTTCCTTAAAACAAAAAGCATTTCTAAAAA--GTAA
1 A-AAAAATTAAAATATTAATTTTTCCTT-AAACAAAAATAATTTC-AAAAATTGTAA
* * *
21365361 GGAAAAGTTAAAATATTATTTTTTCCTTAAGACAAAAATAATTTC-AAAATTGTAA
1 -AAAAAATTAAAATATTAATTTTTCCTTAA-ACAAAAATAATTTCAAAAATTGTAA
* * *
21365416 AAAATAATTAAAATATTAATTTTT--TT------TAA-AATTTCTAAAATT-TGAG
1 AAAA-AATTAAAATATTAATTTTTCCTTAAACAAAAATAATTTCAAAAATTGT-AA
* ** * * *
21365462 AAAAAATTAAAATACTAATTTTTCCTTAAATGAAAATAATTGCAAAATTTG-AGG
1 AAAAAATTAAAATATTAATTTTTCCTTAAACAAAAATAATTTCAAAAATTGTA-A
* * * * * *
21365516 AAGAAGTTAAAGTATTAATTTTTCATTAAAACTAAAGTAATTTCAA
1 AAAAAATTAAAATATTAATTTTTCCTT-AAACAAAAATAATTTCAA
21365562 TTTTTTGGGA
Statistics
Matches: 201, Mismatches: 32, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
45 25 0.12
46 13 0.06
47 2 0.01
53 9 0.04
54 39 0.19
55 86 0.43
56 13 0.06
57 14 0.07
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (54 bp):
AAAAAATTAAAATATTAATTTTTCCTTAAACAAAAATAATTTCAAAAATTGTAA
Found at i:21365719 original size:51 final size:49
Alignment explanation
Indices: 21365664--21365824 Score: 146
Period size: 51 Copynumber: 3.1 Consensus size: 49
21365654 CTTAAAGTGG
*
21365664 AAAATAACTTTCAAAAAATTTAGAAAAAGCTAAAATATCTATTTTTTCTTA
1 AAAATAACTTTC--AAAATTTAGAAAAAGTTAAAATATCTATTTTTTCTTA
* * *
21365715 AAAATAA-TTTCAAAATTCGAGAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGA
1 AAAATAACTTTCAAAATT-TAG--AAAAAGTTAAAATATCTATTTTTTC-T----T-A
*
21365772 AAAATAAC-TTCAAAATTTGAGAAAAAGTTAAAATATTTAATTTTTTCTTA
1 AAAATAACTTTCAAAATTT-AGAAAAAGTTAAAATATCT-ATTTTTTCTTA
21365822 AAA
1 AAA
21365825 TGAAAATAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
48 6 0.07
49 2 0.02
50 8 0.09
51 30 0.33
52 1 0.01
55 15 0.17
56 9 0.10
57 19 0.21
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (49 bp):
AAAATAACTTTCAAAATTTAGAAAAAGTTAAAATATCTATTTTTTCTTA
Found at i:21365758 original size:108 final size:108
Alignment explanation
Indices: 21365606--21365824 Score: 318
Period size: 108 Copynumber: 2.0 Consensus size: 108
21365596 TCTTGAAATG
* * * * * *
21365606 AAAATAATTTTAAACTTTGAGGAAAAAAAGTTGGAATATCAATTTTTTCTTAAAGTGGAAAATAA
1 AAAATAATTTCAAAATTCGAGGAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGAAAAATAA
21365671 CTTTCAAAAAATTT-AGAAAAAGCTAAAATATCT-ATTTTTTCTTA
66 C-TTC--AAAATTTGAGAAAAAGCTAAAATATCTAATTTTTTCTTA
21365715 AAAATAATTTCAAAATTCGA-GAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGAAAAATAA
1 AAAATAATTTCAAAATTCGAGGAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGAAAAATAA
* *
21365779 CTTCAAAATTTGAGAAAAAGTTAAAATATTTAATTTTTTCTTA
66 CTTCAAAATTTGAGAAAAAGCTAAAATATCTAATTTTTTCTTA
21365822 AAA
1 AAA
21365825 TGAAAATAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
105 7 0.07
106 17 0.17
107 17 0.17
108 42 0.42
109 17 0.17
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (108 bp):
AAAATAATTTCAAAATTCGAGGAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGAAAAATAA
CTTCAAAATTTGAGAAAAAGCTAAAATATCTAATTTTTTCTTA
Found at i:21365870 original size:108 final size:109
Alignment explanation
Indices: 21365593--21365869 Score: 289
Period size: 108 Copynumber: 2.5 Consensus size: 109
21365583 GATATCAAAA
* * *
21365593 TTTTCTTGAAATGAAAATAATTTTAAACTTTGAGGAAAAAAAGTTGGAATATCAATTTTTTCTTA
1 TTTTCTT-AAATGAAAATAATTTTAAAATTT-AAG-AAAAAAGTTGAAATATCAA-TTTTTCTTA
* *
21365658 AAGTGGAAAATAACTTTCAAAAAATTTAGAAAAAGCTAAAATATCTATT
62 AAATGAAAAATAACTTTC-AAAAATTTAGAAAAAGCTAAAATATCTATT
* **
21365707 TTTTCTT--A--AAAATAATTTCAAAATTCGAGAAAAAAAGTTGAAATATCAATTTTTTCTTAAA
1 TTTTCTTAAATGAAAATAATTTTAAAATTTAAG-AAAAAAGTTGAAATATCAA-TTTTTCTTAAA
* *
21365768 ATGAAAAATAAC-TTC-AAAATTTGAGAAAAAGTTAAAATATTTAATT
64 ATGAAAAATAACTTTCAAAAATTT-AGAAAAAGCTAAAATATCT-ATT
** * *
21365814 TTTTCTTAAAATGAAAATAATTTTAAAATTTTTG-AAAAAGCTGAAATATTAATTTT
1 TTTTCTT-AAATGAAAATAATTTTAAAATTTAAGAAAAAAGTTGAAATATCAATTTT
21365870 CCTTTTCAAA
Statistics
Matches: 140, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
105 7 0.05
106 17 0.12
107 13 0.09
108 42 0.30
109 19 0.14
110 17 0.12
111 1 0.01
112 17 0.12
114 7 0.05
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (109 bp):
TTTTCTTAAATGAAAATAATTTTAAAATTTAAGAAAAAAGTTGAAATATCAATTTTTCTTAAAAT
GAAAAATAACTTTCAAAAATTTAGAAAAAGCTAAAATATCTATT
Found at i:21365882 original size:55 final size:54
Alignment explanation
Indices: 21365452--21365869 Score: 284
Period size: 57 Copynumber: 7.6 Consensus size: 54
21365442 TAAAATTTCT
* * * *
21365452 AAAATTTGAGAAAAAATTAAAATACTAATTTTTCCTT-AAATGAAAATAA-TTGC
1 AAAATTTGAGAAAAAGTTGAAATATTAATTTTTTCTTAAAATGAAAATAACTT-C
* * *
21365505 AAAATTTGAGGAAGAAGTT-AAAGTATTAA-TTTTTCATTAAAACT-AAAGTAATTTC
1 AAAATTTGA-GAAAAAGTTGAAA-TATTAATTTTTTC-TTAAAA-TGAAAATAACTTC
** * * * ** * * *
21365560 AATTTTTTGGGAGTAAAAGTTGAGATATCAAAATTTTCTTGAAATGAAAATAATTTT
1 AA-AATTT--GAGAAAAAGTTGAAATATTAATTTTTTCTTAAAATGAAAATAACTTC
* * * *
21365617 AAACTTTGAGGAAAAAAAGTTGGAATATCAATTTTTTCTTAAAGTGGAAAATAACTTTC
1 AAAATTTGA-G--AAAAAGTTGAAATATTAATTTTTTCTTAAAAT-GAAAATAAC-TTC
* * *
21365676 AAAAAATTT-AGAAAAAGCTAAAATATCT-ATTTTTTCTT---A--AAAATAATTTC
1 --AAAATTTGAGAAAAAGTTGAAATAT-TAATTTTTTCTTAAAATGAAAATAACTTC
* *
21365726 AAAATTCGAGAAAAAAAGTTGAAATATCAATTTTTTCTTAAAATGAAAAATAACTTC
1 AAAATTTGAG--AAAAAGTTGAAATATTAATTTTTTCTTAAAATG-AAAATAACTTC
* * *
21365783 AAAATTTGAGAAAAAGTTAAAATATTTAATTTTTTCTTAAAATGAAAATAATTTT
1 AAAATTTGAGAAAAAGTTGAAATA-TTAATTTTTTCTTAAAATGAAAATAACTTC
** *
21365838 AAAATTTTTGAAAAAGCTGAAATATTAATTTT
1 AAAATTTGAGAAAAAGTTGAAATATTAATTTT
21365870 CCTTTTCAAA
Statistics
Matches: 287, Mismatches: 47, Indels: 61
0.73 0.12 0.15
Matches are distributed among these distances:
48 6 0.02
49 2 0.01
50 3 0.01
51 30 0.10
53 17 0.06
54 25 0.09
55 55 0.19
56 28 0.10
57 94 0.33
58 17 0.06
59 3 0.01
60 1 0.00
61 6 0.02
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (54 bp):
AAAATTTGAGAAAAAGTTGAAATATTAATTTTTTCTTAAAATGAAAATAACTTC
Found at i:21372645 original size:11 final size:11
Alignment explanation
Indices: 21372610--21372660 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
21372600 ATATTAGAGT
21372610 ATTAAAAATT-
1 ATTAAAAATTA
21372620 -TT-AAAATTA
1 ATTAAAAATTA
21372629 GATTAAAAATTA
1 -ATTAAAAATTA
*
21372641 TTTAAAAAATTA
1 ATT-AAAAATTA
21372653 ATTAAAAA
1 ATTAAAAA
21372661 AGAAAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
11 9 0.26
12 17 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
ATTAAAAATTA
Found at i:21372661 original size:12 final size:12
Alignment explanation
Indices: 21372622--21372661 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
21372612 TAAAAATTTT
21372622 AAAATTAGATT-A
1 AAAATTA-ATTAA
*
21372634 AAAATTATTTAA
1 AAAATTAATTAA
21372646 AAAATTAATTAA
1 AAAATTAATTAA
21372658 AAAA
1 AAAA
21372662 GAAAAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 23 0.92
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
AAAATTAATTAA
Found at i:21372677 original size:22 final size:21
Alignment explanation
Indices: 21372652--21372695 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
21372642 TTAAAAAATT
21372652 AATTAAAAAAGAAAAAGTTAAA
1 AATTAAAAAAGAAAAA-TTAAA
**
21372674 AATTAAAAATTAAAAATTAAA
1 AATTAAAAAAGAAAAATTAAA
21372695 A
1 A
21372696 CTAATAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AATTAAAAAAGAAAAATTAAA
Found at i:21372681 original size:6 final size:7
Alignment explanation
Indices: 21372652--21372695 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
21372642 TTAAAAAATT
21372652 AATTAAA
1 AATTAAA
**
21372659 AAAGAAA
1 AATTAAA
21372666 AAGTTAAA
1 AA-TTAAA
21372674 AATTAAA
1 AATTAAA
21372681 AATTAAA
1 AATTAAA
21372688 AATTAAA
1 AATTAAA
21372695 A
1 A
21372696 CTAATAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (7 bp):
AATTAAA
Found at i:21375147 original size:3 final size:3
Alignment explanation
Indices: 21375139--21375199 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
21375129 TAGCTTAGAA
21375139 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21375187 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
21375200 CATTTTAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.