Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 114 of 127
Found at i:21410501 original size:22 final size:23
Alignment explanation
Indices: 21410462--21410506 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
21410452 TTCTCATATT
*
21410462 TAAAATAAATTAAATAAA-ATCA
1 TAAAATAAAATAAATAAATATCA
**
21410484 TAAAATAAAATATTTAAATATCA
1 TAAAATAAAATAAATAAATATCA
21410507 AAATATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAATAAAATAAATAAATATCA
Found at i:21411222 original size:2 final size:2
Alignment explanation
Indices: 21411217--21411253 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21411207 AATGTGTGTG
21411217 TA TA 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 TA TA T
21411254 TTGAGATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21417576 original size:153 final size:153
Alignment explanation
Indices: 21417298--21417689 Score: 730
Period size: 153 Copynumber: 2.6 Consensus size: 153
21417288 TAGGGGGAAG
21417298 TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
1 TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
21417363 TATTTGGTTGTCCATTATTTGGGGAAGCTGTTCTCACTGCCACACACATTATAATTAGGTTACTT
66 TATTTGGTTGTCCATTATTTGGGGAAGCTGTTCTCACTGCCACACACATTATAATTAGGTTACTT
21417428 TCAAGGTTTTTGAGATTTTAAAC
131 TCAAGGTTTTTGAGATTTTAAAC
21417451 TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
1 TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
21417516 TATTTGGTTGTCCATTATTTGGGGAAGCTGTTCTCACTGCCACACACATTATAATTAGGTTACTT
66 TATTTGGTTGTCCATTATTTGGGGAAGCTGTTCTCACTGCCACACACATTATAATTAGGTTACTT
21417581 TCAAGGTTTTTGAGATTTTAAAC
131 TCAAGGTTTTTGAGATTTTAAAC
* * * *
21417604 TCCTACGAAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACACCTTGGA
1 TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
* *
21417669 TATTTGATTGTACATTATTTG
66 TATTTGGTTGTCCATTATTTG
21417690 TTCATGTTCA
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 233 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (153 bp):
TTCTACGGAACTACTCTTAGAATTCTATCCCAACTTTAATACTATAAACAACCTCACATCTCGGA
TATTTGGTTGTCCATTATTTGGGGAAGCTGTTCTCACTGCCACACACATTATAATTAGGTTACTT
TCAAGGTTTTTGAGATTTTAAAC
Found at i:21422567 original size:2 final size:2
Alignment explanation
Indices: 21422560--21422589 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21422550 AGTAAACCAA
21422560 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
21422590 TTGGTTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21423391 original size:2 final size:2
Alignment explanation
Indices: 21423384--21423417 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
21423374 AGGGTAGGCT
21423384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
21423418 TAATAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21431177 original size:16 final size:16
Alignment explanation
Indices: 21431155--21431194 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
21431145 TTAAAATTTG
21431155 CAAAAAAAAAATTTAT
1 CAAAAAAAAAATTTAT
* **
21431171 TAAAAAAAATTTTTAT
1 CAAAAAAAAAATTTAT
21431187 CAAAAAAA
1 CAAAAAAA
21431195 TCATAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
CAAAAAAAAAATTTAT
Found at i:21431195 original size:15 final size:14
Alignment explanation
Indices: 21431158--21431195 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
21431148 AAATTTGCAA
21431158 AAAAAAAATTTATT
1 AAAAAAAATTTATT
21431172 AAAAAAAATTT-TT
1 AAAAAAAATTTATT
21431185 ATCAAAAAAAT
1 A--AAAAAAAT
21431196 CATAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 11 0.50
15 8 0.36
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAAAATTTATT
Found at i:21431695 original size:24 final size:23
Alignment explanation
Indices: 21431668--21431714 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21431658 GGATTTTTGG
21431668 AAAGGTATATAACTTTTTGAAAAT
1 AAAGGTATAT-ACTTTTTGAAAAT
* *
21431692 AAAGTTATATATTTTTTGAAAAT
1 AAAGGTATATACTTTTTGAAAAT
21431715 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
AAAGGTATATACTTTTTGAAAAT
Found at i:21434362 original size:21 final size:20
Alignment explanation
Indices: 21434323--21434363 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21434313 TCCCCACATC
* *
21434323 TGTTTTTTTTTTTTTTTTCT
1 TGTTTTTTTTTTATCTTTCT
21434343 TGTTTTTTTTATTATCTTTCT
1 TGTTTTTTTT-TTATCTTTCT
21434364 AATCAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (20 bp):
TGTTTTTTTTTTATCTTTCT
Found at i:21435378 original size:19 final size:19
Alignment explanation
Indices: 21435346--21435403 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 19
21435336 GAAGTGTGAG
21435346 TATATAAA-ACTATTATTTT
1 TATATAAATA-TATTATTTT
*
21435365 TATATAAATATA-T-TTAT
1 TATATAAATATATTATTTT
*
21435382 TATATATATATATATATTTT
1 TATATAAATATAT-TATTTT
21435402 TA
1 TA
21435404 ACCTTAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 14 0.44
18 1 0.03
19 11 0.34
20 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATAAATATATTATTTT
Found at i:21435383 original size:23 final size:23
Alignment explanation
Indices: 21435356--21435403 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
21435346 TATATAAAAC
* *
21435356 TATTATTTTTATATAAATATATT
1 TATTATATATATATAAATATATT
* *
21435379 TATTATATATATATATATATTTT
1 TATTATATATATATAAATATATT
21435402 TA
1 TA
21435404 ACCTTAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATATATATATAAATATATT
Found at i:21440081 original size:21 final size:22
Alignment explanation
Indices: 21440043--21440094 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
21440033 TTCGAAATTA
21440043 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
21440065 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
21440086 AT-AAATATT
1 ATAAAATATT
21440095 TAAATATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:21440099 original size:14 final size:14
Alignment explanation
Indices: 21440082--21440128 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
21440072 ATTATTTTTA
21440082 AAATATAAATATTT
1 AAATATAAATATTT
* *
21440096 AAATATAATTATAT
1 AAATATAAATATTT
* *
21440110 AAATATATATAATT
1 AAATATAAATATTT
21440124 AAATA
1 AAATA
21440129 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATATAAATATTT
Found at i:21440141 original size:28 final size:27
Alignment explanation
Indices: 21440080--21440142 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
21440070 ATATTATTTT
*
21440080 TAAAATATAAATATTTAAATATAATTA
1 TAAAATATAAATAATTAAATATAATTA
*
21440107 TATAAATATATATAATTAAATAATTAATTA
1 TA-AAATATAAATAATTAAAT-A-TAATTA
21440137 -AAAATA
1 TAAAATA
21440143 ATTTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.06
28 21 0.68
29 2 0.06
30 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAAATATAAATAATTAAATATAATTA
Found at i:21441534 original size:21 final size:19
Alignment explanation
Indices: 21441503--21441585 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 19
21441493 ATATATTAAT
*
21441503 ATATATTTTTTCAATAAAA
1 ATATATTTTTTAAATAAAA
21441522 ATATATTAATTTTAAATAATAA
1 ATATATT--TTTTAAATAA-AA
* * *
21441544 TTTATATTATTTAATTAAAA
1 -ATATATTTTTTAAATAAAA
* *
21441564 AT-T-TTATTT-ACTAAAA
1 ATATATTTTTTAAATAAAA
21441580 ATATAT
1 ATATAT
21441586 AAATATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
16 8 0.15
17 7 0.13
18 2 0.04
19 8 0.15
20 2 0.04
21 17 0.33
22 2 0.04
23 6 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTTTTTAAATAAAA
Found at i:21442681 original size:2 final size:2
Alignment explanation
Indices: 21442674--21442703 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21442664 CCTTTATCAA
21442674 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
21442704 TAGCTACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21449327 original size:2 final size:2
Alignment explanation
Indices: 21449322--21449346 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21449312 ATATATATCT
21449322 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
21449347 AAACAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21450299 original size:28 final size:29
Alignment explanation
Indices: 21450267--21450325 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
21450257 ATGAACCATG
*
21450267 TCAGTCAATGAGC-TAACTCTTAAAGAAA
1 TCAGTCAAAGAGCTTAACTCTTAAAGAAA
*
21450295 TCAGTTAAAGAGCTGTTAACTCTTAAAGAAA
1 TCAGTCAAAGAGC--TTAACTCTTAAAGAAA
21450326 CAACATAGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
31 15 0.58
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (29 bp):
TCAGTCAAAGAGCTTAACTCTTAAAGAAA
Found at i:21451320 original size:36 final size:36
Alignment explanation
Indices: 21451280--21451351 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
21451270 ATCATGGAAA
21451280 GAACAGTTAGAATGGTAATAAGCATCATTAATAACT
1 GAACAGTTAGAATGGTAATAAGCATCATTAATAACT
*
21451316 GAACAGTTAGAATGGTATTAAGCATCATTAATAACT
1 GAACAGTTAGAATGGTAATAAGCATCATTAATAACT
21451352 AAGGGCAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (36 bp):
GAACAGTTAGAATGGTAATAAGCATCATTAATAACT
Found at i:21454503 original size:37 final size:37
Alignment explanation
Indices: 21454447--21454521 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
21454437 GAGCAAGCTG
* *
21454447 AACAAGTAGGTATCGTCACCACTTAATGAGCTAGAAA
1 AACAAGTAGATATCGTCACCACTAAATGAGCTAGAAA
**
21454484 AACAAGTAGATATTTTCACCACTAAATGAGCTAGAAA
1 AACAAGTAGATATCGTCACCACTAAATGAGCTAGAAA
21454521 A
1 A
21454522 CCAATACACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (37 bp):
AACAAGTAGATATCGTCACCACTAAATGAGCTAGAAA
Found at i:21465388 original size:16 final size:18
Alignment explanation
Indices: 21465340--21465389 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
21465330 AATATATATT
*
21465340 TATTGTTATTTAATTATA
1 TATTGTTATTTAATGATA
*
21465358 TATGTATTATATTAATGA-A
1 TAT-TGTTAT-TTAATGATA
21465377 -ATTGTTATTTAAT
1 TATTGTTATTTAAT
21465390 ATTGTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
18 5 0.19
19 6 0.22
20 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTGTTATTTAATGATA
Found at i:21466860 original size:52 final size:51
Alignment explanation
Indices: 21466801--21466919 Score: 125
Period size: 53 Copynumber: 2.3 Consensus size: 51
21466791 TAAAAGAAAT
* * *
21466801 TAAAAAATACAAAAAATATA-TTTTAAAAATTTAAAAAAATTTTAAAAATCA
1 TAAAAAATACAAAAAATAAATTTTTAAAAATTAAAAAAAATTATAAAAA-CA
** * *
21466852 TAACAAAATA-AAAACCTTAAATTTTTAAAAATTAAAAAAAATTATGAAAACT
1 TAA-AAAATACAAAA-AATAAATTTTTAAAAATTAAAAAAAATTATAAAAACA
*
21466904 TAAAAAATTCAAAAAA
1 TAAAAAATACAAAAAA
21466920 ATCTTAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
51 12 0.22
52 17 0.31
53 25 0.46
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.29
Consensus pattern (51 bp):
TAAAAAATACAAAAAATAAATTTTTAAAAATTAAAAAAAATTATAAAAACA
Found at i:21467171 original size:8 final size:8
Alignment explanation
Indices: 21467160--21467193 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
21467150 TTTTGAATTT
21467160 TTATTAAA
1 TTATTAAA
21467168 TTATTAAA
1 TTATTAAA
21467176 TTATTAAA
1 TTATTAAA
21467184 TT-TT-AA
1 TTATTAAA
21467190 TTAT
1 TTAT
21467194 CAGATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.16
7 3 0.12
8 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTAAA
Found at i:21467481 original size:20 final size:20
Alignment explanation
Indices: 21467458--21467498 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21467448 TGTTAAAATA
21467458 AATAATAAAATAAA-AATTTT
1 AATAATAAAA-AAATAATTTT
*
21467478 AATATTAAAAAAATAATTTT
1 AATAATAAAAAAATAATTTT
21467498 A
1 A
21467499 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAATAAAAAAATAATTTT
Found at i:21468810 original size:31 final size:28
Alignment explanation
Indices: 21468772--21468845 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
21468762 ATGTCAATTA
*
21468772 AATTTAATTTAAAATATAATAAGATGATAT
1 AATTTAATTTAAAATATAA-AA-ATAATAT
* **
21468802 GATATTAATAAAAAATATAAAAATAATAT
1 AAT-TTAATTTAAAATATAAAAATAATAT
21468831 AATTTAAATTTAAAA
1 AATTT-AATTTAAAA
21468846 AAATTATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.06
29 15 0.43
30 4 0.11
31 14 0.40
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
AATTTAATTTAAAATATAAAAATAATAT
Found at i:21468859 original size:21 final size:21
Alignment explanation
Indices: 21468809--21468876 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
21468799 TATGATATTA
*
21468809 ATAAA-AAATATAAAAATAA-T
1 ATAAATAAATTTAAAAA-AATT
*
21468829 ATAATTTAAATTTAAAAAAATT
1 ATAA-ATAAATTTAAAAAAATT
*
21468851 ATAAATAAATTTAATAAAATT
1 ATAAATAAATTTAAAAAAATT
21468872 A-AAAT
1 ATAAAT
21468877 TTTATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 18 0.44
22 15 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAAATAAATTTAAAAAAATT
Found at i:21469908 original size:22 final size:22
Alignment explanation
Indices: 21469880--21469930 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
21469870 ACTTGGGTTC
21469880 GATTCGAATAAAACTCGAATTT
1 GATTCGAATAAAACTCGAATTT
21469902 GATTCGAATAAAACTCGAATTT
1 GATTCGAATAAAACTCGAATTT
21469924 GATTCGA
1 GATTCGA
21469931 TTATTATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (22 bp):
GATTCGAATAAAACTCGAATTT
Found at i:21474946 original size:45 final size:45
Alignment explanation
Indices: 21474874--21474964 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
21474864 AATTGAAGTC
21474874 AGTATAGATTCCACCAGTACCTCCATCTCCTACTGAAATCAATCT
1 AGTATAGATTCCACCAGTACCTCCATCTCCTACTGAAATCAATCT
* * *
21474919 AGTATAGATTCCACCAGTATCTTCATCTCCTAGTGAAATCAATCT
1 AGTATAGATTCCACCAGTACCTCCATCTCCTACTGAAATCAATCT
21474964 A
1 A
21474965 CTAACCCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (45 bp):
AGTATAGATTCCACCAGTACCTCCATCTCCTACTGAAATCAATCT
Found at i:21488671 original size:22 final size:22
Alignment explanation
Indices: 21488643--21488686 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21488633 CTAAATCTTC
*
21488643 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21488665 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21488687 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:21492155 original size:18 final size:18
Alignment explanation
Indices: 21492129--21492163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21492119 TAATCCATGA
*
21492129 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
21492147 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
21492164 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:21492390 original size:23 final size:25
Alignment explanation
Indices: 21492335--21492396 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
21492325 TTGAAAGGGT
* *
21492335 TCGGCAATGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAACAGAAG
21492360 TCGGCAATGAAGGCCTAAA-A-AAG
1 TCGGCAATGAAGGCCTAAACAGAAG
21492383 TCGGCAATGAAGGC
1 TCGGCAATGAAGGC
21492397 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 15 0.43
24 1 0.03
25 19 0.54
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (25 bp):
TCGGCAATGAAGGCCTAAACAGAAG
Found at i:21492572 original size:22 final size:22
Alignment explanation
Indices: 21492544--21492587 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21492534 CTAAATCTTC
*
21492544 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21492566 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21492588 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:21492798 original size:22 final size:22
Alignment explanation
Indices: 21492770--21492813 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21492760 CTAAATCTTC
*
21492770 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21492792 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
21492814 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:21492836 original size:226 final size:226
Alignment explanation
Indices: 21492442--21492866 Score: 850
Period size: 226 Copynumber: 1.9 Consensus size: 226
21492432 TGATACCATG
21492442 TGGAAATTGAATGTATATTGAAAAACTGCTTATAAACAATTATACAAGAATCTTAGGTTTATATA
1 TGGAAATTGAATGTATATTGAAAAACTGCTTATAAACAATTATACAAGAATCTTAGGTTTATATA
21492507 CAACTAACTAGGGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAAT
66 CAACTAACTAGGGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAAT
21492572 TCTAGAGATACAAATATAAATATACAGATTACAAGATTACAACCAGCTGTAAATAAGTGTTTTCC
131 TCTAGAGATACAAATATAAATATACAGATTACAAGATTACAACCAGCTGTAAATAAGTGTTTTCC
21492637 CACACTCCCCCTCAAGCTGGTGAATAGGTGT
196 CACACTCCCCCTCAAGCTGGTGAATAGGTGT
21492668 TGGAAATTGAATGTATATTGAAAAACTGCTTATAAACAATTATACAAGAATCTTAGGTTTATATA
1 TGGAAATTGAATGTATATTGAAAAACTGCTTATAAACAATTATACAAGAATCTTAGGTTTATATA
21492733 CAACTAACTAGGGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAAT
66 CAACTAACTAGGGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAAT
21492798 TCTAGAGATACAAATATAAATATACAGATTACAAGATTACAACCAGCTGTAAATAAGTGTTTTCC
131 TCTAGAGATACAAATATAAATATACAGATTACAAGATTACAACCAGCTGTAAATAAGTGTTTTCC
21492863 CACA
196 CACA
21492867 TTAGGTCTTG
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
226 199 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (226 bp):
TGGAAATTGAATGTATATTGAAAAACTGCTTATAAACAATTATACAAGAATCTTAGGTTTATATA
CAACTAACTAGGGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAAT
TCTAGAGATACAAATATAAATATACAGATTACAAGATTACAACCAGCTGTAAATAAGTGTTTTCC
CACACTCCCCCTCAAGCTGGTGAATAGGTGT
Found at i:21503763 original size:36 final size:36
Alignment explanation
Indices: 21503714--21503782 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
21503704 CATACGATAA
*
21503714 CTTCTTCAAGGAGATTGTTAATTGATTACACAATAT
1 CTTCTTCAAGGAGATAGTTAATTGATTACACAATAT
* *
21503750 CTTCTTCAGGGAGATAGTTAATTGTTTACACAA
1 CTTCTTCAAGGAGATAGTTAATTGATTACACAA
21503783 CTAATTCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (36 bp):
CTTCTTCAAGGAGATAGTTAATTGATTACACAATAT
Found at i:21506530 original size:3 final size:3
Alignment explanation
Indices: 21506524--21506561 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21506514 TGCATTTATT
21506524 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
21506562 TTGTAGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21506995 original size:20 final size:19
Alignment explanation
Indices: 21506948--21506995 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
21506938 ATGATCTGAT
21506948 TTAAAAT-TTAAATAAAAA
1 TTAAAATATTAAATAAAAA
* *
21506966 TTATATATATTTAATAAAAA
1 TTA-AAATATTAAATAAAAA
21506986 TATAAAATAT
1 T-TAAAATAT
21506996 ATTTCATAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 16 0.67
21 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAATATTAAATAAAAA
Found at i:21529003 original size:19 final size:19
Alignment explanation
Indices: 21528975--21529020 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
21528965 CTGAGAATTG
21528975 AAAAAAAAAA-AAACAAAAC
1 AAAAAAAAAAGAAA-AAAAC
* *
21528994 AAAAAGAAAAGAAAGAAAC
1 AAAAAAAAAAGAAAAAAAC
21529013 AAAAAAAA
1 AAAAAAAA
21529021 TGTCTCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAC
Found at i:21535798 original size:22 final size:22
Alignment explanation
Indices: 21535772--21535814 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21535762 TATATATTTA
*
21535772 TATTTGTATCCCTAGAATTAAG
1 TATTTATATCCCTAGAATTAAG
21535794 TATTTATATCCCTAGAATTAA
1 TATTTATATCCCTAGAATTAA
21535815 AGACAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
TATTTATATCCCTAGAATTAAG
Found at i:21540726 original size:16 final size:17
Alignment explanation
Indices: 21540692--21540726 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21540682 AAAAATTTTC
*
21540692 AAAAACTATAATTTCTT
1 AAAAACTATAATTTATT
21540709 AAAAACTATAA-TTATT
1 AAAAACTATAATTTATT
21540725 AA
1 AA
21540727 TAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAACTATAATTTATT
Found at i:21547728 original size:22 final size:24
Alignment explanation
Indices: 21547702--21547747 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
21547692 AATGTTATAC
21547702 AATTACATTT-TTTA-ATG-AATTT
1 AATTAC-TTTCTTTACATGTAATTT
21547724 AATTACTTTCTTTACATGTAATTT
1 AATTACTTTCTTTACATGTAATTT
21547748 TTCTATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 10 0.48
23 3 0.14
24 5 0.24
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTACTTTCTTTACATGTAATTT
Found at i:21550815 original size:55 final size:55
Alignment explanation
Indices: 21550745--21550990 Score: 190
Period size: 55 Copynumber: 4.6 Consensus size: 55
21550735 TAAAATATAA
*
21550745 TAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAA-TCATCAGTATATG
1 TAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAACT-ATCAGTATAGG
* * * * * *
21550800 TAAGAAAATTAAAACATACAAGTTTATACTAACAGTCTCTAACTATCGGTATAGG
1 TAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAACTATCAGTATAGG
* * * * * *
21550855 TAAAAAAATTAAAA-ATATAAGTCTACACTGACCGATGT-TAAGTGTCGGTATAGG
1 TAAAAAAATTAAAACATATAAGTCTATACTGA-CAATCTCTAACTATCAGTATAGG
** * * *
21550909 TAAGAAAAA-T------TATAAGTCTATACTGATGGATGT-TAACCATCAATATAGG
1 TAA-AAAAATTAAAACATATAAGTCTATACTGA-CAATCTCTAACTATCAGTATAGG
* *
21550958 TAAGAAAAATTAAAACATATAAATCTATTCTGA
1 TAA-AAAAATTAAAACATATAAGTCTATACTGA
21550991 TGGGCGCTAA
Statistics
Matches: 154, Mismatches: 27, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
49 40 0.26
50 1 0.01
54 31 0.20
55 67 0.44
56 15 0.10
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (55 bp):
TAAAAAAATTAAAACATATAAGTCTATACTGACAATCTCTAACTATCAGTATAGG
Found at i:21550934 original size:49 final size:49
Alignment explanation
Indices: 21550865--21550969 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 49
21550855 TAAAAAAATT
*** **
21550865 AAAAA-TATAAGTCTACACTGACCGATGTTAAGTGTCGGTATAGGTAAG
1 AAAAATTATAAGTCTACACTGACCGATGTTAACCATCAATATAGGTAAG
* **
21550913 AAAAATTATAAGTCTATACTGATGGATGTTAACCATCAATATAGGTAAG
1 AAAAATTATAAGTCTACACTGACCGATGTTAACCATCAATATAGGTAAG
21550962 AAAAATTA
1 AAAAATTA
21550970 AAACATATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 5 0.10
49 43 0.90
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (49 bp):
AAAAATTATAAGTCTACACTGACCGATGTTAACCATCAATATAGGTAAG
Found at i:21551011 original size:56 final size:55
Alignment explanation
Indices: 21550919--21551042 Score: 149
Period size: 56 Copynumber: 2.2 Consensus size: 55
21550909 TAAGAAAAAT
* * * *
21550919 TATAAGTCTATACTGATGGATGTTAACCATCAATATAGGTAAGAAAAATTAAAACA
1 TATAAATCTATACTGATGGACGCTAACCATCAATATAAGTAA-AAAAATTAAAACA
* * * * *
21550975 TATAAATCTATTCTGATGGGCGCTAACCGTCGATATAAGTAAAAAAATTAAAATA
1 TATAAATCTATACTGATGGACGCTAACCATCAATATAAGTAAAAAAATTAAAACA
*
21551030 TACAAATCTATAC
1 TATAAATCTATAC
21551043 CAATGAGCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
55 23 0.40
56 34 0.60
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (55 bp):
TATAAATCTATACTGATGGACGCTAACCATCAATATAAGTAAAAAAATTAAAACA
Found at i:21551072 original size:55 final size:55
Alignment explanation
Indices: 21550940--21551147 Score: 153
Period size: 55 Copynumber: 3.9 Consensus size: 55
21550930 ACTGATGGAT
* * * ** *
21550940 GTTAACCATCAATATAGGTAAGAAAAATTAAAACATATAAATCTATTCTGATGGGC
1 GTTAACCATCAGTATAGGTAA-AAAAATTAAAACATACAAATCTATACCAATGAGC
* * * *
21550996 GCTAACCGTC-GATATAAGTAAAAAAATTAAAATATACAAATCTATACCAATGAGC
1 GTTAACCATCAG-TATAGGTAAAAAAATTAAAACATACAAATCTATACCAATGAGC
* * * * *
21551051 TTTAAGCATCAGTATAGGT---AAAA--AAAA-TTACAAGTCTATACTAAT-AGGC
1 GTTAACCATCAGTATAGGTAAAAAAATTAAAACATACAAATCTATACCAATGA-GC
* * * *
21551100 GTTAACTATCGGTATAGGCAAGAAAAATTAAAACATACAAGTCTATAC
1 GTTAACCATCAGTATAGGTAA-AAAAATTAAAACATACAAATCTATAC
21551148 TGATAGGTGT
Statistics
Matches: 118, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
48 1 0.01
49 31 0.26
50 4 0.03
52 4 0.03
53 4 0.03
55 44 0.37
56 30 0.25
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (55 bp):
GTTAACCATCAGTATAGGTAAAAAAATTAAAACATACAAATCTATACCAATGAGC
Found at i:21562258 original size:17 final size:17
Alignment explanation
Indices: 21562238--21562270 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21562228 AATTTGAATC
*
21562238 TTTTATTTATTTATTTA
1 TTTTATTTATTAATTTA
21562255 TTTTATTTATTAATTT
1 TTTTATTTATTAATTT
21562271 TACCAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTAATTTA
Found at i:21562259 original size:13 final size:13
Alignment explanation
Indices: 21562239--21562272 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21562229 ATTTGAATCT
21562239 TTTA-TTTATTTA
1 TTTATTTTATTTA
21562251 TTTATTTTATTTA
1 TTTATTTTATTTA
*
21562264 TTAATTTTA
1 TTTATTTTA
21562273 CCAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:21567589 original size:19 final size:19
Alignment explanation
Indices: 21567565--21567629 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
21567555 CTACATTGTT
21567565 TATTTACATAACAAAATAA
1 TATTTACATAACAAAATAA
*
21567584 TATTTACATGA-AAAAT-A
1 TATTTACATAACAAAATAA
21567601 T-TTCTACTATAACAAAATAA
1 TATT-TAC-ATAACAAAATAA
21567621 TATTTACAT
1 TATTTACAT
21567630 GAAAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 5 0.13
18 8 0.21
19 17 0.44
20 5 0.13
21 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (19 bp):
TATTTACATAACAAAATAA
Found at i:21567613 original size:37 final size:37
Alignment explanation
Indices: 21567572--21567645 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21567562 GTTTATTTAC
21567572 ATAACAAAATAATATTTACATGAAAAATATTTCTACT
1 ATAACAAAATAATATTTACATGAAAAATATTTCTACT
21567609 ATAACAAAATAATATTTACATGAAAAATATTTCTACT
1 ATAACAAAATAATATTTACATGAAAAATATTTCTACT
21567646 CTTTTTATAT
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:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (37 bp):
ATAACAAAATAATATTTACATGAAAAATATTTCTACT
Found at i:21569947 original size:14 final size:15
Alignment explanation
Indices: 21569928--21569958 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21569918 ATCCACTACC
21569928 AAAAAATTAGAA-TA
1 AAAAAATTAGAAGTA
21569942 AAAAAATTAGAAGTA
1 AAAAAATTAGAAGTA
21569957 AA
1 AA
21569959 TAGCATAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAAAAATTAGAAGTA
Found at i:21572470 original size:15 final size:16
Alignment explanation
Indices: 21572451--21572488 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21572441 ATTAGTGTTG
21572451 TTATTATCATTATTAA
1 TTATTATCATTATTAA
**
21572467 -TATTATTGTTATTAA
1 TTATTATCATTATTAA
21572482 TTATTAT
1 TTATTAT
21572489 GAAACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATTATCATTATTAA
Found at i:21577751 original size:8 final size:8
Alignment explanation
Indices: 21577738--21577787 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
21577728 TGTTAGGATC
*
21577738 TATATATA
1 TATATATG
*
21577746 TATATATA
1 TATATATG
21577754 TATATATG
1 TATATATG
*
21577762 TATGTATG
1 TATATATG
*
21577770 TATGTATG
1 TATATATG
21577778 TATATATG
1 TATATATG
21577786 TA
1 TA
21577788 AGTATATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:21577755 original size:12 final size:12
Alignment explanation
Indices: 21577738--21577796 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
21577728 TGTTAGGATC
*
21577738 TATATATATATA
1 TATATATATATG
21577750 TATATATATATG
1 TATATATATATG
* *
21577762 TATGTATGTATG
1 TATATATATATG
*
21577774 TATGTATATATG
1 TATATATATATG
21577786 TA-AGTATATAT
1 TATA-TATATAT
21577797 TTTACAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (12 bp):
TATATATATATG
Found at i:21578751 original size:19 final size:19
Alignment explanation
Indices: 21578727--21578764 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21578717 AAGAAGATGA
*
21578727 TTGAAT-ATTCATAATTTTT
1 TTGAATCATTAAT-ATTTTT
21578746 TTGAATCATTAATATTTTT
1 TTGAATCATTAATATTTTT
21578765 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TTGAATCATTAATATTTTT
Found at i:21579647 original size:29 final size:30
Alignment explanation
Indices: 21579615--21579672 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
21579605 AAAAGAATTT
*
21579615 ATTTA-ACTAAAAATTAAAGATTTATTTAA
1 ATTTACACTAAAAATTAAAAATTTATTTAA
* *
21579644 ATTTACATTAAAATTTAAAAATTTATTTA
1 ATTTACACTAAAAATTAAAAATTTATTTA
21579673 GATACAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
ATTTACACTAAAAATTAAAAATTTATTTAA
Found at i:21581992 original size:228 final size:228
Alignment explanation
Indices: 21581563--21582701 Score: 1124
Period size: 228 Copynumber: 5.0 Consensus size: 228
21581553 GATTTAATAG
* * * * * *
21581563 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATCACCCTT-GAGGTGGAGAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCA-CCTTGGAGGTTGAAAGTTCAGACA
* * * * * * *
21581627 CCATCGACAATGTGAAGGCTAAGATTCAGGACAAAGAGGGGATCCCACCAGATCAGCAAAGGCTA
65 CCATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTT
* ** * *
21581692 ATCTTTGCTGGCAAA-CAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGT
130 ATCTTTGCTGG-AAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAGT
*
21581756 CGACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGC
194 CAACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGC
* * * * *
21581791 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
21581856 TATTGATAATGTCAAGGCTAAGATTCAAGACAAGGAAGGAATTCCC-CCAGACCAACAGAGGCTT
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAGGGGA-TCCCACCAGACCAGCAGAGGCTT
* ** * * *
21581920 ATCTTTGCCGGAAAGCAGCTTGAAGATGGTCGTACACTAGCAGACTATAACATCCAGAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAGTC
* *
21581985 CACCCTCCACCTAGTGCTTCGTCTTCGTGGTGGC
195 AACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGC
* * * * *
21582019 ATGCAAATCTTTGTCAAAACCCTCACTGGCAAGACCATTACCCTT-GAGGTTGAGAGTTCAGATA
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCA-CCTTGGAGGTTGAAAGTTCAGACA
* * * *
21582083 CCATTGATAATGTGAAAGCCAAA-ATTCAGGACAAAGAGGGTATCCCACCAGACCAGCAGA-GAT
65 CCATTGATAATGTG-AAGGCAAAGATTCAGGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCT
* * * * * * * *
21582146 TGATTTTTGCAGGAAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAATATCCAGAAGGAG
129 T-ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAG
* ** * * * *
21582211 TCAACTCTCCATTTGGTTCTCCGTCTTCGAGGTGGT
193 TCAACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGC
* * * * * * *
21582247 ATGCAGATCTTTGTGAAGACTCTGACCGGAAAGACTATCACTTTGGAGGTTGAAAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * * * *
21582312 CATTGACAACGTGAAGGCAAAGATCCAAGACAAGGAGGGTATCCCTCCTGACCAGCAAAGGCTCA
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTTA
* * * *
21582377 TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGTTGGCTGACTATAATATCCAAAAGGAGTCA
131 TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAGTCA
* * * * *
21582442 ACCCTTCACTTGGTG-TTACGACTGCGTGGTGGG
196 ACCCTCCACCTGGTGCTT-CGTCTTCGTGGTGGC
* * * * * *
21582475 ATGCAGATCTTTGTTAAGACCTTAACTGGAAAGACGATCACTTTGGAGGTTGAAAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * *
21582540 CATTGATAACGTTAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGG-TTG
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTT-
* * * * * * * * * *
21582604 ATATTTGCTGGAAAGCAGCTGGAGGACGGGAGAACTCTTGCAGATTATAACATCCAGAAGGAATC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAGTC
* * * * * * *
21582669 TACTCTTCATCTTGTCCTTCGCCTTCGTGGTGG
195 AACCCTCCACCTGGTGCTTCGTCTTCGTGGTGG
21582702 TTTCTAAGTT
Statistics
Matches: 751, Mismatches: 147, Indels: 26
0.81 0.16 0.03
Matches are distributed among these distances:
227 26 0.03
228 707 0.94
229 18 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAGGGGATCCCACCAGACCAGCAGAGGCTTA
TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACGCTAGCTGACTATAACATCCAGAAGGAGTCA
ACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGC
Found at i:21582424 original size:456 final size:455
Alignment explanation
Indices: 21581563--21582674 Score: 1269
Period size: 456 Copynumber: 2.4 Consensus size: 455
21581553 GATTTAATAG
* * *
21581563 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATCACCCTTGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
* * * * * * * * *
21581628 CATCGACAATGTGAAGGCTAAGATTCAGGACAAAGAGGGGATCCCACCAGATCAGCAAAGGCTAA
66 CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGA-GGGATCCCACCAGACCAGCAGAGGTTGA
* * * ** * * * * * *
21581693 TCTTTGCTGGCAAACAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGTCG
130 TATTTGCTGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTCA
* * * *
21581758 ACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGCATGCAAATCTTTGTCAAGACTCTCACTGGAAA
195 ACTCTCCACCTGGTGCTCCGTCTTCGAGGTGGCATGCAAATCTTTGTCAAGACTCTCACCGGAAA
* * * * * * *
21581823 GACAATTACCTTGGAGGTTGAAAGCTCTGACACTATTGATAATGTCAAGGCTAAGATTCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGACA
* * ** *
21581888 AGGAAGGAATTCCCCCAGACCAACAGAGGCTTATCTTTGCCGGAAAGCAGCTTGAAGATGGTCGT
325 AGGAAGGAATTCCCCCAGACCAACAAAGGCTCATCTTTGCCGGAAAGCAGCTTGAAGATGGGAGG
* * * *
21581953 ACACTAGCAGACTATAACATCCAGAAGGAGTCCACCCTCCACCTAGTGCTT-CGTCTTCGTGGTG
390 ACACTAGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACCTAGTG-TTACGACTGCGTGGTG
21582017 GC
454 GC
* * *
21582019 ATGCAAATCTTTGTCAAAACCCTCACTGGCAAGACCATTACCCTTGAGGTTGAGAGTTCAGATAC
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
*
21582084 CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAGGGTATCCCACCAGACCAGCAGAGATTGA
66 CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAGGG-ATCCCACCAGACCAGCAGAGGTTGA
* * * *
21582149 TTTTTGCAGGAAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAATATCCAGAAGGAGTCA
130 TATTTGCTGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTCA
** * * * * *
21582214 ACTCTCCATTTGGTTCTCCGTCTTCGAGGTGGTATGCAGATCTTTGTGAAGACTCTGACCGGAAA
195 ACTCTCCACCTGGTGCTCCGTCTTCGAGGTGGCATGCAAATCTTTGTCAAGACTCTCACCGGAAA
* * * *
21582279 GACTATCACTTTGGAGGTTGAAAGTTCAGACACCATTGACAACGTGAAGGCAAAGATCCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGACA
* * * * *
21582344 AGGAGGGTA-TCCCTCCTGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGAG
325 AGGAAGGAATTCCC-CCAGACCAACAAAGGCTCATCTTTGCCGGAAAGCAGCTTGAAGATGGGAG
** * * * * * *
21582408 GACGTTGGCTGACTATAATATCCAAAAGGAGTCAACCCTTCACTTGGTGTTACGACTGCGTGGTG
389 GACACTAGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACCTAGTGTTACGACTGCGTGGTG
*
21582473 GG
454 GC
* * * * * * * *
21582475 ATGCAGATCTTTGTTAAGACCTTAACTGGAAAGACGATCA-CTTTGGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTT-GAGGTTGAGAGTTCAGACA
* * * *
21582539 CCATTGATAACGT-TAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTT
65 CCATTGATAATGTGAAAGCCAAA-ATTCAGGACAAAG-AGGGATCCCACCAGACCAGCAGAGGTT
* * * * * * *
21582603 GATATTTGCTGGAAAGCAGCTGGAGGACGGGAGAACTCTTGCAGATTATAACATCCAGAAGGAAT
128 GATATTTGCTGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGT
*
21582668 CTACTCT
193 CAACTCT
21582675 TCATCTTGTC
Statistics
Matches: 549, Mismatches: 101, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
455 19 0.03
456 526 0.96
457 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (455 bp):
ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAGGGATCCCACCAGACCAGCAGAGGTTGAT
ATTTGCTGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTCAA
CTCTCCACCTGGTGCTCCGTCTTCGAGGTGGCATGCAAATCTTTGTCAAGACTCTCACCGGAAAG
ACAATCACCTTGGAGGTTGAAAGCTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGACAA
GGAAGGAATTCCCCCAGACCAACAAAGGCTCATCTTTGCCGGAAAGCAGCTTGAAGATGGGAGGA
CACTAGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACCTAGTGTTACGACTGCGTGGTGGC
Found at i:21584859 original size:24 final size:24
Alignment explanation
Indices: 21584831--21584878 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21584821 CCTTAATTAC
21584831 ATGGGGAGCTTTTATAATTTATAT
1 ATGGGGAGCTTTTATAATTTATAT
21584855 ATGGGGAGCTTTTATAATTTATAT
1 ATGGGGAGCTTTTATAATTTATAT
21584879 CAAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (24 bp):
ATGGGGAGCTTTTATAATTTATAT
Found at i:21585929 original size:21 final size:20
Alignment explanation
Indices: 21585900--21585940 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21585890 CCTAAATCAA
*
21585900 AATATTATTATTATATTAATT
1 AATAATATTATTAT-TTAATT
*
21585921 AATAATATTTTTATTTAATT
1 AATAATATTATTATTTAATT
21585941 TTACTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATAATATTATTATTTAATT
Found at i:21599615 original size:20 final size:21
Alignment explanation
Indices: 21599575--21599615 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21599565 CCTCATTAGG
* *
21599575 ATCAATTCGAAACAATTAAGA
1 ATCAATTCGAAAAAATCAAGA
21599596 ATCAA-TCGAAAAAATCAAGA
1 ATCAATTCGAAAAAATCAAGA
21599616 TAGAAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.20
Consensus pattern (21 bp):
ATCAATTCGAAAAAATCAAGA
Found at i:21601003 original size:34 final size:34
Alignment explanation
Indices: 21600904--21601003 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
21600894 AAGTTTCTTG
* * * * * *
21600904 AAAATAAATATCCGATAAGTTTTCAAACTTCTCG
1 AAAATAGATATCTGAGAAGTTTTAAAATTTCTCA
* *
21600938 AAAATGGATATTTGAGAAGTTTTAAAATTTCTCA
1 AAAATAGATATCTGAGAAGTTTTAAAATTTCTCA
*
21600972 AAAATAGATATCTGAGAA-TTCTTAAAGTTTCT
1 AAAATAGATATCTGAGAAGTT-TTAAAATTTCT
21601004 TAGATATCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 2 0.04
34 52 0.96
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (34 bp):
AAAATAGATATCTGAGAAGTTTTAAAATTTCTCA
Found at i:21602546 original size:2 final size:2
Alignment explanation
Indices: 21602503--21602534 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21602493 AGTTGTTTGG
21602503 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
21602535 GCAAGTATAT
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:21602674 original size:19 final size:19
Alignment explanation
Indices: 21602655--21602690 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21602645 TGTGATCTCT
21602655 TTTTA-TTTTTTATTTTTC
1 TTTTACTTTTTTATTTTTC
*
21602673 TTTTACTTTTTTCTTTTT
1 TTTTACTTTTTTATTTTT
21602691 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTACTTTTTTATTTTTC
Found at i:21604420 original size:18 final size:18
Alignment explanation
Indices: 21604399--21604452 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
21604389 TAAAGATTTT
21604399 ATTTAAATTTATATTAAA
1 ATTTAAATTTATATTAAA
* *
21604417 ATTTAAAATTT-TATTTAG
1 ATTT-AAATTTATATTAAA
*
21604435 ATATAAATTTAATATTAA
1 ATTTAAATTT-ATATTAA
21604453 GGACTTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.21
18 12 0.41
19 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTAAATTTATATTAAA
Found at i:21606764 original size:228 final size:228
Alignment explanation
Indices: 21606345--21607483 Score: 1137
Period size: 228 Copynumber: 5.0 Consensus size: 228
21606335 GATTTAATAG
* * * * * *
21606345 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATCACTCTT-GAGGTGGAGAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCAC-CTTGGAGGTTGAAAGTTCAGACA
* * * * * * *
21606409 CCATCGACAATGTGAAGGCTAAGATTCAGGACAAAGAAGGGATCCCACCAGATCAGCAAAGGCTA
65 CCATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGGCTT
* ** * * * * *
21606474 ATCTTTGCTGGCAAA-CAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGT
130 ATCTTTGCTGG-AAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGAGT
* *
21606538 CCACCCTCCACCTGGTGCTTCGACTACGTGGTGGC
194 CAACCCTCCACCTGGTGCTTCGACTTCGTGGTGGC
* * * *
21606573 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGTTCTGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * *
21606638 TATTGATAATGTCAAGGCTAAGATTCAAGACAAGGAAGGAATTCCC-CCAGACCAACAGAGGCTT
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAAGGGA-TCCCACCAGACCAGCAGAGGCTT
** * * *
21606702 ATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGTACACTGGCAGATTATAACATCCAGAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGAGTC
* * * *
21606767 CACCCTCCATCTAGTGCTTCGTCTTCGTGGTGGC
195 AACCCTCCACCTGGTGCTTCGACTTCGTGGTGGC
* * * *
21606801 ATGCAAATCTTTGTCAAAACCCTCACTGGCAAGACCATTACCCTT-GAGGTTGAGAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCA-CCTTGGAGGTTGAAAGTTCAGACA
** * *
21606865 CCATTGATAATGTGAAATCCAAA-ATTCAGGACAAAG-AGGGTATCCCACCAGACCAGCAGA-GA
65 CCATTGATAATGTG-AAGGCAAAGATTCAGGACAAGGAAGGG-ATCCCACCAGACCAGCAGAGGC
* * * * *
21606927 TTGATCTTTGCAGGAAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAATATCCAGAAGGA
128 TT-ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGA
* ** * * * *
21606992 GTCAACTCTCCATTTGGTTCTCCGCCTTCGTGGTGGT
192 GTCAACCCTCCACCTGGTGCTTCGACTTCGTGGTGGC
* * * * * *
21607029 ATGCAGATCTTTGTGAAGACTCTGACTGGAAAGACTATCACTTTGGAGGTTGAAAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * * *
21607094 CATTGACAACGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCCCCCTGACCAGCAAAGGCTC
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAAGGG-ATCCCACCAGACCAGCAGAGGCTT
* * * *
21607158 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTTTGGCTGACTATAATATCCAAAAGGAGTC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGAGTC
* * * *
21607223 AACCCTTCACTTGGTG-TTACGACTGCGTGGTGGG
195 AACCCTCCACCTGGTGCTT-CGACTTCGTGGTGGC
* * * * * *
21607257 ATGCAGATCTTTGTTAAGACCTTAACTGGAAAGACGATCACTTTGGAGGTTGAAAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
* * *
21607322 CATTGATAACGTTAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCCGACCAGCAGAGG-TTG
66 CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGGCTT-
* * * * * * * * *
21607386 ATTTTTGCCGGAAAGCAGCTGGAGGACGGGAGAACTCTTGCAGATTATAACATCCAGAAGGAATC
130 ATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGAGTC
* * * * * * *
21607451 TACTCTTCATCTTGTCCTTCGCCTTCGTGGTGG
195 AACCCTCCACCTGGTGCTTCGACTTCGTGGTGG
21607484 TTTCTAAGTT
Statistics
Matches: 760, Mismatches: 136, Indels: 30
0.82 0.15 0.03
Matches are distributed among these distances:
227 27 0.04
228 712 0.94
229 21 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTTGAAAGTTCAGACAC
CATTGATAATGTGAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGAGGCTTA
TCTTTGCTGGAAAGCAGCTTGAAGATGGGAGGACTCTGGCTGATTATAACATCCAGAAGGAGTCA
ACCCTCCACCTGGTGCTTCGACTTCGTGGTGGC
Found at i:21607221 original size:456 final size:456
Alignment explanation
Indices: 21606345--21607484 Score: 1302
Period size: 456 Copynumber: 2.5 Consensus size: 456
21606335 GATTTAATAG
* * * *
21606345 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATCACTCTTGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
* * * * * * * * *
21606410 CATCGACAATGTGAAGGCTAAGATTCAGGACAAAGAAGGGATCCCACCAGATCAGCAAAGGCTAA
66 CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAAGGGATCCCACCAGACCAGCAGAGGTTGA
* * * ** * * * * * *
21606475 TCTTTGCTGGCAAACAACTTGAAGATGGTCGCACGCTAGCTGACTACAACATCCAGAAGGAGTCC
131 TCTTTGCAGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTCA
* ** * * * *
21606540 ACCCTCCACCTGGTGCTTCGACTACGTGGTGGCATGCAAATCTTTGTCAAGACTCTCACTGGAAA
196 ACTCTCCATTTGGTCCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTCAAGACTCTCACTGGAAA
* * * * * * *
21606605 GACAATTACCTTGGAGGTTGAAAGTTCTGACACTATTGATAATGTCAAGGCTAAGATTCAAGACA
261 GACAATCACCTTGGAGGTTGAAAGTTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGACA
* * * ** *
21606670 AGGAAGGAATTCCCCCAGACCAACAGAGGCTTATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGT
326 AGGAAGGAATCCCCCCAGACCAACAAAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGG
* * * * *
21606735 ACACTGGCAGATTATAACATCCAGAAGGAGTCCACCCTCCA-TCTAGTGCTT-CGTCTTCGTGGT
391 ACACTGGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACT-TAGTG-TTACGACTGCGTGGT
21606798 GGC
454 GGC
* *
21606801 ATGCAAATCTTTGTCAAAACCCTCACTGGCAAGACCATTACCCTTGAGGTTGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
* *
21606866 CATTGATAATGTGAAATCCAAAATTCAGGACAAAG-AGGGTATCCCACCAGACCAGCAGAGATTG
66 CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAAGGG-ATCCCACCAGACCAGCAGAGGTTG
* *
21606930 ATCTTTGCAGGAAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAATATCCAGAAGGAGTC
130 ATCTTTGCAGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTC
* * * * *
21606995 AACTCTCCATTTGGTTCTCCGCCTTCGTGGTGGTATGCAGATCTTTGTGAAGACTCTGACTGGAA
195 AACTCTCCATTTGGTCCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTCAAGACTCTCACTGGAA
* * *
21607060 AGACTATCACTTTGGAGGTTGAAAGTTCAGACACCATTGACAACGTGAAGGCAAAGATCCAAGAC
260 AGACAATCACCTTGGAGGTTGAAAGTTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGAC
* * * *
21607125 AAGGAGGGTATCCCCCCTGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGAG
325 AAGGAAGGAATCCCCCCAGACCAACAAAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGAG
** * * * *
21607190 GACTTTGGCTGACTATAATATCCAAAAGGAGTCAACCCTTCACTTGGTGTTACGACTGCGTGGTG
390 GACACTGGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACTTAGTGTTACGACTGCGTGGTG
*
21607255 GG
455 GC
* * * * * * * *
21607257 ATGCAGATCTTTGTTAAGACCTTAACTGGAAAGACGATCA-CTTTGGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTT-GAGGTTGAGAGTTCAGACA
* * * * *
21607321 CCATTGATAACGT-TAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCCGACCAGCAGAGGTT
65 CCATTGATAATGTGAAAGCCAAA-ATTCAGGACAAAGAAGGGATCCCACCAGACCAGCAGAGGTT
* * * * * * * * *
21607385 GATTTTTGCCGGAAAGCAGCTGGAGGACGGGAGAACTCTTGCAGATTATAACATCCAGAAGGAAT
129 GATCTTTGCAGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGT
* *
21607450 CTACTCTTCATCTT-GTCCTTCGCCTTCGTGGTGGT
194 CAACTCTCCAT-TTGGTCCTTCGCCTTCGTGGTGGT
21607485 TTCTAAGTTT
Statistics
Matches: 574, Mismatches: 103, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
455 15 0.03
456 552 0.96
457 7 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (456 bp):
ATGCAAATCTTTGTCAAAACCCTAACTGGCAAGACCATCACCCTTGAGGTTGAGAGTTCAGACAC
CATTGATAATGTGAAAGCCAAAATTCAGGACAAAGAAGGGATCCCACCAGACCAGCAGAGGTTGA
TCTTTGCAGGAAAACAGCTTGAAGATGGAAGAACTCTTGCTGATTATAACATCCAGAAGGAGTCA
ACTCTCCATTTGGTCCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTCAAGACTCTCACTGGAAA
GACAATCACCTTGGAGGTTGAAAGTTCAGACACCATTGACAACGTCAAGGCAAAGATCCAAGACA
AGGAAGGAATCCCCCCAGACCAACAAAGGCTCATCTTTGCTGGAAAGCAGCTTGAAGATGGGAGG
ACACTGGCAGACTATAACATCCAAAAGGAGTCAACCCTCCACTTAGTGTTACGACTGCGTGGTGG
C
Found at i:21621534 original size:29 final size:28
Alignment explanation
Indices: 21621501--21621558 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
21621491 GCCAGAGATA
* * *
21621501 GATTAAAATGCCTATCTCTGAAGGTTGTT
1 GATTAAAATGCC-ATCCCTAAAAGTTGTT
21621530 GATTAAAATGCCATCCCTAAAAGTTGTT
1 GATTAAAATGCCATCCCTAAAAGTTGTT
21621558 G
1 G
21621559 CTCTTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (28 bp):
GATTAAAATGCCATCCCTAAAAGTTGTT
Found at i:21623780 original size:22 final size:23
Alignment explanation
Indices: 21623753--21623815 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
21623743 ATAATCAGCT
21623753 AAATTAATATCTAATCAATAT-A
1 AAATTAATATCTAATCAATATCA
* * *
21623775 AAATTAATATCTAAT-ATTCTCT
1 AAATTAATATCTAATCAATATCA
*
21623797 AAATTAATATCAAATCAAT
1 AAATTAATATCTAATCAAT
21623816 CTAGAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTAATATCTAATCAATATCA
Found at i:21625613 original size:33 final size:33
Alignment explanation
Indices: 21625574--21625647 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
21625564 AATAATGACT
*
21625574 AAATCAAT-TCTTATAATCAGCTAAATTAATATC
1 AAATCAATATCTAATAATC-GCTAAATTAATATC
* * *
21625607 TAATCAATATCTAATATTCTCTAAATTAATATC
1 AAATCAATATCTAATAATCGCTAAATTAATATC
21625640 AAATCAAT
1 AAATCAAT
21625648 CTAGAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (33 bp):
AAATCAATATCTAATAATCGCTAAATTAATATC
Found at i:21625656 original size:33 final size:33
Alignment explanation
Indices: 21625594--21625657 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
21625584 TTATAATCAG
* **
21625594 CTAAATTAATATCTAATCAATATCTAATATTCT
1 CTAAATTAATATCAAATCAATATAGAATATTCT
*
21625627 CTAAATTAATATCAAATCAATCTAGAATATT
1 CTAAATTAATATCAAATCAATATAGAATATT
21625658 ACTAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (33 bp):
CTAAATTAATATCAAATCAATATAGAATATTCT
Found at i:21625690 original size:41 final size:42
Alignment explanation
Indices: 21625633--21625718 Score: 129
Period size: 41 Copynumber: 2.0 Consensus size: 42
21625623 TTCTCTAAAT
* *
21625633 TAATATCAAATCAATCTAGAATATTACTAAAATATTACTAGAA
1 TAATATC-AATCAATCTAAAATATTACAAAAATATTACTAGAA
*
21625676 TAATATC-ATCAATCTAAAATATTACAAAAATATTGCTAGAA
1 TAATATCAATCAATCTAAAATATTACAAAAATATTACTAGAA
21625717 TA
1 TA
21625719 TCATTGACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 33 0.82
43 7 0.17
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (42 bp):
TAATATCAATCAATCTAAAATATTACAAAAATATTACTAGAA
Found at i:21626573 original size:20 final size:20
Alignment explanation
Indices: 21626528--21626572 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
21626518 TTCCTTTTAA
*
21626528 TTTTTTTATGCTTTTTCTTT
1 TTTTTTTAGGCTTTTTCTTT
21626548 TTTTTTTAGG-TTTTT-TTT
1 TTTTTTTAGGCTTTTTCTTT
21626566 TTTTTTT
1 TTTTTTT
21626573 TGTTGTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 9 0.38
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTTTAGGCTTTTTCTTT
Found at i:21626860 original size:160 final size:157
Alignment explanation
Indices: 21626577--21626896 Score: 471
Period size: 160 Copynumber: 2.0 Consensus size: 157
21626567 TTTTTTTGTT
21626577 GTTCTTGATAATTGTTTATTTTGTCTTTATAATTCTTTTCTTCATATTTTTATTATGATTTTTAA
1 GTTCTTGATAATTGTTTATTTTGTCTTTATAATTCTTTTCTTCATATTTTTATTATGATTTTTAA
* * *
21626642 GATGACTTTAGCTTGTTCTCCTTTTTTTTTTGTGATTCAAAGTTTAAAAGTTAATCTAACTAAAA
66 AATGACTTTAGCTTGTTCTCCATTTTTTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTAAAA
* *
21626707 CTGATTATTGCATTAAATGATTAGGTTG
131 CTGATTATTACATGAAATGATT-GGTTG
* **
21626735 GTTCTTGATGATTGTTTGATTTTGTCTTTATAATTCTTTTCTTTTTATTTTTATTAGTGATTTTT
1 GTTCTTGATAATTGTTT-ATTTTGTCTTTATAATTCTTTTCTTCATATTTTTATTA-TGATTTTT
* * * * *
21626800 AAAATGACTTTAGC-TGATTCTTCATTTTTTTTTGTGTTTCAAGGCTTGAAGGTTAATCTAACTA
64 AAAATGACTTTAGCTTG-TTCTCCATTTTTTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTA
*
21626864 AAACTGATTATTACATGGAATGATTGGTTG
128 AAACTGATTATTACATGAAATGATTGGTTG
21626894 GTT
1 GTT
21626897 TGTTAAAAAG
Statistics
Matches: 145, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
158 16 0.11
159 46 0.32
160 83 0.57
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (157 bp):
GTTCTTGATAATTGTTTATTTTGTCTTTATAATTCTTTTCTTCATATTTTTATTATGATTTTTAA
AATGACTTTAGCTTGTTCTCCATTTTTTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTAAAA
CTGATTATTACATGAAATGATTGGTTG
Found at i:21626932 original size:160 final size:159
Alignment explanation
Indices: 21626603--21626946 Score: 383
Period size: 160 Copynumber: 2.2 Consensus size: 159
21626593 TATTTTGTCT
** * *
21626603 TTATAATTCTTTTCTTCATATTTTTATTATGATTTTTAAGATGACTTTAGCTTGTTCTCCTTTTT
1 TTATAATTCTTTTCTTTTTATTTTTATTATGATTTTTAAAATGACTTTAGCTTGTTCTCCATTTT
* * *
21626668 TTTTTGTGATTCAAAGTTTAAAAGTTAATCTAACTAAAACTGATTATTGCATTAAATGATTAGGT
66 TTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTAAAACTGATTATTACATGAAATGATTAGGT
* * *** * * *
21626733 TGGTTCTTGATGATTGTTTGATTTTGTCT
131 TGGTTCTTAAAGATTGAAAGATTTAGCCC
*
21626762 TTATAATTCTTTTCTTTTTATTTTTATTAGTGATTTTTAAAATGACTTTAGC-TGATTCTTCATT
1 TTATAATTCTTTTCTTTTTATTTTTATTA-TGATTTTTAAAATGACTTTAGCTTG-TTCTCCATT
* * * * *
21626826 TTTTTTTGTGTTTCAAGGCTTGAAGGTTAATCTAACTAAAACTGATTATTACATGGAATGATT-G
64 TTTTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTAAAACTGATTATTACATGAAATGATTAG
*
21626890 GTTGGTTTGTTAAAAAGATT-AAAG-TTTAAGCCC
129 GTTGG-TTCTT--AAAGATTGAAAGATTT-AGCCC
*
21626923 TTA-AATTCTTTTTTTTTTTATTTT
1 TTATAATTC-TTTTCTTTTTATTTT
21626947 ATCAATGAAA
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
159 35 0.23
160 95 0.61
161 20 0.13
162 5 0.03
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (159 bp):
TTATAATTCTTTTCTTTTTATTTTTATTATGATTTTTAAAATGACTTTAGCTTGTTCTCCATTTT
TTTTTGTGATTCAAAGCTTAAAAGTTAATCTAACTAAAACTGATTATTACATGAAATGATTAGGT
TGGTTCTTAAAGATTGAAAGATTTAGCCC
Found at i:21629370 original size:144 final size:145
Alignment explanation
Indices: 21629109--21629387 Score: 400
Period size: 144 Copynumber: 1.9 Consensus size: 145
21629099 TTTTGGTTTA
* ** *
21629109 CAACTTTTTAATGAAACTTGAAATGTATTATGCTGAGGAAGACTTACTATTCCAATTTCAAGTAG
1 CAACTTTTTAATGAAACTTGAAATGCATTATGCCAAGGAAGACTTACTATTCCAATTCCAAGTAG
* *
21629174 CTTTTCAAAAGAAGATGAACTCCATTTTGAGAATGAGTTGATAAAGTTCTCCAAAGCCAAGACAA
66 CTTTCCAAAAGAAAATGAACTCCATTTTGAGAATGAGTTGATAAAGTTCTCCAAAGCCAAGACAA
21629239 GAATGCCACAAAAAC
131 GAATGCCACAAAAAC
* * * *
21629254 CAACTTTTTAATGATACTTGAAATGCA-TATGCCAATGAGGACTTATTATTCCAATTCCAAGTAG
1 CAACTTTTTAATGAAACTTGAAATGCATTATGCCAAGGAAGACTTACTATTCCAATTCCAAGTAG
* * * **
21629318 -TTTCCTAAAAGAAAATGAACTCTATTTTGAGAATGAGTTGATAGATTTCTCCAAAGCCAAGGTA
66 CTTTCC-AAAAGAAAATGAACTCCATTTTGAGAATGAGTTGATAAAGTTCTCCAAAGCCAAGACA
21629382 AGAATG
130 AGAATG
21629388 TTGCAAATTG
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
143 4 0.03
144 89 0.75
145 25 0.21
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (145 bp):
CAACTTTTTAATGAAACTTGAAATGCATTATGCCAAGGAAGACTTACTATTCCAATTCCAAGTAG
CTTTCCAAAAGAAAATGAACTCCATTTTGAGAATGAGTTGATAAAGTTCTCCAAAGCCAAGACAA
GAATGCCACAAAAAC
Found at i:21631326 original size:39 final size:41
Alignment explanation
Indices: 21631282--21631359 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
21631272 TTCTCATGAA
* *
21631282 CTTACTTCTC-TT-TTTTTTAATCTTTTCTTCATTTGTTAC
1 CTTACTTCTCTTTCTTTTTTAATCCTCTCTTCATTTGTTAC
*
21631321 CTTACTTTTCTTTCTTTTTTAATCCTCTCTTCATTTGTT
1 CTTACTTCTCTTTCTTTTTTAATCCTCTCTTCATTTGTT
21631360 GGTTTCATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 9 0.26
40 2 0.06
41 23 0.68
ACGTcount: A:0.12, C:0.22, G:0.03, T:0.64
Consensus pattern (41 bp):
CTTACTTCTCTTTCTTTTTTAATCCTCTCTTCATTTGTTAC
Found at i:21633987 original size:42 final size:41
Alignment explanation
Indices: 21633928--21634140 Score: 279
Period size: 41 Copynumber: 5.2 Consensus size: 41
21633918 TTTTAAAAAG
* *
21633928 AAAATAAA--GCTCCTCTAAACAGAGGCTCAACAACTTTGA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA
* *
21633967 AACAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGG
1 AA-AATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA
* *
21634009 AAAATAAATTGCTCTTCTAAACAGAGGCACCATAACTTTGGA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT-GA
* * * *
21634051 AAAATAAATTGCTCCTCTAAATAAAGGTACCATAACTTTGA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA
*
21634092 AAAATAAATTGCTCCTTTAAACAGAGGCACCACAACTTTG-
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA
*
21634132 GAAATAAAT
1 AAAATAAAT
21634141 AATGCTTATC
Statistics
Matches: 152, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 14 0.09
41 71 0.47
42 65 0.43
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (41 bp):
AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGA
Found at i:21634028 original size:41 final size:41
Alignment explanation
Indices: 21633927--21634222 Score: 255
Period size: 42 Copynumber: 7.2 Consensus size: 41
21633917 TTTTTAAAAA
* * * *
21633927 GAAAATAAA--GCTCCTCTAAACAGAGGCTCAACAACTTTG
1 GAAAATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
* *
21633966 AAACAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTG
1 GAA-AATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
* *
21634008 GAAAATAAATTGCTCTTCTAAACAGAGGCACCATAACTTTG
1 GAAAATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
* * * *
21634049 GAAAAATAAATTGCTCCTCTAAATAAAGGTACCATAACTTTG
1 G-AAAATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
* *
21634091 AAAAATAAATTGCTCCTT-TAAACAGAGGCACCACAACTTTG
1 GAAAATAAATTGCT-CTTCTAAATAGAGGCACCACAACTTTG
* ** * *
21634132 G-AAATAAATAATGCT-TATCTAAGTAGAGGTTCAACGACTTT-
1 GAAAATAAAT--TGCTCT-TCTAAATAGAGGCACCACAACTTTG
* * * * *
21634173 GAAACATAAA-TGCTCTTCTAAGTAAAGGGACAACAACTTTA
1 GAAA-ATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
*
21634214 AAAAATAAA
1 GAAAATAAA
21634223 GGCTCCTCAA
Statistics
Matches: 214, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.01
40 44 0.21
41 74 0.35
42 89 0.42
43 5 0.02
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (41 bp):
GAAAATAAATTGCTCTTCTAAATAGAGGCACCACAACTTTG
Found at i:21634088 original size:83 final size:84
Alignment explanation
Indices: 21633927--21634135 Score: 302
Period size: 83 Copynumber: 2.5 Consensus size: 84
21633917 TTTTTAAAAA
* * *
21633927 GAAAATAAA--GCTCCTCTAAACAGAGGCTCAACAACTTT-GAAACAATAAATTGCTCCTCTAAA
1 GAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGAAACAATAAATTGCTCCTCTAAA
*
21633989 TAGAGGCACCACAACTTTG
66 TAAAGGCACCACAACTTTG
*
21634008 GAAAATAAATTGCTCTTCTAAACAGAGGCACCATAACTTTGGAAA-AATAAATTGCTCCTCTAAA
1 GAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGAAACAATAAATTGCTCCTCTAAA
* *
21634072 TAAAGGTACCATAACTTTG
66 TAAAGGCACCACAACTTTG
*
21634091 AAAAATAAATTGCTCCTT-TAAACAGAGGCACCACAACTTTGGAAA
1 GAAAATAAATTGCT-CTTCTAAACAGAGGCACCACAACTTTGGAAA
21634136 TAAATAATGC
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
81 9 0.08
83 99 0.86
84 7 0.06
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (84 bp):
GAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGAAACAATAAATTGCTCCTCTAAA
TAAAGGCACCACAACTTTG
Found at i:21634172 original size:83 final size:83
Alignment explanation
Indices: 21633928--21634187 Score: 298
Period size: 83 Copynumber: 3.2 Consensus size: 83
21633918 TTTTAAAAAG
* * * *
21633928 AAAATAAA-GCTCCTCTAAACAGAGGCTCAACAACTTT-GAAACAATAAATTGCTCCTCTAAATA
1 AAAATAAATGCTCCTTTAAACAGAGGCACCACAACTTTGGAAAAAATAAATTGCTCCTCTAAATA
* *
21633991 GAGGCACCACAACTTTGG
66 GAGGTACCACAACTTTGA
*
21634009 AAAATAAATTGCT-CTTCTAAACAGAGGCACCATAACTTTGG-AAAAATAAATTGCTCCTCTAAA
1 AAAATAAA-TGCTCCTT-TAAACAGAGGCACCACAACTTTGGAAAAAATAAATTGCTCCTCTAAA
* *
21634072 TAAAGGTACCATAACTTTGA
64 TAGAGGTACCACAACTTTGA
** *
21634092 AAAATAAATTGCTCCTTTAAACAGAGGCACCACAACTTTGGAAATAAAT-AA-TGCTTATCTAAG
1 AAAATAAA-TGCTCCTTTAAACAGAGGCACCACAACTTTGGAAA-AAATAAATTGCTCCTCTAAA
* * *
21634155 TAGAGGTTCAACGACTTTGA
64 TAGAGGTACCACAACTTTGA
*
21634175 AACATAAATGCTC
1 AAAATAAATGCTC
21634188 TTCTAAGTAA
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
81 8 0.05
82 7 0.05
83 126 0.82
84 8 0.05
85 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (83 bp):
AAAATAAATGCTCCTTTAAACAGAGGCACCACAACTTTGGAAAAAATAAATTGCTCCTCTAAATA
GAGGTACCACAACTTTGA
Found at i:21643359 original size:52 final size:49
Alignment explanation
Indices: 21643259--21643363 Score: 129
Period size: 52 Copynumber: 2.1 Consensus size: 49
21643249 TTAATTTAAG
*
21643259 AATAGTAATTTATTTTTAAATATTTTTAAATATTAATATAAAAATAATA
1 AATAGTAATTTATTTTTAAATATTTTTAAATAATAATATAAAAATAATA
* * ** *
21643308 AATAGTAATATTTTATTTTAAATATTTTTATATTAATAATATTTAATTAATA
1 AATAGTAAT-TTAT-TTTTAAATATTTTTA-AATAATAATATAAAAATAATA
21643360 AATA
1 AATA
21643364 TTATTATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 9 0.19
50 3 0.06
51 15 0.32
52 20 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (49 bp):
AATAGTAATTTATTTTTAAATATTTTTAAATAATAATATAAAAATAATA
Found at i:21643360 original size:14 final size:16
Alignment explanation
Indices: 21643334--21643365 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21643324 TTTAAATATT
21643334 TTTATATTAAT-AATA
1 TTTATATTAATAAATA
21643349 TTTA-ATTAATAAATA
1 TTTATATTAATAAATA
21643364 TT
1 TT
21643366 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATATTAATAAATA
Found at i:21643431 original size:26 final size:26
Alignment explanation
Indices: 21643394--21643486 Score: 147
Period size: 26 Copynumber: 3.7 Consensus size: 26
21643384 TTCTTAAATA
*
21643394 TTAATA-ATTTTAATAATAAATAATT
1 TTAATATACTTTAATAATAAATAATT
*
21643419 TTAATGTACTTTAATAATAAATAATT
1 TTAATATACTTTAATAATAAATAATT
21643445 TTAATATACTTTAATAATAAATAATT
1 TTAATATACTTTAATAATAAATAATT
21643471 TTAATAT--TTTAATAAT
1 TTAATATACTTTAATAAT
21643487 TATATTAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.14
25 5 0.08
26 50 0.78
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (26 bp):
TTAATATACTTTAATAATAAATAATT
Found at i:21643594 original size:30 final size:30
Alignment explanation
Indices: 21643534--21643594 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
21643524 ATCAAATAAC
***
21643534 AAAAAATATTTTTTATTAATTTATACAAAT
1 AAAAAATATTTTTTATTAAAAAATACAAAT
*
21643564 AAAAAATTATTTTTT-TTAAAAAATATAAAT
1 AAAAAA-TATTTTTTATTAAAAAATACAAAT
21643594 A
1 A
21643595 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAAAATATTTTTTATTAAAAAATACAAAT
Found at i:21644064 original size:53 final size:55
Alignment explanation
Indices: 21643967--21644091 Score: 139
Period size: 53 Copynumber: 2.3 Consensus size: 55
21643957 TTTTATATAA
* *
21643967 AAATTATATATTATAATTTTTATAAATATATAAATATATGTTTTTAAATTTTATT
1 AAATTATATATTATAATTATTATAAATATATAAATATATATTTTTAAATTTTATT
* * * *
21644022 AAATT-TAT-TTATAATTATTATTAAA-ATTTTAATTTATATTTTTATATTTTATTT
1 AAATTATATATTATAATTATTA-TAAATATATAAATATATATTTTTAAATTTTA-TT
*
21644076 ATATTACTATATTATA
1 AAATTA-TATATTATA
21644092 TTTTTAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
53 32 0.55
54 13 0.22
55 5 0.09
56 3 0.05
57 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (55 bp):
AAATTATATATTATAATTATTATAAATATATAAATATATATTTTTAAATTTTATT
Found at i:21644075 original size:19 final size:19
Alignment explanation
Indices: 21644047--21644112 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
21644037 TATTATTAAA
21644047 ATTTTAATTTATATTTTTAT
1 ATTTT-ATTTATATTTTTAT
**
21644067 ATTTTATTTATATTACTAT
1 ATTTTATTTATATTTTTAT
* *
21644086 ATTATATTTTTAATTTTTA-
1 ATTTTATTTAT-ATTTTTAT
21644105 ATTTTATT
1 ATTTTATT
21644113 ATTTTCAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 28 0.74
20 10 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTATTTATATTTTTAT
Found at i:21645677 original size:17 final size:16
Alignment explanation
Indices: 21645655--21645704 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 16
21645645 TTTTTAATCA
21645655 TAATTATAATATATTTT
1 TAATTATAATA-ATTTT
*
21645672 TAATTATTATAATTTT
1 TAATTATAATAATTTT
21645688 T-ATTAT--TAA-TTT
1 TAATTATAATAATTTT
21645700 TAATT
1 TAATT
21645705 TTATCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 4 0.13
13 6 0.19
15 5 0.16
16 6 0.19
17 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTATAATAATTTT
Found at i:21645687 original size:15 final size:15
Alignment explanation
Indices: 21645664--21645708 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
21645654 ATAATTATAA
*
21645664 TATATTTTTAATTAT
1 TATAATTTTAATTAT
*
21645679 TATAATTTTTATTA-
1 TATAATTTTAATTAT
21645693 T-TAATTTTAATT-T
1 TATAATTTTAATTAT
21645706 TAT
1 TAT
21645709 CAAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 11 0.44
14 2 0.08
15 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATAATTTTAATTAT
Found at i:21646934 original size:36 final size:37
Alignment explanation
Indices: 21646866--21646948 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
21646856 TATAATAATT
* * *
21646866 AAATTT-ATTTTTATATATTAATTAAATAAAATTGAG
1 AAATTTAATTTTTATATATTAAATAAATAAAATTAAA
* *
21646902 TAATTTAATTTTTAT-T-TTAAATAAATTCAAATTAAA
1 AAATTTAATTTTTATATATTAAATAAA-TAAAATTAAA
21646938 AAATTTAATTT
1 AAATTTAATTT
21646949 AATTAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 8 0.21
36 23 0.59
37 8 0.21
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (37 bp):
AAATTTAATTTTTATATATTAAATAAATAAAATTAAA
Found at i:21648313 original size:16 final size:16
Alignment explanation
Indices: 21648288--21648318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21648278 TTAATTATAT
21648288 TAAAAAATAAAATAAA
1 TAAAAAATAAAATAAA
*
21648304 TAAAATATAAAATAA
1 TAAAAAATAAAATAA
21648319 GTTAATGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAATAAAATAAA
Found at i:21649301 original size:23 final size:23
Alignment explanation
Indices: 21649275--21649323 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21649265 TTTTGACTAG
*
21649275 AAAATATCT-TAAATAATCTAAA
1 AAAAAATCTATAAATAATCTAAA
* *
21649297 AAAAAATTTATAAATAATCTCAA
1 AAAAAATCTATAAATAATCTAAA
21649320 AAAA
1 AAAA
21649324 TAGAAGTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAAATCTATAAATAATCTAAA
Found at i:21655154 original size:14 final size:14
Alignment explanation
Indices: 21655137--21655164 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21655127 ATTGTTGTTA
21655137 ATTTTACTACCAAT
1 ATTTTACTACCAAT
21655151 ATTTTACTACCAAT
1 ATTTTACTACCAAT
21655165 CAGAAATTTC
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:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTTACTACCAAT
Found at i:21658879 original size:2 final size:2
Alignment explanation
Indices: 21658872--21658901 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21658862 GTTCGTTTGG
21658872 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
21658902 TTTCACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21666281 original size:2 final size:2
Alignment explanation
Indices: 21666274--21666308 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21666264 TGCATTACAG
21666274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21666309 GAAGATTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21666356 original size:20 final size:20
Alignment explanation
Indices: 21666331--21666373 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21666321 AAAAAGAGTG
21666331 TATAAAATATAAGTATTAAC
1 TATAAAATATAAGTATTAAC
21666351 TATAAAATATAAGTATTAAC
1 TATAAAATATAAGTATTAAC
21666371 TAT
1 TAT
21666374 TATTTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAAAATATAAGTATTAAC
Found at i:21670294 original size:10 final size:9
Alignment explanation
Indices: 21670255--21670292 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
21670245 ATATTTTATC
21670255 AATTAAAAT
1 AATTAAAAT
21670264 AATTAAAAT
1 AATTAAAAT
21670273 AATTAAAAT
1 AATTAAAAT
21670282 ATATTAAAAT
1 A-ATTAAAAT
21670292 A
1 A
21670293 TAAAAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAAAAT
Found at i:21670306 original size:19 final size:18
Alignment explanation
Indices: 21670259--21670298 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21670249 TTTATCAATT
*
21670259 AAAATAATTAAAATAATT
1 AAAATAATTAAAATAATA
21670277 AAAATATATTAAAAT-ATA
1 AAAATA-ATTAAAATAATA
21670295 AAAA
1 AAAA
21670299 CTTAATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATAATTAAAATAATA
Found at i:21676252 original size:2 final size:2
Alignment explanation
Indices: 21676247--21676281 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21676237 AGTGTGTATG
21676247 TA 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 TA T
21676282 GCAATTTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21676604 original size:2 final size:2
Alignment explanation
Indices: 21676597--21676710 Score: 61
Period size: 2 Copynumber: 57.5 Consensus size: 2
21676587 ATTCATGCTT
* * * * * * *
21676597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CCA CA CA CA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * * * *
21676640 CA CA TA TA CA TG TA TA TA TA TG TA TA TG TA AA 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
* *
21676682 TA TA T- TA TA -A CA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21676711 GTAAATACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
1 2 0.02
2 90 0.96
3 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (2 bp):
TA
Found at i:21676680 original size:22 final size:22
Alignment explanation
Indices: 21676652--21676751 Score: 114
Period size: 22 Copynumber: 4.5 Consensus size: 22
21676642 CATATACATG
21676652 TATATATATGTATATGTAAATA
1 TATATATATGTATATGTAAATA
* *
21676674 TATATATATATAT-TATAACATA
1 TATATATATGTATATGTAA-ATA
21676696 TATATATATGTATATGTAAATA
1 TATATATATGTATATGTAAATA
* * **
21676718 CATGTATACATATATGTAAAT-
1 TATATATATGTATATGTAAATA
21676739 TATAATATATGTA
1 TAT-ATATATGTA
21676752 CAAACTTTGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 6 0.10
22 53 0.84
23 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (22 bp):
TATATATATGTATATGTAAATA
Found at i:21676707 original size:44 final size:44
Alignment explanation
Indices: 21676643--21676751 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
21676633 ACACACACAC
* *
21676643 ATAT-ACATGTATATATATGTATATGTAAATATATATATATATAT
1 ATATAACAT-TATATATATGTATATGTAAATACATATATACATAT
*
21676687 -TATAACATATATATATATGTATATGTAAATACATGTATACATAT
1 ATATAACAT-TATATATATGTATATGTAAATACATATATACATAT
*
21676731 ATGTAA-ATTATAATATATGTA
1 ATATAACATTAT-ATATATGTA
21676752 CAAACTTTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 6 0.11
44 47 0.82
45 4 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (44 bp):
ATATAACATTATATATATGTATATGTAAATACATATATACATAT
Found at i:21676745 original size:28 final size:28
Alignment explanation
Indices: 21676694--21676751 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
21676684 TATTATAACA
* *
21676694 TATATATATATGTATATGTAAATACATG
1 TATACATATATGTAAATGTAAATACATG
*
21676722 TATACATATATGTAAAT-TATAATATATG
1 TATACATATATGTAAATGTA-AATACATG
21676750 TA
1 TA
21676752 CAAACTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (28 bp):
TATACATATATGTAAATGTAAATACATG
Found at i:21676844 original size:25 final size:25
Alignment explanation
Indices: 21676810--21676860 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21676800 TAAATGTATA
*
21676810 TATACATGTATATGGATGTATATGT
1 TATACATGTATATGGATGCATATGT
*
21676835 TATACATGTATATGTATGCATATGT
1 TATACATGTATATGGATGCATATGT
21676860 T
1 T
21676861 TGTACATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (25 bp):
TATACATGTATATGGATGCATATGT
Found at i:21676884 original size:38 final size:36
Alignment explanation
Indices: 21676829--21676933 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 36
21676819 ATATGGATGT
21676829 ATATGT-TATACATGTATATGTATGCATATGT-TTGTAC
1 ATATGTATATACATGTATATGTAT--ATATGTATT-TAC
21676866 ATATGTATATACATGTATACATGTATATATGTATTTAC
1 ATATGTATATACATGTAT--ATGTATATATGTATTTAC
* * *
21676904 ATATACATATATACGTGTATATGTAAATAT
1 ATAT--GTATATACATGTATATGTATATAT
21676934 ACATATATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
37 6 0.10
38 33 0.56
39 2 0.03
40 18 0.31
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (36 bp):
ATATGTATATACATGTATATGTATATATGTATTTAC
Found at i:21676928 original size:6 final size:6
Alignment explanation
Indices: 21676866--21676998 Score: 61
Period size: 6 Copynumber: 22.3 Consensus size: 6
21676856 ATGTTTGTAC
* * * * * * * * *
21676866 ATATGT ATATAC ATGTAT ACATGT ATATAT GTATTT ACATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
** * * * * * *
21676914 ATACGT GTATAT GTAAAT ATACAT ATATAT ATATAT GTATAT GTA-AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * *
21676961 ACATAT ATATAT ATGTAA ATATAT ATACAT ATAAAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
21676999 GTACAAACTT
Statistics
Matches: 92, Mismatches: 34, Indels: 2
0.72 0.27 0.02
Matches are distributed among these distances:
5 3 0.03
6 89 0.97
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:21676937 original size:32 final size:29
Alignment explanation
Indices: 21676872--21676998 Score: 111
Period size: 32 Copynumber: 4.3 Consensus size: 29
21676862 GTACATATGT
* *
21676872 ATATACATGTATACATGTATATATGTATTTAC
1 ATATACATATATAC-TG--TATATGTATATAC
21676904 ATATACATATATACGTGTATATGTAAATATAC
1 ATATACATATATAC-TGTATATGT--ATATAC
*
21676936 ATATATATATATA-TGTATATGTA-ATAC
1 ATATACATATATACTGTATATGTATATAC
* *
21676963 ATAT--ATATATA-TGTAAATATATATAC
1 ATATACATATATACTGTATATGTATATAC
*
21676989 ATATAAATAT
1 ATATACATAT
21676999 GTACAAACTT
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
25 15 0.18
26 8 0.10
27 8 0.10
28 5 0.06
30 16 0.19
32 32 0.38
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (29 bp):
ATATACATATATACTGTATATGTATATAC
Found at i:21676954 original size:8 final size:8
Alignment explanation
Indices: 21676861--21677001 Score: 52
Period size: 8 Copynumber: 17.5 Consensus size: 8
21676851 TGCATATGTT
*
21676861 TGTACATA
1 TGTATATA
21676869 TGTATATACA
1 TGTATAT--A
*
21676879 TGTATACA
1 TGTATATA
21676887 TGTATATA
1 TGTATATA
21676895 TGTAT-T-
1 TGTATATA
**
21676901 TACATATA
1 TGTATATA
**
21676909 CATATATA
1 TGTATATA
* *
21676917 CGTGTATA
1 TGTATATA
*
21676925 TGTAAATA
1 TGTATATA
**
21676933 TACATATA
1 TGTATATA
*
21676941 TATATATA
1 TGTATATA
*
21676949 TGTATATG
1 TGTATATA
* *
21676957 TAATACATA
1 T-GTATATA
*
21676966 TATATATA
1 TGTATATA
*
21676974 TGTAAATA
1 TGTATATA
* *
21676982 TATATACA
1 TGTATATA
* *
21676990 TATAAATA
1 TGTATATA
21676998 TGTA
1 TGTA
21677002 CAAACTTTGA
Statistics
Matches: 98, Mismatches: 30, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 81 0.83
9 5 0.05
10 7 0.07
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (8 bp):
TGTATATA
Found at i:21677057 original size:2 final size:2
Alignment explanation
Indices: 21677050--21677272 Score: 69
Period size: 2 Copynumber: 112.0 Consensus size: 2
21677040 CTAATATGTA
* * * *
21677050 AT AT AT AT AT AT AC AT GT AT AT AT -T CAT GA- AC AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT AT AT AT AT
** * * * *
21677092 ACT AT AT AT AT AT AT AT GC AT GT AT AT GT -T AT AC AT AT AA AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
21677134 AC AT AT AC AT GT -T CT AT AT GT AT AT GT AT GT AT -T 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
* * * * * * *
21677174 AC AT GT AT AT AT AC AT AC AA AT ACT AT AT AT AT AT CT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * * * * *
21677217 AT AC AT GT AT TT AC AT AT AC AT AT AT GT AT AT AT 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
* *
21677259 AT GT AC AT AT AT AT
1 AT AT AT AT AT AT AT
21677273 TGTAGACACC
Statistics
Matches: 149, Mismatches: 64, Indels: 16
0.65 0.28 0.07
Matches are distributed among these distances:
1 5 0.03
2 138 0.93
3 6 0.04
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:21677124 original size:25 final size:25
Alignment explanation
Indices: 21677096--21677185 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
21677086 ATATATACTA
21677096 TATATATATATATGCATGTATATGT
1 TATATATATATATGCATGTATATGT
* * * * *
21677121 TATACATATAAATACATATACATGT
1 TATATATATATATGCATGTATATGT
* * *
21677146 TCTATATGTATATGTATGTATTATGT
1 TATATATATATATGCATGTA-TATGT
* *
21677172 ATACATGTATATAT
1 -TATATATATATAT
21677186 ACATACAAAT
Statistics
Matches: 46, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
25 33 0.72
26 4 0.09
27 9 0.20
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (25 bp):
TATATATATATATGCATGTATATGT
Found at i:21677179 original size:19 final size:18
Alignment explanation
Indices: 21677137--21677186 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
21677127 TATAAATACA
21677137 TATACATGT-TCTATATG
1 TATACATGTATCTATATG
*
21677154 TAT--ATGTATGTATTATG
1 TATACATGTATCTA-TATG
*
21677171 TATACATGTATATATA
1 TATACATGTATCTATA
21677187 CATACAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 10 0.37
18 2 0.07
19 8 0.30
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
TATACATGTATCTATATG
Found at i:21677192 original size:50 final size:50
Alignment explanation
Indices: 21677098--21677208 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
21677088 ATATACTATA
*
21677098 TATATATATATGCATGTATATGTTATACATATAAATACATATACATGTTC
1 TATATATATATGCATGTATATGTTATACATATAAATACACATACATGTTC
* * * * * ** *
21677148 TATATGTATATGTATGTATTATG-TATACATGTATATATACATACAAATAC
1 TATATATATATGCATGTA-TATGTTATACATATAAATACACATACATGTTC
21677198 TATATATATAT
1 TATATATATAT
21677209 CTATACATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 46 0.92
51 4 0.08
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (50 bp):
TATATATATATGCATGTATATGTTATACATATAAATACACATACATGTTC
Found at i:21678133 original size:15 final size:16
Alignment explanation
Indices: 21678101--21678162 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
21678091 GAGCAGAGTC
21678101 ATTTTTAGTATTTTTT
1 ATTTTTAGTATTTTTT
21678117 ATTTTT-GT-TTTTGTT
1 ATTTTTAGTATTTT-TT
21678132 ATTTATT--TATTTATTT
1 ATTT-TTAGTATTT-TTT
21678148 ATTTTTAGTATTTTT
1 ATTTTTAGTATTTTT
21678163 GCATGATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.10
15 11 0.28
16 19 0.47
17 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
ATTTTTAGTATTTTTT
Found at i:21678199 original size:12 final size:12
Alignment explanation
Indices: 21678179--21678208 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21678169 TTAAATTTTA
*
21678179 AAAAAATAAAAC
1 AAAATATAAAAC
21678191 AAAATATAAAAC
1 AAAATATAAAAC
21678203 AAAATA
1 AAAATA
21678209 AAATTTTTTT
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:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAATATAAAAC
Found at i:21682783 original size:16 final size:17
Alignment explanation
Indices: 21682730--21682776 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
21682720 TAATAGATAG
21682730 AAAAATGAAAACATGA-AGA
1 AAAAATGAAAA-A-GAGA-A
21682749 AAAAATGAAAAAGAGAA
1 AAAAATGAAAAAGAGAA
21682766 AAAAAT-AAAAA
1 AAAAATGAAAAA
21682777 TATAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 2 0.07
19 11 0.41
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAATGAAAAAGAGAA
Found at i:21683811 original size:79 final size:79
Alignment explanation
Indices: 21683377--21683827 Score: 442
Period size: 79 Copynumber: 5.7 Consensus size: 79
21683367 GTTGACATAA
* * ** * * ** *
21683377 CTTGTG-GATTGTGATCAAATAATGAAAATAATACGGATTAATGGATGAAATTTGTTTTGAAATT
1 CTTGTGAG-TTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATTTTGAAATT
*
21683441 GATAGTGCTGAA-AAG
65 GCTAGTGCT-AAGAAG
* * * * *
21683456 CTTGTGAGTTGTGAGCAAATGATGAAAACAATGTGGATTAATGGACGAAATTTATTTTGAAATTA
1 CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATTTTGAAATTG
21683521 CTAGTGCTAAGAAG
66 CTAGTGCTAAGAAG
* * * * * * *
21683535 CTTATGAGTTGTGAGCAAATGATGTAAACAATGTGGATTAATGGACAAAATTTGTTTTGAAATTA
1 CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATTTTGAAATTG
*
21683600 CTAGTGCTAAAAAG
66 CTAGTGCTAAGAAG
** * * *
21683614 CTTACGAGTTGTAATCAAATAATGGAAACAATGTGGATCAA-TGA-ATTAAATTTATTTTGAAAT
1 CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACA--AAATTTATTTTGAAAT
21683677 TGCTAGTGCTAAGAAG
64 TGCTAGTGCTAAGAAG
* * * * * * *
21683693 CTTGTGAGTTATGATCAAATGATGAAAATATTATGGATCAATTGACAAAATTTGTTCTAAAATTG
1 CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATTTTGAAATTG
*
21683758 CTAGTGCTGAGAAG
66 CTAGTGCTAAGAAG
* * * * ** * *
21683772 CTTGTGAATTGTGATCAAGTGATAAAAATAATGAAGATCAATTGACAGAACTTATT
1 CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATT
21683828 CTAAAATGGT
Statistics
Matches: 318, Mismatches: 48, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.00
78 4 0.01
79 308 0.97
80 4 0.01
81 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (79 bp):
CTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATTGACAAAATTTATTTTGAAATTG
CTAGTGCTAAGAAG
Found at i:21683811 original size:158 final size:158
Alignment explanation
Indices: 21683388--21683813 Score: 528
Period size: 158 Copynumber: 2.7 Consensus size: 158
21683378 TTGTGGATTG
* * ** *
21683388 TGATCAAATAATGAAAATAATACGGATTAATGGATGAAATTTGTTTTGAAATTGATAGTGCTGAA
1 TGATCAAATGATGAAAATAATATGGATTAATGGACAAAATTTGTTTTGAAATTGCTAGTGCTGAA
* * *
21683453 AAGCTTGTGAGTTGTGAGCAAATGATGAAAACAATGTGGATTAATGGACGAAATTTATTTTGAAA
66 AAGCTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATGAACGAAATTTATTTTGAAA
*
21683518 TTACTAGTGCTAAGAAGCTTATGAGTTG
131 TTACTAGTGCTAAGAAGCTTATGAGTTA
* * * * * *
21683546 TGAGCAAATGATGTAAACAATGTGGATTAATGGACAAAATTTGTTTTGAAATTACTAGTGCTAAA
1 TGATCAAATGATGAAAATAATATGGATTAATGGACAAAATTTGTTTTGAAATTGCTAGTGCTGAA
** * * * **
21683611 AAGCTTACGAGTTGTAATCAAATAATGGAAACAATGTGGATCAATGAATTAAATTTATTTTGAAA
66 AAGCTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATGAACGAAATTTATTTTGAAA
* *
21683676 TTGCTAGTGCTAAGAAGCTTGTGAGTTA
131 TTACTAGTGCTAAGAAGCTTATGAGTTA
* * * * * *
21683704 TGATCAAATGATGAAAATATTATGGATCAATTGACAAAATTTGTTCTAAAATTGCTAGTGCTGAG
1 TGATCAAATGATGAAAATAATATGGATTAATGGACAAAATTTGTTTTGAAATTGCTAGTGCTGAA
* * * * **
21683769 AAGCTTGTGAATTGTGATCAAGTGATAAAAATAATGAAGATCAAT
66 AAGCTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAAT
21683814 TGACAGAACT
Statistics
Matches: 221, Mismatches: 47, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
158 221 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (158 bp):
TGATCAAATGATGAAAATAATATGGATTAATGGACAAAATTTGTTTTGAAATTGCTAGTGCTGAA
AAGCTTGTGAGTTGTGATCAAATGATGAAAACAATGTGGATCAATGAACGAAATTTATTTTGAAA
TTACTAGTGCTAAGAAGCTTATGAGTTA
Found at i:21683847 original size:237 final size:237
Alignment explanation
Indices: 21683385--21683852 Score: 533
Period size: 237 Copynumber: 2.0 Consensus size: 237
21683375 AACTTGTGGA
* * * * *
21683385 TTGTGATCAAATAATGAAAATAATACGGATTAATGGATGAAATTTGTTTTGAAATTGATAGTGCT
1 TTGTAATCAAATAATGAAAACAATACGGATCAATGAATGAAATTTATTTTGAAATTGATAGTGCT
* * * * * *
21683450 GAAAAGCTTGTGAGTTGTGAGCAAATGATGAAAACAATGTGGATTAATGGACGAAATTTATTTTG
66 GAAAAGCTTGTGAGTTATGAGCAAATGATGAAAACAATATGGATCAATGGACAAAATTTATTCTA
* ** ** *
21683515 AAATTACTAGTGCTAAGAAGCTTATGAGTTGTGAGCAAATGATGTAAACAATGTGGATTAATGGA
131 AAATTACTAGTGCTAAGAAGCTTATGAATTGTGAGCAAATGATAAAAACAATGAAGATCAATGGA
* * * * * *
21683580 CAAAATTTGTTTTGAAATTACTAGTGCTAAAAAGCTTACGAG
196 CAAAACTTATTCTAAAATGACTAATGCTAAAAAGCTTACGAG
* ** * *
21683622 TTGTAATCAAATAATGGAAACAATGTGGATCAATGAATTAAATTTATTTTGAAATTGCTAGTGCT
1 TTGTAATCAAATAATGAAAACAATACGGATCAATGAATGAAATTTATTTTGAAATTGATAGTGCT
* * * * *
21683687 -AAGAAGCTTGTGAGTTATGATCAAATGATGAAAATATTATGGATCAATTGACAAAATTTGTTCT
66 GAA-AAGCTTGTGAGTTATGAGCAAATGATGAAAACAATATGGATCAATGGACAAAATTTATTCT
* * * * * * *
21683751 AAAATTGCTAGTGCTGAGAAGCTTGTGAATTGTGATCAAGTGATAAAAATAATGAAGATCAATTG
130 AAAATTACTAGTGCTAAGAAGCTTATGAATTGTGAGCAAATGATAAAAACAATGAAGATCAATGG
* **
21683816 ACAGAACTTATTCTAAAATGGTTAATGCTAAAAAGCT
195 ACAAAACTTATTCTAAAATGACTAATGCTAAAAAGCT
21683853 AAAAACGAAA
Statistics
Matches: 187, Mismatches: 43, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
236 2 0.01
237 185 0.99
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (237 bp):
TTGTAATCAAATAATGAAAACAATACGGATCAATGAATGAAATTTATTTTGAAATTGATAGTGCT
GAAAAGCTTGTGAGTTATGAGCAAATGATGAAAACAATATGGATCAATGGACAAAATTTATTCTA
AAATTACTAGTGCTAAGAAGCTTATGAATTGTGAGCAAATGATAAAAACAATGAAGATCAATGGA
CAAAACTTATTCTAAAATGACTAATGCTAAAAAGCTTACGAG
Found at i:21684571 original size:43 final size:43
Alignment explanation
Indices: 21684485--21684828 Score: 307
Period size: 43 Copynumber: 8.0 Consensus size: 43
21684475 ATGATTATCA
* * * * * *
21684485 AAGAACTTTTTTTACTTTTCAAAAGTCATTAAGCCTCAATTTAG
1 AAGAGCTTTATTTATTTTTC-AAAGTCGTTGAGCCTCTATTTAG
* * *
21684529 AAGAGCTTTATTTATTTTTCAAAGTTGTTGAACCTCTGTTTAG
1 AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
* *
21684572 AAAAGCTTTATTTACTTTTCAAAGTCGTTGAGCCTCTATTTAG
1 AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
* * * * *
21684615 AGGAGCCTTATTCATTTTTCAAAGTCGTTGAGCCTTTACTTA-
1 AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
* ** * * ** * **
21684657 AAAATTTTTATTTATTTTTTATAGTTATTGAGCATCTGGTTAG
1 AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
* * * *
21684700 AAGAGCTTTATTTACTTTTCAAAAATCGTTGAGCATTTATTTAG
1 AAGAGCTTTATTTATTTTTC-AAAGTCGTTGAGCCTCTATTTAG
* *
21684744 AGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTA-
1 AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
* * * *
21684786 AAGAAGCCTTATGTCATTTTTCAAAGTCATTGAG-CTTTATTTA
1 AAG-AGCTTTAT-TTATTTTTCAAAGTCGTTGAGCCTCTATTTA
21684829 CTTTTCAAAA
Statistics
Matches: 237, Mismatches: 59, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
42 30 0.13
43 137 0.58
44 70 0.30
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (43 bp):
AAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAG
Found at i:21684755 original size:129 final size:128
Alignment explanation
Indices: 21684535--21684778 Score: 371
Period size: 129 Copynumber: 1.9 Consensus size: 128
21684525 TTAGAAGAGC
* * * *
21684535 TTTATTTATTTTTCAAAGTTGTTGAACCTCTGTTTAGAAAAGCTTTATTTACTTTTCAAAGTCGT
1 TTTATTTATTTTTCAAAGTTATTGAACATCTGGTTAGAAAAGCTTTATTTACTTTTCAAAATCGT
*
21684600 TGAGCCTCTATTTAGAGGAGCCTTATTCATTTTTCAAAGTCGTTGAGCCTTTACTTAAAAATT
66 TGAGCATCTATTTAGAGGAGCCTTATTCATTTTTCAAAGTCGTTGAGCCTTTACTTAAAAATT
* * * *
21684663 TTTATTTATTTTTTATAGTTATTGAGCATCTGGTTAGAAGAGCTTTATTTACTTTTCAAAAATCG
1 TTTATTTATTTTTCAAAGTTATTGAACATCTGGTTAGAAAAGCTTTATTTACTTTTC-AAAATCG
* * *
21684728 TTGAGCATTTATTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCT
65 TTGAGCATCTATTTAGAGGAGCCTTATTCATTTTTCAAAGTCGTTGAGCCT
21684779 CTGTTTAAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 50 0.49
129 53 0.51
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (128 bp):
TTTATTTATTTTTCAAAGTTATTGAACATCTGGTTAGAAAAGCTTTATTTACTTTTCAAAATCGT
TGAGCATCTATTTAGAGGAGCCTTATTCATTTTTCAAAGTCGTTGAGCCTTTACTTAAAAATT
Found at i:21684876 original size:71 final size:71
Alignment explanation
Indices: 21684746--21684900 Score: 195
Period size: 71 Copynumber: 2.2 Consensus size: 71
21684736 TTATTTAGAG
* * *
21684746 GAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGAAGCCTTATGTCATTTTTCAAA
1 GAGCTTTATTTACTTTTCAAAGTCGTTAAACCTCTGTTTAAAGAAGCCTTATGTCATTTTTCAAA
21684811 GTCATT
66 GTCATT
* * * * *
21684817 GAGCTTTATTTACTTTTCAAAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTAT-TTATTTTTCAA
1 GAGCTTTATTTACTTTTC-AAAGTCGTTAAACCTCTGTTTAAAGAAGCCTTATGTCATTTTTCAA
**
21684881 AGTTGTT
65 AGTCATT
21684888 GAGCTTTTATTTA
1 GAGC-TTTATTTA
21684901 GATGAGCTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
71 36 0.50
72 36 0.50
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (71 bp):
GAGCTTTATTTACTTTTCAAAGTCGTTAAACCTCTGTTTAAAGAAGCCTTATGTCATTTTTCAAA
GTCATT
Done.