Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 153 of 160
Found at i:30625540 original size:20 final size:20
Alignment explanation
Indices: 30625517--30625562 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
30625507 AATTATTATA
30625517 TTAATTAAAAT-ATTAAAATT
1 TTAATTAAAATAATTAAAA-T
**
30625537 TTAATTTTAATAATTAAAAT
1 TTAATTAAAATAATTAAAAT
30625557 TTAATT
1 TTAATT
30625563 CTCCACGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAAAATAATTAAAAT
Found at i:30629789 original size:22 final size:21
Alignment explanation
Indices: 30629747--30629800 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
30629737 ACATATTTAA
30629747 TATAAAATGTATATTTTATTTT
1 TATAAAAT-TATATTTTATTTT
30629769 TATAAAATTA-ATTTATAATTTT
1 TATAAAATTATATTT-T-ATTTT
*
30629791 TGTTAAAATT
1 T-ATAAAATT
30629801 TTAAATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.14
21 3 0.11
22 14 0.50
23 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TATAAAATTATATTTTATTTT
Found at i:30634176 original size:16 final size:18
Alignment explanation
Indices: 30634157--30634193 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
30634147 AATTATCCTT
30634157 ATTCAAAGT-TT-ATATA
1 ATTCAAAGTATTAATATA
*
30634173 ATTCAAATTATTAATATA
1 ATTCAAAGTATTAATATA
30634191 ATT
1 ATT
30634194 TTTAAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTCAAAGTATTAATATA
Found at i:30634327 original size:31 final size:31
Alignment explanation
Indices: 30634289--30634351 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30634279 TACACCAAAC
30634289 GTTACCTCTATACGTTACATTAAACAGCTTG
1 GTTACCTCTATACGTTACATTAAACAGCTTG
30634320 GTTACCTCTATACGTTACATTAAACAGCTTG
1 GTTACCTCTATACGTTACATTAAACAGCTTG
30634351 G
1 G
30634352 CTACTAGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (31 bp):
GTTACCTCTATACGTTACATTAAACAGCTTG
Found at i:30634462 original size:2 final size:2
Alignment explanation
Indices: 30634455--30634490 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
30634445 ATCTTTTTAT
30634455 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30634491 TATTCAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30634477 original size:17 final size:17
Alignment explanation
Indices: 30634455--30634487 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30634445 ATCTTTTTAT
30634455 TATATATATATATATAA
1 TATATATATATATATAA
30634472 TATATATATATATATA
1 TATATATATATATATA
30634488 TATTATTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:30642268 original size:3 final size:3
Alignment explanation
Indices: 30642260--30642300 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
30642250 TCAACTTCCT
30642260 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30642301 GACTTACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30651186 original size:33 final size:29
Alignment explanation
Indices: 30651148--30651219 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
30651138 ATAATATATA
30651148 AAATTATAAATTTTTTAAATTTAATTTAAATTT
1 AAATTAT--ATTTTTTAAA-TTAATTT-AATTT
*
30651181 GAA-T-TATTTTTTAAATTAATTTAATTT
1 AAATTATATTTTTTAAATTAATTTAATTT
*
30651208 AAATTAAATTTT
1 AAATTATATTTT
30651220 ATCTGTTCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 7 0.21
28 8 0.24
29 15 0.44
31 1 0.03
32 1 0.03
33 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
AAATTATATTTTTTAAATTAATTTAATTT
Found at i:30677078 original size:35 final size:35
Alignment explanation
Indices: 30677032--30677099 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
30677022 TTGTCTTTAT
30677032 AAAAACCACCATAGTTTGCTCTTCTTTTGAAGTAC
1 AAAAACCACCATAGTTTGCTCTTCTTTTGAAGTAC
30677067 AAAAACCACCATAGTTTGCTCTTCTTTTGAAGT
1 AAAAACCACCATAGTTTGCTCTTCTTTTGAAGT
30677100 GAGTCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (35 bp):
AAAAACCACCATAGTTTGCTCTTCTTTTGAAGTAC
Found at i:30678679 original size:75 final size:75
Alignment explanation
Indices: 30678536--30678679 Score: 162
Period size: 75 Copynumber: 1.9 Consensus size: 75
30678526 ACACGATGGC
* * * * * * * *
30678536 TGATTTGACAAGAAATAGAAGTGTTGGTCCGTGTAAGTGAGGCGTTGGGAGGCGGGTGGCATCGC
1 TGATTTGACAAGAAATAAAAATGTTGATCCGTGTAAGTGAGGCGTTGGGAAGCAGGTGCCACCAC
30678601 ATTTAATGAA
66 ATTTAATGAA
* * * * * *
30678611 TGATTTGCCTAGAAATAAAAATGTTGATCGGTGTGAGTTAGGCGTTGGGAAGTAGGTGCCACCAC
1 TGATTTGACAAGAAATAAAAATGTTGATCCGTGTAAGTGAGGCGTTGGGAAGCAGGTGCCACCAC
30678676 ATTT
66 ATTT
30678680 GGCTTCTCAA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
75 55 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (75 bp):
TGATTTGACAAGAAATAAAAATGTTGATCCGTGTAAGTGAGGCGTTGGGAAGCAGGTGCCACCAC
ATTTAATGAA
Found at i:30679313 original size:16 final size:15
Alignment explanation
Indices: 30679292--30679322 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30679282 AAAATTTAAT
30679292 TAATATTTATTTATTA
1 TAATATTT-TTTATTA
30679308 TAATATTTTTTATTA
1 TAATATTTTTTATTA
30679323 AATGTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATATTTTTTATTA
Found at i:30679617 original size:23 final size:23
Alignment explanation
Indices: 30679590--30679635 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30679580 ATTTTGAAAA
* *
30679590 GTAAGTTTAAAACTCATTTTTAG
1 GTAAGTCTAAAACTCAATTTTAG
30679613 GTAAGTCTAAAACTCAATTTTAG
1 GTAAGTCTAAAACTCAATTTTAG
30679636 CTTTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
GTAAGTCTAAAACTCAATTTTAG
Found at i:30679820 original size:12 final size:12
Alignment explanation
Indices: 30679803--30679828 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30679793 AAACACTTCA
30679803 TTTGATATTTTT
1 TTTGATATTTTT
30679815 TTTGATATTTTT
1 TTTGATATTTTT
30679827 TT
1 TT
30679829 ATAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTGATATTTTT
Found at i:30680450 original size:20 final size:18
Alignment explanation
Indices: 30680409--30680458 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
30680399 AAGTTATAAA
*
30680409 TATTAAA-ATTTTAATTT
1 TATTAAATATTTTAATGT
30680426 TATTAAATATTTTAAATAGT
1 TATTAAATATTTT-AAT-GT
30680446 TATTAAATATTTT
1 TATTAAATATTTT
30680459 GTAATTGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 5 0.17
19 3 0.10
20 14 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTAAATATTTTAATGT
Found at i:30680453 original size:11 final size:10
Alignment explanation
Indices: 30680409--30680456 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
30680399 AAGTTATAAA
30680409 TATTAAA-AT
1 TATTAAATAT
*
30680418 T-TT-AATTT
1 TATTAAATAT
30680426 TATTAAATAT
1 TATTAAATAT
30680436 T-TTAAATAGT
1 TATTAAATA-T
30680446 TATTAAATAT
1 TATTAAATAT
30680456 T
1 T
30680457 TTGTAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 10 0.31
10 9 0.28
11 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
TATTAAATAT
Found at i:30680874 original size:30 final size:29
Alignment explanation
Indices: 30680815--30680875 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
30680805 TCATATATTT
**
30680815 TATTAAAATAATTAAAATAACATTTTAAA
1 TATTAAAATAATTAAAATAACATAATAAA
*
30680844 TATTAAAATATTTTAAAATAACATAATAAA
1 TATTAAAATA-ATTAAAATAACATAATAAA
30680874 TA
1 TA
30680876 AAATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
TATTAAAATAATTAAAATAACATAATAAA
Found at i:30682315 original size:2 final size:2
Alignment explanation
Indices: 30682308--30682336 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30682298 GCCCTCCATT
30682308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30682337 TTGGGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30686993 original size:3 final size:3
Alignment explanation
Indices: 30686985--30687010 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30686975 CCAACACAAC
30686985 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
30687011 CTTGGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:30690587 original size:2 final size:2
Alignment explanation
Indices: 30690580--30690612 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30690570 GCTTTTCTTT
30690580 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30690613 TGGGTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30692098 original size:146 final size:144
Alignment explanation
Indices: 30691834--30692117 Score: 471
Period size: 146 Copynumber: 2.0 Consensus size: 144
30691824 CAGATGGGTA
* *
30691834 TGAAGGAAGATGCTGATGAGGTCACAACCAATACAAGGATTCTGTCTCTTGAGCTTCTGCAGGTC
1 TGAAGGAAGATGCTGATGAGGTCACAACCAAGACAAGGATTCTGTCTCTTGAGCTTCTGCAGATC
30691899 AATTTTATGAATTTATTTTATGCTTTGAAGAATGTTTCGTTTGTAGTCTTTGCATAATAGAATAA
66 AATTTTATGAATTTATTTTATGCTTTGAAGAATGTTTCGTTTGTAGTCTTTGCATAATAGAATAA
30691964 AACGCTTTAAAGTT
131 AACGCTTTAAAGTT
* * * *
30691978 TGAAGGAATATGCTGATGGGGTCACAACCAAGACAAGGATTCTGTCTCTTGAGCTTTTTTGTAGA
1 TGAAGGAAGATGCTGATGAGGTCACAACCAAGACAAGGATTCTGTCTCTTGAGC--TTCTGCAGA
*
30692043 TCAATTTTATGAATTTATTTTATGCTTTTG-AGAATGTTTGGTTTGTAGTCTTTGCATAATAGAA
64 TCAATTTTATGAATTTATTTTATGC-TTTGAAGAATGTTTCGTTTGTAGTCTTTGCATAATAGAA
30692107 TAAAACGCTTT
128 TAAAACGCTTT
30692118 CCCAACTATG
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
144 51 0.39
146 75 0.58
147 4 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (144 bp):
TGAAGGAAGATGCTGATGAGGTCACAACCAAGACAAGGATTCTGTCTCTTGAGCTTCTGCAGATC
AATTTTATGAATTTATTTTATGCTTTGAAGAATGTTTCGTTTGTAGTCTTTGCATAATAGAATAA
AACGCTTTAAAGTT
Found at i:30716503 original size:15 final size:14
Alignment explanation
Indices: 30716476--30716502 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30716466 TGAACGAATA
30716476 AAAAGGAAAAAAAC
1 AAAAGGAAAAAAAC
30716490 AAAAGGAAAAAAA
1 AAAAGGAAAAAAA
30716503 AAAGTCATCG
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:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAAAAAC
Found at i:30718429 original size:18 final size:18
Alignment explanation
Indices: 30718406--30718443 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
30718396 TTAGAAACAG
30718406 AAGTTCACTAGTAAGATA
1 AAGTTCACTAGTAAGATA
30718424 AAGTTCACTAGTAAGATA
1 AAGTTCACTAGTAAGATA
30718442 AA
1 AA
30718444 AATGCTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (18 bp):
AAGTTCACTAGTAAGATA
Found at i:30722661 original size:247 final size:246
Alignment explanation
Indices: 30722226--30722715 Score: 716
Period size: 247 Copynumber: 2.0 Consensus size: 246
30722216 AACGTGAAAA
* **
30722226 AATTTTTTTTTCAAAAATGATACAAACAACGTAATCAAAACTATAAGGTTATGACATTTTTCAAA
1 AATTTTTTTTTCAAAAATGACACAAACAACAAAATCAAAACTATAAGGTTATGACATTTTTCAAA
* * * *
30722291 TTATTTTATCCTTTGACTTATAGTACAGCTGTGGTGGTGTCATCGTCGACTGCGAGACGCTAACA
66 TTATTTTATCATCTGACTTATAGTACAGCTGTGGTGGGGTCATCGTCGACTGCGACACGCTAACA
** *
30722356 GCACAACACACCGGCACGTTAACCGTCGTAAATTAATAACTTACCAAGTCGGGCCTAGGATGGAT
131 GCACAACACACCGGCACGTTAA-CGTCCCAAACTAATAACTTACCAAGTCGGGCCTAGGATGGAT
*
30722421 ATGTGGGCCATGGATAATCTTC-TTTTTTATTTGGAAATATGGGCCATGGAT
195 ATATGGGCCATGGATAATCTTCTTTTTTTATTTGGAAATATGGGCCATGGAT
* * *
30722472 AATTTTTTTATTCAAAAGTGACACAAACAACAAAATCAAAGCTATAAGGTTATGATA-TTTTCAA
1 AATTTTTTT-TTCAAAAATGACACAAACAACAAAATCAAAACTATAAGGTTATGACATTTTTCAA
* * * * * *
30722536 ATTATTTTGTCATCTGAGTTATCCATTGCTGCTGTGGTGGGGTCATTGTCGACTGCGACACGCTA
65 ATTATTTTATCATCTGACTTAT--AGTACAGCTGTGGTGGGGTCATCGTCGACTGCGACACGCTA
*
30722601 ACAGCACAACACACCGGCCACGTTAA-GTCCCAAACTAATGACTTACCAAGTCGGGCCTAGGATG
128 ACAGCACAACACACCGG-CACGTTAACGTCCCAAACTAATAACTTACCAAGTCGGGCCTAGGATG
*
30722665 GATATATGGGCCATTGATAATCTTCTTTTTTTATTTGGAAATATGGGCCAT
192 GATATATGGGCCATGGATAATCTTCTTTTTTTATTTGGAAATATGGGCCAT
30722716 ATATAATCTT
Statistics
Matches: 217, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
246 34 0.16
247 98 0.45
248 77 0.35
249 8 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (246 bp):
AATTTTTTTTTCAAAAATGACACAAACAACAAAATCAAAACTATAAGGTTATGACATTTTTCAAA
TTATTTTATCATCTGACTTATAGTACAGCTGTGGTGGGGTCATCGTCGACTGCGACACGCTAACA
GCACAACACACCGGCACGTTAACGTCCCAAACTAATAACTTACCAAGTCGGGCCTAGGATGGATA
TATGGGCCATGGATAATCTTCTTTTTTTATTTGGAAATATGGGCCATGGAT
Found at i:30732345 original size:19 final size:18
Alignment explanation
Indices: 30732315--30732351 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30732305 AGAAAAGTTG
*
30732315 AAAAAATTTTATTTTTAT
1 AAAAAATTTTATATTTAT
30732333 AAAAAATTATTATATTTAT
1 AAAAAATT-TTATATTTAT
30732352 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAAATTTTATATTTAT
Found at i:30739701 original size:30 final size:31
Alignment explanation
Indices: 30739665--30739726 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
30739655 TTAGTACCAA
30739665 AAACGAAATAG-AAAAAAGACAATGTATTAT
1 AAACGAAATAGAAAAAAAGACAATGTATTAT
30739695 AAACGAAATAGAAAAAAAGACAATGTATTAT
1 AAACGAAATAGAAAAAAAGACAATGTATTAT
30739726 A
1 A
30739727 TAAGATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.19
Consensus pattern (31 bp):
AAACGAAATAGAAAAAAAGACAATGTATTAT
Found at i:30748422 original size:2 final size:2
Alignment explanation
Indices: 30748415--30748446 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30748405 GGTTGGTTCC
30748415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30748447 GTTGTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30769841 original size:25 final size:25
Alignment explanation
Indices: 30769807--30769856 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
30769797 TAAAACACTA
*
30769807 CAATCAGAGGATACCACAGGCAACT
1 CAATCAGAGGATAACACAGGCAACT
*
30769832 CAATCTGAGGATAACACAGGCAACT
1 CAATCAGAGGATAACACAGGCAACT
30769857 GATAAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.20, T:0.14
Consensus pattern (25 bp):
CAATCAGAGGATAACACAGGCAACT
Found at i:30777965 original size:23 final size:23
Alignment explanation
Indices: 30777911--30777967 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
30777901 AAATTTATTT
30777911 AATTAAAAAAATCAAAAACAAAA
1 AATTAAAAAAATCAAAAACAAAA
* ** *
30777934 AAGTGAAAAGTAT-AAAAACAAAC
1 AA-TTAAAAAAATCAAAAACAAAA
30777957 AATTAAAAAAA
1 AATTAAAAAAA
30777968 AAAGTTGTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 7 0.27
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (23 bp):
AATTAAAAAAATCAAAAACAAAA
Found at i:30780128 original size:24 final size:24
Alignment explanation
Indices: 30780082--30780130 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
30780072 TTTTTTTATA
*
30780082 TAAAATAAATTATAATCTAAAAAT
1 TAAAATAAATTATAATATAAAAAT
*
30780106 TAAAA-AAATTATAAATATTAAAAT
1 TAAAATAAATTAT-AATATAAAAAT
30780130 T
1 T
30780131 TAAACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAATAAATTATAATATAAAAAT
Found at i:30781890 original size:14 final size:15
Alignment explanation
Indices: 30781863--30781891 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30781853 ATTTTATTTA
30781863 TATCATATTTTAAAT
1 TATCATATTTTAAAT
30781878 TATCATA-TTTAAAT
1 TATCATATTTTAAAT
30781892 ATTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
TATCATATTTTAAAT
Found at i:30782063 original size:25 final size:26
Alignment explanation
Indices: 30782035--30782095 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
30782025 TGTTAATGAC
30782035 TATTTTATTTTAAAAT-AATATAAAT-
1 TATTTTATTTT-AAATGAATATAAATA
* * * *
30782060 TATTTGAGTTTAAATGTATATATATA
1 TATTTTATTTTAAATGAATATAAATA
30782086 TATTTTATTT
1 TATTTTATTT
30782096 ATGTATGAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.14
25 16 0.57
26 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (26 bp):
TATTTTATTTTAAATGAATATAAATA
Found at i:30783086 original size:17 final size:17
Alignment explanation
Indices: 30783064--30783099 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30783054 TCAATTAAGA
30783064 GTTCAATTAACAAATGG
1 GTTCAATTAACAAATGG
30783081 GTTCAATTAACAAATGG
1 GTTCAATTAACAAATGG
30783098 GT
1 GT
30783100 ATTTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (17 bp):
GTTCAATTAACAAATGG
Found at i:30790854 original size:3 final size:3
Alignment explanation
Indices: 30790839--30790878 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30790829 CAAGCTGCCA
*
30790839 CTG CTG CTA CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
30790879 AGTTGCAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.03, C:0.35, G:0.30, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:30801826 original size:2 final size:2
Alignment explanation
Indices: 30801819--30801862 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
30801809 CACAACCCTA
* * *
30801819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AC AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30801861 AT
1 AT
30801863 TTTGATATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30820495 original size:12 final size:12
Alignment explanation
Indices: 30820472--30820502 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30820462 TGAAATACGA
30820472 TTATAT-TAAAT
1 TTATATATAAAT
30820483 TTATATATAAAT
1 TTATATATAAAT
30820495 TTATATAT
1 TTATATAT
30820503 TATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATATATAAAT
Found at i:30820507 original size:11 final size:11
Alignment explanation
Indices: 30820481--30820529 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
30820471 ATTATATTAA
*
30820481 ATTTATATATAA
1 ATTTATATAT-T
30820493 ATTTATATATT
1 ATTTATATATT
*
30820504 ATTTTTATATT
1 ATTTATATATT
30820515 ATATTATCATATT
1 AT-TTAT-ATATT
30820528 AT
1 AT
30820530 ATGTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 12 0.38
12 13 0.41
13 7 0.22
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTATATATT
Found at i:30826469 original size:50 final size:50
Alignment explanation
Indices: 30826412--30826513 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
30826402 TCCTCAGTCT
30826412 GTTAACTTTCTGTTCTTTTATATCTATGCAGATATTATCTCAGAGAAGGG
1 GTTAACTTTCTGTTCTTTTATATCTATGCAGATATTATCTCAGAGAAGGG
*
30826462 GTTAACTTTCTGTTCTTTTATATCTATGCAGATATTCTCTCAGAGAAGGG
1 GTTAACTTTCTGTTCTTTTATATCTATGCAGATATTATCTCAGAGAAGGG
30826512 GT
1 GT
30826514 CAATGGAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (50 bp):
GTTAACTTTCTGTTCTTTTATATCTATGCAGATATTATCTCAGAGAAGGG
Found at i:30832415 original size:19 final size:21
Alignment explanation
Indices: 30832393--30832431 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
30832383 TTACTGAATT
30832393 TTAATAAT-TTTTT-ATAATC
1 TTAATAATATTTTTAATAATC
30832412 TTAATAATATTTTTAATAAT
1 TTAATAATATTTTTAATAAT
30832432 TTTAGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATAATATTTTTAATAATC
Found at i:30849480 original size:14 final size:14
Alignment explanation
Indices: 30849461--30849487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30849451 ATCCATCCCA
30849461 TTTCCATTCTTTCC
1 TTTCCATTCTTTCC
30849475 TTTCCATTCTTTC
1 TTTCCATTCTTTC
30849488 ATTTTTTGCG
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:0.07, C:0.33, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTCCATTCTTTCC
Found at i:30858118 original size:2 final size:2
Alignment explanation
Indices: 30858111--30858150 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30858101 TAAAACCCAG
30858111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30858151 CTGAAATGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30865903 original size:2 final size:2
Alignment explanation
Indices: 30865891--30865925 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
30865881 TAGTCAGTGG
30865891 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30865926 TACCAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30867996 original size:23 final size:22
Alignment explanation
Indices: 30867958--30868012 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
30867948 ACCAAAATTA
30867958 ATAAAATA-TTATTTTTTAAAAT
1 ATAAAATATTTATTTTTT-AAAT
30867980 ATAAAATATTTATTTTTTAAAT
1 ATAAAATATTTATTTTTTAAAT
30868002 AT-AAATATTTA
1 ATAAAATATTTA
30868013 AAAAATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.28
22 14 0.44
23 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTTATTTTTTAAAT
Found at i:30874257 original size:34 final size:32
Alignment explanation
Indices: 30874202--30874270 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 32
30874192 CCCCTTACAC
*
30874202 TTTTAAATTTTTAGATATACAAATTAAAAAAT
1 TTTTAAATTTTTAGATATACAAATAAAAAAAT
* *
30874234 TTTTAAATTTTTTTGAATTTACAAATAAAAAAAT
1 TTTTAAA-TTTTTAG-ATATACAAATAAAAAAAT
30874268 TTT
1 TTT
30874271 AAAAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 7 0.22
33 6 0.19
34 19 0.59
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTTAAATTTTTAGATATACAAATAAAAAAAT
Found at i:30874263 original size:33 final size:32
Alignment explanation
Indices: 30874202--30874273 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
30874192 CCCCTTACAC
*
30874202 TTTTAAATTTTTAGATATACAAATTAAAAAAT
1 TTTTAAATTTTTAGATATACAAATTAAAAAAA
* *
30874234 TTTTAAATTTTTTTGAATTTACAAA-TAAAAAAA
1 TTTTAAA-TTTTTAG-ATATACAAATTAAAAAAA
30874267 TTTTAAA
1 TTTTAAA
30874274 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 7 0.20
33 20 0.57
34 8 0.23
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (32 bp):
TTTTAAATTTTTAGATATACAAATTAAAAAAA
Found at i:30877558 original size:21 final size:21
Alignment explanation
Indices: 30877534--30877599 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
30877524 ATTTAAATTC
30877534 AATTCAATTATTATCGAATCA
1 AATTCAATTATTATCGAATCA
*
30877555 AATTCGA--A-T-TCGAAT--
1 AATTCAATTATTATCGAATCA
*
30877570 AATTCAATTTATTGATCGAGTCA
1 AATTCAA-TTATT-ATCGAATCA
30877593 AATTCAA
1 AATTCAA
30877600 AAATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
15 6 0.18
17 6 0.18
18 2 0.06
19 2 0.06
21 11 0.32
23 7 0.21
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (21 bp):
AATTCAATTATTATCGAATCA
Found at i:30879407 original size:5 final size:5
Alignment explanation
Indices: 30879397--30879425 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
30879387 TCCATTGGAG
30879397 GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
30879426 CGTGACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:30895343 original size:14 final size:14
Alignment explanation
Indices: 30895326--30895353 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30895316 TTGTTTGATT
30895326 ATATTTTTTAAACA
1 ATATTTTTTAAACA
30895340 ATATTTTTTAAACA
1 ATATTTTTTAAACA
30895354 CAGCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTTTTTAAACA
Found at i:30895531 original size:12 final size:12
Alignment explanation
Indices: 30895516--30895556 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
30895506 TGTAATTTTT
30895516 TTTAA-AAAATAA
1 TTTAATAAAA-AA
*
30895528 TTTAATAAAAAT
1 TTTAATAAAAAA
30895540 TTTAATAAAAAA
1 TTTAATAAAAAA
30895552 TTTAA
1 TTTAA
30895557 ATTTATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:30895736 original size:14 final size:13
Alignment explanation
Indices: 30895717--30895758 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
30895707 CAACGAAATC
30895717 TTTTAATTTATCTA
1 TTTTAATTT-TCTA
*
30895731 TTTTAATTTTTTA
1 TTTTAATTTTCTA
30895744 TTTTAATTTT-TA
1 TTTTAATTTTCTA
30895756 TTT
1 TTT
30895759 AATCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 5 0.19
13 13 0.48
14 9 0.33
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTCTA
Found at i:30895747 original size:13 final size:13
Alignment explanation
Indices: 30895717--30895758 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
30895707 CAACGAAATC
*
30895717 TTTTAATTTATCTA
1 TTTTAATTT-TTTA
30895731 TTTTAATTTTTTA
1 TTTTAATTTTTTA
30895744 TTTTAA-TTTTTA
1 TTTTAATTTTTTA
30895756 TTT
1 TTT
30895759 AATCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:30911631 original size:15 final size:16
Alignment explanation
Indices: 30911605--30911669 Score: 66
Period size: 15 Copynumber: 4.2 Consensus size: 16
30911595 ATATTACTTA
30911605 ATAAATAAAAAAATTT
1 ATAAATAAAAAAATTT
30911621 ATAAA-AAAAAAATTT
1 ATAAATAAAAAAATTT
30911636 -TAAGATAAAAAAAATTT
1 ATAA-AT-AAAAAAATTT
**
30911653 -T-AATAAGTAAATTT
1 ATAAATAAAAAAATTT
30911667 ATA
1 ATA
30911670 TATTTATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
14 11 0.26
15 14 0.33
16 6 0.14
17 11 0.26
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAATAAAAAAATTT
Found at i:30911645 original size:14 final size:15
Alignment explanation
Indices: 30911605--30911648 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
30911595 ATATTACTTA
30911605 ATAAATAAAAAAATTT
1 ATAAA-AAAAAAATTT
30911621 ATAAAAAAAAAATTT
1 ATAAAAAAAAAATTT
30911636 -TAAGATAAAAAAA
1 ATAA-A-AAAAAAA
30911649 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAAAAAAATTT
Found at i:30912423 original size:20 final size:21
Alignment explanation
Indices: 30912398--30912436 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
30912388 TATTATTATA
30912398 TTAATAAATAATAT-TTTTAG
1 TTAATAAATAATATATTTTAG
30912418 TTAATAAATAATATATTTT
1 TTAATAAATAATATATTTT
30912437 TAATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TTAATAAATAATATATTTTAG
Found at i:30912447 original size:8 final size:8
Alignment explanation
Indices: 30912434--30912463 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
30912424 AATAATATAT
30912434 TTTTAATA
1 TTTTAATA
30912442 TTTTAATA
1 TTTTAATA
30912450 -TTTAATA
1 TTTTAATA
30912457 TTTTAAT
1 TTTTAAT
30912464 TTTGTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTAATA
Found at i:30912473 original size:15 final size:15
Alignment explanation
Indices: 30912435--30912463 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30912425 ATAATATATT
30912435 TTTAATATTTTAATA
1 TTTAATATTTTAATA
30912450 TTTAATATTTTAAT
1 TTTAATATTTTAAT
30912464 TTTGTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATATTTTAATA
Found at i:30912535 original size:29 final size:28
Alignment explanation
Indices: 30912495--30912558 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
30912485 AGATTTTTAG
* * *
30912495 TATTTTAATAATAAATAGTATTATATTAT
1 TATTTTAATAATAAATAATA-TATAATAA
*
30912524 TATTTTAGTAATAAATAATATATAATAA
1 TATTTTAATAATAAATAATATATAATAA
30912552 TATTTTA
1 TATTTTA
30912559 TTATTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTTAATAATAAATAATATATAATAA
Found at i:30912560 original size:36 final size:36
Alignment explanation
Indices: 30912501--30912602 Score: 98
Period size: 36 Copynumber: 2.8 Consensus size: 36
30912491 TTAGTATTTT
* * *
30912501 AATAATAAATAGTATTATATTATTATTTTAGTAATA
1 AATAATAAATAATAATATATTATTATTTTAATAATA
* * *
30912537 AATAATATATAATAATATTTTATTATTTTAATAATT
1 AATAATAAATAATAATATATTATTATTTTAATAATA
** *
30912573 AATGTTAAAATAAT-ATAATAATATTATTTT
1 AATAAT-AAATAATAAT-ATATTATTATTTT
30912603 CTTAATATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
36 36 0.68
37 17 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (36 bp):
AATAATAAATAATAATATATTATTATTTTAATAATA
Found at i:30912815 original size:15 final size:14
Alignment explanation
Indices: 30912795--30912828 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30912785 ATTATTATTT
30912795 TAATATTAATAAAAA
1 TAATATT-ATAAAAA
*
30912810 TAATATTTTAAAAA
1 TAATATTATAAAAA
30912824 TAATA
1 TAATA
30912829 ATACTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTATAAAAA
Found at i:30912831 original size:20 final size:20
Alignment explanation
Indices: 30912767--30912841 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
30912757 ATAAATTATA
* *
30912767 AATATTTTAATAATAAATATT
1 AATATTTTAAAAAT-AATAAT
* *
30912788 ATTATTTTAATATTAATAAAAAT
1 AATATTTTAA-A--AATAATAAT
30912811 AATATTTTAAAAATAATAAT
1 AATATTTTAAAAATAATAAT
*
30912831 ACTATTTTAAA
1 AATATTTTAAA
30912842 TATTTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 18 0.41
21 9 0.20
22 1 0.02
23 13 0.30
24 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATTTTAAAAATAATAAT
Found at i:30913102 original size:19 final size:21
Alignment explanation
Indices: 30913055--30913109 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 21
30913045 AACCAAATAA
30913055 CAAAAAAATATATATAATTTATT
1 CAAAAAAATAT-T-TAATTTATT
*
30913078 CAAAAAAATATTT-ATTTTTT
1 CAAAAAAATATTTAATTTATT
30913098 C-AAAAAATATTT
1 CAAAAAAATATTT
30913110 TTTAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.35
20 7 0.23
21 1 0.03
22 1 0.03
23 11 0.35
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
CAAAAAAATATTTAATTTATT
Found at i:30914170 original size:19 final size:18
Alignment explanation
Indices: 30914134--30914178 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
30914124 ATTTAGTAGG
30914134 ATTAAAATAAAATATTTT
1 ATTAAAATAAAATATTTT
* *
30914152 ATTAATAATAAATTTTTTT
1 ATTAA-AATAAAATATTTT
*
30914171 ATAAAAAT
1 ATTAAAAT
30914179 TAATTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAAATAAAATATTTT
Found at i:30914178 original size:14 final size:14
Alignment explanation
Indices: 30914140--30914195 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
30914130 TAGGATTAAA
*
30914140 ATAAAATATTTTATTA
1 ATAAAA-ATTTT-TTT
30914156 ATAATAAATTTTTTT
1 ATAA-AAATTTTTTT
**
30914171 ATAAAAATTAATTT
1 ATAAAAATTTTTTT
30914185 AT-AAAATTTTT
1 ATAAAAATTTTT
30914196 CAATAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 10 0.29
15 6 0.18
16 9 0.26
17 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAAAATTTTTTT
Found at i:30914183 original size:18 final size:19
Alignment explanation
Indices: 30914137--30914184 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
30914127 TAGTAGGATT
* *
30914137 AAAATAAAATATTTTATTA
1 AAAATAAATTTTTTTATTA
*
30914156 ATAATAAATTTTTTTA-TA
1 AAAATAAATTTTTTTATTA
*
30914174 AAAATTAATTT
1 AAAATAAATTT
30914185 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATAAATTTTTTTATTA
Found at i:30914421 original size:18 final size:18
Alignment explanation
Indices: 30914393--30914431 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
30914383 AAAATAAAAT
30914393 AAATAAAAATATAAACAAA
1 AAATAAAAATA-AAACAAA
*
30914412 AAAT-AAAATAAAATAAA
1 AAATAAAAATAAAACAAA
30914429 AAA
1 AAA
30914432 CTTGCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 6 0.32
19 4 0.21
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAAAATAAAACAAA
Found at i:30914425 original size:23 final size:23
Alignment explanation
Indices: 30914361--30914431 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
30914351 AATTTAAAAT
*
30914361 AATAATAATAATAAT-AAATTTAAA
1 AATAA-AATAA-AATAAAATATAAA
30914385 AATAAAAT-AAATAAAAATATAAA
1 AATAAAATAAAAT-AAAATATAAA
30914408 CAA-AAAATAAAATAAAATA-AAA
1 -AATAAAATAAAATAAAATATAAA
30914430 AA
1 AA
30914432 CTTGCAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 22 0.52
24 11 0.26
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAAATAAAATAAAATATAAA
Found at i:30914431 original size:12 final size:12
Alignment explanation
Indices: 30914356--30914431 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
30914346 TGTTCAATTT
30914356 AAAATAATAATAA
1 AAAATAA-AATAA
* *
30914369 TAATAATAAATTTA
1 -AA-AATAAAATAA
30914383 AAAATAAAATAA
1 AAAATAAAATAA
*
30914395 ATAAA-AATATAA
1 A-AAATAAAATAA
*
30914407 ACAA-AAAAT--
1 AAAATAAAATAA
30914416 AAAATAAAATAA
1 AAAATAAAATAA
30914428 AAAA
1 AAAA
30914432 CTTGCAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
9 3 0.06
10 5 0.10
11 6 0.12
12 20 0.41
13 5 0.10
14 5 0.10
15 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:30915158 original size:1 final size:1
Alignment explanation
Indices: 30915152--30915187 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
30915142 CCCCAAAATT
30915152 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30915188 CTCATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:30915953 original size:31 final size:30
Alignment explanation
Indices: 30915865--30915960 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
30915855 TTTATTGCAT
* * *
30915865 TTAAATAAATTTTTAATTTTTAATTTACAT
1 TTAAATAAATTTTTAAATTTTAATTTATAC
* **
30915895 TTAAATAAGTTTTTAACCTTTAATTTATAC
1 TTAAATAAATTTTTAAATTTTAATTTATAC
30915925 TTAAATAAATTTTTAAATTTGTAATTTATAC
1 TTAAATAAATTTTTAAATTT-TAATTTATAC
*
30915956 CTAAA
1 TTAAA
30915961 ATTTTTTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
30 42 0.75
31 14 0.25
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (30 bp):
TTAAATAAATTTTTAAATTTTAATTTATAC
Found at i:30927124 original size:26 final size:27
Alignment explanation
Indices: 30927095--30927145 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
30927085 AAATTAAACG
* *
30927095 AATATTTTTATAAAT-ATATATAAATA
1 AATATATTTATAAATAATAAATAAATA
*
30927121 AATATATTTATGAATAATAAATAAA
1 AATATATTTATAAATAATAAATAAA
30927146 GTATAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
AATATATTTATAAATAATAAATAAATA
Found at i:30927144 original size:23 final size:23
Alignment explanation
Indices: 30927043--30927150 Score: 65
Period size: 23 Copynumber: 4.5 Consensus size: 23
30927033 TTTTTTAAGT
* * * *
30927043 TAAACAAATTTATTCATAAATAT
1 TAAATAAATATATTTATAAATAA
* * *
30927066 TAAATTAATTTATTTATGAAA-AT
1 TAAATAAATATATTTAT-AAATAA
** *
30927089 TAAACGAATATTTTTATAAATATATA
1 TAAATAAATATATTTAT-AA-ATA-A
*
30927115 TAAATAAATATATTTATGAATAA
1 TAAATAAATATATTTATAAATAA
30927138 TAAATAAAGTATA
1 TAAATAAA-TATA
30927151 ACAAAATAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
23 40 0.60
24 11 0.16
25 2 0.03
26 14 0.21
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (23 bp):
TAAATAAATATATTTATAAATAA
Found at i:30927303 original size:12 final size:12
Alignment explanation
Indices: 30927282--30927311 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30927272 AAAATTTAAT
*
30927282 TTATTATTATTA
1 TTATTGTTATTA
30927294 TTATTGTTATTA
1 TTATTGTTATTA
30927306 TTATTG
1 TTATTG
30927312 AATAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:30927418 original size:11 final size:11
Alignment explanation
Indices: 30927402--30927426 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30927392 AAAATTATAT
30927402 TATTTGATTTA
1 TATTTGATTTA
30927413 TATTTGATTTA
1 TATTTGATTTA
30927424 TAT
1 TAT
30927427 AATAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTGATTTA
Found at i:30942262 original size:2 final size:2
Alignment explanation
Indices: 30942251--30942291 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
30942241 GGTCCCAAAT
30942251 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30942292 CACACACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:30943270 original size:6 final size:6
Alignment explanation
Indices: 30943255--30943288 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
30943245 CAAAGTACTC
* *
30943255 TTCTTT TTCTTA TTCTTT TTCTTT TTTTTT TTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCT
30943289 CTCTTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:30943660 original size:40 final size:36
Alignment explanation
Indices: 30943580--30943661 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
30943570 TAAAACGATA
*
30943580 ATATTTAAAATTTAATAAAAATAAAATATATATTTC
1 ATATTTAAAATTTAACAAAAATAAAATATATATTTC
* * *
30943616 ATATTTAATATGTTAACATAAATAATAATATAATAATTTT
1 ATATTTAAAAT-TTAACAAAAATAA-AATAT-AT-ATTTC
30943656 ATATTT
1 ATATTT
30943662 TACATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 10 0.26
37 11 0.29
38 5 0.13
39 2 0.05
40 10 0.26
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (36 bp):
ATATTTAAAATTTAACAAAAATAAAATATATATTTC
Found at i:30944831 original size:18 final size:21
Alignment explanation
Indices: 30944810--30944847 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30944800 AAACAAGTTT
30944810 TATAA-TA-TTTTAT-CTATG
1 TATAAGTACTTTTATACTATG
30944828 TATAAGTACTTTTATACTAT
1 TATAAGTACTTTTATACTAT
30944848 CAGTGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 2 0.12
20 6 0.35
21 4 0.24
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (21 bp):
TATAAGTACTTTTATACTATG
Found at i:30946302 original size:13 final size:13
Alignment explanation
Indices: 30946286--30946310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30946276 AGTTTTTAAA
30946286 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
30946299 TTTTTTTTTTTT
1 TTTTTTTTTTTT
30946311 TCAAAACTTT
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:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:30948791 original size:2 final size:2
Alignment explanation
Indices: 30948784--30948820 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
30948774 TTTCTTCAAA
*
30948784 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30948821 AAGCAGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30956364 original size:23 final size:23
Alignment explanation
Indices: 30956338--30956381 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
30956328 TACAAATTAA
30956338 AAATTAAAAAATTATTTAAATGT
1 AAATTAAAAAATTATTTAAATGT
*
30956361 AAATTAAAAATTTATTTAAAT
1 AAATTAAAAAATTATTTAAAT
30956382 ATGATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTAAAAAATTATTTAAATGT
Found at i:30960460 original size:18 final size:19
Alignment explanation
Indices: 30960437--30960473 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30960427 CGATGTTAGA
30960437 AAAAATAA-ATAAAAAAAT
1 AAAAATAATATAAAAAAAT
30960455 AAAAATAATATAAAAAAAT
1 AAAAATAATATAAAAAAAT
30960474 TTTAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAATAATATAAAAAAAT
Found at i:30971552 original size:263 final size:263
Alignment explanation
Indices: 30971085--30971609 Score: 924
Period size: 263 Copynumber: 2.0 Consensus size: 263
30971075 GACATTTAGA
**
30971085 CATATTTATCGAGGTATTGTTCTCTTCAAGATATTGCTCTCCTTCCCTTTCACAAGTGGAGGTCT
1 CATATTTATCGAGGTATTGTTCTCTTCAAGATATTGCTCTCCTTCCCTTTCACAAGCAGAGGTCT
*
30971150 ACTGGTATTATAACATAAGACTGTGGCTTGATCAAAGTGTTTTATGCTACAAAGCAAACATTATT
66 ACTGGCATTATAACATAAGACTGTGGCTTGATCAAAGTGTTTTATGCTACAAAGCAAACATTATT
*
30971215 TTCTTCTTATTAATGTTTCCTAAATATATTTATTAACTTCCTTGCTACTCAAAACTTTTTGAGGA
131 TTCTTCTTATTAATGTTTCCTAAATATATTTATTAACTTCCTTGCTACTCAAAACTTTTTGAGAA
* *
30971280 TACAAGAAATTCATTTTTTTGGGAAGGAGGTAGGAATGTTATTGCTTTCTTTCCTTAAACATTTC
196 TACAAGAAATTCATTTGTTTGGGAAGGAGGTAAGAATGTTATTGCTTTCTTTCCTTAAACATTTC
30971345 TGC
261 TGC
*
30971348 CATATTTATTGAGGTATTGTTCTCTTCAAGATATTGCTCTCCTTCCCTTTCACAAGCAGAGGTCT
1 CATATTTATCGAGGTATTGTTCTCTTCAAGATATTGCTCTCCTTCCCTTTCACAAGCAGAGGTCT
* * ** *
30971413 ACTGGCATTATAACATGAGACTGTGGCTTGATCATAGTGTTTTATGCTGGAAAGCAATCATTATT
66 ACTGGCATTATAACATAAGACTGTGGCTTGATCAAAGTGTTTTATGCTACAAAGCAAACATTATT
30971478 TTCTTCTTATTAATGTTTCCTAAATATATTTATTAACTTCCTTGCTACTCAAAACTTTTTGAGAA
131 TTCTTCTTATTAATGTTTCCTAAATATATTTATTAACTTCCTTGCTACTCAAAACTTTTTGAGAA
* *
30971543 TACAAGAAATTCATTTGTTTGGGAAGGAGGTAAGAATGTTATTGCTTTCTTTTCTTAAACCTTTC
196 TACAAGAAATTCATTTGTTTGGGAAGGAGGTAAGAATGTTATTGCTTTCTTTCCTTAAACATTTC
30971608 TG
261 TG
30971610 AGAAACATTT
Statistics
Matches: 248, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
263 248 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (263 bp):
CATATTTATCGAGGTATTGTTCTCTTCAAGATATTGCTCTCCTTCCCTTTCACAAGCAGAGGTCT
ACTGGCATTATAACATAAGACTGTGGCTTGATCAAAGTGTTTTATGCTACAAAGCAAACATTATT
TTCTTCTTATTAATGTTTCCTAAATATATTTATTAACTTCCTTGCTACTCAAAACTTTTTGAGAA
TACAAGAAATTCATTTGTTTGGGAAGGAGGTAAGAATGTTATTGCTTTCTTTCCTTAAACATTTC
TGC
Found at i:30973676 original size:9 final size:9
Alignment explanation
Indices: 30973658--30973746 Score: 58
Period size: 9 Copynumber: 9.9 Consensus size: 9
30973648 GCCACCTACA
*
30973658 CAGCATCAG
1 CAGCAACAG
*
30973667 CAGCAGCAG
1 CAGCAACAG
30973676 CAGCAACAG
1 CAGCAACAG
*
30973685 CAACAACAAG
1 CAGCAAC-AG
* *
30973695 -AACAACTG
1 CAGCAACAG
30973703 -AGACAACAG
1 CAG-CAACAG
*
30973712 CCA-CAACCG
1 -CAGCAACAG
*
30973721 CAGCAGCAG
1 CAGCAACAG
30973730 CAGCAACAG
1 CAGCAACAG
*
30973739 CAACAACA
1 CAGCAACA
30973747 AGAACAACTG
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
8 4 0.06
9 57 0.89
10 2 0.03
11 1 0.02
ACGTcount: A:0.45, C:0.34, G:0.19, T:0.02
Consensus pattern (9 bp):
CAGCAACAG
Found at i:30973738 original size:54 final size:54
Alignment explanation
Indices: 30973666--30973791 Score: 234
Period size: 54 Copynumber: 2.3 Consensus size: 54
30973656 CACAGCATCA
30973666 GCAGCAGCAGCAGCAACAGCAACAACAAGAACAACTGAGACAACAGCCACAACC
1 GCAGCAGCAGCAGCAACAGCAACAACAAGAACAACTGAGACAACAGCCACAACC
30973720 GCAGCAGCAGCAGCAACAGCAACAACAAGAACAACTGAGACAACAGCCACAACC
1 GCAGCAGCAGCAGCAACAGCAACAACAAGAACAACTGAGACAACAGCCACAACC
* *
30973774 ACAGCAGCAGCTGCAACA
1 GCAGCAGCAGCAGCAACA
30973792 ACAAGCATTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.45, C:0.33, G:0.19, T:0.02
Consensus pattern (54 bp):
GCAGCAGCAGCAGCAACAGCAACAACAAGAACAACTGAGACAACAGCCACAACC
Found at i:30973771 original size:18 final size:18
Alignment explanation
Indices: 30973673--30973772 Score: 57
Period size: 18 Copynumber: 5.5 Consensus size: 18
30973663 TCAGCAGCAG
*
30973673 CAGCAGCAACAGCA-ACAA
1 CAGCA-CAACTGCAGACAA
*
30973691 CAAGAACAACTG-AGACAA
1 C-AGCACAACTGCAGACAA
* *
30973709 CAGCCACAACCGCAG-CAG
1 CAG-CACAACTGCAGACAA
*
30973727 CAGCAGCAACAGCA-ACAA
1 CAGCA-CAACTGCAGACAA
*
30973745 CAAGAACAACTG-AGACAA
1 C-AGCACAACTGCAGACAA
30973763 CAGCCACAAC
1 CAG-CACAAC
30973773 CACAGCAGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
17 8 0.13
18 47 0.75
19 8 0.13
ACGTcount: A:0.48, C:0.33, G:0.17, T:0.02
Consensus pattern (18 bp):
CAGCACAACTGCAGACAA
Found at i:30974197 original size:3 final size:3
Alignment explanation
Indices: 30974176--30974209 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
30974166 TACAGAAATT
* *
30974176 GCA GCA ACA GCA ACA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
30974210 TCGTCTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.32, G:0.29, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:30977233 original size:25 final size:25
Alignment explanation
Indices: 30977199--30977255 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30977189 AAACAGTAAT
*
30977199 AAAATTTATTATAATTACGATT-AAA
1 AAAAATTATTATAA-TACGATTGAAA
*
30977224 AAAAATTATTATAATATGATTGAAA
1 AAAAATTATTATAATACGATTGAAA
*
30977249 AATAATT
1 AAAAATT
30977256 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (25 bp):
AAAAATTATTATAATACGATTGAAA
Found at i:30985369 original size:44 final size:44
Alignment explanation
Indices: 30985319--30985444 Score: 218
Period size: 43 Copynumber: 2.9 Consensus size: 44
30985309 ATTAAATATT
30985319 ATATTAATATATAAAATTAAATTATACATACACAATTTTATTTA
1 ATATTAATATATAAAATTAAATTATACATACACAATTTTATTTA
* *
30985363 ATATTAATATATAAAATT-AAGTATACATACACAATTTTATTTT
1 ATATTAATATATAAAATTAAATTATACATACACAATTTTATTTA
*
30985406 ATATTAATATATAAAATTAAGTTATACATACACAATTTT
1 ATATTAATATATAAAATTAAATTATACATACACAATTTT
30985445 TTAATGAGTG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 41 0.53
44 36 0.47
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (44 bp):
ATATTAATATATAAAATTAAATTATACATACACAATTTTATTTA
Found at i:30986038 original size:12 final size:12
Alignment explanation
Indices: 30986023--30986071 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
30986013 ATAAAAATTA
30986023 TTATATTATAAT
1 TTATATTATAAT
**
30986035 TTATATTAATACG
1 TTATATT-ATAAT
30986048 TTA-ATTATAAT
1 TTATATTATAAT
30986059 TTATATT-TAAT
1 TTATATTATAAT
30986070 TT
1 TT
30986072 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 12 0.39
12 13 0.42
13 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (12 bp):
TTATATTATAAT
Found at i:30988314 original size:29 final size:29
Alignment explanation
Indices: 30988220--30988440 Score: 132
Period size: 29 Copynumber: 7.7 Consensus size: 29
30988210 GGGTTTAGGT
*
30988220 TTTTGATTTTAGGGTTTG-AGATTTGAAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGAAG
* * * * *
30988248 TTTTGGTTTTAAGGTTTAGATGATTT-ACG
1 TTTTGATTTTAGGGTTT-GAAGGTTTGAAG
* * *
30988277 GTTTAATTTTAGGGTTTGAAGGTTTGGAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGAAG
* * * * *
30988306 TTTTGATTTCAGAGCTTGGAGGTTTGAGG
1 TTTTGATTTTAGGGTTTGAAGGTTTGAAG
* *
30988335 TTTTGATTGTAGAGTTTGGAAGG--TGAAGG
1 TTTTGATTTTAGGGTTT-GAAGGTTTGAA-G
* *
30988364 TTTTAATTTTAGGGTTTGAAAGGTTT-AGGG
1 TTTTGATTTTAGGGTTTG-AAGGTTTGA-AG
* * *
30988394 TTTT-ATTTTTAAGGTTAGGAGGTTT-AAG
1 TTTTGA-TTTTAGGGTTTGAAGGTTTGAAG
* *
30988422 GTTTAATTTTAGGGTTTGA
1 TTTTGATTTTAGGGTTTGA
30988441 GAAATTTAGA
Statistics
Matches: 145, Mismatches: 37, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
28 39 0.27
29 80 0.55
30 25 0.17
31 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (29 bp):
TTTTGATTTTAGGGTTTGAAGGTTTGAAG
Found at i:30988448 original size:29 final size:30
Alignment explanation
Indices: 30988360--30988536 Score: 136
Period size: 29 Copynumber: 6.0 Consensus size: 30
30988350 TTGGAAGGTG
*
30988360 AAGGTTTTAATTTTAGGGTTTGA-AAGGTTT
1 AAGGTTTTAATTTTAGGGTTTGAGAA-ATTT
* * * * **
30988390 AGGGTTTTATTTTTAAGGTTAG-GAGGTTT
1 AAGGTTTTAATTTTAGGGTTTGAGAAATTT
30988419 AAGG-TTTAATTTTAGGGTTTGAGAAATTT
1 AAGGTTTTAATTTTAGGGTTTGAGAAATTT
* * *
30988448 -AGAGTTTCATTTTTAGGGTTT-AG-ATTTT
1 AAG-GTTTTAATTTTAGGGTTTGAGAAATTT
* * *
30988476 AGGGTTTTAGATTTGAGGGTTTG-GAAGTTTT
1 AAGGTTTTA-ATTTTAGGGTTTGAGAA-ATTT
*
30988507 AAGG-TTTAATTTTAGGGTTTGAAAAATTT
1 AAGGTTTTAATTTTAGGGTTTGAGAAATTT
30988536 A
1 A
30988537 GAGTTTTGTT
Statistics
Matches: 115, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
28 25 0.22
29 43 0.37
30 40 0.35
31 7 0.06
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.47
Consensus pattern (30 bp):
AAGGTTTTAATTTTAGGGTTTGAGAAATTT
Found at i:30988462 original size:88 final size:88
Alignment explanation
Indices: 30988370--30988570 Score: 253
Period size: 88 Copynumber: 2.3 Consensus size: 88
30988360 AAGGTTTTAA
* *
30988370 TTTTAGGGTTTGAAAGGTTTAGGGTTTTA-TTTTTAAGGTTAGG-AGGTTTAAGGTTTAATTTTA
1 TTTTAGGGTTT-AAA-GTTTAGGGTTTTAGATTTGAAGGTTAGGAAGGTTTAAGGTTTAATTTTA
*
30988433 GGGTTTGAGAAATTTAGAGTTTCAT
64 GGGTTTGAAAAATTTAGAGTTTCAT
* * * * *
30988458 TTTTAGGGTTTAGATTTTAGGGTTTTAGATTTGAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGG
1 TTTTAGGGTTTAAAGTTTAGGGTTTTAGATTTGAAGGTTAGGAAGGTTTAAGGTTTAATTTTAGG
**
30988523 GTTTGAAAAATTTAGAGTTTTGT
66 GTTTGAAAAATTTAGAGTTTCAT
* * *
30988546 TTTTAAGGTTTAGATTTTAGGGTTT
1 TTTTAGGGTTTAAAGTTTAGGGTTT
30988571 GGAAGTTTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
86 12 0.12
87 12 0.12
88 76 0.76
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (88 bp):
TTTTAGGGTTTAAAGTTTAGGGTTTTAGATTTGAAGGTTAGGAAGGTTTAAGGTTTAATTTTAGG
GTTTGAAAAATTTAGAGTTTCAT
Found at i:30988468 original size:14 final size:14
Alignment explanation
Indices: 30988458--30988708 Score: 112
Period size: 14 Copynumber: 17.2 Consensus size: 14
30988448 AGAGTTTCAT
30988458 TTTTAGGGTTTAGA
1 TTTTAGGGTTTAGA
30988472 TTTTAGGGTTTTAGA
1 TTTTAGGG-TTTAGA
* *
30988487 TTTGAGGGTTTGGAA
1 TTTTAGGGTTTAG-A
*
30988502 GTTTTAAGGTTTA-A
1 -TTTTAGGGTTTAGA
*
30988516 TTTTAGGGTTTGAAAA
1 TTTTAGGGTTT--AGA
* * * *
30988532 ATTTAGAGTTTTGT
1 TTTTAGGGTTTAGA
*
30988546 TTTTAAGGTTTAGA
1 TTTTAGGGTTTAGA
*
30988560 TTTTAGGGTTTGGAA
1 TTTTAGGGTTTAG-A
*
30988575 GTTTTAAGGTTTA-A
1 -TTTTAGGGTTTAGA
*
30988589 TTTTAGGGTTCGAGAA
1 TTTTAGGGTT-TAG-A
* * * *
30988605 ATTTAGAGTTTCGT
1 TTTTAGGGTTTAGA
*
30988619 TTTTAGGGTTTTGA
1 TTTTAGGGTTTAGA
*** *
30988633 TTTTTAAAATTTGAGG
1 -TTTTAGGGTTT-AGA
* * *
30988649 TTTGA-GATTTTGA
1 TTTTAGGGTTTAGA
*
30988662 TTTAAGGGTTTAGA
1 TTTTAGGGTTTAGA
*
30988676 TTTTAGGGGTTTTGGA
1 TTTTA-GGG-TTTAGA
* *
30988692 TTTTGGGGTTTGGA
1 TTTTAGGGTTTAGA
30988706 TTT
1 TTT
30988709 AAAGTTAGGA
Statistics
Matches: 175, Mismatches: 46, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
13 24 0.14
14 68 0.39
15 35 0.20
16 48 0.27
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.49
Consensus pattern (14 bp):
TTTTAGGGTTTAGA
Found at i:30988519 original size:44 final size:42
Alignment explanation
Indices: 30988416--30988571 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 42
30988406 GGTTAGGAGG
* *
30988416 TTTAAGGTTTAATTTTAGGGTTTGAGAAATTTAGAGTTTCATT
1 TTTAAGGTTTAATTTTAGGGTTTGAG-AATTTAGAGTTTAAGT
* * *
30988459 TTTAGGGTTTAGATTTTAGGGTTTTAG-ATTTGAGGGTTTGGAAGT
1 TTTAAGGTTTA-ATTTTAGGGTTTGAGAATTT-AGAGTTT--AAGT
* *
30988504 TTTAAGGTTTAATTTTAGGGTTTGAAAAATTTAGAGTTT-TGTT
1 TTTAAGGTTTAATTTTAGGGTTTG-AGAATTTAGAGTTTAAG-T
30988547 TTTAAGGTTTAGATTTTAGGGTTTG
1 TTTAAGGTTTA-ATTTTAGGGTTTG
30988572 GAAGTTTTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
42 5 0.05
43 28 0.29
44 39 0.41
45 19 0.20
46 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (42 bp):
TTTAAGGTTTAATTTTAGGGTTTGAGAATTTAGAGTTTAAGT
Found at i:30988569 original size:73 final size:73
Alignment explanation
Indices: 30988472--30988636 Score: 267
Period size: 73 Copynumber: 2.2 Consensus size: 73
30988462 AGGGTTTAGA
* *
30988472 TTTTAGGGTTTTAGATTTGAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGGGTTTGAAAAATTTA
1 TTTTAGGG-TTTAGATTTTAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGGGTTCGAAAAATTTA
*
30988537 GAGTTTTGT
65 GAGTTTCGT
* *
30988546 TTTTAAGGTTTAGATTTTAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGGGTTCGAGAAATTTAG
1 TTTTAGGGTTTAGATTTTAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGGGTTCGAAAAATTTAG
30988611 AGTTTCGT
66 AGTTTCGT
*
30988619 TTTTAGGGTTTTGATTTT
1 TTTTAGGGTTTAGATTTT
30988637 TAAAATTTGA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 77 0.92
74 7 0.08
ACGTcount: A:0.23, C:0.01, G:0.26, T:0.50
Consensus pattern (73 bp):
TTTTAGGGTTTAGATTTTAGGGTTTGGAAGTTTTAAGGTTTAATTTTAGGGTTCGAAAAATTTAG
AGTTTCGT
Found at i:30988609 original size:29 final size:30
Alignment explanation
Indices: 30988547--30988628 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
30988537 GAGTTTTGTT
* *
30988547 TTTAAGGTTTAGATTTTAGGGTTTGGAAGT
1 TTTAAGGTTTAGATTTTAGGGTTCGGAAGA
30988577 TTTAAGGTTTA-ATTTTAGGGTTCGAGAA-A
1 TTTAAGGTTTAGATTTTAGGGTTCG-GAAGA
* *
30988606 TTT-AGAGTTTCGTTTTTAGGGTT
1 TTTAAG-GTTTAGATTTTAGGGTT
30988629 TTGATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.04
29 19 0.42
30 24 0.53
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (30 bp):
TTTAAGGTTTAGATTTTAGGGTTCGGAAGA
Found at i:30989455 original size:28 final size:28
Alignment explanation
Indices: 30989414--30989480 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
30989404 TGTGCGGATC
* *
30989414 CTCTTATGCTTAAAACGACGTTATTTTG
1 CTCTTATGTTTAAAACGACGTCATTTTG
* *
30989442 GTCTTATGTTTAAAACGACGTCGTTTTG
1 CTCTTATGTTTAAAACGACGTCATTTTG
*
30989470 CTCCTATGTTT
1 CTCTTATGTTT
30989481 TCTATAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (28 bp):
CTCTTATGTTTAAAACGACGTCATTTTG
Found at i:30989861 original size:14 final size:13
Alignment explanation
Indices: 30989842--30989872 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
30989832 TGTGTTTGTC
30989842 TTTTTGTTTATATT
1 TTTTTGTTTAT-TT
30989856 TTTTTGTTTATTT
1 TTTTTGTTTATTT
30989869 TTTT
1 TTTT
30989873 GCGGTTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTGTTTATTT
Found at i:30990588 original size:36 final size:36
Alignment explanation
Indices: 30990559--30990634 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
30990549 AAAATAAGGA
*
30990559 CGACTGGGATTAAACTACAAGTGAGAAAAATAAAAG
1 CGACTAGGATTAAACTACAAGTGAGAAAAATAAAAG
* * *
30990595 TGATTAGGATTAAACTACAAGTTAGAAAAATAAAAG
1 CGACTAGGATTAAACTACAAGTGAGAAAAATAAAAG
30990631 CGAC
1 CGAC
30990635 CGAGATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (36 bp):
CGACTAGGATTAAACTACAAGTGAGAAAAATAAAAG
Found at i:30990642 original size:36 final size:36
Alignment explanation
Indices: 30990565--30990644 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
30990555 AGGACGACTG
* **
30990565 GGATTAAACTACAAGTGAGAAAAATAAAAGTGATTA
1 GGATTAAACTACAAGTGAGAAAAATAAAAGCGACGA
*
30990601 GGATTAAACTACAAGTTAGAAAAATAAAAGCGACCGA
1 GGATTAAACTACAAGTGAGAAAAATAAAAGCGA-CGA
30990638 -GATTAAA
1 GGATTAAA
30990645 TCACGAGCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 38 0.97
37 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.20
Consensus pattern (36 bp):
GGATTAAACTACAAGTGAGAAAAATAAAAGCGACGA
Found at i:30990775 original size:110 final size:109
Alignment explanation
Indices: 30990613--30990816 Score: 275
Period size: 110 Copynumber: 1.9 Consensus size: 109
30990603 ATTAAACTAC
* *
30990613 AAGTTAGAAAAATAAAAGCGACCGAGATTAAATCACGAGCTAGGAAACTATAGAAATGACCAGGA
1 AAGTCAGAAAAATAAAAGCGACCGAGATTAAACCACGAGCTAGGAAACTATAGAAATGACCAGGA
30990678 CTAAACCACAAGTCAAAGATTAACGATGACCAAGGCTAAACCGT
66 CTAAACCACAAGTCAAAGATTAACGATGACCAAGGCTAAACCGT
* * * ** * **
30990722 AAGTCAGAAAGAATAAAAGTGACCTAGATTAAACCACGAGTTA-GAGAGTTATAGGAATGACTGG
1 AAGTCAGAAA-AATAAAAGCGACCGAGATTAAACCACGAGCTAGGA-AACTATAGAAATGACCAG
* *
30990786 GACTAAACCACAAGTGAGAGATTAACGATGA
64 GACTAAACCACAAGTCAAAGATTAACGATGA
30990817 TCGAGATTGA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
109 11 0.14
110 70 0.86
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (109 bp):
AAGTCAGAAAAATAAAAGCGACCGAGATTAAACCACGAGCTAGGAAACTATAGAAATGACCAGGA
CTAAACCACAAGTCAAAGATTAACGATGACCAAGGCTAAACCGT
Found at i:30990830 original size:110 final size:109
Alignment explanation
Indices: 30990613--30990845 Score: 270
Period size: 110 Copynumber: 2.1 Consensus size: 109
30990603 ATTAAACTAC
* *
30990613 AAGTTAGAAAAATAAAAGCGACCGAGATTAAATCACGAGCTAGGAAACTATAGAAATGACCAGGA
1 AAGTCAGAAAAATAAAAGCGACCGAGATTAAACCACGAGCTAGGAAACTATAGAAATGACCAGGA
*
30990678 CTAAACCACAAGTCAAAGATTAACGATGACCAAGGCTAAACCGT
66 CTAAACCACAAGTCAAAGATTAACGATGACCAAGACTAAACCGT
* * * ** * **
30990722 AAGTCAGAAAGAATAAAAGTGACCTAGATTAAACCACGAGTTA-GAGAGTTATAGGAATGACTGG
1 AAGTCAGAAA-AATAAAAGCGACCGAGATTAAACCACGAGCTAGGA-AACTATAGAAATGACCAG
* * * * * *
30990786 GACTAAACCACAAGTGAGAGATTAACGATGATCGAGATTGAACCGT
64 GACTAAACCACAAGTCAAAGATTAACGATGACCAAGACTAAACCGT
* *
30990832 AGGTCAAAAAAATA
1 AAGTCAGAAAAATA
30990846 GGAATGATTG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
109 15 0.15
110 88 0.85
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (109 bp):
AAGTCAGAAAAATAAAAGCGACCGAGATTAAACCACGAGCTAGGAAACTATAGAAATGACCAGGA
CTAAACCACAAGTCAAAGATTAACGATGACCAAGACTAAACCGT
Found at i:30991014 original size:219 final size:216
Alignment explanation
Indices: 30990679--30991416 Score: 553
Period size: 216 Copynumber: 3.4 Consensus size: 216
30990669 TGACCAGGAC
* ** * * *
30990679 TAAACCACAAGTCAAAGATTAACGATGACCAAGG-CTAAACCGTAAGTCAGAAAGAATAAAAGTG
1 TAAACCACGAGTCAAAGATTAACGATGA-CTGGGACTGAACCGCAAGTCA-AAAAAATAAAAGTG
* *
30990743 ACCTA-GATTAAACCACGAGTTAGAGAGTTATAGGAATGACTGGGACTAAACCACAAGTGAGAGA
64 A-CTAGGATTAAACCACAAGTTAGAGAGTTATAGGAATGACTGGGACTAAACCACAAGTCAGAGA
* * * * * * *
30990807 TTAACGATGATCGAGATTGAACCGTAGGTCAAAAAAATAGGAA-TGATTGGGACTAAACCACAAG
128 TTAACAATGATCGAGATTGAACCGCAAGTAAAAAAAATA-AAAGTGACTAGGACTAAACCACAAG
30990871 TC-AGGTAACTAATAGAAATAATCGAGAT
192 TCGA-G-AAC--ATAGAAATAATCGAGAT
* *
30990899 TGAACCACGAGTCAAAGATTAACGATGGCTGGGACTGAACCGCAAGTCAAAAAAATAAAAGTGAC
1 TAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCGCAAGTCAAAAAAATAAAAGTGAC
** * ** *
30990964 TAGGATTAAACTGCAAGTT-GGGAAGTTATAGGAATGA-TCGGGTTTAAACCACGAGTCAGAGAT
66 TAGGATTAAACCACAAGTTAGAG-AGTTATAGGAATGACT-GGGACTAAACCACAAGTCAGAGAT
* * * * * **
30991027 TAACAATGATTGGGATTGAACTGCAAGTAAAAAAAATAAAAGTGACTAGGATTAAATCGTAAGTC
129 TAACAATGATCGAGATTGAACCGCAAGTAAAAAAAATAAAAGTGACTAGGACTAAACCACAAGTC
* * * *
30991092 GAGAACATAGGAATGATTGGGAT
194 GAGAACATAGAAATAATCGAGAT
* * * * * *
30991115 TAAACCATGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGTTAGAAAAATAAAAGTGAC
1 TAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCGCAAGTCAAAAAAATAAAAGTGAC
* ** * * * * * * * * *
30991180 TGGGATTAAACCGTAAGTTAG-GTAACTAACAGAAATAACT-GGATTGAACCACGAGTCAAAGAT
66 TAGGATTAAACCACAAGTTAGAG--AGTTATAGGAATGACTGGGACTAAACCACAAGTCAGAGAT
* * * * * * * * * * *
30991243 TAACGACGA-CTAAAACTGAACCGTAAGTTAGAAAAATAAAAGTGACT-GAGATTAAATCGCAAG
129 TAACAATGATC-GAGATTGAACCGCAAGTAAAAAAAATAAAAGTGACTAG-GACTAAACCACAAG
* * *
30991306 TC-AGAAAGCTATAGAAATGATCGGGTT
192 TCGAG-AA-C-ATAGAAATAATCGAGAT
* * * * * * * *
30991333 TAAATCACAAGTCAAATATTAGCAATGATTGGGATTGAACTGCAAGTCAAAAAAAATAAAAGTGA
1 TAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCGCAAGTC-AAAAAAATAAAAGTGA
* *
30991398 CTAAGATTAAACCGCAAGT
65 CTAGGATTAAACCACAAGT
30991417 CAAGAACATA
Statistics
Matches: 422, Mismatches: 81, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
215 3 0.01
216 159 0.38
217 12 0.03
218 65 0.15
219 144 0.34
220 39 0.09
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (216 bp):
TAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCGCAAGTCAAAAAAATAAAAGTGAC
TAGGATTAAACCACAAGTTAGAGAGTTATAGGAATGACTGGGACTAAACCACAAGTCAGAGATTA
ACAATGATCGAGATTGAACCGCAAGTAAAAAAAATAAAAGTGACTAGGACTAAACCACAAGTCGA
GAACATAGAAATAATCGAGAT
Found at i:30991041 original size:109 final size:109
Alignment explanation
Indices: 30990661--30991523 Score: 616
Period size: 109 Copynumber: 7.9 Consensus size: 109
30990651 GCTAGGAAAC
* * * * ** * * *
30990661 TATAGAAATGACCAGGACTAAACCACAAGTCAAAGATTAACGATGACCAAGG-CTAAACCGTAAG
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGA-CTGGGATTGAACCGCAAG
* * * *
30990725 TCAGAAAGAATAAAAGTGACCTA-GATTAAACCACGAGTT-AGAGAGT
65 TCA-AAAAAATAAAAGTGA-CTAGGATTAAACCGCAAGTTGGGA-AGT
* * * * * * * *
30990771 TATAGGAATGA-CTGGGACTAAACCACAAGTGAGAGATTAACGATGA-TCGAGATTGAACCGTAG
1 TATAGAAATGATC-GGGATTAAACCACGAGTCAAAGATTAACGATGACT-GGGATTGAACCGCAA
* * * * * * * *
30990834 GTCAAAAAAATAGGAA-TGATTGGGACTAAACCACAAGTCAGGTAACT
64 GTCAAAAAAATA-AAAGTGACTAGGATTAAACCGCAAGT-TGGGAAGT
* * * * * *
30990881 AATAGAAATAATCGAGATTGAACCACGAGTCAAAGATTAACGATGGCTGGGACTGAACCGCAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
*
30990946 CAAAAAAATAAAAGTGACTAGGATTAAACTGCAAGTTGGGAAGT
66 CAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTGGGAAGT
* * * * * *
30990990 TATAGGAATGATCGGGTTTAAACCACGAGTCAGAGATTAACAATGATTGGGATTGAACTGCAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
* * * * *
30991055 AAAAAAAATAAAAGTGACTAGGATTAAATCGTAAGTCGAGAA--
66 CAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTGGGAAGT
* * * * * *
30991097 CATAGGAATGATTGGGATTAAACCATGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
* * * * * *
30991162 TAGAAAAATAAAAGTGACTGGGATTAAACCGTAAGTTAGGTAACT
66 CAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTT-GGGAAGT
* * * * * * *** * *
30991207 AACAGAAAT-AACTGGATTGAACCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGTAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
* * * ** * *
30991271 TAGAAAAATAAAAGTGACT-GAGATTAAATCGCAAGTCAGAAAGC
66 CAAAAAAATAAAAGTGACTAG-GATTAAACCGCAAGTTGGGAAGT
* * * * * * * *
30991315 TATAGAAATGATCGGGTTTAAATCACAAGTCAAATATTAGCAATGATTGGGATTGAACTGCAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
* ***
30991380 CAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTCAAGAA--
66 C-AAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTGGGAAGT
* * * * * * * ** *
30991423 CATAGAAATGACCGAGATTGAACCATGAGTCAAAGATTAATGACGACAAGGATTGAACCACAAGT
1 TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
* * * *
30991488 TAAAAAAATAAAAGTGATTGGGATTAAACCGTAAGT
66 CAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGT
30991524 CAAAAAAATA
Statistics
Matches: 589, Mismatches: 147, Indels: 37
0.76 0.19 0.05
Matches are distributed among these distances:
107 120 0.20
108 62 0.11
109 233 0.40
110 171 0.29
111 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (109 bp):
TATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGATTGAACCGCAAGT
CAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTGGGAAGT
Found at i:30991216 original size:326 final size:326
Alignment explanation
Indices: 30990837--30991525 Score: 920
Period size: 326 Copynumber: 2.1 Consensus size: 326
30990827 ACCGTAGGTC
* * * ** *
30990837 AAAAAAATAGGAA-TGATTGGGACTAAACCACAAGTCAGGTAACTAATAGAAATAA-TCGAGATT
1 AAAAAAATA-AAAGTGACTGGGATTAAACCGTAAGTCAGGTAACTAACAGAAATAACT-G-GATT
* * ***
30990900 GAACCACGAGTCAAAGATTAACGATGGCTGGGACTGAACCGCAAGTCAAAAAAATAAAAGTGACT
63 GAACCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGCAAGTCAAAAAAATAAAAGTGACT
** * * * * *
30990965 -AGGATTAAA-CTGCAAGTTGGGAAGTTATAGGAATGATCGGGTTTAAACCACGAGTCAGAGATT
128 GA-GATTAAATC-GCAAGTCAGAAAGCTATAGAAATGATCGGGTTTAAACCACAAGTCAAAGATT
* * *
30991028 AACAATGATTGGGATTGAACTGCAAGT-AAAAAAAATAAAAGTGACTAGGATTAAATCGTAAGTC
191 AACAATGATTGGGATTGAACTGCAAGTCAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTC
* * ** * * ** **
30991092 GAGAACATAGGAATGATTGGGATTAAACCATGAGTCAAAGATTAAGGATGACTGGGATTGAACTG
256 AAGAACATAGAAATGACCGAGATTAAACCATGAGTCAAAGATTAAGGACGACAAGGATTGAACCA
30991157 CAAGTT
321 CAAGTT
* *
30991163 AGAAAAATAAAAGTGACTGGGATTAAACCGTAAGTTAGGTAACTAACAGAAATAACTGGATTGAA
1 AAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGGTAACTAACAGAAATAACTGGATTGAA
* * *
30991228 CCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGTAAGTTAGAAAAATAAAAGTGACTGAG
66 CCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGCAAGTCAAAAAAATAAAAGTGACTGAG
* * *
30991293 ATTAAATCGCAAGTCAGAAAGCTATAGAAATGATCGGGTTTAAATCACAAGTCAAATATTAGCAA
131 ATTAAATCGCAAGTCAGAAAGCTATAGAAATGATCGGGTTTAAACCACAAGTCAAAGATTAACAA
30991358 TGATTGGGATTGAACTGCAAGTCAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTCAAGAA
196 TGATTGGGATTGAACTGCAAGTCAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTCAAGAA
* *
30991423 CATAGAAATGACCGAGATTGAACCATGAGTCAAAGATTAATGACGACAAGGATTGAACCACAAGT
261 CATAGAAATGACCGAGATTAAACCATGAGTCAAAGATTAAGGACGACAAGGATTGAACCACAAGT
30991488 T
326 T
*
30991489 AAAAAAATAAAAGTGATTGGGATTAAACCGTAAGTCA
1 AAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCA
30991526 AAAAAATAAC
Statistics
Matches: 314, Mismatches: 44, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
325 139 0.44
326 174 0.55
327 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (326 bp):
AAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGGTAACTAACAGAAATAACTGGATTGAA
CCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGCAAGTCAAAAAAATAAAAGTGACTGAG
ATTAAATCGCAAGTCAGAAAGCTATAGAAATGATCGGGTTTAAACCACAAGTCAAAGATTAACAA
TGATTGGGATTGAACTGCAAGTCAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTCAAGAA
CATAGAAATGACCGAGATTAAACCATGAGTCAAAGATTAAGGACGACAAGGATTGAACCACAAGT
T
Found at i:30991232 original size:216 final size:215
Alignment explanation
Indices: 30990882--30991525 Score: 668
Period size: 216 Copynumber: 3.0 Consensus size: 215
30990872 CAGGTAACTA
* * * * * * * *
30990882 ATAGAAATAATCGAGATTGAACCACGAGTCAAAGATTAACGATGGCTGGGACTGAACCGCAAGTC
1 ATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGTA
* * * * * * * *
30990947 AAAAAAATAAAAGTGACTAGGATTAAACTGCAAGTTGGGAAGTTATAGGAATGATCGGGTTTAAA
66 AAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTAGGAA-CTATAGAAAT-AACCGGATTGAA
* * * * * * *
30991012 CCACGAGTCAGAGATTAACAATGATTGGGATTGAACTGCAAGTAAAAAAAATAAAAGTGACTAGG
129 CCACGAGTCAAAGATTAACGACGACTAGGATTGAACCGCAAGTTAAAAAAATAAAAGTGACT-GG
30991077 ATTAAATCGTAAGTC-GAGAA-C-
193 ATTAAATCGTAAGTCAGA-AAGCT
* * * *
30991098 ATAGGAATGATTGGGATTAAACCATGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGTT
1 ATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGTA
* * * * *
30991163 AGAAAAATAAAAGTGACTGGGATTAAACCGTAAGTTAGGTAACTAACAGAAATAACTGGATTGAA
66 AAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTAGG-AACT-ATAGAAATAACCGGATTGAA
** * * *
30991228 CCACGAGTCAAAGATTAACGACGACTAAAACTGAACCGTAAGTTAGAAAAATAAAAGTGACTGAG
129 CCACGAGTCAAAGATTAACGACGACTAGGATTGAACCGCAAGTTAAAAAAATAAAAGTGACTG-G
*
30991293 ATTAAATCGCAAGTCAGAAAGCT
193 ATTAAATCGTAAGTCAGAAAGCT
* * * * * *
30991316 ATAGAAATGATCGGGTTTAAATCACAAGTCAAATATT-AGCAATGATTGGGATTGAACTGCAAGT
1 ATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAG-GATGACTGGGATTGAACTGCAAGT
* * * *
30991380 CAAAAAAAATAAAAGTGACTAAGATTAAACCGCAAGTCAAGAAC-ATAGAAATGACCGAGATTGA
65 -AAAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTAGGAACTATAGAAATAACCG-GATTGA
* * * * *
30991444 ACCATGAGTCAAAGATTAATGACGACAAGGATTGAACCACAAGTTAAAAAAATAAAAGTGATTGG
128 ACCACGAGTCAAAGATTAACGACGACTAGGATTGAACCGCAAGTTAAAAAAATAAAAGTGACT-G
*
30991509 GATTAAACCGTAAGTCA
192 GATTAAATCGTAAGTCA
30991526 AAAAAATAAC
Statistics
Matches: 351, Mismatches: 67, Indels: 19
0.80 0.15 0.04
Matches are distributed among these distances:
215 1 0.00
216 174 0.50
217 87 0.25
218 56 0.16
219 33 0.09
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (215 bp):
ATAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAGGATGACTGGGATTGAACTGCAAGTA
AAAAAAATAAAAGTGACTAGGATTAAACCGCAAGTTAGGAACTATAGAAATAACCGGATTGAACC
ACGAGTCAAAGATTAACGACGACTAGGATTGAACCGCAAGTTAAAAAAATAAAAGTGACTGGATT
AAATCGTAAGTCAGAAAGCT
Found at i:30991755 original size:87 final size:88
Alignment explanation
Indices: 30991520--30991759 Score: 225
Period size: 88 Copynumber: 2.7 Consensus size: 88
30991510 ATTAAACCGT
* * * * * **
30991520 AAGTCAAAAAAATAACGAATCGATCAGGATAACACCGTAAATTGAATTTATGCCCGGAGGTCTTA
1 AAGTCAAAAAATTAA-AAATCAATCGGGACAACACCGTAAATCAAATTTATGCCCGGAGGTCTTA
**
30991585 CAGAATCAACTGGGACAACATTGC
65 CAGAATCAACTGGGACAACAACGC
* * ** * * * *
30991609 AAGTCAAAAAATTAAAAATCAATCGGGATAATATTGCAAATCTAATTTATGCCCAGAGGTCTTAT
1 AAGTCAAAAAATTAAAAATCAATCGGGACAACACCGTAAATCAAATTTATGCCCGGAGGTCTTAC
* * *
30991674 AGAATCGA-TCGGGATAACAACGT
66 AGAATCAACT-GGGACAACAACGC
* * *
30991697 AAGT-AAAAAA-TAATGAATGAATTGGGACAACACCGTAAATCAAATTTATGCCCGGAGGTCTTA
1 AAGTCAAAAAATTAA-AAATCAATCGGGACAACACCGTAAATCAAATTTATGCCCGGAGGTCTTA
30991760 GAAATAATGT
Statistics
Matches: 122, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
86 3 0.02
87 46 0.38
88 59 0.48
89 14 0.11
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (88 bp):
AAGTCAAAAAATTAAAAATCAATCGGGACAACACCGTAAATCAAATTTATGCCCGGAGGTCTTAC
AGAATCAACTGGGACAACAACGC
Found at i:30991816 original size:109 final size:109
Alignment explanation
Indices: 30991665--30991873 Score: 312
Period size: 109 Copynumber: 1.9 Consensus size: 109
30991655 TTATGCCCAG
* * * *
30991665 AGGTCTTATAGAATCGATCGGGATAACAACGTAAGTAAAAAATAATGAAT-GAATTGGGACAACA
1 AGGTCTTACAGAATCGATCGGGATAACAACGCAAGTAAAAAATAATGAATCG-ATCGAGACAACA
* *
30991729 CCGTAAATCAAATTTATGCCCGGAGGTCTTAGAAATAATGTCCGA
65 CCGTAAATCAAATTTATGCCCAGAGGTCTTAAAAATAATGTCCGA
* *
30991774 AGGTCTTACAGAATCGATCGGGATAATAACGCAAGTCAAAAATAATGAATCGATCGAGACAACAC
1 AGGTCTTACAGAATCGATCGGGATAACAACGCAAGTAAAAAATAATGAATCGATCGAGACAACAC
* *
30991839 CGTGAATCAAATTTATGCTCAGAGGTCTTAAAAAT
66 CGTAAATCAAATTTATGCCCAGAGGTCTTAAAAAT
30991874 CAACATCTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 88 0.99
110 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (109 bp):
AGGTCTTACAGAATCGATCGGGATAACAACGCAAGTAAAAAATAATGAATCGATCGAGACAACAC
CGTAAATCAAATTTATGCCCAGAGGTCTTAAAAATAATGTCCGA
Found at i:30992054 original size:128 final size:128
Alignment explanation
Indices: 30991911--30992191 Score: 397
Period size: 128 Copynumber: 2.2 Consensus size: 128
30991901 GAGATCTGTG
** * * *
30991911 AACTTTAAAAATTTAAAAATCTTTTGGTCAAAAATCTTGAAAGTTATGCCCGGAGGTTTTAGAGA
1 AACTTTAAAAATTTAAAAATCTTTTGCCCAAAAATCTTGAAAGTTATGCCCGAAAGTATTAGAGA
* *
30991976 TTACG-CTCGAAGGTCTTACAAA-TCTAAAATCTTTGAATGC-CCTTCATAATTAGAGGCAATGA
66 TTACGTC-CGAAGATCTTACAAATTCTAAAATCTTTGAATGCTCC-TCATAATCAGAGGCAATGA
* ** *
30992038 AACTTTTAAAAATTTAAAAATCTTTTGCCCAGAGGTCTTGAAAGTTATGCTCGAAAGTATTAGAG
1 AAC-TTTAAAAATTTAAAAATCTTTTGCCCAAAAATCTTGAAAGTTATGCCCGAAAGTATTAGAG
* *
30992103 ATTATGTCCGAAGATCTTACAAATTTTAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGA
65 ATTACGTCCGAAGATCTTACAAATTCTAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGA
30992167 AACTTTAAAAATTTAAAAATCTTTT
1 AACTTTAAAAATTTAAAAATCTTTT
30992192 TAAACGTGAC
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
127 3 0.02
128 93 0.68
129 39 0.28
130 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (128 bp):
AACTTTAAAAATTTAAAAATCTTTTGCCCAAAAATCTTGAAAGTTATGCCCGAAAGTATTAGAGA
TTACGTCCGAAGATCTTACAAATTCTAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGA
Found at i:30993988 original size:10 final size:9
Alignment explanation
Indices: 30993971--30993998 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30993961 TCATCGAAAG
30993971 TATTTTTTT
1 TATTTTTTT
30993980 TATTTTTTT
1 TATTTTTTT
30993989 TATTTTTTT
1 TATTTTTTT
30993998 T
1 T
30993999 GTGATGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TATTTTTTT
Found at i:31000506 original size:15 final size:15
Alignment explanation
Indices: 31000483--31000522 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
31000473 TTTTTCAAAA
*
31000483 TTTTAGATTTTAAGG
1 TTTTGGATTTTAAGG
31000498 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
31000513 TTTAGGATTT
1 TTTTGGATTT
31000523 AGGATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:31000587 original size:28 final size:27
Alignment explanation
Indices: 31000556--31000877 Score: 171
Period size: 29 Copynumber: 11.2 Consensus size: 27
31000546 AGTTTCAGAT
31000556 TTTGAGGTTTAGGTTTTTGATTTTAGGG
1 TTTGAGGTTTAGG-TTTTGATTTTAGGG
* * *
31000584 TTTGAGATTTGGGGTTTTGATTTTATGG
1 TTTGAGGTTT-AGGTTTTGATTTTAGGG
* * *
31000612 TTTGAGATTTGAAGTTTTGGTTTTAGGG
1 TTTGAGGTTT-AGGTTTTGATTTTAGGG
* * * *
31000640 TTTAAAGGATTTACGATTTAATTTTAGGG
1 TTT-GAGG-TTTAGGTTTTGATTTTAGGG
* *
31000669 TTTGAAGGTTTGGAGTTTTGATTTTAGAGC
1 TTTG-AGGTTTAG-GTTTTGATTTTAG-GG
* *
31000699 TTGGAGGTTTAGGGTTTTGATTGTAGGG
1 TTTGAGGTTTA-GGTTTTGATTTTAGGG
** *
31000727 TTTGGAAGGTGAAGGTTTTAATTTTAGGG
1 TTT-G-AGGTTTAGGTTTTGATTTTAGGG
* * *
31000756 TTTGGAAGGTTTAGGGTTTCATTTTTAAGG
1 TTT-G-AGGTTTAGGTTTTGA-TTTTAGGG
* * *
31000786 TTAGGAGGTTTA-ATGTTTAATTTTAGGG
1 TT-TGAGGTTTAGGT-TTTGATTTTAGGG
** * *
31000814 TTTGAAAATTTTAGAGTTTCGTTTTTAGGG
1 TTTG--AGGTTTAG-GTTTTGATTTTAGGG
* *
31000844 TTTG-GATTTTAGGGTTTTGGATTTGAGGG
1 TTTGAG-GTTTA-GGTTTT-GATTTTAGGG
31000873 TTTGA
1 TTTGA
31000878 AAGTTTTAAT
Statistics
Matches: 225, Mismatches: 49, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.00
28 73 0.32
29 113 0.50
30 37 0.16
31 1 0.00
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (27 bp):
TTTGAGGTTTAGGTTTTGATTTTAGGG
Found at i:31000620 original size:15 final size:15
Alignment explanation
Indices: 31000574--31000642 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 15
31000564 TTAGGTTTTT
31000574 GATTTTAGGGTTTGA
1 GATTTTAGGGTTTGA
* *
31000589 GA-TTTGGGGTTT-T
1 GATTTTAGGGTTTGA
*
31000602 GATTTTATGGTTTGA
1 GATTTTAGGGTTTGA
* * *
31000617 GATTTGAAGTTTTG-
1 GATTTTAGGGTTTGA
31000631 G-TTTTAGGGTTT
1 GATTTTAGGGTTT
31000643 AAAGGATTTA
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
13 10 0.24
14 18 0.44
15 13 0.32
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (15 bp):
GATTTTAGGGTTTGA
Found at i:31000726 original size:58 final size:58
Alignment explanation
Indices: 31000570--31000817 Score: 206
Period size: 58 Copynumber: 4.3 Consensus size: 58
31000560 AGGTTTAGGT
* * * *
31000570 TTTTGATTTTAGGGTTT-GAGATTTGGGGTTTTGATTTTATGGTTTG-AGATTTGAAG
1 TTTTGATTTTAGGGTTTGGAGGTTTAGGGTTTTGATTTTAGGGTTTGAAGGTTTGAAG
* ** * * * *
31000626 TTTTGGTTTTAGGGTTTAAAGGATTTA-CGATTTAATTTTAGGGTTTGAAGGTTTGGAG
1 TTTTGATTTTAGGGTTTGGAGG-TTTAGGGTTTTGATTTTAGGGTTTGAAGGTTTGAAG
* * *
31000684 TTTTGATTTTAGAGCTTGGAGGTTTAGGGTTTTGATTGTAGGGTTTGGAAGG--TGAAGG
1 TTTTGATTTTAGGGTTTGGAGGTTTAGGGTTTTGATTTTAGGGTTT-GAAGGTTTGAA-G
* * * * *
31000742 TTTTAATTTTAGGGTTTGGAAGGTTTAGGG-TTTCATTTTTAAGGTTAGGAGGTTT-AA-
1 TTTTGATTTTAGGGTTTGG-AGGTTTAGGGTTTTGA-TTTTAGGGTTTGAAGGTTTGAAG
*
31000799 TGTTTAATTTTAGGGTTTG
1 T-TTTGATTTTAGGGTTTG
31000818 AAAATTTTAG
Statistics
Matches: 153, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
56 16 0.10
57 26 0.17
58 85 0.56
59 25 0.16
60 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (58 bp):
TTTTGATTTTAGGGTTTGGAGGTTTAGGGTTTTGATTTTAGGGTTTGAAGGTTTGAAG
Found at i:31000813 original size:87 final size:87
Alignment explanation
Indices: 31000656--31000817 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 87
31000646 GGATTTACGA
* * *
31000656 TTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTGATTTTAGAGCTTGGAGGTTTAGGGTTTTGATT
1 TTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTCATTTTAGAGCTTGGAGGTTTAAGGTTTTAATT
31000721 GTAGGGTTTGGAAGGTGAAGGT
66 GTAGGGTTTGGAAGGTGAAGGT
* *
31000743 TTTAATTTTAGGGTTTGGAAGGTTTAGG-G-TTTCATTTTTA-AGGTTAGGAGGTTTAATG-TTT
1 TTTAATTTTAGGGTTT-GAAGGTTT-GGAGTTTTCA-TTTTAGAGCTT-GGAGGTTTAAGGTTTT
*
31000804 AATTTTAGGGTTTG
62 AATTGTAGGGTTTG
31000818 AAAATTTTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
87 39 0.60
88 24 0.37
89 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (87 bp):
TTTAATTTTAGGGTTTGAAGGTTTGGAGTTTTCATTTTAGAGCTTGGAGGTTTAAGGTTTTAATT
GTAGGGTTTGGAAGGTGAAGGT
Found at i:31000841 original size:14 final size:14
Alignment explanation
Indices: 31000821--31000875 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
31000811 GGGTTTGAAA
*
31000821 ATTTTAGAGTTTCG
1 ATTTTAGGGTTTCG
* *
31000835 TTTTTAGGGTTTGG
1 ATTTTAGGGTTTCG
*
31000849 ATTTTAGGGTTTTGG
1 ATTTTAGGG-TTTCG
*
31000864 ATTTGAGGGTTT
1 ATTTTAGGGTTT
31000876 GAAAGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.15, C:0.02, G:0.31, T:0.53
Consensus pattern (14 bp):
ATTTTAGGGTTTCG
Found at i:31000844 original size:88 final size:88
Alignment explanation
Indices: 31000748--31000934 Score: 211
Period size: 88 Copynumber: 2.1 Consensus size: 88
31000738 AAGGTTTTAA
* * *
31000748 TTTTAGGGTTTGGAAGGTTTAGGG-TTT-CATTTTTAAGGTTAG-GAGGTTTAATGTTTAATTTT
1 TTTTAGGGTTTGG-A-GTTTAGGGTTTTGCA-TTTGAAGGTTAGAAAGGTTTAATATTTAATTTT
*
31000810 AGGGTTT-GAAAATTTTAGAGTTTCGT
63 AGGGTTTGGAAAA-GTTAGAGTTTCGT
* * * * * *
31000836 TTTTAGGGTTTGGATTTTAGGGTTTTGGATTTGAGGGTTTGAAAGTTTTAATATTTAATTTTTGG
1 TTTTAGGGTTTGGAGTTTAGGGTTTTGCATTTGAAGGTTAGAAAGGTTTAATATTTAATTTTAGG
*
31000901 GTTTGGGAAAGTTAGAGTTTCGT
66 GTTTGGAAAAGTTAGAGTTTCGT
31000924 TTTTAGGGTTT
1 TTTTAGGGTTT
31000935 TCTTTTTCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
86 7 0.08
87 13 0.15
88 60 0.71
89 4 0.05
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (88 bp):
TTTTAGGGTTTGGAGTTTAGGGTTTTGCATTTGAAGGTTAGAAAGGTTTAATATTTAATTTTAGG
GTTTGGAAAAGTTAGAGTTTCGT
Found at i:31000862 original size:15 final size:15
Alignment explanation
Indices: 31000836--31000875 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
31000826 AGAGTTTCGT
31000836 TTTTAGGG-TTTGGA
1 TTTTAGGGTTTTGGA
31000850 TTTTAGGGTTTTGGA
1 TTTTAGGGTTTTGGA
*
31000865 TTTGAGGGTTT
1 TTTTAGGGTTT
31000876 GAAAGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (15 bp):
TTTTAGGGTTTTGGA
Found at i:31001026 original size:44 final size:44
Alignment explanation
Indices: 31000954--31001087 Score: 184
Period size: 44 Copynumber: 3.0 Consensus size: 44
31000944 AAATTTGAGG
* *
31000954 TTTA-GGGTTTTGATTTAAGA-GTTTGGATTTTAGGGATTTTGGAT
1 TTTAGGGGTTTGGATTTAA-ATGTTTGGATTTTAGGG-TTTTGAAT
*
31000998 TTT-GGGGTTTGGATTTAAATGTTAGGATTTTAGGGTTTTGAAT
1 TTTAGGGGTTTGGATTTAAATGTTTGGATTTTAGGGTTTTGAAT
*
31001041 TTTAGGGGTTTGGATTTAAAGTGTTTGGATTTTAGGGGTTTGAAT
1 TTTAGGGGTTTGGATTTAAA-TGTTTGGATTTTAGGGTTTTGAAT
31001086 TT
1 TT
31001088 AAGAATTAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
43 11 0.14
44 46 0.57
45 24 0.30
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (44 bp):
TTTAGGGGTTTGGATTTAAATGTTTGGATTTTAGGGTTTTGAAT
Found at i:31001081 original size:15 final size:15
Alignment explanation
Indices: 31000974--31001087 Score: 106
Period size: 15 Copynumber: 7.7 Consensus size: 15
31000964 TGATTTAAGA
31000974 GTTTGGATTTTAGGG
1 GTTTGGATTTTAGGG
*
31000989 ATTTTGGATTTT-GGG
1 -GTTTGGATTTTAGGG
***
31001004 GTTTGGA-TTTAAAT
1 GTTTGGATTTTAGGG
*
31001018 GTTAGGATTTTAGGG
1 GTTTGGATTTTAGGG
* *
31001033 TTTTGAATTTTAGGG
1 GTTTGGATTTTAGGG
* * *
31001048 GTTTGGATTTAAAGT
1 GTTTGGATTTTAGGG
31001063 GTTTGGATTTTAGGG
1 GTTTGGATTTTAGGG
*
31001078 GTTTGAATTT
1 GTTTGGATTT
31001088 AAGAATTAGT
Statistics
Matches: 75, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
13 3 0.04
14 12 0.16
15 50 0.67
16 10 0.13
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (15 bp):
GTTTGGATTTTAGGG
Found at i:31006876 original size:18 final size:16
Alignment explanation
Indices: 31006853--31006913 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 16
31006843 ATTTTTTATG
31006853 ATTAAAAAAAATTAATTA
1 ATTAAAAAAAATTAA--A
31006871 ATT-AAAAAAATTAAAAA
1 ATTAAAAAAAATT--AAA
31006888 ATTAAAATTAAAATTAAA
1 ATTAAAA--AAAATTAAA
31006906 ATTAAAAA
1 ATTAAAAA
31006914 TAAAAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 16 0.42
19 2 0.05
20 6 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAAAAATTAAA
Done.