Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_pilon, 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: 1991651
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:207463 original size:12 final size:11
Alignment explanation
Indices: 207442--207509 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
207432 TTGTTGTATT
207442 ATATAATTTTTA
1 ATAT-ATTTTTA
207454 ATATATTTTTA
1 ATATATTTTTA
*
207465 AAATA-TTTTA
1 ATATATTTTTA
***
207475 AT-TATCAATA
1 ATATATTTTTA
* *
207485 GTGTATTTTTA
1 ATATATTTTTA
207496 ATATATTTTTA
1 ATATATTTTTA
207507 ATA
1 ATA
207510 ATGTAATTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 2 0.05
10 9 0.21
11 28 0.65
12 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:210854 original size:44 final size:44
Alignment explanation
Indices: 210790--210875 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
210780 TTTATTAATG
* *
210790 GATTTTCCTATTGCAGAATAAA-TAATAATTATTATTGTTTTTTA
1 GATTTTCCTACTGCAGAATAAATTAA-AATTATTATTGGTTTTTA
* * *
210834 GATTTTTCTACTGCATAATAAATTAACATTATTATTGGTTTT
1 GATTTTCCTACTGCAGAATAAATTAAAATTATTATTGGTTTT
210876 CACTACTGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (44 bp):
GATTTTCCTACTGCAGAATAAATTAAAATTATTATTGGTTTTTA
Found at i:215243 original size:21 final size:20
Alignment explanation
Indices: 215191--215244 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
215181 TATTGATTGA
215191 TTTATAACATGTTTTTAATT
1 TTTATAACATGTTTTTAATT
* *
215211 TTTCTAAAATGTTTTCATAA-T
1 TTTATAACATGTTTT--TAATT
215232 TTTATAACATGTT
1 TTTATAACATGTT
215245 GATTCCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 12 0.43
22 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTATAACATGTTTTTAATT
Found at i:215733 original size:12 final size:12
Alignment explanation
Indices: 215716--215744 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
215706 ACATTTGATC
215716 TAAATTAGTTGA
1 TAAATTAGTTGA
215728 TAAATTAGTTGA
1 TAAATTAGTTGA
215740 TAAAT
1 TAAAT
215745 AGATTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (12 bp):
TAAATTAGTTGA
Found at i:229852 original size:21 final size:21
Alignment explanation
Indices: 229826--229900 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
229816 TCGCAACGCG
*
229826 AATCGCATTGCGAATTGGGAA
1 AATCGCAATGCGAATTGGGAA
** *
229847 AATCGCAATGCGAA-TAAGTA
1 AATCGCAATGCGAATTGGGAA
*
229867 AATCGCAACGCGAATTGGGAA
1 AATCGCAATGCGAATTGGGAA
229888 AATCGCAATGCGA
1 AATCGCAATGCGA
229901 TACTTACTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
AATCGCAATGCGAATTGGGAA
Found at i:229913 original size:41 final size:41
Alignment explanation
Indices: 229835--229961 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 41
229825 GAATCGCATT
** *
229835 GCGAATTGGGAAAATCGCAATGCGAATAAGTA-AATCGCAAC
1 GCGAATTGGGAAAATCGCAATGCG-ATACTTACTATCGCAAC
*
229876 GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAT
1 GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
* ** * * *
229917 GCGATAAT-ACAAAATCGCAACGAGATACTTACTTTCGCAAC
1 GCGA-ATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
229958 GCGA
1 GCGA
229962 TACTGACTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 5 0.07
41 66 0.90
42 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
Found at i:229914 original size:20 final size:20
Alignment explanation
Indices: 229889--229982 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
229879 AATTGGGAAA
*
229889 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
229909 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
229930 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
229950 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
229970 TTCGCAACGCGAT
1 ATCGCAACGCGAT
229983 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:230562 original size:19 final size:19
Alignment explanation
Indices: 230502--230582 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
230492 TTCGAGAATG
230502 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
230522 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
230538 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
230555 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
230574 AAAATCGCA
1 AAAATCGCA
230583 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:230600 original size:19 final size:19
Alignment explanation
Indices: 230578--230748 Score: 172
Period size: 19 Copynumber: 9.1 Consensus size: 19
230568 GAAACCAAAA
*
230578 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
230597 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
230616 TCGAGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
230635 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
230655 TCGCATTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
230671 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
230688 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
230707 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
230727 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
230747 TC
1 TC
230749 AACCAAAAGA
Statistics
Matches: 129, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
14 9 0.07
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 65 0.50
20 50 0.39
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:230655 original size:39 final size:38
Alignment explanation
Indices: 230578--230748 Score: 165
Period size: 39 Copynumber: 4.6 Consensus size: 38
230568 GAAACCAAAA
230578 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
230616 TCG-AGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCA-TTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
230655 TCGCATTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* ** *
230688 TCGCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 TCGCATTGCGATTTTCATTT-CGCGTTGCGATTTTCATT
* *
230727 ATCTCGTTGCGATTTTCATTTC
1 -TCGCATTGCGATTTTCATTTC
230749 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
33 26 0.24
35 1 0.01
36 2 0.02
37 1 0.01
38 21 0.19
39 40 0.37
40 18 0.17
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:232793 original size:42 final size:42
Alignment explanation
Indices: 232733--232855 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
232723 GCCCGACTCG
* * *
232733 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
232775 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
232817 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
232856 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:232813 original size:21 final size:21
Alignment explanation
Indices: 232789--232855 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
232779 TCATTCCTCG
232789 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
232810 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
232831 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
232852 AGAG
1 AGAG
232856 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:234249 original size:14 final size:14
Alignment explanation
Indices: 234230--234265 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
234220 ATTGTTTAAT
234230 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
234244 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
234258 TGATTTGT
1 TGATTTGT
234266 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:234467 original size:19 final size:19
Alignment explanation
Indices: 234445--234595 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
234435 CGAAATTAAA
234445 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
234464 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
234479 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
234497 TTCGCATTACGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
234511 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
234530 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
234545 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
234563 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
234582 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
234596 GGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:234491 original size:33 final size:32
Alignment explanation
Indices: 234449--234575 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
234439 ATTAAATTCG
234449 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
234482 CGTTGCGATTTTCATTTCGCATTACGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
234515 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
234548 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
234576 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:234538 original size:66 final size:66
Alignment explanation
Indices: 234442--234570 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
234432 ACGCGAAATT
*
234442 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
234507 G
66 G
*
234508 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATT
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATT
234571 GCGATAGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
G
Found at i:237036 original size:22 final size:23
Alignment explanation
Indices: 237006--237049 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
236996 ATCATCAAAA
* *
237006 TCCGTGTATTG-CCAATATCAAG
1 TCCGAGTATTGACCAAGATCAAG
237028 TCCGAGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
237050 ATTTCGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:238108 original size:20 final size:20
Alignment explanation
Indices: 238083--238140 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
238073 ATTCATTTGA
238083 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
238103 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
238123 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
238141 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:240221 original size:20 final size:19
Alignment explanation
Indices: 240186--240252 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
240176 CAAACTTAAA
240186 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
240205 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
240225 ATCGCAATGCAAAATGAAA
1 ATCGCAACGCGAAATGACT
240244 ATCGCAACG
1 ATCGCAACG
240253 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:240258 original size:14 final size:14
Alignment explanation
Indices: 240241--240298 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
240231 ATGCAAAATG
240241 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
240255 AAAATCGCAACGAGAA
1 AAAATCGCAAC--GAC
240271 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
240287 AAAATCGCAACG
1 AAAATCGCAACG
240299 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.58
16 6 0.16
18 10 0.26
ACGTcount: A:0.50, C:0.24, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:240283 original size:32 final size:33
Alignment explanation
Indices: 240236--240303 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
240226 TCGCAATGCA
240236 AAATGAAAATCGCAACGACAAAATCGCAACGAG
1 AAATGAAAATCGCAACGACAAAATCGCAACGAG
*
240269 AAATG-AAATCGCAACGACAAAATCGCAACGCG
1 AAATGAAAATCGCAACGACAAAATCGCAACGAG
240301 AAA
1 AAA
240304 CACAAATCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 29 0.85
33 5 0.15
ACGTcount: A:0.51, C:0.22, G:0.18, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGACAAAATCGCAACGAG
Found at i:240332 original size:19 final size:19
Alignment explanation
Indices: 240310--240425 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
240300 GAAACACAAA
240310 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
240329 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
240345 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
240361 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
240377 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
240394 TCACATTGCGATATCCATT
1 TCGCATTGCGATTTTCATT
*
240413 TCCGCGTTGCGAT
1 T-CGCATTGCGAT
240426 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.19
15 3 0.04
16 12 0.16
17 3 0.04
18 12 0.16
19 23 0.30
20 9 0.12
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:240351 original size:14 final size:14
Alignment explanation
Indices: 240332--240389 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
240322 TTTCATTTCG
240332 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
240346 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
240362 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
240378 CGTTGCGATTTT
1 CGTTGCGATTTT
240390 CATTTCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:240401 original size:33 final size:33
Alignment explanation
Indices: 240315--240405 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
240305 ACAAATCGCA
*
240315 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
240348 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
240380 TTGCGATTTTCATTTCACATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
240406 ATCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:240424 original size:20 final size:20
Alignment explanation
Indices: 240399--240444 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
240389 TCATTTCACA
240399 TTGCGATA-TCCATTTCCGCG
1 TTGCGATAGT-CATTTCCGCG
* *
240419 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTCCGCG
240439 TTGCGA
1 TTGCGA
240445 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:240934 original size:18 final size:18
Alignment explanation
Indices: 240908--240952 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
240898 GTCGATCAGA
*
240908 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
240926 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
240944 TGATGGCTC
1 TGATGGCTC
240953 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:242308 original size:20 final size:20
Alignment explanation
Indices: 242265--242302 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
242255 AATAGTTTCT
242265 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
242285 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
242303 GAGAAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:242817 original size:20 final size:20
Alignment explanation
Indices: 242792--242885 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
242782 GATTATGTAT
242792 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
242812 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
242832 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
242853 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
242873 TATCGCATTGCGA
1 TATCGCGTTGCGA
242886 TTTTCCCATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:242857 original size:41 final size:41
Alignment explanation
Indices: 242812--242889 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
242802 CGAAAGTCAG
* * *
242812 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
242853 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
242890 CCCATTCGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:242886 original size:20 final size:20
Alignment explanation
Indices: 242772--242886 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
242762 CGCTTTGAAA
*
242772 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
242793 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
242813 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
242833 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
242854 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
242874 ATCGCATTGCGAT
1 ATCGCATTGCGAT
242887 TTTCCCATTC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:242898 original size:20 final size:20
Alignment explanation
Indices: 242875--242966 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
242865 ATAGTCAGTA
*
242875 TCGCATTGCGATTTTCCCAT
1 TCGCATTGCGATTTACCCAT
* **
242895 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCCAT
* *
242915 TCGCATTACGATTTTCCCAAT
1 TCGCATTGCGATTTACCC-AT
* **
242936 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCCAT
242956 TCGCATTGCGA
1 TCGCATTGCGA
242967 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
20 41 0.73
21 15 0.27
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCCAT
Found at i:242950 original size:41 final size:40
Alignment explanation
Indices: 242875--242962 Score: 158
Period size: 41 Copynumber: 2.2 Consensus size: 40
242865 ATAGTCAGTA
*
242875 TCGCATTGCGATTTTCCCATTCGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCCATTCGCGTTGCGATTTACTTAT
242915 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCC-ATTCGCGTTGCGATTTACTTAT
242956 TCGCATT
1 TCGCATT
242963 GCGAATTGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 17 0.37
41 29 0.63
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (40 bp):
TCGCATTACGATTTTCCCATTCGCGTTGCGATTTACTTAT
Found at i:250669 original size:24 final size:24
Alignment explanation
Indices: 250562--250656 Score: 147
Period size: 24 Copynumber: 4.0 Consensus size: 24
250552 AAACATAATT
* *
250562 CATGTCAAGTATCATATCACAATC
1 CATGTCAAGTATCAGATCAGAATC
*
250586 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
250610 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
250634 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
250657 TCAAGTCGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
23 2 0.03
24 61 0.94
25 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:255143 original size:24 final size:24
Alignment explanation
Indices: 255130--255248 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
255120 AAACATAATT
*
255130 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
*
255154 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
255178 TAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
255202 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
255226 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
255249 TCAGTCGAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:256873 original size:17 final size:18
Alignment explanation
Indices: 256842--256877 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
256832 AAACTAACAT
256842 TTTTTATACACATCAATA
1 TTTTTATACACATCAATA
*
256860 TTTTTAT-CAGATCAATA
1 TTTTTATACACATCAATA
256877 T
1 T
256878 GTCTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTATACACATCAATA
Found at i:257739 original size:13 final size:13
Alignment explanation
Indices: 257721--257746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
257711 AACGCCGGTT
257721 AACGGGTCGGGTC
1 AACGGGTCGGGTC
257734 AACGGGTCGGGTC
1 AACGGGTCGGGTC
257747 GGGTCAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:257744 original size:18 final size:18
Alignment explanation
Indices: 257723--257786 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
257713 CGCCGGTTAA
*
257723 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAATGGGT
*
257741 CGGGTCGGGTCAATGAGT
1 CGGGTCGGGTCAATGGGT
* *
257759 CAGATCGGGTCAATGGGT
1 CGGGTCGGGTCAATGGGT
257777 CGGGTCGGGT
1 CGGGTCGGGT
257787 TGTAACCGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAATGGGT
Found at i:262660 original size:159 final size:160
Alignment explanation
Indices: 262355--262666 Score: 547
Period size: 159 Copynumber: 2.0 Consensus size: 160
262345 CAGGCTCTAA
262355 TTAACCAAATTAATTATGTTAAATGAATATCTAATTAAAAAGTTCAAGGACTAAAGTGTAAAAAG
1 TTAACCAAATTAATTATGTTAAATGAATATCTAATTAAAAAGTTCAAGGACTAAAGTGTAAAAAG
* * **
262420 TCTAAGGGTTAGGGCTTTAATTATTAACCCTAATTAATTCTCCTTTTTATTGAATTGAATAATCG
66 TCTAAGGGTTAAGGCTCTAATTATTAACCCTAATTAATTCTCCTTTTTATTGAATCAAATAATCG
262485 ATGAAAACCCTCGGGCATAAAGGCGATGGC
131 ATGAAAACCCTCGGGCATAAAGGCGATGGC
*
262515 TTAACCTAATTAATTATGTTAAAT-ACATATCTAATTAAAAAGTTCAAGGACTAAAGTGTAAAAA
1 TTAACCAAATTAATTATGTTAAATGA-ATATCTAATTAAAAAGTTCAAGGACTAAAGTGTAAAAA
262579 GTCTAA-GGTTAAGGCTCTAATTATTAACCCTAATTAATTCTCCTTTTTATTGAATCAAATAATC
65 GTCTAAGGGTTAAGGCTCTAATTATTAACCCTAATTAATTCTCCTTTTTATTGAATCAAATAATC
*
262643 GATGAAAACCCTTGGGCATAAAGG
130 GATGAAAACCCTCGGGCATAAAGG
262667 TGAGGGCCAA
Statistics
Matches: 145, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
159 78 0.54
160 67 0.46
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (160 bp):
TTAACCAAATTAATTATGTTAAATGAATATCTAATTAAAAAGTTCAAGGACTAAAGTGTAAAAAG
TCTAAGGGTTAAGGCTCTAATTATTAACCCTAATTAATTCTCCTTTTTATTGAATCAAATAATCG
ATGAAAACCCTCGGGCATAAAGGCGATGGC
Found at i:264740 original size:14 final size:15
Alignment explanation
Indices: 264721--264749 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
264711 ATTTTTGGTA
264721 ATAATAAT-AATATT
1 ATAATAATAAATATT
264735 ATAATAATAAATATT
1 ATAATAATAAATATT
264750 TTTGGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATAAATATT
Found at i:265142 original size:116 final size:115
Alignment explanation
Indices: 265010--265299 Score: 291
Period size: 116 Copynumber: 2.5 Consensus size: 115
265000 AGGTTTGAAC
265010 AAGTTCTTCTCATTATGAACTTCTTCTCTGGAAATGTTGATTCATCTCCTTATGTGATGG-AT-G
1 AAGTTCTTCTCATTATGAAC-TCTTCT-TGGAAATGTTGATTCATCTCCTTATGTGATGGAATCG
* **
265073 AACAAAGGTTGAACAAGCTCTTCTTGTTATGAACTTCTTCTCCCTCATC-GAA
64 AACAAAGGTT-AAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAA
** *** * * *
265125 AATGTTCTTCTCATTATGAACTC-TCTAATATAAATGTTGATTTGCCTTCTTCTATGATGGAATC
1 AA-GTTCTTCTCATTATGAACTCTTCT--TGGAAATGTTGATTCATCTCCTTATGTGATGGAATC
* * * *
265189 GAACCAAGGTTAAAAAGTTTTTCTCATTATGAACTTCTTCTCCCTCATCAGAT
63 GAACAAAGGTTAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAA
* ** * * *
265242 GAGTTCTTCTCATTACAAACCCTTCAATTGGAAATGTTGATCCATCCCCTTATGTGAT
1 AAGTTCTTCTCATTATGAACTCTTC--TTGGAAATGTTGATTCATCTCCTTATGTGAT
265300 ACAATCGAGT
Statistics
Matches: 137, Mismatches: 30, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
114 3 0.02
115 28 0.20
116 70 0.51
117 35 0.26
119 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (115 bp):
AAGTTCTTCTCATTATGAACTCTTCTTGGAAATGTTGATTCATCTCCTTATGTGATGGAATCGAA
CAAAGGTTAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAA
Found at i:265716 original size:283 final size:282
Alignment explanation
Indices: 265177--265753 Score: 705
Period size: 283 Copynumber: 2.0 Consensus size: 282
265167 TGCCTTCTTC
*
265177 TATGATGGAATCGAACCAAGGTTAAAAAGTTTTTCTCATTATGAACTTCTTCTCCCTCATCAGAT
1 TATGATGGAATCGAACCAAGGTTAAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAT
*
265242 GAGTTCTTCTCATTACAAACCCTTCAATTGGAAATGTTGATCCATCCCCTTATGTGATACAATCG
66 GAGTTCTTCTCATTACAAACCCTTCAATTGGAAATGTTGATCCATCCCCTTATATGATACAATCG
* * * * *
265307 AGTGAAATGTTGAACAAGTTATTCTAATTAGGAACTTCTTCAGTGGAAGTGTTGATCAATATCCT
131 AATGAAATGTTGAACAAGTTATTCTAACTAGGAACTTATTCAGTGGAACTGTTGATCAATACCCT
* ** *
265372 TCTGCGATGGATTTGAACAAAGTGATGATGCTGATCTAACTCCTTATACGATGAATGAGCCAAAT
196 TATGCGATGGATTCAAACAAAGTGATGATGCTGATCTAACTCCTTATACGATGAATGAGCCAAAG
265437 TCGATGTTGTTCCAACTCCTTA
261 TCGATGTTGTTCCAACTCCTTA
* * * * *
265459 TGTGATGGAATTGAGCTAAGGTTGAACAAA-TTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
1 TATGATGGAATCGAACCAAGGTT-AA-AAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAG
* * ** * * **
265523 ATGAGTTCTTCTCATTGCAAAGCCTTTTATTTGAAATGTTGATCCA-CCTCCTTCTATGATGGAA
64 ATGAGTTCTTCTCATTACAAACCCTTCAATTGGAAATGTTGATCCATCC-CCTTATATGATACAA
* * * * * *
265587 TCGAATGAAATGTTGAACATGTTATTCTCACTAGGAACTTATTTATTGGAAACT-TTTATCCACT
128 TCGAATGAAATGTTGAACAAGTTATTCTAACTAGGAACTTATTCAGTGG-AACTGTTGAT-CAAT
* * * * *
265651 -CCCTTATGTGATGGATTCAAACAAAGTGATGATGTTGAT-TCAGCTCCTTATGCGATGTATGAG
191 ACCCTTATGCGATGGATTCAAACAAAGTGATGATGCTGATCT-AACTCCTTATACGATGAATGAG
* * * *
265714 CCAAGGTCGGTGTTGTTCCACCTCTTTA
255 CCAAAGTCGATGTTGTTCCAACTCCTTA
*
265742 TATGATAGAATC
1 TATGATGGAATC
265754 AAGCAAATGT
Statistics
Matches: 247, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
282 22 0.09
283 216 0.87
284 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (282 bp):
TATGATGGAATCGAACCAAGGTTAAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGAT
GAGTTCTTCTCATTACAAACCCTTCAATTGGAAATGTTGATCCATCCCCTTATATGATACAATCG
AATGAAATGTTGAACAAGTTATTCTAACTAGGAACTTATTCAGTGGAACTGTTGATCAATACCCT
TATGCGATGGATTCAAACAAAGTGATGATGCTGATCTAACTCCTTATACGATGAATGAGCCAAAG
TCGATGTTGTTCCAACTCCTTA
Found at i:266167 original size:37 final size:37
Alignment explanation
Indices: 266116--266201 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
266106 AGGGAGATAA
*
266116 TCCTAAGAAGGACTCAAATGACA-TTCTAAAAAAATAG
1 TCCTAAGAAGGACTCAAACGA-ATTTCTAAAAAAATAG
* * *
266153 TCCTCAGAATGACTCAAACGAATTTCTAGAAAAAT-G
1 TCCTAAGAAGGACTCAAACGAATTTCTAAAAAAATAG
*
266189 ATCCTAATAAGGA
1 -TCCTAAGAAGGA
266202 AAAAATAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.23
Consensus pattern (37 bp):
TCCTAAGAAGGACTCAAACGAATTTCTAAAAAAATAG
Found at i:266373 original size:18 final size:18
Alignment explanation
Indices: 266350--266391 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
266340 TTGTTGGGAA
266350 TTATTGCAAGAGCAGTCT
1 TTATTGCAAGAGCAGTCT
* *
266368 TTATTGCTAGAGTAGTCT
1 TTATTGCAAGAGCAGTCT
*
266386 TCATTG
1 TTATTG
266392 TTTTCTAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (18 bp):
TTATTGCAAGAGCAGTCT
Found at i:267232 original size:55 final size:55
Alignment explanation
Indices: 267124--267394 Score: 227
Period size: 54 Copynumber: 5.0 Consensus size: 55
267114 AATTATCATT
*** * *
267124 AAGAAACCCCTGAAAATTTGGCTTAG-CTTCTTTCAAAATCCATTTGTAAACATC
1 AAGAAACCCCTGAAAATCAAGCTTTGTCTTCTTTAAAAATCCATTTGTAAACATC
* * * * *
267178 AAGAAACCCCTAAAAATCAAGCTTTGTTTTTTTTCAAAATTCATTTG-AAGACATC
1 AAGAAACCCCTGAAAATCAAGCTTTGTCTTCTTTAAAAATCCATTTGTAA-ACATC
* * * * *
267233 AAAAAACACATGAATATCATG--TTGATCTTCTTTAAAAATCCATTTGTAAACATC
1 AAGAAACCCCTGAAAATCAAGCTTTG-TCTTCTTTAAAAATCCATTTGTAAACATC
* * * * * *
267287 AAGAAACTCCTGCAAATCAGGCTTAG-CTTCTTTAAAAATTCATTTGAAAACATC
1 AAGAAACCCCTGAAAATCAAGCTTTGTCTTCTTTAAAAATCCATTTGTAAACATC
* * *
267341 AAGAAA-CCATG-AAATCAAGC-TTATCTTCTTTATAAATCTCATTTG-ATAACATC
1 AAGAAACCCCTGAAAATCAAGCTTTGTCTTCTTTAAAAATC-CATTTGTA-AACATC
267394 A
1 A
267395 TATTGTTTGG
Statistics
Matches: 174, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
51 1 0.01
52 21 0.12
53 19 0.11
54 92 0.53
55 39 0.22
56 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
AAGAAACCCCTGAAAATCAAGCTTTGTCTTCTTTAAAAATCCATTTGTAAACATC
Found at i:267275 original size:109 final size:106
Alignment explanation
Indices: 267144--267394 Score: 308
Period size: 109 Copynumber: 2.3 Consensus size: 106
267134 TGAAAATTTG
* * * * *
267144 GCTTAGCTTCTTTCAAAATCCATTTGTAAACATCAAGAAACCCCTAAAAATCAAGCTTTGTTTTT
1 GCTTATCTTCTTTAAAAATCCATTTGTAAACATCAAGAAACCCCTAAAAATCAAGCTTAG-CTTC
* * *
267209 TTTCAAAATTCATTTGAAGACATCAAAAAACACATGAATATCAT
65 TTTAAAAATTCATTTGAAAACATCAAAAAAC-CATGAA-ATCAA
* ** *
267253 G-TTGATCTTCTTTAAAAATCCATTTGTAAACATCAAGAAACTCCTGCAAATCAGGCTTAGCTTC
1 GCTT-ATCTTCTTTAAAAATCCATTTGTAAACATCAAGAAACCCCTAAAAATCAAGCTTAGCTTC
*
267317 TTTAAAAATTCATTTGAAAACATCAAGAAACCATGAAATCAA
65 TTTAAAAATTCATTTGAAAACATCAAAAAACCATGAAATCAA
*
267359 GCTTATCTTCTTTATAAATCTCATTTG-ATAACATCA
1 GCTTATCTTCTTTAAAAATC-CATTTGTA-AACATCA
267395 TATTGTTTGG
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
106 21 0.17
107 21 0.17
108 32 0.26
109 50 0.40
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (106 bp):
GCTTATCTTCTTTAAAAATCCATTTGTAAACATCAAGAAACCCCTAAAAATCAAGCTTAGCTTCT
TTAAAAATTCATTTGAAAACATCAAAAAACCATGAAATCAA
Found at i:269534 original size:19 final size:19
Alignment explanation
Indices: 269501--269571 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
269491 TTTGCTTTCT
269501 TTTCTCTCATTTTTACTTTA
1 TTTCTCTC-TTTTTACTTTA
* *
269521 TTTCTCTCTTTTTATGTTTT
1 TTTCTCTCTTTTTA-CTTTA
*
269541 TTTCT-TCTTTTTACTATA
1 TTTCTCTCTTTTTACTTTA
269559 TCTTCTCT-TTTTT
1 T-TTCTCTCTTTTT
269572 GTCTTTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 23 0.53
20 17 0.40
ACGTcount: A:0.10, C:0.18, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTCTCTCTTTTTACTTTA
Found at i:272457 original size:204 final size:204
Alignment explanation
Indices: 271970--272583 Score: 1113
Period size: 204 Copynumber: 3.0 Consensus size: 204
271960 AATCATTAAT
271970 CAGAGAAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAACT
1 CAGAGAAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAACT
*
272035 CAAAATTTCTAAATTCCAAATGTAGGGTAATCAAATCGTGGCTTGACTCTCGATTTGTTTTAGAA
66 CAAAATTTCTAAATTCCAAATGTAGGGTAATCAACTCGTGGCTTGACTCTCGATTTGTTTTAGAA
* * *
272100 AACAAATTTTTCCCAGCAAAGTCACTAAGATGTCGTCATTATTTTTCGCCCATGTGGGTCAAAAA
131 AACAAATTTTCCCCAGCAGAGTCACTAAGATGTCGTCATTGTTTTTCGCCCATGTGGGTCAAAAA
272165 CTAGTATGA
196 CTAGTATGA
*
272174 CAGAGAAAAAAATATTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAAC
1 CAGAG-AAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAAC
272239 TCAAAATTTCTAAATTCCAAATGTAGGGTAATCAACTCGTGGCTTGACTCTCGATTTGTTTTAGA
65 TCAAAATTTCTAAATTCCAAATGTAGGGTAATCAACTCGTGGCTTGACTCTCGATTTGTTTTAGA
** *
272304 AAACAAATTTTCCCCATTAGAGTCACTAAGATGTCGTCATTGTCTTTCGCCCATGTGGGTCAAAA
130 AAACAAATTTTCCCCAGCAGAGTCACTAAGATGTCGTCATTGTTTTTCGCCCATGTGGGTCAAAA
272369 ACTAGTATGA
195 ACTAGTATGA
272379 CAGAGAAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAACT
1 CAGAGAAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAACT
* *
272444 CAAAATTTCTAAATTCCAAATGTATGGTAATCAACTCATGGCTTGACTCTCGATTTGTTTTAGAA
66 CAAAATTTCTAAATTCCAAATGTAGGGTAATCAACTCGTGGCTTGACTCTCGATTTGTTTTAGAA
272509 AA-AATATTTTCCCCAGCAGAGTCACTAAGATGTCGTCATTGTTTTTCGCCCATGTGGGTCAAAA
131 AACAA-ATTTTCCCCAGCAGAGTCACTAAGATGTCGTCATTGTTTTTCGCCCATGTGGGTCAAAA
272573 ACTAGTATGA
195 ACTAGTATGA
272583 C
1 C
272584 TTGGGTTTTT
Statistics
Matches: 394, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
203 2 0.01
204 196 0.50
205 196 0.50
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (204 bp):
CAGAGAAAAAATCTTTTTTTCTTTCAAAATAACATAATTAACTGTAAATTAAATAAATTCAAACT
CAAAATTTCTAAATTCCAAATGTAGGGTAATCAACTCGTGGCTTGACTCTCGATTTGTTTTAGAA
AACAAATTTTCCCCAGCAGAGTCACTAAGATGTCGTCATTGTTTTTCGCCCATGTGGGTCAAAAA
CTAGTATGA
Found at i:273833 original size:15 final size:16
Alignment explanation
Indices: 273795--273839 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
273785 GAAAAATAAT
273795 ATATATGTATATAAAA
1 ATATATGTATATAAAA
*
273811 AGTATATG-ATATGAAA
1 A-TATATGTATATAAAA
273827 ATATATGTA-ATAA
1 ATATATGTATATAA
273840 TAAGGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (16 bp):
ATATATGTATATAAAA
Found at i:276914 original size:15 final size:15
Alignment explanation
Indices: 276886--276943 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
276876 AATATTTCTC
* *
276886 CACCATCTCTCTGCCA
1 CACC-TCTCCCTGCTA
276902 CACCTCTCCCTGCTA
1 CACCTCTCCCTGCTA
* *
276917 CACCTCTCTCTGTTA
1 CACCTCTCCCTGCTA
276932 CACCTCTCCCTG
1 CACCTCTCCCTG
276944 GTCTGCCCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.14, C:0.50, G:0.07, T:0.29
Consensus pattern (15 bp):
CACCTCTCCCTGCTA
Found at i:276926 original size:30 final size:31
Alignment explanation
Indices: 276886--276943 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
276876 AATATTTCTC
276886 CACCATCTCTCTGCCACACCTCTCCCTGCTA
1 CACCATCTCTCTGCCACACCTCTCCCTGCTA
**
276917 CACC-TCTCTCTGTTACACCTCTCCCTG
1 CACCATCTCTCTGCCACACCTCTCCCTG
276944 GTCTGCCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.14, C:0.50, G:0.07, T:0.29
Consensus pattern (31 bp):
CACCATCTCTCTGCCACACCTCTCCCTGCTA
Found at i:277106 original size:87 final size:87
Alignment explanation
Indices: 276960--277135 Score: 280
Period size: 87 Copynumber: 2.0 Consensus size: 87
276950 CCACTATTGA
* * *
276960 CACATATCTACGTGGGCCTAGATGACTCTATATTGGTTGGCTCACCACCCGCAAGATCTACAGCT
1 CACATATCTACGTAGGCCTAGATGACTCTACATTGGTTGGCTCACCACCCGCAAGATCTACAACT
*
277025 GTGGCCTCTGAAAGTCTCTGGG
66 GTGGCCTCTGAAAATCTCTGGG
* * * *
277047 CACATCTCTACGTAGGCCTATATGACTCTACGTTGGTTGGCTCGCCACCCGCAAGATCTACAACT
1 CACATATCTACGTAGGCCTAGATGACTCTACATTGGTTGGCTCACCACCCGCAAGATCTACAACT
277112 GTGGCCTCTGAAAATCTCTGGG
66 GTGGCCTCTGAAAATCTCTGGG
277134 CA
1 CA
277136 TTACCTTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (87 bp):
CACATATCTACGTAGGCCTAGATGACTCTACATTGGTTGGCTCACCACCCGCAAGATCTACAACT
GTGGCCTCTGAAAATCTCTGGG
Found at i:284070 original size:14 final size:14
Alignment explanation
Indices: 284051--284085 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
284041 ATCTGAACCA
284051 AGTCAACTCGCCTG
1 AGTCAACTCGCCTG
*
284065 AGTCAACTCGTCTG
1 AGTCAACTCGCCTG
284079 AGTCAAC
1 AGTCAAC
284086 CCGTTGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (14 bp):
AGTCAACTCGCCTG
Found at i:286285 original size:32 final size:32
Alignment explanation
Indices: 286244--286316 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
286234 TAAGATGACC
* * *
286244 CTTGGGTAGGCTTCGAGGCCTCGAGAAACTTT
1 CTTGGGTAGGATCCGAGGCCCCGAGAAACTTT
286276 CTTGGGTAGGATCCGAGGCCCCGAGAAACTTT
1 CTTGGGTAGGATCCGAGGCCCCGAGAAACTTT
286308 CTTGGGTAG
1 CTTGGGTAG
286317 ATCATGGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.26
Consensus pattern (32 bp):
CTTGGGTAGGATCCGAGGCCCCGAGAAACTTT
Found at i:289594 original size:44 final size:44
Alignment explanation
Indices: 289544--289845 Score: 424
Period size: 44 Copynumber: 6.9 Consensus size: 44
289534 GTTTGACACA
* *
289544 TTTCTGCTAATAATGCACCGTTATGCATTTTTATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* *
289588 TTTCTGCCAATAATGCACCATTATGTATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* *
289632 TTTCTGCCAATAATGCACCATTATGCATTTTCATTTATGGCACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * * * * *
289676 TTTCTGCCAATAATACATCGTTATTCAATTTCATTTATGACATC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * *
289720 TTTCTGTCAATAATGCACCGTTATGCATTTTCATTTATGGAACT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * *
289764 TTTCTACCAATAATGCACAGTTATGCATTTTCATTTATGGCACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* *
289808 TGTATGCCAATAATGCACCGTTATGCATTTTCATTTAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
289846 TTTGGTAACA
Statistics
Matches: 226, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 226 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (44 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
Found at i:289674 original size:25 final size:25
Alignment explanation
Indices: 289602--289674 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
289592 TGCCAATAAT
*
289602 GCACCATTATGTATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
** * *
289627 GCACC-TT-T-C--TGCCAATAAT-
1 GCACCATTATGCATTTTCATTTATG
289646 GCACCATTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
289671 GCAC
1 GCAC
289675 ATTTCTGCCA
Statistics
Matches: 33, Mismatches: 9, Indels: 12
0.61 0.17 0.22
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 1 0.03
22 1 0.03
23 1 0.03
24 8 0.24
25 9 0.27
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (25 bp):
GCACCATTATGCATTTTCATTTATG
Found at i:296187 original size:44 final size:44
Alignment explanation
Indices: 296139--296403 Score: 377
Period size: 44 Copynumber: 6.0 Consensus size: 44
296129 ATACCATGAG
* * *
296139 TGGCACCATTCTGCCAATAATCCACCGTTATGCATTTTTATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
296183 TGGCATCTTTATGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
296227 CGACACCTTTCGGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
296271 CGACACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
296315 TAGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
296359 TGGCATCTTTCTACCAATAATACACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
296403 T
1 T
296404 TTCAGTAACA
Statistics
Matches: 197, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 197 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.38
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:297767 original size:13 final size:13
Alignment explanation
Indices: 297749--297774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
297739 TTTAAATCCT
297749 TTCAAAATAGTCA
1 TTCAAAATAGTCA
297762 TTCAAAATAGTCA
1 TTCAAAATAGTCA
297775 CTGACCTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTCAAAATAGTCA
Found at i:306473 original size:8 final size:8
Alignment explanation
Indices: 306460--306491 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
306450 TTGGATTCTA
306460 AAATTTTT
1 AAATTTTT
306468 AAATTTTT
1 AAATTTTT
306476 AAATTTTT
1 AAATTTTT
306484 AAATTTTT
1 AAATTTTT
306492 TTGTATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
AAATTTTT
Found at i:308530 original size:34 final size:34
Alignment explanation
Indices: 308471--308556 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 34
308461 GATTATTGGT
* * *
308471 TTAC-AAAATGTAAGATTATCTTCAGAAATAACA
1 TTACTAAAACGTAACATTATCATCAGAAATAACA
*
308504 TTACTAAAACGTAATATTATCATCAGAAATAACA
1 TTACTAAAACGTAACATTATCATCAGAAATAACA
* *
308538 TTACTGAAACATAACATTA
1 TTACTAAAACGTAACATTA
308557 CTATGGAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 4 0.09
34 42 0.91
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (34 bp):
TTACTAAAACGTAACATTATCATCAGAAATAACA
Found at i:308746 original size:23 final size:20
Alignment explanation
Indices: 308709--308752 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 20
308699 TTTTAAAAGT
308709 TAAAATTTAATATTAAATTA
1 TAAAATTTAATATTAAATTA
*
308729 TAAATATTTCAATCATTATATTA
1 TAAA-ATTT-AAT-ATTAAATTA
308752 T
1 T
308753 CTTACTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 3 0.15
23 9 0.45
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAATTTAATATTAAATTA
Found at i:309059 original size:25 final size:25
Alignment explanation
Indices: 308995--309061 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
308985 ATAAAATTAT
* *
308995 AAATA-ATTAATATATTAAATATTA
1 AAATATATTAATATTTTAAATACTA
*
309019 AAATATA-AAATAATTTTAAATACTA
1 AAATATATTAAT-ATTTTAAATACTA
* *
309044 ATATTTATTAATATTTTA
1 AAATATATTAATATTTTA
309062 TTAAGTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 8 0.24
25 23 0.68
26 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATATATTAATATTTTAAATACTA
Found at i:310731 original size:24 final size:24
Alignment explanation
Indices: 310704--310799 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
310694 TTGTTTCAAT
310704 AATTTAATATAATTTAAATATTAA
1 AATTTAATATAATTTAAATATTAA
*
310728 AA-TTAAAATTGATATATTAATTATATT-A
1 AATTTAATA-T-A-AT-TTAA--ATATTAA
310756 AATTT-ATAT-A-TTATAATATTAATA
1 AATTTAATATAATTTA-AATATT-A-A
310780 AATTTAAATATAATTTAAAT
1 AATTT-AATATAATTTAAAT
310800 TAACATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 27
0.65 0.02 0.32
Matches are distributed among these distances:
21 5 0.09
22 3 0.05
23 6 0.11
24 10 0.18
25 1 0.02
26 6 0.11
27 9 0.16
28 8 0.15
29 7 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
AATTTAATATAATTTAAATATTAA
Found at i:310764 original size:22 final size:21
Alignment explanation
Indices: 310721--310777 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
310711 TATAATTTAA
310721 ATATTA-AA-ATTAAAATTGAT
1 ATATTATAATATT-AAATTGAT
* *
310741 ATATTAATTATATTAAATTTAT
1 ATATT-ATAATATTAAATTGAT
310763 ATATTATAATATTAA
1 ATATTATAATATTAA
310778 TAAATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.16
21 10 0.32
22 13 0.42
23 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTATAATATTAAATTGAT
Found at i:312903 original size:13 final size:13
Alignment explanation
Indices: 312887--312912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
312877 TTATACACAT
312887 ATACACTTTGAAA
1 ATACACTTTGAAA
312900 ATACACTTTGAAA
1 ATACACTTTGAAA
312913 CACTTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
ATACACTTTGAAA
Found at i:314693 original size:17 final size:17
Alignment explanation
Indices: 314671--314756 Score: 93
Period size: 18 Copynumber: 4.9 Consensus size: 17
314661 GAAAATCCTT
*
314671 TGATAACTGTAAATATC
1 TGATAACTATAAATATC
314688 TGATAACT-TAAAATCATC
1 TGATAACTAT-AAAT-ATC
*
314706 TGATAATTATAAATATC
1 TGATAACTATAAATATC
** *
314723 TGATAACGGTGAAATGTC
1 TGATAACTAT-AAATATC
314741 TGATAACTATAAATAT
1 TGATAACTATAAATAT
314757 TTAGAATTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.02
17 27 0.47
18 28 0.49
19 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (17 bp):
TGATAACTATAAATATC
Found at i:314710 original size:35 final size:36
Alignment explanation
Indices: 314662--314756 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 36
314652 TTGGTAATTG
* * * *
314662 AAAATCCTTTGATAACTGTAAATATCTGATAAC-TT
1 AAAATCATCTGATAACTATAAATATCTGATAACGGT
*
314697 AAAATCATCTGATAATTATAAATATCTGATAACGGT
1 AAAATCATCTGATAACTATAAATATCTGATAACGGT
* *
314733 GAAAT-GTCTGATAACTATAAATAT
1 AAAATCATCTGATAACTATAAATAT
314757 TTAGAATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 46 0.90
36 5 0.10
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (36 bp):
AAAATCATCTGATAACTATAAATATCTGATAACGGT
Found at i:322693 original size:20 final size:20
Alignment explanation
Indices: 322655--322693 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
322645 CATTGCAGGA
322655 ATTTATGGCCTCAACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
322675 ATTTCATGGCTTCAA-AAAA
1 ATTT-ATGGCCTCAACAAAA
322694 AACCTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:329353 original size:22 final size:19
Alignment explanation
Indices: 329321--329373 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
329311 CCGGAAGGGT
*
329321 GTATCGGTACCATGGTATAGTA
1 GTATCGATACCAT-GTA-AG-A
*
329343 GTATCGATACCATGTAAGG
1 GTATCGATACCATGTAAGA
329362 GTATCGATACCA
1 GTATCGATACCA
329374 AGAACCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 3 0.10
22 12 0.41
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (19 bp):
GTATCGATACCATGTAAGA
Found at i:329454 original size:22 final size:22
Alignment explanation
Indices: 329415--329456 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
329405 CAGAAAGAGG
* *
329415 GTATTGGTACCATAGTATAGAA
1 GTATCGGTACCAGAGTATAGAA
*
329437 GTATCGGTACCAGGGTATAG
1 GTATCGGTACCAGAGTATAG
329457 TATCGATACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (22 bp):
GTATCGGTACCAGAGTATAGAA
Found at i:329881 original size:20 final size:20
Alignment explanation
Indices: 329858--329919 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
329848 TAAAATTGAG
*
329858 AAGGATGCATTAAGGTATGA
1 AAGGATGCATTAAGGCATGA
* * *
329878 AAGGATGCGTTACGGCCA-AA
1 AAGGATGCATTAAGG-CATGA
329898 AAGGATGCATTAAGGCATGA
1 AAGGATGCATTAAGGCATGA
329918 AA
1 AA
329920 ATACCATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.19
Consensus pattern (20 bp):
AAGGATGCATTAAGGCATGA
Found at i:329966 original size:26 final size:26
Alignment explanation
Indices: 329923--330045 Score: 136
Period size: 26 Copynumber: 5.0 Consensus size: 26
329913 CATGAAAATA
*
329923 CCATAATT-AAATGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAATGATG
* * *
329948 CCATCATTAAAATGCATGAAAGGATT
1 CCATAATTAAAATGCATGAAATGATG
329974 CCATAATTAAAATGCATGAAATGATG
1 CCATAATTAAAATGCATGAAATGATG
*
330000 -C---ATT--AAGGCATGAAATGATG
1 CCATAATTAAAATGCATGAAATGATG
*
330020 TCAT-ATTAAAATGCATGAAATGATG
1 CCATAATTAAAATGCATGAAATGATG
330045 C
1 C
330046 ATTAAGCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
20 15 0.18
21 1 0.01
22 3 0.04
23 3 0.04
25 23 0.27
26 39 0.46
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (26 bp):
CCATAATTAAAATGCATGAAATGATG
Found at i:330012 original size:20 final size:19
Alignment explanation
Indices: 329987--330058 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 19
329977 TAATTAAAAT
329987 GCATGAAATGATGCATTAA
1 GCATGAAATGATGCATTAA
330006 GGCATGAAATGATGTCATATTAAAA
1 -GCATGAAATGATG-C--ATT--AA
330031 TGCATGAAATGATGCATTAA
1 -GCATGAAATGATGCATTAA
330051 GCATGAAA
1 GCATGAAA
330059 GGATACCATA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
19 8 0.17
20 15 0.33
21 1 0.02
22 3 0.07
23 3 0.07
24 1 0.02
25 15 0.33
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
GCATGAAATGATGCATTAA
Found at i:330031 original size:45 final size:44
Alignment explanation
Indices: 329901--330059 Score: 164
Period size: 45 Copynumber: 3.5 Consensus size: 44
329891 GGCCAAAAAG
* *
329901 GATGCATTAAGGCATGAAA-ATACCATAATT-AAATGCATGAAAG
1 GATGCATTAAGGCATGAAAGAT-TCATAATTAAAATGCATGAAAT
*
329944 GATGCCATCATTAAAATGCATGAAAGGATTCCATAATTAAAATGCATGAAAT
1 GATG----CATT--AAGGCATGAAA-GATT-CATAATTAAAATGCATGAAAT
329996 GATGCATTAAGGCATGAAATGATGTCAT-ATTAAAATGCATGAAAT
1 GATGCATTAAGGCATGAAA-GAT-TCATAATTAAAATGCATGAAAT
330041 GATGCATTAA-GCATGAAAG
1 GATGCATTAAGGCATGAAAG
330060 GATACCATAA
Statistics
Matches: 100, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
43 5 0.05
44 8 0.08
45 27 0.27
46 16 0.16
47 5 0.05
48 4 0.04
49 10 0.10
51 9 0.09
52 16 0.16
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (44 bp):
GATGCATTAAGGCATGAAAGATTCATAATTAAAATGCATGAAAT
Found at i:336327 original size:95 final size:95
Alignment explanation
Indices: 336107--336314 Score: 283
Period size: 95 Copynumber: 2.2 Consensus size: 95
336097 CCAATGAGAT
*
336107 AGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATCTAAAATTGGTATCAATAC
1 AGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATCTAAAAGTGGTATCAATAC
* * * *
336172 GGGAAGGGGGTATCGGTACCATAGTATGGT
66 CGGAAGGGGGTATCGGTACCATAGAATAGA
* * * * **
336202 ATTATTGATAACATGGTAAGGGTATCGATAC-CAGACAACATCGAATCTAAAAGTGGTATTGATA
1 AGTATCGATACCATGGTAAGGGTATCGATACTAAGA-AACATCGAATCTAAAAGTGGTATCAATA
*
336266 CCGGAATGGGGTATCGGTACCATAGAATAGA
65 CCGGAAGGGGGTATCGGTACCATAGAATAGA
*
336297 AGTATCAATACCATGGTA
1 AGTATCGATACCATGGTA
336315 GTATTATCGA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 3 0.03
95 93 0.97
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATCTAAAAGTGGTATCAATAC
CGGAAGGGGGTATCGGTACCATAGAATAGA
Found at i:336683 original size:20 final size:20
Alignment explanation
Indices: 336654--336730 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 20
336644 TTATGCTATC
336654 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
336674 TGACAGGATGCCATAATTAAATTGCA
1 TGAAAGGATG-C---ATT-AA-GGCA
336700 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
336720 TGAAAGGATGC
1 TGAAAGGATGC
336731 CATAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 23 0.49
21 3 0.06
22 3 0.06
24 3 0.06
25 3 0.06
26 12 0.26
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (20 bp):
TGAAAGGATGCATTAAGGCA
Found at i:336709 original size:46 final size:47
Alignment explanation
Indices: 336654--336742 Score: 162
Period size: 46 Copynumber: 1.9 Consensus size: 47
336644 TTATGCTATC
*
336654 TGAAAGGATGCATTAAGGCATGACAGGATGCCATAA-TTAAATTGCA
1 TGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTTAAATTGCA
336700 TGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTTAAAT
1 TGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTTAAAT
336743 GTGTAAATGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 35 0.85
47 6 0.15
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (47 bp):
TGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTTAAATTGCA
Found at i:343738 original size:21 final size:20
Alignment explanation
Indices: 343713--343751 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
343703 CATCAAGGTC
*
343713 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
343734 TTTGTCGAGGCCATAAAT
1 TTTGTCGAAGCCATAAAT
343752 TCCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:346711 original size:11 final size:11
Alignment explanation
Indices: 346697--346721 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
346687 TACAACCTAC
346697 ATGCAACTAAA
1 ATGCAACTAAA
346708 ATGCAACTAAA
1 ATGCAACTAAA
346719 ATG
1 ATG
346722 TTGTGCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (11 bp):
ATGCAACTAAA
Found at i:349795 original size:3 final size:3
Alignment explanation
Indices: 349787--349858 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
349777 TTTTGGCCTG
349787 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
349834 TAA -AA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
349859 AAAGGGATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.09
3 60 0.91
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:349825 original size:17 final size:17
Alignment explanation
Indices: 349787--349858 Score: 135
Period size: 17 Copynumber: 4.2 Consensus size: 17
349777 TTTTGGCCTG
349787 TAATAATAATAATAATAA
1 TAATAATAATAATAA-AA
349805 TAATAATAATAATAAAA
1 TAATAATAATAATAAAA
349822 TAATAATAATAATAAAA
1 TAATAATAATAATAAAA
349839 TAATAATAATAATAAAA
1 TAATAATAATAATAAAA
349856 TAA
1 TAA
349859 AAAGGGATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 39 0.72
18 15 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATAATAATAATAAAA
Found at i:351031 original size:46 final size:45
Alignment explanation
Indices: 350978--351115 Score: 161
Period size: 46 Copynumber: 3.0 Consensus size: 45
350968 TAAAACGAAT
* * *
350978 CCATAAATAAAATGCGTGAAAGGATACATTAATGCACGGAAGGATG
1 CCATAAATAAAATGCATGAAAGGATACATTAA-GCATGAAAGGATG
* **
351024 CCATAAATAAAATGCATGAAAGGATTCATTAAGTC-TTTAAGGATG
1 CCATAAATAAAATGCATGAAAGGATACATTAAG-CATGAAAGGATG
* * *
351069 CCATGAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAAATAAAATGCATGAAAGGATACATTAA-GCATGAAAGGATG
351115 C
1 C
351116 ATTAAGGCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
45 38 0.48
46 41 0.52
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (45 bp):
CCATAAATAAAATGCATGAAAGGATACATTAAGCATGAAAGGATG
Found at i:351107 original size:20 final size:21
Alignment explanation
Indices: 351082--351180 Score: 130
Period size: 20 Copynumber: 4.6 Consensus size: 21
351072 TGAATGAAAT
351082 GCATGAAAGGATGCATT-AAG
1 GCATGAAAGGATGCATTAAAG
351102 GCATGAAAGGATGCATT-AAG
1 GCATGAAAGGATGCATTAAAG
*
351122 GCATGAAAGGATGCCATAATGAAAT
1 GCATGAAAGGATG-CAT--T-AAAG
*
351147 GCATGAAATGATGCATTAAAG
1 GCATGAAAGGATGCATTAAAG
351168 GCATGAAAGGATG
1 GCATGAAAGGATG
351181 TCATAAATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
20 33 0.47
21 18 0.26
22 1 0.01
23 1 0.01
24 3 0.04
25 14 0.20
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.20
Consensus pattern (21 bp):
GCATGAAAGGATGCATTAAAG
Found at i:351119 original size:65 final size:66
Alignment explanation
Indices: 351037--351180 Score: 220
Period size: 65 Copynumber: 2.2 Consensus size: 66
351027 TAAATAAAAT
* * **
351037 GCATGAAAGGATTCATTAAGTC-TTTAAGGATGCCATGAATGAAATGCATGAAAGGATGCATT-A
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT-AATGAAATGCATGAAAGGATGCATTAA
351100 AG
65 AG
*
351102 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAATGCATGAAATGATGCATTAAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAATGCATGAAAGGATGCATTAAA
351167 G
66 G
351168 GCATGAAAGGATG
1 GCATGAAAGGATG
351181 TCATAAATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 44 0.61
66 28 0.39
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.23
Consensus pattern (66 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATGAAATGCATGAAAGGATGCATTAAA
G
Found at i:359650 original size:41 final size:40
Alignment explanation
Indices: 359605--359750 Score: 140
Period size: 41 Copynumber: 3.6 Consensus size: 40
359595 TAAACAATAA
*
359605 CGGCGTTTATAGTAAAACGCCGCAATATAGTAG-ACATTTAG
1 CGGCGTTTATAGTAAAACGCCGCAATATAGT-GTA-ATATAG
359646 CGGCGTTT-TAGCTAAAAACGCCGCAATATAGTGTAATATAG
1 CGGCGTTTATAG-T-AAAACGCCGCAATATAGTGTAATATAG
* * * * *
359687 CGACGCTTATTGTATAAACGCCGCAAAATA-TGTGATATAG
1 CGGCGTTTATAGTA-AAACGCCGCAATATAGTGTAATATAG
*
359727 TGGCGTTT-T-GTAAAAACGCCGCAA
1 CGGCGTTTATAGT-AAAACGCCGCAA
359751 ATGTTAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
38 13 0.14
39 2 0.02
40 18 0.20
41 36 0.40
42 21 0.23
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (40 bp):
CGGCGTTTATAGTAAAACGCCGCAATATAGTGTAATATAG
Found at i:360836 original size:57 final size:57
Alignment explanation
Indices: 360775--360962 Score: 367
Period size: 57 Copynumber: 3.3 Consensus size: 57
360765 GTGAAGACTG
*
360775 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTTTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
360832 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
360889 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
360946 TTTATGCATAAGTACTT
1 TTTATGCATAAGTACTT
360963 CTGTTTTAAT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (57 bp):
TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
Found at i:362620 original size:60 final size:58
Alignment explanation
Indices: 362515--362638 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 58
362505 AAATCCATGA
* * * *
362515 ATAAAAACTATGGAATGATAAGGAGTTAATGCTCAACTATGTTACTAGGTAAGCCAAG
1 ATAAAAACCATGGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
* *
362573 ATAAGAAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTTGGTACGCCAAG
1 ATAA-AAACCATG-GAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
362633 ATAAAA
1 ATAAAA
362639 TTCGTATGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 4 0.07
59 9 0.16
60 45 0.78
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (58 bp):
ATAAAAACCATGGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAG
Found at i:363990 original size:40 final size:40
Alignment explanation
Indices: 363940--364287 Score: 336
Period size: 40 Copynumber: 8.8 Consensus size: 40
363930 TAAGAAACAT
* *
363940 ATTTTTAGGTTGCAACCTAATTTATCATATAGAAACCTGA
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
* *
363980 ATTTCTAGGTTACAACCTGATTTATCATATA-AAACTTGAA
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTG-A
*
364020 ATTT-TAGGTTGCAACCTGATTTATCATATAGAAACTTGA
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
* * *
364059 ATTTCTAGGTCGCAACCTGATTTATCATATAAAAACTTGA
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
* * *
364099 ATTTCTAGGTTGTAACCTGATTTATCATATGGAAACCCGA
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
** * *
364139 ACTTT-TAGGTTGCAGTCTGATTGATCATGTAGAAACCTG-
1 A-TTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
* * * * * *
364178 ATTTTTA-GTTGCAACCTAATTTATCACATTGTAACTTG-
1 ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
* * * *
364216 ATTTCTTTTTA-GTTGCAACCTTATTTTTTATTATAGAAACC-AA
1 ATTTC----TAGGTTGCAACCTGATTTATCA-TATAGAAACCTGA
*
364259 ATTT-TAGGTTGCAACCTGATTTTTCATAT
1 ATTTCTAGGTTGCAACCTGATTTATCATAT
364288 GGAATTATGT
Statistics
Matches: 256, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
38 34 0.13
39 56 0.22
40 135 0.53
41 3 0.01
42 18 0.07
43 10 0.04
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (40 bp):
ATTTCTAGGTTGCAACCTGATTTATCATATAGAAACCTGA
Found at i:365604 original size:21 final size:21
Alignment explanation
Indices: 365586--365641 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
365576 ATGAAGCAAG
365586 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
365607 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
365628 GGAAGCAGAGAGAG
1 GGAAGCAGAGAGAG
365642 AAACAGTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.43, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:365668 original size:42 final size:42
Alignment explanation
Indices: 365578--365685 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 42
365568 AGCGGAAAAT
* * *
365578 GAAGCAAG-GGAAGCAGAGAGAGCAGCAGCGGAAGCAGCTAGA
1 GAAGC-AGCGGAAGCAGAGAGAGAAACAGCGGAAGCAGCAAGA
* * *
365620 GCAGCAGCGGAAGCAGAGAGAGAAACAGTGGCAGCA-CAAAGA
1 GAAGCAGCGGAAGCAGAGAGAGAAACAGCGGAAGCAGC-AAGA
* * *
365662 GAAGCAGCGGCAGCACAAAGAGAA
1 GAAGCAGCGGAAGCAGAGAGAGAA
365686 GCAACATATC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.06
42 51 0.94
ACGTcount: A:0.43, C:0.19, G:0.37, T:0.02
Consensus pattern (42 bp):
GAAGCAGCGGAAGCAGAGAGAGAAACAGCGGAAGCAGCAAGA
Found at i:365686 original size:21 final size:21
Alignment explanation
Indices: 365617--365688 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
365607 GGAAGCAGCT
* * * *
365617 AGAGCAGCAGCGGAAGCAGAG
1 AGAGAAGCAGCGGCAGCACAA
* *
365638 AGAGAAACAGTGGCAGCACAA
1 AGAGAAGCAGCGGCAGCACAA
365659 AGAGAAGCAGCGGCAGCACAA
1 AGAGAAGCAGCGGCAGCACAA
365680 AGAGAAGCA
1 AGAGAAGCA
365689 ACATATCAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.35, T:0.01
Consensus pattern (21 bp):
AGAGAAGCAGCGGCAGCACAA
Found at i:366097 original size:42 final size:44
Alignment explanation
Indices: 366051--366158 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 44
366041 CCGATCTTTA
* * *
366051 GCGGCGTTTGTA-TTAAAGACGCCGCCAAATC-AAACACATATT
1 GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
* * * *
366093 GCGGCGTTT-AAGCTAAAAACGCCGCTAAACCTTAACACTTATT
1 GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
*
366136 GCGGCGTTTGT-GATAAAAACGCC
1 GCGGCGTTTGTAGCTAAAAACGCC
366159 ACTAAAAATC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.44
43 29 0.54
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (44 bp):
GCGGCGTTTGTAGCTAAAAACGCCGCCAAACCTAAACACATATT
Found at i:366142 original size:43 final size:43
Alignment explanation
Indices: 366077--366187 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
366067 AGACGCCGCC
* *
366077 AAATCAAACACATATTGCGGCGTTTAAGCTAAAAACGCCGCTAA
1 AAATC-AACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
** * * **
366121 ACCTTAACACTTATTGCGGCGTTTGTGATAAAAACGCCACTAA
1 AAATCAACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
* *
366164 AAATCAACACCTACTGCGGCGTTT
1 AAATCAACACATATTGCGGCGTTT
366188 CTGAGAAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
43 52 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (43 bp):
AAATCAACACATATTGCGGCGTTTAAGATAAAAACGCCACTAA
Found at i:366197 original size:43 final size:43
Alignment explanation
Indices: 366107--366230 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
366097 CGTTTAAGCT
** * * * * *
366107 AAAAACGCCGCTAAACCTTAACACTTATTGCGGCGTTTGTGAT
1 AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
*
366150 AAAAACGCCACTAAAAATCAACACCTACTGCGGCGTTTCTGAG
1 AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
* * *
366193 AAAAACGCTGCTATAAATCGAA-ACCTACTGTGGCGTTT
1 AAAAACGCCGCTAAAAATC-AACACCTACTGCGGCGTTT
366231 GTCTTCCAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 66 0.97
44 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCAACACCTACTGCGGCGTTTCTGAG
Found at i:366271 original size:43 final size:43
Alignment explanation
Indices: 366224--366357 Score: 202
Period size: 43 Copynumber: 3.2 Consensus size: 43
366214 AACCTACTGT
*
366224 GGCGTTTGTCTTCCAAATGCCGCTAAATATCAACATCTATTGC
1 GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
*
366267 GGCGTTTGTCTTCCAAACGCCGCT-AA-ATCAACATCTATTGT
1 GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
* *
366308 GGCATTTGTCTAT-CAAACGCCGCTAAATATCAACACCTATTGC
1 GGCGTTTGTCT-TCCAAACGCCGCTAAATATCAACATCTATTGC
366351 GGCGTTT
1 GGCGTTT
366358 TTTCTTGAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
41 35 0.43
42 5 0.06
43 42 0.51
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (43 bp):
GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGC
Found at i:366939 original size:2 final size:2
Alignment explanation
Indices: 366932--366997 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
366922 TTTCAAAAAC
*
366932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
366974 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
366998 CTATGTGTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:368710 original size:38 final size:38
Alignment explanation
Indices: 368668--368753 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
368658 AACAAACCGG
* *
368668 TAAATACTCGACTTAGTGGTGTTTT-ATATAAACACAGC
1 TAAATACTAG-CTTAGTGGCGTTTTCATATAAACACAGC
* *
368706 TAAATACATAGTTTAGTGGCGTTTTCATATAAACACCGC
1 TAAATAC-TAGCTTAGTGGCGTTTTCATATAAACACAGC
*
368745 TAATTACTA
1 TAAATACTA
368754 TACTTTAGCG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 21 0.51
39 20 0.49
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (38 bp):
TAAATACTAGCTTAGTGGCGTTTTCATATAAACACAGC
Found at i:368747 original size:39 final size:39
Alignment explanation
Indices: 368680--368770 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
368670 AATACTCGAC
* *
368680 TTAGTGGTGTTTTATATAAACACAGCTAAATAC-ATAGT
1 TTAGTGGCGTTTTATATAAACACAGCTAAATACTATACT
* *
368718 TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACT
1 TTAGTGGCGTTTT-ATATAAACACAGCTAAATACTATACT
*
368758 TTAGCGGCGTTTT
1 TTAGTGGCGTTTT
368771 TGTACAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 12 0.26
39 18 0.39
40 16 0.35
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (39 bp):
TTAGTGGCGTTTTATATAAACACAGCTAAATACTATACT
Found at i:368807 original size:41 final size:41
Alignment explanation
Indices: 368712--369034 Score: 194
Period size: 41 Copynumber: 7.9 Consensus size: 41
368702 CAGCTAAATA
* * * * **
368712 CATAGTTTAGTGGCGTTTTCA-TATAAACACCGCTAATTACT
1 CATACTTTAGCGGCGTTTT-AGTACAAACGCCGCTAAAAACT
* *
368753 -ATACTTTAGCGGCGTTTTTGTACAAACGCCACTAAAAACT
1 CATACTTTAGCGGCGTTTTAGTACAAACGCCGCTAAAAACT
* * * * * ** *
368793 CGTACTCTAGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCC
1 CATACTTTAGCGGCGTTTTAGTACAAACGCCGCTAAA-AACT
* * * * **
368835 CATACATTAGTGGCGTTTTCA-TATAAACACCGCTAATTACT
1 CATACTTTAGCGGCGTTTT-AGTACAAACGCCGCTAAAAACT
* * *
368876 -ATACTTTAGCAGCGTTTTTGTGCAAACGCCGCTAAAAACT
1 CATACTTTAGCGGCGTTTTAGTACAAACGCCGCTAAAAACT
*
368916 CATACTTTAGCGGC-TTTTAAGTACAAACGCCGCTAAAGTACT
1 CATACTTTAGCGGCGTTTT-AGTACAAACGCCGCTAAA-AACT
** * * **
368958 TGTA--TTAGCGGCATTTTAAGCACAAACGCCGCTAAATGCT
1 CATACTTTAGCGGCGTTTT-AGTACAAACGCCGCTAAAAACT
** * * *
368998 TGTACTTTAGCAGCGTTTTAAGCAC-ACCGCCGCTAAA
1 CATACTTTAGCGGCGTTTT-AGTACAAACGCCGCTAAA
369035 TAAATACTTT
Statistics
Matches: 221, Mismatches: 50, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
40 80 0.36
41 91 0.41
42 49 0.22
43 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
CATACTTTAGCGGCGTTTTAGTACAAACGCCGCTAAAAACT
Found at i:368856 original size:123 final size:123
Alignment explanation
Indices: 368718--368953 Score: 400
Period size: 123 Copynumber: 1.9 Consensus size: 123
368708 AATACATAGT
*
368718 TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACTTTAGCGGCGTTTTTGTACAAACGCC
1 TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACTTTAGCAGCGTTTTTGTACAAACGCC
*
368783 ACTAAAAACTCGTACTCTAGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCCCATACA
66 ACTAAAAACTCATACTCTAGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCCCATACA
*
368841 TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACTTTAGCAGCGTTTTTGTGCAAACGCC
1 TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACTTTAGCAGCGTTTTTGTACAAACGCC
* * * * *
368906 GCTAAAAACTCATACTTTAGCGGCTTTTAAGTACAAACGCCGCTAAAG
66 ACTAAAAACTCATACTCTAGCGGCGTTTAAGCACAAACCCCGCTAAAG
368954 TACTTGTATT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 105 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (123 bp):
TTAGTGGCGTTTTCATATAAACACCGCTAATTACTATACTTTAGCAGCGTTTTTGTACAAACGCC
ACTAAAAACTCATACTCTAGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCCCATACA
Found at i:369004 original size:123 final size:123
Alignment explanation
Indices: 368736--369016 Score: 323
Period size: 123 Copynumber: 2.3 Consensus size: 123
368726 GTTTTCATAT
* * *
368736 AAACACCGCTAATTACTATACTTTAGCGGCGTTTTTGTACAAACGCCACTAAAAACTCGTACTCT
1 AAACACCGCTAAATACTATACTTTAGCAGCGTTTTTGTACAAACGCCACTAAAAACTCATACTCT
* * * * * *
368801 AGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCCCATACATTAGTGGCGTTTTCATAT
66 AGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCACATACATTAGCGGCATTTTAACAC
* * * *
368859 AAACACCGCTAATTACTATACTTTAGCAGCGTTTTTGTGCAAACGCCGCTAAAAACTCATACTTT
1 AAACACCGCTAAATACTATACTTTAGCAGCGTTTTTGTACAAACGCCACTAAAAACTCATACTCT
* * * * * **
368924 AGCGGCTTTTAAGTACAAACGCCGCTAAA-G-TACTTGTATTAGCGGCATTTTAAGCAC
66 AGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCACATACATTAGCGGCATTTTAA-CAC
* * *
368981 AAACGCCGCTAAATGCTTGTACTTTAGCAGCGTTTT
1 AAACACCGCTAAATAC-TATACTTTAGCAGCGTTTT
369017 AAGCACACCG
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
121 15 0.11
122 15 0.11
123 104 0.78
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (123 bp):
AAACACCGCTAAATACTATACTTTAGCAGCGTTTTTGTACAAACGCCACTAAAAACTCATACTCT
AGCGGCGTTTAAGCACAAACCCCGCTAAAGGCCACATACATTAGCGGCATTTTAACAC
Found at i:372202 original size:43 final size:43
Alignment explanation
Indices: 372008--372237 Score: 178
Period size: 43 Copynumber: 5.3 Consensus size: 43
371998 CAAATGACAT
* * * ** *
372008 TAAATACACAATCAATAGTGGTGTTTGTAAAGAAAAACATCGT
1 TAAATACACAATCAATAGCGGTGTTTATAAAGACAAACGCCGC
* * * * *
372051 TCAATACACAATCAATATCGGCGTTTGTAAAGAAAAACGCCGC
1 TAAATACACAATCAATAGCGGTGTTTATAAAGACAAACGCCGC
* * * * * ** *
372094 TAAATGCATAGTC-ACAGCGTTTGTAAAGACAACGCACAAACG-CGC
1 TAAATACACAATCAATAGCG-GTGTTTATA-AA-G-ACAAACGCCGC
372139 TAAATACACACAGTCAATAGCGGTGTTTATAAAGACAAACGCCGC
1 TAAATACACA-A-TCAATAGCGGTGTTTATAAAGACAAACGCCGC
* * **
372184 TAAATACACAATCAATAGCGGCGTGTATAAAGACAGTCGCCGC
1 TAAATACACAATCAATAGCGGTGTTTATAAAGACAAACGCCGC
372227 TAAATAC-CAAT
1 TAAATACACAAT
372238 ACCTATTGCG
Statistics
Matches: 147, Mismatches: 32, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
42 8 0.05
43 83 0.56
44 10 0.07
45 26 0.18
46 8 0.05
47 7 0.05
48 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (43 bp):
TAAATACACAATCAATAGCGGTGTTTATAAAGACAAACGCCGC
Found at i:373787 original size:49 final size:49
Alignment explanation
Indices: 373665--373994 Score: 422
Period size: 49 Copynumber: 6.8 Consensus size: 49
373655 GAATACCATG
** * * *
373665 AGTGGCACC-TTTATAACGAAATGCACAGTTATGCATTTAATTTTCA-T
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATT
* * *
373712 AGTGGTACATTTTATGCCAAAGTGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATT
* *
373761 AGTGGCACCTTTTATGTCAAAATGCACCATTATGCATTTAACTATT-ATT
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACT-TTCATT
*
373810 -GTGGCACCTTTTATGCC-AAAT--ACTCGTTATGCATTTAATTTTCATT
1 AGTGGCACCTTTTATGCCAAAATGCAC-CGTTATGCATTTAACTTTCATT
* * ** * *
373856 ATTGGCACCATTTATGCCAAAATGCACTATTATGCATTTAAATTTTATT
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATT
* *
373905 AGTGGTACCTTTTATGCCAAATTGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATT
373954 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAA
1 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAA
373995 ATTTTATGCC
Statistics
Matches: 242, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
45 4 0.02
46 17 0.07
47 26 0.11
48 51 0.21
49 140 0.58
50 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (49 bp):
AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATT
Found at i:373882 original size:144 final size:145
Alignment explanation
Indices: 373665--373999 Score: 430
Period size: 144 Copynumber: 2.3 Consensus size: 145
373655 GAATACCATG
** * * *
373665 AGTGGCACC-TTTATAACGAAATGCACAGTTATGCATTTAATTTTCATAGTGGTACATTTTATGC
1 AGTGGCACCTTTTATGCCAAAAT-CACCGTTATGCATTTAATTTTCATAGTGGCACATTTTATGC
* * * *
373729 CAAAGTGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGTCAAAATGCACCATTAT
65 CAAAATGCACCATTATGCATTTAAATTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTAT
373794 GCATTTAACTATT-ATT
130 GCATTTAACT-TTCATT
*
373810 -GTGGCACCTTTTATGCC-AAAT-ACTCGTTATGCATTTAATTTTCATTATTGGCACCA-TTTAT
1 AGTGGCACCTTTTATGCCAAAATCAC-CGTTATGCATTTAATTTTCA-TAGTGGCA-CATTTTAT
* * * * *
373871 GCCAAAATGCACTATTATGCATTTAAATTTTATTAGTGGTACCTTTTATGCCAAATTGCACCGTT
63 GCCAAAATGCACCATTATGCATTTAAATTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATT
373936 ATGCATTTAACTTTCATT
128 ATGCATTTAACTTTCATT
373954 AGTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAAATTTT
1 AGTGGCACCTTTTATGCCAAAAT-CACCGTTATGCATTT-AATTTT
374000 ATGCCAAAAT
Statistics
Matches: 166, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
142 2 0.01
143 21 0.13
144 94 0.57
145 25 0.15
146 4 0.02
147 12 0.07
148 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (145 bp):
AGTGGCACCTTTTATGCCAAAATCACCGTTATGCATTTAATTTTCATAGTGGCACATTTTATGCC
AAAATGCACCATTATGCATTTAAATTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
CATTTAACTTTCATT
Found at i:374005 original size:33 final size:33
Alignment explanation
Indices: 373963--374027 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
373953 TAGTGGCACC
373963 TTTTATGCCAAAATGCACCGTTATGCATTTAAA
1 TTTTATGCCAAAATGCACCGTTATGCATTTAAA
** *
373996 TTTTATGCCAAAATGTTCCGTTGTGCATTTAA
1 TTTTATGCCAAAATGCACCGTTATGCATTTAA
374028 CTTTCATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
TTTTATGCCAAAATGCACCGTTATGCATTTAAA
Found at i:379968 original size:49 final size:49
Alignment explanation
Indices: 379915--380398 Score: 619
Period size: 49 Copynumber: 10.0 Consensus size: 49
379905 AAATGTACCA
379915 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
* * *
379964 TTATGCGTTTAGCTTTCATTAATGGCACCTTTTATGCCAAAATGCA-TCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACT-G
* * * *
380013 TTATGCATTTAACTTTTATTAGCGGCACATTTTATGCCAAAATGCACCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
* * *
380062 TTATGCATTTAACTTTCATTAGTGGCATCTTTTATGCCAAAATG-AATCA
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACT-G
*
380111 TTATGCATTTAAGTTTCATTAGTGGCACCTTTTATGCCAAAATGCA-TCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACT-G
* * *
380160 TTATGCATTTAACTTTCATTAATGGCA-CATTTATGCCAAAATGCACCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
* *
380208 TTATGTATTTAACTTTCATTGGTGGCACCTTTTATGCCAAAAATGCACCT-
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCC-AAAATGCA-CTG
* * * * *
380258 TTATGCATTTAACTTTTATTAGTGG-ACCTATTAAGCTAAAATGCACCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
* * *
380306 TTATCCATTTAACTTTCATTAGTGGTACC-TTTATGCCAAAATACA-TCG
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACT-G
*
380354 TTATG--TTTAACTTTTATTAGTGGCACCTTTTATGCCAAAATGCAC
1 TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCAC
380399 CATTATGAAT
Statistics
Matches: 375, Mismatches: 47, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
46 20 0.05
47 16 0.04
48 92 0.25
49 215 0.57
50 31 0.08
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (49 bp):
TTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTG
Found at i:380171 original size:147 final size:146
Alignment explanation
Indices: 379904--380405 Score: 706
Period size: 147 Copynumber: 3.4 Consensus size: 146
379894 TTTTATAACG
* * **
379904 AAAATGTACCATTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACTGTTATG
1 AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
* * *
379969 CGTTT-AGCTTTCATTAATGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTTATT
66 CATTTAAG-TTTCATTAGTGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTCATT
*
380033 AGCGGCACATTTTATGCC
130 AGTGGCACA-TTTATGCC
* * *
380051 AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCATCTTTTATGCCAAAATGAATCATTATG
1 AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
380116 CATTTAAGTTTCATTAGTGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTCATTA
66 CATTTAAGTTTCATTAGTGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTCATTA
*
380181 ATGGCACATTTATGCC
131 GTGGCACATTTATGCC
* * *
380197 AAAATGCACCGTTATGTATTTAACTTTCATTGGTGGCACCTTTTATGCCAAAAATGCACCTTTAT
1 AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCC-AAAATGCACCATTAT
* * * * * * *
380262 GCATTTAACTTTTATTAGTGG-ACCTATTAAGCTAAAATGCACCGTTATCCATTTAACTTTCATT
65 GCATTTAAGTTTCATTAGTGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTCATT
* *
380326 AGTGGTACCTTTATGCC
130 AGTGGCACATTTATGCC
* * *
380343 AAAATACATCGTTATG--TTTAACTTTTATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
1 AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
380406 AATTCATTTT
Statistics
Matches: 320, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
143 15 0.05
144 29 0.09
146 120 0.38
147 154 0.48
148 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (146 bp):
AAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCAAAATGCACCATTATG
CATTTAAGTTTCATTAGTGGCACCTTTTATGCCAAAATGCATCGTTATGCATTTAACTTTCATTA
GTGGCACATTTATGCC
Found at i:382412 original size:3 final size:3
Alignment explanation
Indices: 382399--382441 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
382389 AAAAATAAAA
* * *
382399 AAT ATT AAT AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
382442 TAAATTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:383026 original size:134 final size:133
Alignment explanation
Indices: 382605--383051 Score: 425
Period size: 134 Copynumber: 3.3 Consensus size: 133
382595 TCCAGGGTAG
* * * * * **
382605 ATCAGATCGAGAAATGTTGACTCATTCCAGTATTCTTCAGGGAAATTGAATCGATGTAGACTTCC
1 ATCAGATCTAAAAATGTTGATTCATTCCACTATTCTTCAGGGAAATTGAATCGAAGTAGACTTGT
* * * *
382670 TCCACTATCACTCAGGGAATATCAAATCTTGAAAGAGATGGATCTAT-TTC-GCTTCTTCTTGAG
66 TCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT-T-TGTTCTGCTTATTCTTGAG
382733 GGAAA
129 GGAAA
* * * * * * *
382738 ATCAGATCTGATATTTTTAATTCATTCCACTATTCTTTAGGGAAGATTAAATCGAAGTAGACTTG
1 ATCAGATCTAAAAATGTTGATTCATTCCACTATTCTTCAGGGAA-ATTGAATCGAAGTAGACTTG
* *
382803 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAAAGAGGGATATGTT-TCGCTTATTCTTGAG
65 TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCT-GCTTATTCTTGAG
382867 GGAAA
129 GGAAA
* * **** ** * * * * * *
382872 ATAAGATTTGGGTACATTGATTGATTCCATTGTTCTTCATGGAATATTGAATCGAGGAAGACTTG
1 ATCAGATCTAAAAATGTTGATTCATTCCACTATTCTTCAGGGAA-ATTGAATCGAAGTAGACTTG
* * * *
382937 TTCCACTGTTATTAAGGGAATATCAAATCTCT-AAAGAGAGGGATTTGTTCTGCTTTTTCTTAAG
65 TTCCACTGTTACTCAGGGAATATCAAATCT-TGAAAGAGAGGGATTTGTTCTGCTTATTCTTGAG
*
383001 GAAAA
129 GGAAA
* * *
383006 ATCAGATCCAAAAATGTTGATTCATTCCACTGTTCTTTCAGAGAAA
1 ATCAGATCTAAAAATGTTGATTCATTCCACTATTC-TTCAGGGAAA
383052 ATTGGGTCGA
Statistics
Matches: 249, Mismatches: 58, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
132 1 0.00
133 36 0.14
134 203 0.82
135 9 0.04
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (133 bp):
ATCAGATCTAAAAATGTTGATTCATTCCACTATTCTTCAGGGAAATTGAATCGAAGTAGACTTGT
TCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTATTCTTGAGGG
AAA
Found at i:384358 original size:17 final size:17
Alignment explanation
Indices: 384303--384357 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
384293 CTTTCTTCCT
*
384303 TTTTTATTCATTTTTTC
1 TTTTCATTCATTTTTTC
384320 TTTTCATTCATTTTTTC
1 TTTTCATTCATTTTTTC
384337 TTTTCATTCATTTTTTTC
1 TTTTCATTCA-TTTTTTC
384355 TTT
1 TTT
384358 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 26 0.72
18 10 0.28
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTCATTTTTTC
Found at i:384366 original size:16 final size:17
Alignment explanation
Indices: 384308--384373 Score: 84
Period size: 17 Copynumber: 3.9 Consensus size: 17
384298 TTCCTTTTTT
384308 ATTCA-TTTTTTCTTTTC
1 ATTCATTTTTTTC-TTTC
384325 ATTCA-TTTTTTCTTTTC
1 ATTCATTTTTTTC-TTTC
384342 ATTCATTTTTTTCTTTC
1 ATTCATTTTTTTCTTTC
*
384359 -TTCTTTTTTTTCTTT
1 ATTCATTTTTTTCTTT
384374 GTTCAGGCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
16 14 0.30
17 26 0.55
18 7 0.15
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTCATTTTTTTCTTTC
Found at i:390877 original size:21 final size:22
Alignment explanation
Indices: 390848--390888 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
390838 CATAGCCCTA
* *
390848 ATTTATTCTTCCAGTTGTTTCC
1 ATTTATTCTTCAAATTGTTTCC
390870 ATTT-TTCTTCAAATTGTTT
1 ATTTATTCTTCAAATTGTTT
390889 GTTCAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTTATTCTTCAAATTGTTTCC
Found at i:405813 original size:17 final size:17
Alignment explanation
Indices: 405791--405855 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 17
405781 CTCAACATGA
405791 ACACGCAATGCACACAC
1 ACACGCAATGCACACAC
*
405808 ACACGCAATGCTCAACAAAC
1 ACACGCAATG--C-ACACAC
*
405828 TCACGCAATGCACACAC
1 ACACGCAATGCACACAC
405845 ACACGCAATGC
1 ACACGCAATGC
405856 TCAACAAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 25 0.61
18 1 0.02
19 1 0.02
20 14 0.34
ACGTcount: A:0.40, C:0.38, G:0.12, T:0.09
Consensus pattern (17 bp):
ACACGCAATGCACACAC
Found at i:405833 original size:37 final size:37
Alignment explanation
Indices: 405792--405875 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
405782 TCAACATGAA
405792 CACGCAATGCACACACACACGCAATGCTCAACAAACT
1 CACGCAATGCACACACACACGCAATGCTCAACAAACT
405829 CACGCAATGCACACACACACGCAATGCTCAACAAACT
1 CACGCAATGCACACACACACGCAATGCTCAACAAACT
405866 CACGCAATGC
1 CACGCAATGC
405876 TCAACAAACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.39, C:0.38, G:0.12, T:0.11
Consensus pattern (37 bp):
CACGCAATGCACACACACACGCAATGCTCAACAAACT
Found at i:405834 original size:20 final size:20
Alignment explanation
Indices: 405809--405887 Score: 119
Period size: 20 Copynumber: 4.1 Consensus size: 20
405799 TGCACACACA
405809 CACGCAATGCTCAACAAACT
1 CACGCAATGCTCAACAAACT
* *
405829 CACGCAATG--C-ACACACA
1 CACGCAATGCTCAACAAACT
405846 CACGCAATGCTCAACAAACT
1 CACGCAATGCTCAACAAACT
405866 CACGCAATGCTCAACAAACT
1 CACGCAATGCTCAACAAACT
405886 CA
1 CA
405888 GTAAGTAGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
17 14 0.27
18 1 0.02
19 1 0.02
20 36 0.69
ACGTcount: A:0.41, C:0.37, G:0.10, T:0.13
Consensus pattern (20 bp):
CACGCAATGCTCAACAAACT
Found at i:411367 original size:23 final size:23
Alignment explanation
Indices: 411335--411385 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
411325 GAAGAAAACA
* *
411335 ATACGGGTATCCGA-GTACCTGAC
1 ATACGAGTATCC-ATGTACCCGAC
411358 ATACGAGTATCCATGTACCCGAC
1 ATACGAGTATCCATGTACCCGAC
411381 ATACG
1 ATACG
411386 GGTACCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
ATACGAGTATCCATGTACCCGAC
Found at i:411565 original size:3 final size:3
Alignment explanation
Indices: 411541--411587 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
411531 TTTTCCTCTA
411541 AAT AA- AAT AA- AAT -AT AAAT AAT AAT AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
411583 AAT AA
1 AAT AA
411588 CAGTCTCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.21
3 29 0.74
4 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:411576 original size:17 final size:18
Alignment explanation
Indices: 411539--411587 Score: 77
Period size: 17 Copynumber: 2.9 Consensus size: 18
411529 ATTTTTCCTC
411539 TAAATAA-AATAA-AATA
1 TAAATAATAATAATAATA
411555 TAAATAATAATAATAATA
1 TAAATAATAATAATAATA
411573 -AAATAATAATAATAA
1 TAAATAATAATAATAA
411588 CAGTCTCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.23
17 20 0.65
18 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATAATAATAATAATA
Found at i:412097 original size:134 final size:132
Alignment explanation
Indices: 411859--412173 Score: 416
Period size: 134 Copynumber: 2.4 Consensus size: 132
411849 AACGTAGATC
** * * * *
411859 GAATCGAGGCTGATTTGTTCCACTACTAC-TCATGGAAGATCAAATCTGAGAAAAGGGATTTGTT
1 GAATCGAGGAAGATTTGTTCCACTACT-CTTCAGGGAAGATCAAATCTGAAAAAAGGGATCTGCT
* ** *
411923 CCGCTGCTTCTTCAGGGTAAATCAGAACTGAAAATGTTGATTCATTCCACTGTTCTTTAAGGAAT
65 CCGCTACTTCTTCAGGGTAAATCAGAACTGAAAACATTGATTCATTCCACTGTTCTTCAAGGAAT
411988 ATT
130 ATT
*
411991 GAATCGAGGAAGATTTGTTCCACTGCATCTTCAGGGAAGATCAAATCTGAAAAAAGGGGATCTGC
1 GAATCGAGGAAGATTTGTTCCACTAC-TCTTCAGGGAAGATCAAATCTGAAAAAA-GGGATCTGC
* * *
412056 TCCGCTACTTCTTCAGGGTAAATCAGATCTGGAAACATTGATTCATTCCACTGTTCTTCAGGGAA
64 TCCGCTACTTCTTCAGGGTAAATCAGAACTGAAAACATTGATTCATTCCACTGTTCTTCAAGGAA
412121 TATT
129 TATT
* * * * *
412125 GAATCGAGGTAGATTTGTTCCAATACTTATTCAGGAAAGATGAAATCTG
1 GAATCGAGGAAGATTTGTTCCACTAC-TCTTCAGGGAAGATCAAATCTG
412174 GGAACGTTGA
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
132 24 0.15
133 24 0.15
134 111 0.70
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (132 bp):
GAATCGAGGAAGATTTGTTCCACTACTCTTCAGGGAAGATCAAATCTGAAAAAAGGGATCTGCTC
CGCTACTTCTTCAGGGTAAATCAGAACTGAAAACATTGATTCATTCCACTGTTCTTCAAGGAATA
TT
Found at i:412173 original size:87 final size:87
Alignment explanation
Indices: 412077--412264 Score: 277
Period size: 87 Copynumber: 2.2 Consensus size: 87
412067 TTCAGGGTAA
*
412077 ATCAGATCTGGAAACATTGATTCATTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTG
1 ATCAAATCTGGAAACATTGATTCATTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTG
**
412142 TTCCAATACTTATTCAGGAAAG
66 TTCCAATACTTATTCAAAAAAG
* * * * *
412164 ATGAAATCTGGGAACGTTGATTCATTCCACTGTTCTTTATGGAATATTGAATCGAGGTAGATTTG
1 ATCAAATCTGGAAACATTGATTCATTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTG
* * *
412229 TTCCACTAGTTCTTCAAAAAAG
66 TTCCAATACTTATTCAAAAAAG
412251 ATCAAATCTGGAAA
1 ATCAAATCTGGAAA
412265 AAAAAGATCT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCAAATCTGGAAACATTGATTCATTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTG
TTCCAATACTTATTCAAAAAAG
Found at i:412300 original size:221 final size:221
Alignment explanation
Indices: 411958--412362 Score: 634
Period size: 221 Copynumber: 1.8 Consensus size: 221
411948 AACTGAAAAT
411958 GTTGATTCATTCCACTGTTCTTTAAGGAATATTGAATCGAGGAAGATTTGTTCCACTGCATCTTC
1 GTTGATTCATTCCACTGTTCTTTAAGGAATATTGAATCGAGGAAGATTTGTTCCACTGCATCTTC
*** ** * *
412023 AGGGAAGATCAAATCTGAAAAAAGGGGATCTGCTCCGCTACTTCTTCAGGGTAAATCAGATCTGG
66 AAAAAAGATCAAATCTGAAAAAAGAAGATCTGCTCCGCTACTTCTTCAGAGTAAATCAGATCGGG
*
412088 AAACATTGATTCATTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTGTTCCAATACTT
131 AAACATTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCAATACTT
412153 ATTCAGGAAAGATGAAATCTGGGAAC
196 ATTCAGGAAAGATGAAATCTGGGAAC
* * *
412179 GTTGATTCATTCCACTGTTCTTTATGGAATATTGAATCGAGGTAGATTTGTTCCACTAG-TTCTT
1 GTTGATTCATTCCACTGTTCTTTAAGGAATATTGAATCGAGGAAGATTTGTTCCACT-GCATCTT
*
412243 CAAAAAAGATCAAATCTGGAAAAAA-AAGATCTGCTCCGCTCCTTCTTCAGAGTAAATCAGATCG
65 CAAAAAAGATCAAATCT-GAAAAAAGAAGATCTGCTCCGCTACTTCTTCAGAGTAAATCAGATCG
** * *
412307 GGAAACATTGATTCATTCCACTGTTCTTCTTGGAAGATTGAATCGAGTTCGATTTG
129 GGAAACATTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTG
412363 CTTCTATTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
221 158 0.95
222 8 0.05
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (221 bp):
GTTGATTCATTCCACTGTTCTTTAAGGAATATTGAATCGAGGAAGATTTGTTCCACTGCATCTTC
AAAAAAGATCAAATCTGAAAAAAGAAGATCTGCTCCGCTACTTCTTCAGAGTAAATCAGATCGGG
AAACATTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCAATACTT
ATTCAGGAAAGATGAAATCTGGGAAC
Done.