Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 30
Found at i:936055 original size:33 final size:33
Alignment explanation
Indices: 935965--936042 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
935955 AAAACAGACT
* ***
935965 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
935998 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
936031 ATCGCAATGCGA
1 ATCGCAATGCGA
936043 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:936118 original size:20 final size:20
Alignment explanation
Indices: 936061--936118 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
936051 TCGCATTGCG
* *
936061 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
936081 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
936101 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
936119 TCAAATGAAT
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:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:937029 original size:24 final size:24
Alignment explanation
Indices: 937002--937055 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
936992 GTATTCGAAA
* *
937002 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
* *
937026 TTTGATATTTGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
937050 TTTGAT
1 TTTGAT
937056 GATATTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:939567 original size:19 final size:19
Alignment explanation
Indices: 939545--939642 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
939535 GGAAATTACT
939545 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
939564 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
939578 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
939597 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
939611 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
939630 ATCGCAACGCGAA
1 ATCGCAATGCGAA
939643 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:939591 original size:33 final size:33
Alignment explanation
Indices: 939549--939638 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
939539 ATTACTATCG
939549 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
* *
939582 CAATGCGAAATGAAAATCGCAACGAGGGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
939615 CAATGCGAAATGAAAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
939639 CGAATTTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCA
Found at i:939690 original size:20 final size:19
Alignment explanation
Indices: 939654--939731 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
939644 TTAATTTCGC
939654 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
939673 TGCGATTTTCATTTTCGCGT
1 TGCGATTTTCA-TTTCGCGT
*
939693 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
939707 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
939726 TGCGAT
1 TGCGAT
939732 AGTACTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
18 3 0.06
19 21 0.42
20 13 0.26
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:939856 original size:14 final size:14
Alignment explanation
Indices: 939837--939873 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
939827 CATCAATTAA
939837 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
939851 ACAAATCACCTTTT
1 ACAAATCAACTTTT
939865 ACAAATCAA
1 ACAAATCAA
939874 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:941294 original size:21 final size:21
Alignment explanation
Indices: 941228--941294 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
941218 GTGAATCGGG
*
941228 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
941248 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
941270 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
941291 CTCT
1 CTCT
941295 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:941313 original size:42 final size:41
Alignment explanation
Indices: 941228--941350 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
941218 GTGAATCGGG
* * * *
941228 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
*
941270 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
941312 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
941351 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:943389 original size:20 final size:19
Alignment explanation
Indices: 943344--943548 Score: 178
Period size: 20 Copynumber: 11.1 Consensus size: 19
943334 TCTTTTGGTT
*
943344 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
943363 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
943383 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
**
943403 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
943421 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAACGC
** *
943437 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
943455 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
943470 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
943490 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
943509 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
943528 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
943547 GA
1 GA
943549 TTTTGGTTTC
Statistics
Matches: 157, Mismatches: 16, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.39
20 65 0.41
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:943443 original size:33 final size:33
Alignment explanation
Indices: 943393--943487 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
943383 GGAAATGACT
* *
943393 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGACTATCGCAACCAGACA
* *
943427 ATCGCAATGCGAAATGACTATCGCGACCAGACA
1 ATCGCAACGCGAAATGACTATCGCAACCAGACA
**
943460 ATCGCAACGCGAAATGAAAATCGCAACC
1 ATCGCAACGCGAAATGACTATCGCAACC
943488 GCGAAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 44 0.83
34 9 0.17
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACCAGACA
Found at i:943481 original size:19 final size:19
Alignment explanation
Indices: 943459--943548 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
943449 GCGACCAGAC
943459 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
943478 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
943498 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
943517 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
943536 AATCGCAATGCGA
1 AATCGCAACGCGA
943549 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:943502 original size:39 final size:38
Alignment explanation
Indices: 943459--943548 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
943449 GCGACCAGAC
943459 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
943498 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
943536 AATCGCAATGCGA
1 AATCGCAACGCGA
943549 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:943578 original size:18 final size:18
Alignment explanation
Indices: 943544--943609 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 18
943534 AAAATCGCAA
*
943544 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
943563 TGCGATTTTATTTCGCGT
1 TGCGATTTTATTTCGCGT
*
943581 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
943601 TGCGATTTT
1 TGCGATTTT
943610 CATTCTCGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 14 0.33
19 17 0.40
20 11 0.26
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.47
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:943601 original size:20 final size:18
Alignment explanation
Indices: 943555--943606 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
943545 GCGATTTTGG
*
943555 TTTCGCGTTGCGATTTTA
1 TTTCGCGTTGCGATGTTA
943573 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGAT-GTTA
943592 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
943607 TTTCATTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 14 0.45
19 6 0.19
20 11 0.35
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (18 bp):
TTTCGCGTTGCGATGTTA
Found at i:944213 original size:20 final size:20
Alignment explanation
Indices: 944128--944261 Score: 144
Period size: 20 Copynumber: 6.7 Consensus size: 20
944118 CGCTATGTAA
* * *
944128 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
944148 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
944168 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
944189 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
944209 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
944229 ATCGCATTGTGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
944249 ATCGCATTGCGAT
1 ATCGCATTGCGAT
944262 TTTCCCAATT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.03
20 82 0.83
21 12 0.12
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:944280 original size:81 final size:81
Alignment explanation
Indices: 944128--944282 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
944118 CGCTATGTAA
* * * * ** *
944128 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
944193 CATTGCGATAGTAAGT
66 CATTGCGATAGTAAGT
* * * *
944209 ATCGCATTGCGATAGTCAGTATCGCATTGTGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TC
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATC
*
944273 GCGTTGCGAT
65 GCATTGCGAT
944283 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (81 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
CATTGCGATAGTAAGT
Found at i:944382 original size:21 final size:21
Alignment explanation
Indices: 944332--944385 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
944322 ATTGTATACC
*
944332 ATCGCAACACGATTTCCAACT
1 ATCGCAACGCGATTTCCAACT
944353 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGATTTCCAACT
944374 ATCGCAACGCGA
1 ATCGCAACGCGA
944386 AATGCAACGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTCCAACT
Found at i:944393 original size:21 final size:21
Alignment explanation
Indices: 944332--944393 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
944322 ATTGTATACC
* **
944332 ATCGCAACACGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
**
944353 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
944374 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
944394 GCGAATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:945765 original size:113 final size:115
Alignment explanation
Indices: 945373--945823 Score: 423
Period size: 116 Copynumber: 3.9 Consensus size: 115
945363 TAGTTGATTT
* * * *
945373 TGATCCAATATCAGTTCGGAATTTAAGTTTAATGATGTCTCATAATTGACTATGGATGTTGAA-C
1 TGATCTAATATCAG-TC-GAATTTAAGTTTAATGATGTCTCATAAGTAACTATGAATGTTGAATC
* * * *
945437 TGAAGAAATGAACGATGAATCAAAAAAGAAGTTGAGCTGATT-ATGTTAATTC
64 TGAAGAAACGAATGATGAATAAAAAAAGAAGTTGAGCTGATTCGT-TTAATTC
* * * * *
945489 TGGTCTAATATCAGCTCGAATTTTAAGTTTAATGATGTCGT-ATAATTGACTATGGATGTTCAAT
1 TGATCTAATATCAG-TCGAA-TTTAAGTTTAATGATGTC-TCATAAGTAACTATGAATGTTGAAT
* *
945553 CTGAAGAAATGAATGATGAATAAAAAAATAAGTTGAGCTGATTCAG-TTAATTC
63 CTGAAGAAACGAATGATGAATAAAAAAAGAAGTTGAGCTGATTC-GTTTAATTC
* * * * * ** ** * * *
945606 GGATTTAATATCAGTTGAAATTTAAGTTTAATAAGGTAACGCAAGTAACTATTAATGTTAAATCC
1 TGATCTAATATCAGTCG-AATTTAAGTTTAATGATGTCTCATAAGTAACTATGAATGTTGAATCT
* * * * *
945671 GAAGAAACGAATGAGGAAT-TAAAAGGAATTTGAGCTGATTCGTTTAATTT
65 GAAGAAACGAATGATGAATAAAAAAAGAAGTTGAGCTGATTCGTTTAATTC
**
945721 TGATCT-A-ATCAGTCGATATTTAAGTTTAATGATGTCTTGTAAGTAACTATGAATGTTGAATCT
1 TGATCTAATATCAGTCGA-ATTTAAGTTTAATGATGTCTCATAAGTAACTATGAATGTTGAATCT
* * * *
945784 GAAGAAACGGATGATGAAT-CAGAAAGAATTTGAGCTGATT
65 GAAGAAACGAATGATGAATAAAAAAAGAAGTTGAGCTGATT
945824 TCTTGAGTTT
Statistics
Matches: 278, Mismatches: 48, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
112 1 0.00
113 79 0.28
114 2 0.01
115 31 0.11
116 104 0.37
117 61 0.22
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (115 bp):
TGATCTAATATCAGTCGAATTTAAGTTTAATGATGTCTCATAAGTAACTATGAATGTTGAATCTG
AAGAAACGAATGATGAATAAAAAAAGAAGTTGAGCTGATTCGTTTAATTC
Found at i:949860 original size:31 final size:30
Alignment explanation
Indices: 949821--949908 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
949811 TTGGGAGATG
949821 TAAAAGTTTAAGGACTAATTTAGAATGATAT
1 TAAAAGTTTAAGGACTAATTTAGAATGAT-T
* * ** * *
949852 TCATAGTTTGGGGA-TAGAATTGGAATG-TT
1 TAAAAGTTTAAGGACTA-ATTTAGAATGATT
*
949881 TAAAAGTTTAAGGACTAATTTAGGATGA
1 TAAAAGTTTAAGGACTAATTTAGAATGA
949909 GAATCGTAGT
Statistics
Matches: 41, Mismatches: 13, Indels: 7
0.67 0.21 0.11
Matches are distributed among these distances:
29 18 0.44
30 5 0.12
31 18 0.44
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
TAAAAGTTTAAGGACTAATTTAGAATGATT
Found at i:949888 original size:60 final size:59
Alignment explanation
Indices: 949821--949985 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 59
949811 TTGGGAGATG
* * *
949821 TAAAAGTTTAAGGACTAATTTAGAATGATATTCATAGTTTGGGGAT-AGAATTGGAATGTT
1 TAAAAGTTTAAGGACTAATTTAGAATGAGA-TCATAGTTTGGGGATGA-AATTAGAATGCT
* * *
949881 TAAAAGTTTAAGGACTAATTTAGGATGAGAATCGTAGTTTAGGGATGAAATTAGAATGCT
1 TAAAAGTTTAAGGACTAATTTAGAATGAG-ATCATAGTTTGGGGATGAAATTAGAATGCT
* * *
949941 TAAAAGTTTAAGGACAAACTTAAAATGAGGATCATAGTTTGGGGA
1 TAAAAGTTTAAGGACTAATTTAGAATGA-GATCATAGTTTGGGGA
949986 CATATTGTGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
60 87 0.97
61 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (59 bp):
TAAAAGTTTAAGGACTAATTTAGAATGAGATCATAGTTTGGGGATGAAATTAGAATGCT
Found at i:951639 original size:60 final size:60
Alignment explanation
Indices: 951546--951701 Score: 169
Period size: 59 Copynumber: 2.6 Consensus size: 60
951536 CCTATTCATA
* ** *
951546 CATCCCCAATCTATGATGCTCATT-TCAAGTTAGTCCCT-AAACATTTAAACATTTCACTT-T
1 CATCCCCAAACTATGATATTCATTCT-AAATTAGTCCCTCAAAC-TTTAAACATTTCA-TTAT
* *
951606 CATCCCCAAGCTATGACTA-TCATTCTAAATTAGT-CCTCAAACTTTTAACATTTCATTAT
1 CATCCCCAAACTATGA-TATTCATTCTAAATTAGTCCCTCAAACTTTAAACATTTCATTAT
* *
951665 CATCCCCAAACTATGATATTTATTCTAAATCAGTCCC
1 CATCCCCAAACTATGATATTCATTCTAAATTAGTCCC
951702 CAATTTTTTG
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
58 4 0.05
59 44 0.53
60 33 0.40
61 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (60 bp):
CATCCCCAAACTATGATATTCATTCTAAATTAGTCCCTCAAACTTTAAACATTTCATTAT
Found at i:951679 original size:59 final size:58
Alignment explanation
Indices: 951546--951729 Score: 167
Period size: 60 Copynumber: 3.1 Consensus size: 58
951536 CCTATTCATA
* ** * *
951546 CATCCCCAATCTATGATGCTCATT-TCAAGTTAGTCCCTAAACATTTAAACATTTCACTTT
1 CATCCCCAAACTATGATATTCATTCT-AAATTAGTCCC-AAAC-TTTTAACATTTCACTTT
*
951606 CATCCCCAAGCTATGACTA-TCATTCTAAATTAGTCCTCAAACTTTTAACATTTCA-TTAT
1 CATCCCCAAACTATGA-TATTCATTCTAAATTAGTCC-CAAACTTTTAACATTTCACTT-T
* * ** *
951665 CATCCCCAAACTATGATATTTATTCTAAATCAGTCCCCAATTTTTTGAACATTTCAATTT
1 CATCCCCAAACTATGATATTCATTCTAAATTAGT-CCCAAACTTTT-AACATTTCACTTT
*
951725 AATCC
1 CATCC
951730 TAAAATTGGG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
58 4 0.04
59 48 0.45
60 49 0.46
61 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (58 bp):
CATCCCCAAACTATGATATTCATTCTAAATTAGTCCCAAACTTTTAACATTTCACTTT
Found at i:951784 original size:31 final size:30
Alignment explanation
Indices: 951745--951832 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
951735 TTGGGAGATG
951745 TAAAAGTTTAAGGACTAATTTAGAATGATAT
1 TAAAAGTTTAAGGACTAATTTAGAATGAT-T
* * ** * *
951776 TCATAGTTTGGGGA-TAGAATTGGAATG-TT
1 TAAAAGTTTAAGGACTA-ATTTAGAATGATT
*
951805 TAAAAGTTTAAGGACTAATTTAGGATGA
1 TAAAAGTTTAAGGACTAATTTAGAATGA
951833 GAATCGTAGT
Statistics
Matches: 41, Mismatches: 13, Indels: 7
0.67 0.21 0.11
Matches are distributed among these distances:
29 18 0.44
30 5 0.12
31 18 0.44
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
TAAAAGTTTAAGGACTAATTTAGAATGATT
Found at i:951812 original size:60 final size:59
Alignment explanation
Indices: 951745--951909 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 59
951735 TTGGGAGATG
* * *
951745 TAAAAGTTTAAGGACTAATTTAGAATGATATTCATAGTTTGGGGAT-AGAATTGGAATGTT
1 TAAAAGTTTAAGGACTAATTTAGAATGAGA-TCATAGTTTGGGGATGA-AATTAGAATGCT
* * *
951805 TAAAAGTTTAAGGACTAATTTAGGATGAGAATCGTAGTTTAGGGATGAAATTAGAATGCT
1 TAAAAGTTTAAGGACTAATTTAGAATGAG-ATCATAGTTTGGGGATGAAATTAGAATGCT
* * *
951865 TAAAAGTTTAAGGACAAACTTAAAATGAGGATCATAGTTTGGGGA
1 TAAAAGTTTAAGGACTAATTTAGAATGA-GATCATAGTTTGGGGA
951910 CATATTGTGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
60 87 0.97
61 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (59 bp):
TAAAAGTTTAAGGACTAATTTAGAATGAGATCATAGTTTGGGGATGAAATTAGAATGCT
Found at i:955296 original size:25 final size:24
Alignment explanation
Indices: 955258--955305 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
955248 TGAAAATAAA
*
955258 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
955282 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
955306 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:957456 original size:55 final size:55
Alignment explanation
Indices: 957400--957980 Score: 863
Period size: 55 Copynumber: 10.7 Consensus size: 55
957390 CGGGTTCGCT
* * * * * *
957400 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCC
* * * *
957455 CCTTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
** *
957508 CCCTATTTCTTCAGAGAGTATAAGACTCGTGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
957563 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
957618 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
957673 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
957728 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
957783 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
957838 CCCTATTTCTTCAGAGAGTATAAGACTCGAAC-ATCTTCAACGATCGCGTCCG-C
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
957891 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
957944 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
957981 CCATCAAACG
Statistics
Matches: 484, Mismatches: 34, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.00
52 16 0.03
53 100 0.21
54 22 0.05
55 342 0.71
56 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
Found at i:958994 original size:8 final size:8
Alignment explanation
Indices: 958981--959030 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
958971 TCTTGAACCC
958981 TCATTTTT
1 TCATTTTT
958989 TCATTTTT
1 TCATTTTT
958997 TCA----T
1 TCATTTTT
959001 TCATTTTT
1 TCATTTTT
959009 T-ATTTTT
1 TCATTTTT
*
959016 TTATTTTT
1 TCATTTTT
959024 TCATTTT
1 TCATTTT
959031 CACTCATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
4 4 0.11
7 7 0.19
8 25 0.69
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (8 bp):
TCATTTTT
Found at i:959056 original size:33 final size:34
Alignment explanation
Indices: 958983--959058 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 34
958973 TTGAACCCTC
* *
958983 ATTTTTTCATTTTTTCATTCATTTTTTATTTTTTT
1 ATTTTTTCA-TTTTTCACTCATTTTTTATTTTCTT
959018 ATTTTTTCA-TTTTCACTCATTTTTT-TTCTTCTT
1 ATTTTTTCATTTTTCACTCATTTTTTATT-TTCTT
*
959051 CTTTTTTC
1 ATTTTTTC
959059 TTCAAGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.05
33 26 0.70
35 9 0.24
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (34 bp):
ATTTTTTCATTTTTCACTCATTTTTTATTTTCTT
Found at i:967866 original size:31 final size:31
Alignment explanation
Indices: 967828--968136 Score: 539
Period size: 31 Copynumber: 10.0 Consensus size: 31
967818 GGGTCGAGGG
967828 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
967859 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
967890 TTACCTATGTTCTTAGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
967921 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
967952 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
967983 TTACCTATGTTCTTCGGGACATATTGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
968014 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
968045 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
968076 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
968107 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
968137 GTCCTTCGGG
Statistics
Matches: 268, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 267 1.00
32 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:972731 original size:31 final size:31
Alignment explanation
Indices: 972454--972716 Score: 499
Period size: 31 Copynumber: 8.5 Consensus size: 31
972444 GGGTTGAGGG
972454 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
972485 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
972516 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
972547 TTACCTATGTTCTTTGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
972578 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
972609 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
972640 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
972671 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
972702 TTACCTAGGTTCTTC
1 TTACCTATGTTCTTC
972717 AGAATCTATG
Statistics
Matches: 228, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 228 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:989266 original size:30 final size:30
Alignment explanation
Indices: 989232--989288 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
989222 TTGTTTGAAC
989232 GCGTTTTGATCTTTCATGTTTGCTTAAAGG
1 GCGTTTTGATCTTTCATGTTTGCTTAAAGG
989262 GCGTTTTGATCTTTCATGTTTGCTTAA
1 GCGTTTTGATCTTTCATGTTTGCTTAA
989289 TCCTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (30 bp):
GCGTTTTGATCTTTCATGTTTGCTTAAAGG
Found at i:989868 original size:2 final size:2
Alignment explanation
Indices: 989861--989891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
989851 TCATTTATCC
989861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
989892 ATTTGTTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:991554 original size:64 final size:64
Alignment explanation
Indices: 991455--991583 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 64
991445 AGCGTCTGTT
* * *
991455 AACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTC
1 AACAAACAAATTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
* *
991519 AACAAA-AAATTTTCCAGTTTCATTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
1 AACAAACAAATTTT-CAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
991583 A
1 A
991584 CAATTTGCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 6 0.10
64 53 0.90
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (64 bp):
AACAAACAAATTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC
Found at i:991829 original size:43 final size:43
Alignment explanation
Indices: 991781--991935 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 43
991771 CGAAGAGGCC
*
991781 ATCCACGATTTCAACTTCACGATGAAGGATATCGTACCAACGG
1 ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
*
991824 ATCCACGATTTCAACTCCATGAT-AGAGGATATCGTACCAACGG
1 ATCCACGATTTCAACTCCACGATGA-AGGATATCGTACCAACGG
* * * * * **
991867 ATCCACGATTTTAACTCCACGACGGAGGATATCGTGCCCACAC
1 ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
* *
991910 ATCCACGGTTTCAACTTCACGATGAA
1 ATCCACGATTTCAACTCCACGATGAA
991936 ATGAATCGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 94 0.99
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGATGAAGGATATCGTACCAACGG
Found at i:992264 original size:120 final size:120
Alignment explanation
Indices: 992098--992316 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 120
992088 ACGCAACTAA
* * * * * *
992098 CTTGGGTTTCAACTTCACGACGAATAATATTCAATTCAATGTTCAACTTCACGATGAAGGGGCCA
1 CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
* *
992163 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCCGCAACAGCACAAG
66 TCCAAGATTTCAACTTCACGACAAAGGATATCGTGTCCACCCGCAACAGCACAAG
* * * *
992218 CTTGGATTTTAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGGATGGGCCA
1 CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
992283 TCCAAGATTTCAACTTCACGACAAAGGATATCGT
66 TCCAAGATTTCAACTTCACGACAAAGGATATCGT
992317 ACCAATAGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 87 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (120 bp):
CTTGGATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACGACGAAGGGGCCA
TCCAAGATTTCAACTTCACGACAAAGGATATCGTGTCCACCCGCAACAGCACAAG
Found at i:992478 original size:164 final size:163
Alignment explanation
Indices: 992162--992480 Score: 399
Period size: 164 Copynumber: 2.0 Consensus size: 163
992152 TGAAGGGGCC
* * *
992162 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCCACCCGCAACAGCACAAGCTTGGATTT
1 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAACAGCACAACCTTGGATTT
* * * * *
992227 TAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGACGGATGGGCCATCCAAGATT
66 CAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCAAGATT
992292 TCAACTTCACGACAAAGGATATCGTACCAATAG
131 TCAACTTCACGACAAAGGATATCGTACCAATAG
* * *
992325 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAGCAATGTA-ACCCTTGGAT
1 ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAAC-A-GCACAACCTTGGAT
* * * * * * * * * *
992389 TTCAACTTCATGACGAATGATATCCAATTCGAGGTTTAACTCCATAATGAATGGGGCATTCACA-
64 TTCAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCA-AG
*
992453 ATTTCAACTTCACGACGAAGGATATCGT
128 ATTTCAACTTCACGACAAAGGATATCGT
992481 GCTCATTTGG
Statistics
Matches: 131, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
163 45 0.34
164 83 0.63
165 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (163 bp):
ATCCACGATTTCAACTTCACGACAAAGGATATCGTGTCCACCAGCAACAGCACAACCTTGGATTT
CAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTCCACAACGAATGGGCCATCCAAGATT
TCAACTTCACGACAAAGGATATCGTACCAATAG
Found at i:992999 original size:83 final size:83
Alignment explanation
Indices: 992483--993145 Score: 733
Period size: 84 Copynumber: 8.0 Consensus size: 83
992473 GATATCGTGC
* * * * * * * * * *
992483 TCATTTGGAGCTTAGCTCAAGGCAAGAAGGGCTATCTACTAACAAAAGACATTCGAGTTCAATTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGATTA
*
992548 CACTTAGCTCAAAGGCACA
65 CACTCAGCTCAAAGGCACA
* * * * * * * *
992567 TCATTTACAACATAACTTAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCAAGTTTGACTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG-CCACCAAAGACCTTCGAGTTCGATTA
* *
992632 CGCTCAGCTCCAAGGCACA
65 CACTCAGCTCAAAGGCACA
*
992651 TCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTA
*
992716 CACTCAGCTCAAAGGCAGA
65 CACTCAGCTCAAAGGCACA
** * * * * * *
992735 TCATTTGCATAATAATTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTA
* *
992800 CGCTCAGCTCCAAGGCACA
65 CACTCAGCTCAAAGGCACA
* * * * *
992819 TCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTG----C-AAGACCTTCAAGTTCGACTAT
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
* *
992879 GCTCAGCTCCAAGGCACA
66 ACTCAGCTCAAAGGCACA
*
992897 TCATTTGCAGCATAACTCAAGGAGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
992962 ACTCAGCTCAAAGGCACA
66 ACTCAGCTCAAAGGCACA
* * ** * *
992980 TCATTTGCAGCATAGCTCAAGGAGAGAAGGGTTATCTATCAACAAAGATCTTCGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
*
993045 ACTCAGCTCAAAGGCATA
66 ACTCAGCTCAAAGGCACA
* * ** *
993063 TCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTTTCATCAAAGACCTTCGAGTTCGATT
1 TC--ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATT
* * *
993128 TCATTCAGCTCATAGGCA
64 ACACTCAGCTCAAAGGCA
993146 TATACCTTCT
Statistics
Matches: 496, Mismatches: 73, Indels: 19
0.84 0.12 0.03
Matches are distributed among these distances:
78 71 0.14
79 1 0.00
82 1 0.00
83 117 0.24
84 231 0.47
85 75 0.15
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (83 bp):
TCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTCAAAGGCACA
Found at i:996831 original size:2 final size:2
Alignment explanation
Indices: 996824--996851 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
996814 TATAGAGTAC
996824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
996852 TGTAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:998552 original size:16 final size:16
Alignment explanation
Indices: 998526--998563 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
998516 TCTACTAAAG
998526 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
998543 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
998559 CATGT
1 CATGT
998564 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:1008510 original size:15 final size:16
Alignment explanation
Indices: 1008492--1008528 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
1008482 ATGAAATAAA
1008492 AAAAAGAAAAA-AATG
1 AAAAAGAAAAAGAATG
1008507 AAAAAGAAAAATGAATG
1 AAAAAGAAAAA-GAATG
1008524 AAAAA
1 AAAAA
1008529 ATGGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAAGAATG
Found at i:1009850 original size:54 final size:55
Alignment explanation
Indices: 1009552--1010268 Score: 955
Period size: 55 Copynumber: 13.3 Consensus size: 55
1009542 AGATTTCCCA
* *
1009552 ACGATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
1009607 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1009662 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1009717 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAA-GGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1009771 ACGATT-TTGAA-AATGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
1009824 ACGACTGTTGAAGA-TGTTCGAGTCTTATA--CTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
1009876 ACGATTGATAAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
1009931 ACGATTGATGAA-ATTGTTCGAGTC-TATACTCTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATA--CTCTCTGAAGAAATAGGGAGCAGAC
* * *
1009986 ACGACTG-TGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1010040 ACGACTGTTGAAGA-TGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
1010094 ACGATTGATGAAGATTGTTCAAGTCTTATA--CTCTGAAGGAAT-GGGAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
1010146 ACGA-TGATGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATA-GGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
1010199 AAGATTTGTTGAAGATTGTT-GGGTCTTATACTCTCTG-AGGAATAGGGAACAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
1010253 ACGATTGATGAAGATT
1 ACGATTGTTGAAGATT
1010269 CTTCAAGTTC
Statistics
Matches: 594, Mismatches: 50, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
51 23 0.04
52 72 0.12
53 87 0.15
54 164 0.28
55 244 0.41
56 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:1010161 original size:269 final size:268
Alignment explanation
Indices: 1009552--1010268 Score: 1018
Period size: 269 Copynumber: 2.7 Consensus size: 268
1009542 AGATTTCCCA
* * *
1009552 ACGATT-ATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 ACGATTGA-TGAAGATTGTTCGAGTCTTATA--CTCTGAAGAAATAGGGAGCAGACACGATTGAT
1009616 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAAATTGTT
63 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT-GGGAGCAGACACGATTGTTG-AAATTGTT
*
1009681 CGAGTCTTATACTCTATGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTAT
126 CGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTAT
* * *
1009746 ACTCTCTGAAGGAAGGGGAGCAGACACGATTTTGAAAATGTTCGAGTCTTATACTCTATGCAGAA
191 ACTCTCTGAAGAAAAGGGAGCAGACACGATGTTGAAAATGTTCGAGTCTTATACTCTATGCAGAA
1009811 ATAGGGAGCAGAC
256 ATAGGGAGCAGAC
* * * *
1009824 ACGACTGTTGAAGA-TGTTCGAGTCTTATACTCTGCAGAAATAGGGAGCAGACACGATTGATAAA
1 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTGAAGAAATAGGGAGCAGACACGATTGATGAA
* *
1009888 GATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAATTGTTCGAG
66 GATTGTTCGAGTCTTATACTCTCTGAAGAAAT-GGGAGCAGACACGATTGTTGAAATTGTTCGAG
* *
1009953 TC-TATACTCTCTCTGCAGAAATAGGGAGCAGACACGACTG-TGAAGATTGTTGGAGTCTTATAC
130 TCTTATA--CTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTATAC
* * * *
1010016 TCTCTGCAGAAATAGGGAGCAGACACGACTGTTGAAGATGTTGGAGTCTTATACTCTCTGCAGAA
193 TCTCTGAAGAAA-AGGGAGCAGACACGA-TGTTGAAAATGTTCGAGTCTTATACTCTATGCAGAA
1010081 ATAGGGAGCAGAC
256 ATAGGGAGCAGAC
* * *
1010094 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTGAAGGAAT-GGGAGCATACACGA-TGATGAA
1 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTGAAGAAATAGGGAGCAGACACGATTGATGAA
* * * *
1010157 GATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGAGCAGACAAGATTTGTTGAAGATTGTT-GG
66 GATTGTTCGAGTCTTATACTCTCTGAAGAAATGGGAGCAGACACGA-TTGTTGAA-ATTGTTCGA
* *
1010221 GTCTTATACTCTCTG-AGGAATAGGGAACAGACACGATTGATGAAGATT
129 GTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATT
1010269 CTTCAAGTTC
Statistics
Matches: 399, Mismatches: 36, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
267 25 0.06
268 73 0.18
269 172 0.43
270 80 0.20
271 38 0.10
272 11 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (268 bp):
ACGATTGATGAAGATTGTTCGAGTCTTATACTCTGAAGAAATAGGGAGCAGACACGATTGATGAA
GATTGTTCGAGTCTTATACTCTCTGAAGAAATGGGAGCAGACACGATTGTTGAAATTGTTCGAGT
CTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTCGAGTCTTATACTCT
CTGAAGAAAAGGGAGCAGACACGATGTTGAAAATGTTCGAGTCTTATACTCTATGCAGAAATAGG
GAGCAGAC
Found at i:1010351 original size:52 final size:52
Alignment explanation
Indices: 1010262--1010414 Score: 186
Period size: 55 Copynumber: 2.9 Consensus size: 52
1010252 CACGATTGAT
* * *
1010262 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAGTGAACCCGT-CA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTCCA
*
1010312 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTCGCA
1 GAAGATTGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGTGAACCCG-TC-CA
* * * *
1010367 GAAAATTGTTCGAGTCCTATACTCCCTAA-AATGAGGGAGCGAACCCGT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGT
1010415 TTTCCGAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 15 0.17
51 8 0.09
52 21 0.24
53 16 0.18
54 2 0.02
55 27 0.30
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (52 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTCCA
Found at i:1017346 original size:44 final size:45
Alignment explanation
Indices: 1017279--1017382 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
1017269 ATTTAAAATA
*
1017279 TGATAGAAAAAATAACATTTTTAGGTAGCG-CCAATTTTAACATTTC
1 TGATAG-AAAAAT-ACATTTTTAGGTAGCGTCCAATATTAACATTTC
*
1017325 TGATAGAAAAATA-ATGTTTTAGGTAGCGTCCAATATTAACATTTT
1 TGATAGAAAAATACAT-TTTTAGGTAGCGTCCAATATTAACATTTC
*
1017370 TGATAAAAAAATA
1 TGATAGAAAAATA
1017383 TTTTAAATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 2 0.04
44 13 0.25
45 32 0.60
46 6 0.11
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (45 bp):
TGATAGAAAAATACATTTTTAGGTAGCGTCCAATATTAACATTTC
Found at i:1020775 original size:60 final size:60
Alignment explanation
Indices: 1020665--1020778 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
1020655 CTATAGGATA
* *
1020665 TTGCTCTATTGAGTTACTTGACTATGAAAAGTTACAAAATGATCCATCGACTATATGAGG
1 TTGCTCTATTGAGTCACTTGACTATGAAAAGTTACAAAATGATACATCGACTATATGAGG
* * * *
1020725 TTGCTTTATTGAGTCATTTGACTATTG-AAATTTACAAAATGGTTAC-TCGACTAT
1 TTGCTCTATTGAGTCACTTGACTA-TGAAAAGTTACAAAAT-GATACATCGACTAT
1020779 TCATTATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 41 0.89
61 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (60 bp):
TTGCTCTATTGAGTCACTTGACTATGAAAAGTTACAAAATGATACATCGACTATATGAGG
Found at i:1021900 original size:53 final size:53
Alignment explanation
Indices: 1021837--1021996 Score: 279
Period size: 53 Copynumber: 3.0 Consensus size: 53
1021827 TTAAAGCGAT
1021837 ATAAAGTAAATTTGTTTAGGGTAAAGTACACAAATAGTCCCTTGATTATAGGAC
1 ATAAA-TAAATTTGTTTAGGGTAAAGTACACAAATAGTCCCTTGATTATAGGAC
*
1021891 ATAAATAAATTTGTTTAGGGTAAAGTACACAAATAGTTCCTTGATTATAGGAC
1 ATAAATAAATTTGTTTAGGGTAAAGTACACAAATAGTCCCTTGATTATAGGAC
*
1021944 ATAAATAAATTTGTTTAGGGTAAAGTACAC--ATAGTCCCTTGACTATAGGAC
1 ATAAATAAATTTGTTTAGGGTAAAGTACACAAATAGTCCCTTGATTATAGGAC
1021995 AT
1 AT
1021997 TATTTTATTA
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 21 0.20
53 77 0.75
54 5 0.05
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (53 bp):
ATAAATAAATTTGTTTAGGGTAAAGTACACAAATAGTCCCTTGATTATAGGAC
Found at i:1028577 original size:14 final size:14
Alignment explanation
Indices: 1028558--1028584 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1028548 TGTTCAATAA
1028558 TTCGTTCGTTTATG
1 TTCGTTCGTTTATG
1028572 TTCGTTCGTTTAT
1 TTCGTTCGTTTAT
1028585 ATTCAGTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.19, T:0.59
Consensus pattern (14 bp):
TTCGTTCGTTTATG
Found at i:1028661 original size:17 final size:15
Alignment explanation
Indices: 1028634--1028682 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
1028624 CTAATGAATT
*
1028634 TTAACTTTAAACCCA
1 TTAATTTTAAACCCA
1028649 TTAATATTTTAAAGCCCAA
1 TT-A-ATTTTAAA-CCC-A
1028668 TTAATTTTAAACCCA
1 TTAATTTTAAACCCA
1028683 AATAAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 3 0.10
16 4 0.14
17 15 0.52
18 4 0.14
19 3 0.10
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAATTTTAAACCCA
Found at i:1029810 original size:63 final size:63
Alignment explanation
Indices: 1029704--1029826 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
1029694 ACCTAAGGGA
* * ** *
1029704 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
1029767 ACATCTTAGGGCC-GTAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
1029827 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1032637 original size:7 final size:7
Alignment explanation
Indices: 1032625--1032663 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
1032615 GGTCAACGTG
1032625 GGTCAAC
1 GGTCAAC
1032632 GGTCAAC
1 GGTCAAC
1032639 GGGTCAAC
1 -GGTCAAC
1032647 GGTCAAC
1 GGTCAAC
1032654 GGGTCAAC
1 -GGTCAAC
1032662 GG
1 GG
1032664 GTCGGGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (7 bp):
GGTCAAC
Found at i:1032644 original size:15 final size:15
Alignment explanation
Indices: 1032624--1032663 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1032614 TGGTCAACGT
1032624 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
1032639 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
1032654 GGGTCAACGG
1 GGGTCAACGG
1032664 GTCGGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:1032671 original size:13 final size:13
Alignment explanation
Indices: 1032666--1032714 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
1032656 GTCAACGGGT
*
1032666 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
1032679 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
1032692 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
1032705 CGGGTCGGGT
1 CGGGTCGGGT
1032715 CGGGTCGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.16, C:0.18, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1032676 original size:18 final size:18
Alignment explanation
Indices: 1032653--1032688 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1032643 CAACGGTCAA
1032653 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
1032671 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
1032689 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:1032684 original size:8 final size:8
Alignment explanation
Indices: 1032624--1032666 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
1032614 TGGTCAACGT
1032624 GGGTCAAC
1 GGGTCAAC
1032632 -GGTCAAC
1 GGGTCAAC
1032639 GGGTCAAC
1 GGGTCAAC
1032647 -GGTCAAC
1 GGGTCAAC
1032654 GGGTCAAC
1 GGGTCAAC
1032662 GGGTC
1 GGGTC
1032667 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGGTCAAC
Found at i:1037150 original size:2 final size:2
Alignment explanation
Indices: 1037143--1037168 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1037133 CATGTTACTC
1037143 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1037169 TGATTGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1048766 original size:29 final size:29
Alignment explanation
Indices: 1048733--1048793 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
1048723 TATTTCAGAA
1048733 TGGAAGTTGTCTTTGGTGGGACAATTCCT
1 TGGAAGTTGTCTTTGGTGGGACAATTCCT
*
1048762 TGGAAGTTGTCTTTGGTGGGGCAATTCCT
1 TGGAAGTTGTCTTTGGTGGGACAATTCCT
1048791 TGG
1 TGG
1048794 GGATGTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.34, T:0.38
Consensus pattern (29 bp):
TGGAAGTTGTCTTTGGTGGGACAATTCCT
Found at i:1053413 original size:289 final size:289
Alignment explanation
Indices: 1052884--1053467 Score: 1008
Period size: 289 Copynumber: 2.0 Consensus size: 289
1052874 CTGGAACAAA
* * * *
1052884 GTTTTGGCTTGGGCAGTTGTTAATTTCAAAGGGAAGTCTTTGCTTGTCTGTTTCATGAAGTTGGC
1 GTTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAATCTTTGCTTGTCTGTATCATGAAGTTGGC
* *
1052949 TTGGACTTGTTTTCTATATTTTGTTTGGGAAAAGCGGAATTTTAGGTGCTTTAGGGATGCTCTCG
66 TTGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGATGCTCTCG
* *
1053014 TTTAGTTAAAGAGATTTTTTAATGCATTAGGATGATTGTTTGTGCTAAATTGCGGGTTTGTTGTA
131 TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCGGGTTTGTTGTA
* *
1053079 TTAATAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTGACTGGGGGATTTGTTGATTTTCTTTT
196 TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTTT
*
1053144 TCCTTTGCTGCTGGGTTGATAGAGTTATT
261 TCCTTTGCTACTGGGTTGATAGAGTTATT
* *
1053173 GTTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAATCTTTGCTTGTTTGTATCTTGAAGTTGGC
1 GTTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAATCTTTGCTTGTCTGTATCATGAAGTTGGC
1053238 TTGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGATGCTCTCG
66 TTGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGATGCTCTCG
*
1053303 TTTAGTTGAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCAGGG-TTGTTGT
131 TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGC-GGGTTTGTTGT
*
1053367 ATTAACAAGCTTGATAGAGTTAATTTGCAGCTTTTTCTTCACTGGGGGATTTGTTGATTTTCTTT
195 ATTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTT
1053432 TTCCTTTGCTACTGGGTTGATAGAGTTATT
260 TTCCTTTGCTACTGGGTTGATAGAGTTATT
*
1053462 GATTTG
1 GTTTTG
1053468 ACTGCTTAAT
Statistics
Matches: 278, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
289 275 0.99
290 3 0.01
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.44
Consensus pattern (289 bp):
GTTTTGGCTTGGGCAATTGTTAATTTCAAAAGGAAATCTTTGCTTGTCTGTATCATGAAGTTGGC
TTGGACTTGTTTTCTATATTTTGTTTAGGAAAAGCAGAATTTTAGGTGCTTTAGGGATGCTCTCG
TTTAGTTAAAGAGATTTTTGAATGCATTAGGATGACTGTTTGTGCTAAATTGCGGGTTTGTTGTA
TTAACAAGCTTGATAGAGTTAATTTGCAGCTTTGTCTTCACTGGGGGATTTGTTGATTTTCTTTT
TCCTTTGCTACTGGGTTGATAGAGTTATT
Found at i:1054940 original size:9 final size:8
Alignment explanation
Indices: 1054918--1054946 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1054908 AAAAATTACT
1054918 TTAAAAAA
1 TTAAAAAA
1054926 TTAAAAAA
1 TTAAAAAA
1054934 TTAAAAAA
1 TTAAAAAA
1054942 -TAAAA
1 TTAAAA
1054947 CTATAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
TTAAAAAA
Found at i:1055415 original size:41 final size:41
Alignment explanation
Indices: 1055361--1055926 Score: 605
Period size: 41 Copynumber: 13.6 Consensus size: 41
1055351 GGTTCATCGA
* * *
1055361 TAGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGTAGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTCGTACTT
* *
1055403 TAGTGGCGTTTTTATACAAACGCCGCTAAAGATTCGTAATT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * * *
1055444 TAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * * * * *
1055485 TAGTGGTGTTTTTATACAAACGTCGTTATACACAT-GTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAC-TCGTACTT
* * * *
1055526 TAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTACTT
* *
1055569 TAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* *
1055610 TAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* *
1055651 TAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * ** * * * *
1055692 TAGTGGCATTTTTATTCAAACGCCATTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * *
1055733 TAGTGGCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTACTT
* *
1055776 TAGTGGCATTTTTATACAAACGCTGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * *
1055817 TATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * * * * *
1055858 TAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
*
1055899 TAGTGGCGTTTGTGTTTACAAACGCCGC
1 TAGTGGCGTTT-T-TATACAAACGCCGC
1055927 AAGTTTACAA
Statistics
Matches: 440, Mismatches: 75, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
41 350 0.80
42 20 0.05
43 70 0.16
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTT
Found at i:1055578 original size:166 final size:163
Alignment explanation
Indices: 1055360--1055926 Score: 555
Period size: 166 Copynumber: 3.4 Consensus size: 163
1055350 AGGTTCATCG
* * *
1055360 ATAGTGGCGTTTTTTCAACAAACGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTTATACAAACG
1 ATAGTGGCG--TTTTAAACAAACGCCGCTAAAGACTA-TACTTTAGTGGCGTTTTTATACAAACG
* * * *
1055425 CCGCTAAAGATTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTG
63 CCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTG
* * * *
1055490 GTGTTTTTATACAAACGT-CGTTATACACATGTACT
128 GCGTTTTTATACAAACGTCCGCTAAACACACGTACT
* *
1055525 ATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATCCAAAC
1 ATAGTGGCGTTT-T-AA-ACAAACGCCGCTAAAGACT-ATACTTTAGTGGCGTTTTTATACAAAC
* * * * *
1055590 GCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCATACTTTAGT
62 GCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* *
1055655 GGCGTTTTTATACAAAC-TCCGCTAAAGACGCGTACT
127 GGCGTTTTTATACAAACGTCCGCTAAACACACGTACT
* * ** ** * * * * *
1055691 TTAGTGGCATTTTTATTCAAACGCCATTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAAC
1 ATAGTGGC-GTTTTAAACAAACGCCGCTAAAGAC-TATACTTTAGTGGCGTTT-T-TATACAAAC
* * *
1055756 GTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCTGCTAAAGACTCGTACTTTATT
62 GCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * * *
1055821 GACATTTTTATACAAACG-CCGCTAAAGACTCGTACT
127 GGCGTTTTTATACAAACGTCCGCTAAACACACGTACT
* ** * * * * * *
1055857 TTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAAC
1 ATAGTGGCG-TTTTAAACAAACGCCGCTAAAGAC-TATACTTTAGTGGCGTTT-T-TATACAAAC
1055922 GCCGC
62 GCCGC
1055927 AAGTTTACAA
Statistics
Matches: 344, Mismatches: 47, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
163 3 0.01
164 28 0.08
165 14 0.04
166 295 0.86
167 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (163 bp):
ATAGTGGCGTTTTAAACAAACGCCGCTAAAGACTATACTTTAGTGGCGTTTTTATACAAACGCCG
CTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCG
TTTTTATACAAACGTCCGCTAAACACACGTACT
Found at i:1055905 original size:207 final size:207
Alignment explanation
Indices: 1055377--1055924 Score: 736
Period size: 207 Copynumber: 2.6 Consensus size: 207
1055367 CGTTTTTTCA
* * * * *
1055377 ACAAACGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATTCGTAA
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * **
1055442 TTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTGGTGTTTTTATACAAACG
66 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGCATTTTTATACAAACG
* *
1055507 TCGTTATACACATGTACTATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAG
131 CCATTATACACATGTACTATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAG
*
1055572 TGGCGTTTTTAT
196 TGGCATTTTTAT
* * * *
1055584 CCAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCATAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * ** *
1055649 TTTAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAACG
66 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGCATTTTTATACAAACG
* **** * *
1055714 CCATTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAATTTAG
131 CCATTATACACATGTACTATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAG
1055779 TGGCATTTTTAT
196 TGGCATTTTTAT
* * * *
1055791 ACAAACGCTGCTAAAGACTCGTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * * * *
1055856 TTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAA
66 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGCATTT-T-TATACAAA
1055921 CGCC
129 CGCC
1055925 GCAAGTTTAC
Statistics
Matches: 292, Mismatches: 47, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
207 281 0.96
208 1 0.00
209 10 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (207 bp):
ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGCATTTTTATACAAACG
CCATTATACACATGTACTATAGTGGCGTTTGTAAACACAAACGCCGCTAAAGACTCATAATTTAG
TGGCATTTTTAT
Found at i:1056636 original size:25 final size:25
Alignment explanation
Indices: 1056594--1056644 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1056584 AATTAGATAA
* *
1056594 TAACTGACAGGTAGTATTATAATAT
1 TAACTGACAAGTAATATTATAATAT
*
1056619 TAACTTACAAGTAATATTATAATAT
1 TAACTGACAAGTAATATTATAATAT
1056644 T
1 T
1056645 TGGGTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (25 bp):
TAACTGACAAGTAATATTATAATAT
Found at i:1056761 original size:74 final size:75
Alignment explanation
Indices: 1056644--1056792 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 75
1056634 ATTATAATAT
1056644 TTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTAT-AAAAAAACTAAATTAAATAAGAAAGAA
1 TTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAAAAACTAAATTAAATAAGAAAGAA
1056708 AGAAAAAGAA
66 AGAAAAAGAA
1056718 TTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAAAAACTAAATTAAATAAGAAAGAA
1 TTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAAAAACTAAATTAAATAAGAAAGAA
1056783 AGAAAAAGAA
66 AGAAAAAGAA
1056793 AGCAAGAGAA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 37 0.50
75 37 0.50
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (75 bp):
TTGGGTGATTATCGGGTAAAAATGCCCTTATAGTTATAAAAAAAACTAAATTAAATAAGAAAGAA
AGAAAAAGAA
Found at i:1063561 original size:2 final size:2
Alignment explanation
Indices: 1063554--1063579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1063544 GCCATATAAC
1063554 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1063580 CATGTTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1063950 original size:31 final size:31
Alignment explanation
Indices: 1063922--1064008 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
1063912 CAGAGGTCAT
1063922 AAAAGAACCTCA-G-AAACTGTCCATAGGTCC
1 AAAAGAACCT-AGGTAAACTGTCCATAGGTCC
**
1063952 CGAAGAACCTAGGTAAACTGTCCATAGGTCC
1 AAAAGAACCTAGGTAAACTGTCCATAGGTCC
**
1063983 CGAAGAACCTAGGTAAACTGTCCATA
1 AAAAGAACCTAGGTAAACTGTCCATA
1064009 TGTCTCGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
29 1 0.02
30 9 0.17
31 43 0.81
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (31 bp):
AAAAGAACCTAGGTAAACTGTCCATAGGTCC
Found at i:1064027 original size:31 final size:31
Alignment explanation
Indices: 1063935--1064031 Score: 151
Period size: 31 Copynumber: 3.1 Consensus size: 31
1063925 AGAACCTCAG
1063935 AAACTGTCCATAGGTCCCGAAGAACCTAGGT
1 AAACTGTCCATAGGTCCCGAAGAACCTAGGT
1063966 AAACTGTCCATAGGTCCCGAAGAACCTAGGT
1 AAACTGTCCATAGGTCCCGAAGAACCTAGGT
* * *
1063997 AAACTGTCCATATGTCTCGAA-ATACATAGGT
1 AAACTGTCCATAGGTCCCGAAGA-ACCTAGGT
1064028 AAAC
1 AAAC
1064032 CCTCGACTCT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.02
31 61 0.98
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (31 bp):
AAACTGTCCATAGGTCCCGAAGAACCTAGGT
Found at i:1067620 original size:2 final size:2
Alignment explanation
Indices: 1067613--1067656 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1067603 GCCATATAAC
1067613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1067655 AT
1 AT
1067657 CATGTTAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1068044 original size:31 final size:31
Alignment explanation
Indices: 1068006--1068101 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
1067996 GAACCTCGGC
1068006 AACTGTCCATAGGTCTCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCTCGAAGAACCTAGGTA
*
1068037 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCTCGAAGAACCTAGGTA
* *
1068068 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCTCGAAGA-ACCTAGGTA
1068099 AAC
1 AAC
1068102 CCTCGACTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.02
31 59 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCTCGAAGAACCTAGGTA
Found at i:1070380 original size:37 final size:37
Alignment explanation
Indices: 1070349--1070430 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 37
1070339 GTTCAATTAG
*
1070349 AACTTGAA-TTAAAGAATTGAAGCTCGTGTTCAAAAA
1 AACTTGAATTTAAAAAATTGAAGCTCGTGTTCAAAAA
*
1070385 AAGTTGAATTTAAAAAATTGAAGCTCGTGTT-AAAAA
1 AACTTGAATTTAAAAAATTGAAGCTCGTGTTCAAAAA
*
1070421 AAGTTGAATT
1 AACTTGAATT
1070431 CGAAACATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 22 0.51
37 21 0.49
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (37 bp):
AACTTGAATTTAAAAAATTGAAGCTCGTGTTCAAAAA
Found at i:1070393 original size:36 final size:35
Alignment explanation
Indices: 1070352--1070430 Score: 131
Period size: 37 Copynumber: 2.2 Consensus size: 35
1070342 CAATTAGAAC
*
1070352 TTGAATTAAAGAATTGAAGCTCGTGTTCAAAAAAAG
1 TTGAATTAAAAAATTGAAGCTCGTGTT-AAAAAAAG
1070388 TTGAATTTAAAAAATTGAAGCTCGTGTTAAAAAAAG
1 TTGAA-TTAAAAAATTGAAGCTCGTGTTAAAAAAAG
1070424 TTGAATT
1 TTGAATT
1070431 CGAAACATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 2 0.05
36 18 0.44
37 21 0.51
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (35 bp):
TTGAATTAAAAAATTGAAGCTCGTGTTAAAAAAAG
Found at i:1070511 original size:23 final size:23
Alignment explanation
Indices: 1070445--1070513 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1070435 ACATTCTCAG
* *
1070445 ACTT-AGCTCGATTGAAGCTCGA
1 ACTTGAGCTCGATTCAAGCTCTA
* *
1070467 ACTCGAGCTCGGTTCAAGCTCTA
1 ACTTGAGCTCGATTCAAGCTCTA
*
1070490 ACTTGAGCTCGATTTAAGCTCTA
1 ACTTGAGCTCGATTCAAGCTCTA
1070513 A
1 A
1070514 TTTGGTACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 3 0.08
23 36 0.92
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
ACTTGAGCTCGATTCAAGCTCTA
Found at i:1070621 original size:34 final size:34
Alignment explanation
Indices: 1070577--1070642 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
1070567 ACATGTTAAT
*
1070577 ATCATGAATAATTTAATGAAAAAAATAAAAAAAA
1 ATCATAAATAATTTAATGAAAAAAATAAAAAAAA
1070611 ATCATAAATAATTTAATGAAAAAAATAAAAAA
1 ATCATAAATAATTTAATGAAAAAAATAAAAAA
1070643 TATATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (34 bp):
ATCATAAATAATTTAATGAAAAAAATAAAAAAAA
Found at i:1070839 original size:26 final size:27
Alignment explanation
Indices: 1070804--1070871 Score: 111
Period size: 26 Copynumber: 2.5 Consensus size: 27
1070794 TTAAGTTAGT
1070804 GTTTAGGGTTTAGGGTTTAAGATTTTAA
1 GTTTA-GGTTTAGGGTTTAAGATTTTAA
1070832 G-TTAGGTTTAGGGTTTAAGATTTTAA
1 GTTTAGGTTTAGGGTTTAAGATTTTAA
1070858 GTTTAGTGTTTAGG
1 GTTTAG-GTTTAGG
1070872 CTTTGGGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 23 0.61
27 7 0.18
28 8 0.21
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (27 bp):
GTTTAGGTTTAGGGTTTAAGATTTTAA
Found at i:1070857 original size:34 final size:34
Alignment explanation
Indices: 1070790--1070858 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
1070780 TCTTGTTTTG
*
1070790 GATTTTAAGTTAGTGTTTAGGGTTTAGGGTTTAA
1 GATTTTAAGTTAGTGTTTAGGGTTTAGAGTTTAA
*
1070824 GATTTTAAGTTAG-GTTTAGGGTTTAAGATTTTAA
1 GATTTTAAGTTAGTGTTTAGGGTTT-AGAGTTTAA
1070858 G
1 G
1070859 TTTAGTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (34 bp):
GATTTTAAGTTAGTGTTTAGGGTTTAGAGTTTAA
Found at i:1070955 original size:15 final size:15
Alignment explanation
Indices: 1070937--1070983 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
1070927 TTCCGGAAAA
1070937 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1070952 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
1070967 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1070982 TG
1 TG
1070984 TTTTCTGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1070965 original size:30 final size:29
Alignment explanation
Indices: 1070931--1071003 Score: 119
Period size: 30 Copynumber: 2.5 Consensus size: 29
1070921 TTGGTTTTCC
1070931 GGAAAATGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTG-ATTACT
* *
1070961 GGAAAATGAATTACTGGAATTTGTTTTCT
1 GGAAAATGAATTACTGGAATTTGATTACT
1070990 GGAAAATGAATTAC
1 GGAAAATGAATTAC
1071004 ATTTCTGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 18 0.44
30 23 0.56
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (29 bp):
GGAAAATGAATTACTGGAATTTGATTACT
Found at i:1071211 original size:13 final size:13
Alignment explanation
Indices: 1071150--1071211 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
1071140 AACTTAATAT
1071150 TATTATT-TTAAA
1 TATTATTATTAAA
*
1071162 -A-TATT-TAAAA
1 TATTATTATTAAA
1071172 TAATTATTATTAAA
1 T-ATTATTATTAAA
*
1071186 TATTATTTTTAAA
1 TATTATTATTAAA
* *
1071199 TTTTATTAATAAA
1 TATTATTATTAAA
1071212 AATATTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
10 8 0.20
11 1 0.03
12 1 0.03
13 25 0.62
14 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:1071366 original size:25 final size:26
Alignment explanation
Indices: 1071333--1071394 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
1071323 ATATCTTTAC
1071333 TAAAA-TATTATT-TAAATATATAAA
1 TAAAATTATTATTATAAATATATAAA
*
1071357 TAAAATTATTCATTATTAATATATAAA
1 TAAAATTATT-ATTATAAATATATAAA
*
1071384 -AAATTTATTAT
1 TAAAATTATTAT
1071395 ATATTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 5 0.15
25 6 0.18
26 11 0.33
27 11 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAAATTATTATTATAAATATATAAA
Found at i:1071377 original size:27 final size:26
Alignment explanation
Indices: 1071347--1071400 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
1071337 ATATTATTTA
1071347 AATATATAAATAAAATTATTCAT-TATT
1 AATATATAAA-AAAATTATT-ATATATT
*
1071374 AATATATAAAAAATTTATTATATATT
1 AATATATAAAAAAATTATTATATATT
1071400 A
1 A
1071401 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 13 0.52
27 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATATAAAAAAATTATTATATATT
Found at i:1071424 original size:27 final size:28
Alignment explanation
Indices: 1071337--1071496 Score: 98
Period size: 29 Copynumber: 5.6 Consensus size: 28
1071327 CTTTACTAAA
1071337 ATATTATTTAAATATATAA-ATAA-A-ATT
1 ATATTA-TTAAA-ATATAATATAATATATT
* * *
1071364 ATTCATTATTAATATATAA-AAAATTTATTAT
1 A-T-ATTATTAAAATATAATATAATATA-T-T
*
1071395 ATATTATTAAAATA-AATATAATATCTT
1 ATATTATTAAAATATAATATAATATATT
* * *
1071422 ATATTATTATAATATAAT-TGATTATTTT
1 ATATTATTAAAATATAATAT-AATATATT
* *
1071450 ATATAATTTAAAATATAATATTATATTATT
1 ATATTA-TTAAAATATAATATAATA-TATT
*
1071480 ATAATATTAATAATATA
1 ATATTATTAA-AATATA
1071497 TTTTAAATAT
Statistics
Matches: 103, Mismatches: 17, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
27 25 0.24
28 22 0.21
29 38 0.37
30 16 0.16
31 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATTAAAATATAATATAATATATT
Found at i:1071473 original size:22 final size:22
Alignment explanation
Indices: 1071448--1071497 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1071438 ATTGATTATT
1071448 TTATATAATTTAAAATA-TAATA
1 TTATATAA-TTAAAATATTAATA
* *
1071470 TTATATTATTATAATATTAATA
1 TTATATAATTAAAATATTAATA
*
1071492 ATATAT
1 TTATAT
1071498 TTTAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATATAATTAAAATATTAATA
Found at i:1071497 original size:27 final size:26
Alignment explanation
Indices: 1071394--1071498 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 26
1071384 AAATTTATTA
* * *
1071394 TATATTATTAAAATAAATATAATATCT
1 TATATTATTATAATATA-ATAATATAT
*
1071421 TATATTATTATAATATAAT--T-GAT
1 TATATTATTATAATATAATAATATAT
* * *
1071444 TATTTTA-TATAATTTAAAATATAATAT
1 TATATTATTATAATATAATA-AT-ATAT
1071471 TATATTATTATAATATTAATAATATAT
1 TATATTATTATAATA-TAATAATATAT
1071498 T
1 T
1071499 TTAAATATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
22 9 0.15
23 7 0.12
24 1 0.02
25 1 0.02
26 2 0.03
27 28 0.47
28 8 0.13
29 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TATATTATTATAATATAATAATATAT
Found at i:1071507 original size:28 final size:30
Alignment explanation
Indices: 1071389--1071520 Score: 84
Period size: 29 Copynumber: 4.5 Consensus size: 30
1071379 ATAAAAAATT
*
1071389 TATTATATATTATTAA-AATA-AATATAAT-A
1 TATTATA-A-TATTAATAATATAATATTATAA
* * **
1071418 TCTTATATTATT-ATAATATAATTGATTATTT
1 TATTATAATATTAATAATATAA-T-ATTATAA
*
1071449 TA-TATAAT-TTAA-AATATAATATTATAT
1 TATTATAATATTAATAATATAATATTATAA
*
1071476 TATTATAATATTAATAATAT-ATTTTA-AA
1 TATTATAATATTAATAATATAATATTATAA
*
1071504 TATTTTAATAATTAATA
1 TATTATAAT-ATTAATA
1071521 TTTTGATGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
26 1 0.01
27 16 0.19
28 18 0.22
29 32 0.39
30 15 0.18
31 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTATAATATTAATAATATAATATTATAA
Found at i:1071515 original size:22 final size:21
Alignment explanation
Indices: 1071450--1071507 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
1071440 TGATTATTTT
* *
1071450 ATATAATTTAAAATA-TAATA
1 ATATATTTTATAATATTAATA
*
1071470 TTATATTATTATAATATTAATA
1 ATATATT-TTATAATATTAATA
1071492 ATATATTTTA-AATATT
1 ATATATTTTATAATATT
1071508 TTAATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.34
21 10 0.31
22 11 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATTTTATAATATTAATA
Found at i:1071755 original size:42 final size:42
Alignment explanation
Indices: 1071696--1071814 Score: 211
Period size: 42 Copynumber: 2.8 Consensus size: 42
1071686 ATGAATTACG
1071696 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1071738 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* * *
1071780 TTCCAGAAAATGAATTACATGAAACAAACACGGGA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGA
1071815 TTTCGGGGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1074269 original size:3 final size:3
Alignment explanation
Indices: 1074261--1074287 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1074251 AATCAAATTG
1074261 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1074288 AAATAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1075870 original size:149 final size:150
Alignment explanation
Indices: 1075631--1075954 Score: 605
Period size: 149 Copynumber: 2.2 Consensus size: 150
1075621 ACTTAGATTC
1075631 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
1 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
* * *
1075696 CTCCCTAGTAGGTTATGTTTCTCGAATTTGTGAGTGTCGGTAACACCAATATTTATGTCCGACGC
66 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
1075761 GGTTTTGTTACTTGGACTGT
131 GGTTTTGTTACTTGGACTGT
1075781 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATC-ATGTTTCAGTTTTCCCTTTTGT
1 TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
1075845 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
66 CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
*
1075910 GGTTTTTTTACTTGGACTGT
131 GGTTTTGTTACTTGGACTGT
1075930 TTTTTATGGATTTTAAGTGAGTAAT
1 TTTTTATGGATTTTAAGTGAGTAAT
1075955 ATTTGATCAA
Statistics
Matches: 170, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
149 128 0.75
150 42 0.25
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (150 bp):
TTTTTATGGATTTTAAGTGAGTAATGTAGTTCACATTTGATCAATGTTTCAGTTTTCCCTTTTGT
CTCCCTAGTAGGTTATGTTTATCGAACTTGTGAGTGTCGGTAACACCAATATGTATGTCCGACGC
GGTTTTGTTACTTGGACTGT
Found at i:1080813 original size:20 final size:22
Alignment explanation
Indices: 1080777--1080817 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1080767 TTATTGATTT
1080777 TTAATTATATCTATGTTAATAA
1 TTAATTATATCTATGTTAATAA
1080799 TTAATT-TAT-TATGTTAATA
1 TTAATTATATCTATGTTAATA
1080818 TCAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAATTATATCTATGTTAATAA
Found at i:1080957 original size:26 final size:24
Alignment explanation
Indices: 1080928--1080982 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1080918 ATTAATAATT
*
1080928 ATTATATATTTTTAATTATATGAATA
1 ATTATACA-TTTT-ATTATATGAATA
* *
1080954 ATTATACATTTTCTTGTATGAATA
1 ATTATACATTTTATTATATGAATA
1080978 ATTAT
1 ATTAT
1080983 TCAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
25 4 0.15
26 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTATACATTTTATTATATGAATA
Found at i:1081183 original size:152 final size:153
Alignment explanation
Indices: 1080917--1081258 Score: 587
Period size: 152 Copynumber: 2.2 Consensus size: 153
1080907 GATTATCTAA
* * **
1080917 AATTAATAATTATTATATATTTTTAATTATATGAATAATTATACATTTTCTTGTATGAATAATTA
1 AATTAATCA-TATTATATACTTTTAA-TGCAT-AATAATTATACATTTTCTTGTATGAATAATTA
1080982 TTCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCT
63 TTCAAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCT
1081047 TTATAAAATTTGCTACATAGTGTTTT
128 TTATAAAATTTGCTACATAGTGTTTT
*
1081073 AATTAATCATATTATATACTTTTAATGCATAATAATTATTCATTTTCTTGTATGAATAATTATTC
1 AATTAATCATATTATATACTTTTAATGCATAATAATTATACATTTTCTTGTATGAATAATTATTC
* *
1081138 -AAACAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTCTACATCTCTTTCTTTA
66 AAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCTTTA
1081202 TAAAATTTGCTACATAGTGTTTT
131 TAAAATTTGCTACATAGTGTTTT
1081225 AATTAATCATATTATATACTTTTAATGCATAATA
1 AATTAATCATATTATATACTTTTAATGCATAATA
1081259 TTTTAATAAA
Statistics
Matches: 179, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
152 119 0.66
153 34 0.19
154 3 0.02
155 15 0.08
156 8 0.04
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (153 bp):
AATTAATCATATTATATACTTTTAATGCATAATAATTATACATTTTCTTGTATGAATAATTATTC
AAAAAAATTATGAACAAGTATTTTACATTTTTAGTTATATGAAAAGCTATACATCTCTTTCTTTA
TAAAATTTGCTACATAGTGTTTT
Found at i:1086391 original size:2 final size:2
Alignment explanation
Indices: 1086386--1086412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1086376 AAAGATAAAA
1086386 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1086413 TTACTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1087488 original size:12 final size:13
Alignment explanation
Indices: 1087456--1087491 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1087446 TACAATACAA
1087456 ATATTTTTTCGTT
1 ATATTTTTTCGTT
1087469 ATATTTTTTCGTT
1 ATATTTTTTCGTT
1087482 ATATTTTTTC
1 ATATTTTTTC
1087492 ATATTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (13 bp):
ATATTTTTTCGTT
Found at i:1088148 original size:20 final size:20
Alignment explanation
Indices: 1088119--1088180 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
1088109 TTTTGGTAGC
1088119 TTACGGTTTTTTGTCGTTGT
1 TTACGGTTTTTTGTCGTTGT
*
1088139 TTATGGTTTTTTGTCGTTGT
1 TTACGGTTTTTTGTCGTTGT
1088159 TTACGGTTTTTTGTCGTTGT
1 TTACGGTTTTTTGTCGTTGT
1088179 TT
1 TT
1088181 TTGTTTATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.05, C:0.08, G:0.24, T:0.63
Consensus pattern (20 bp):
TTACGGTTTTTTGTCGTTGT
Found at i:1088796 original size:16 final size:14
Alignment explanation
Indices: 1088768--1088813 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
1088758 AAACTGAAAC
1088768 CGATTTTTTCGGTT
1 CGATTTTTTCGGTT
1088782 CGATTTTTTAACGGTT
1 CGATTTTTT--CGGTT
*
1088798 CGAGTTTTTCGGTT
1 CGATTTTTTCGGTT
1088812 CG
1 CG
1088814 GTTCGGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 16 0.55
16 13 0.45
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.50
Consensus pattern (14 bp):
CGATTTTTTCGGTT
Found at i:1089725 original size:2 final size:2
Alignment explanation
Indices: 1089718--1089749 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1089708 AACTAGCCAC
1089718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1089750 AACCGTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1094701 original size:2 final size:2
Alignment explanation
Indices: 1094694--1094745 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1094684 TGATCCTAAC
1094694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1094736 AT AT AT AT AT
1 AT AT AT AT AT
1094746 GAGGTTGGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1109216 original size:2 final size:2
Alignment explanation
Indices: 1109209--1109237 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1109199 AGCTTCAGCA
1109209 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1109238 TCTGAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1109328 original size:12 final size:12
Alignment explanation
Indices: 1109311--1109335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1109301 TCCTTTTGGG
1109311 TATTTTATTTAT
1 TATTTTATTTAT
1109323 TATTTTATTTAT
1 TATTTTATTTAT
1109335 T
1 T
1109336 TTATTTGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:1114782 original size:214 final size:214
Alignment explanation
Indices: 1114413--1114841 Score: 858
Period size: 214 Copynumber: 2.0 Consensus size: 214
1114403 TGAAAGGGTA
1114413 AAATCATTTTGAAATTAGAAATGGGGTAGTTTTATGACCCAAGTCCGACCCGGAAACCCGAAAAA
1 AAATCATTTTGAAATTAGAAATGGGGTAGTTTTATGACCCAAGTCCGACCCGGAAACCCGAAAAA
1114478 AATAATTGGTCGGGTACCTGATAACCCAGCACTATTTGAATGGATTCAAAATCTTACCACGCAAA
66 AATAATTGGTCGGGTACCTGATAACCCAGCACTATTTGAATGGATTCAAAATCTTACCACGCAAA
1114543 GTGGAACAAAAACACAAGGAGAGGCTAAGACTATTGATGAAGACCATAGAACTCGTACTGAAGGC
131 GTGGAACAAAAACACAAGGAGAGGCTAAGACTATTGATGAAGACCATAGAACTCGTACTGAAGGC
1114608 AGGTTGGAGAACAAAGGCG
196 AGGTTGGAGAACAAAGGCG
1114627 AAATCATTTTGAAATTAGAAATGGGGTAGTTTTATGACCCAAGTCCGACCCGGAAACCCGAAAAA
1 AAATCATTTTGAAATTAGAAATGGGGTAGTTTTATGACCCAAGTCCGACCCGGAAACCCGAAAAA
1114692 AATAATTGGTCGGGTACCTGATAACCCAGCACTATTTGAATGGATTCAAAATCTTACCACGCAAA
66 AATAATTGGTCGGGTACCTGATAACCCAGCACTATTTGAATGGATTCAAAATCTTACCACGCAAA
1114757 GTGGAACAAAAACACAAGGAGAGGCTAAGACTATTGATGAAGACCATAGAACTCGTACTGAAGGC
131 GTGGAACAAAAACACAAGGAGAGGCTAAGACTATTGATGAAGACCATAGAACTCGTACTGAAGGC
1114822 AGGTTGGAGAACAAAGGCG
196 AGGTTGGAGAACAAAGGCG
1114841 A
1 A
1114842 TGATAACGAT
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (214 bp):
AAATCATTTTGAAATTAGAAATGGGGTAGTTTTATGACCCAAGTCCGACCCGGAAACCCGAAAAA
AATAATTGGTCGGGTACCTGATAACCCAGCACTATTTGAATGGATTCAAAATCTTACCACGCAAA
GTGGAACAAAAACACAAGGAGAGGCTAAGACTATTGATGAAGACCATAGAACTCGTACTGAAGGC
AGGTTGGAGAACAAAGGCG
Found at i:1115388 original size:15 final size:17
Alignment explanation
Indices: 1115362--1115393 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1115352 CCTAAACCTG
1115362 ACCCGATCGGG-TCGGA
1 ACCCGATCGGGTTCGGA
1115378 ACCCG-TCGGGTTCGGA
1 ACCCGATCGGGTTCGGA
1115394 TCCCATACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.31, G:0.38, T:0.16
Consensus pattern (17 bp):
ACCCGATCGGGTTCGGA
Found at i:1115726 original size:17 final size:16
Alignment explanation
Indices: 1115695--1115725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1115685 TGAAACTCGA
*
1115695 CTCGAACTCAAAAAAG
1 CTCGAACTAAAAAAAG
1115711 CTCGAACTAAAAAAA
1 CTCGAACTAAAAAAA
1115726 AATTCAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.10, T:0.13
Consensus pattern (16 bp):
CTCGAACTAAAAAAAG
Found at i:1115785 original size:35 final size:36
Alignment explanation
Indices: 1115745--1115820 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
1115735 ACTCGACTGA
* *
1115745 AGCTCAAGAC-TT-AACTCGATTGAAGCTCGATTTTG
1 AGCTCAA-ACTTTGAACTCGATTCAAGCTCGACTTTG
* *
1115780 AGCTC-AACTTTGAGCTCGATTCAAGCTTGACTTTG
1 AGCTCAAACTTTGAACTCGATTCAAGCTCGACTTTG
1115815 AGCTCA
1 AGCTCA
1115821 TTTGAAACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
33 2 0.06
34 3 0.09
35 29 0.85
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (36 bp):
AGCTCAAACTTTGAACTCGATTCAAGCTCGACTTTG
Found at i:1117504 original size:21 final size:21
Alignment explanation
Indices: 1117478--1117520 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1117468 TCACATAATC
1117478 GGATTTAGGT-TTTAGGGTTTA
1 GGATTTA-GTATTTAGGGTTTA
1117499 GGATTTAGTATTTAGGGTTTA
1 GGATTTAGTATTTAGGGTTTA
1117520 G
1 G
1117521 AGTTTATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GGATTTAGTATTTAGGGTTTA
Found at i:1117669 original size:11 final size:11
Alignment explanation
Indices: 1117655--1117717 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1117645 GTATTATAGA
1117655 ATTTTTAATAT
1 ATTTTTAATAT
1117666 ATTTTTAA-A-
1 ATTTTTAATAT
1117675 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
1117686 ATCAATAGTGT
1 ATTTTTAATAT
1117697 ATTTTTAATAT
1 ATTTTTAATAT
1117708 ATTTTTAATA
1 ATTTTTAATA
1117718 ATGAAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1123708 original size:98 final size:98
Alignment explanation
Indices: 1123531--1123716 Score: 250
Period size: 98 Copynumber: 1.9 Consensus size: 98
1123521 ATAAGTTGAT
*
1123531 TATTTTGGACCAAATGTTCCATTTTTCGTGAATGTGAAGAAAAACTATTGGGGTAAAGGGATGTA
1 TATTTTGGACCAAATGTTCCATTTTTCGTGAACGTGAAGAAAAACTATTGGGGTAAAGGGATGTA
* * *
1123596 TTTGTCCAGATTTTATTGGAGGCGTAACTAGGC
66 GTTATCCAGATTTTACTGGAGGCGTAACTAGGC
* * * *
1123629 TATTTTGGATCAAATGTTTCATTTTAT-GTGAACGTCG-AGAGAAACTTTTGGGGTAAAGGGATG
1 TATTTTGGACCAAATGTTCCATTTT-TCGTGAACGT-GAAGAAAAACTATTGGGGTAAAGGGATG
* *
1123692 TAGTTATCCTGTTTTTACTGGAGGC
64 TAGTTATCCAGATTTTACTGGAGGC
1123717 AGAACCCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 74 0.97
99 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.37
Consensus pattern (98 bp):
TATTTTGGACCAAATGTTCCATTTTTCGTGAACGTGAAGAAAAACTATTGGGGTAAAGGGATGTA
GTTATCCAGATTTTACTGGAGGCGTAACTAGGC
Found at i:1124116 original size:109 final size:110
Alignment explanation
Indices: 1123842--1124117 Score: 382
Period size: 109 Copynumber: 2.5 Consensus size: 110
1123832 CTAAATTGCC
* * **
1123842 TTAAATTGCAGTGACATTAACTTCAATTCCAGCTTT-ATATTTGTAATATGAACTTTTGTAAGAA
1 TTAAATTGCAATGACATTAACCTCAATTCCAGCTTTAATATTTGTCCTATG-ACTTTTGTAAGAA
*
1123906 ATGAATTTTAGATTATATTTCATATAACATTAAATTACTAAAATGCA
65 ATGAATTTTAGATTATATTTCACATAACATTAAATTACTAAAATG-A
* *
1123953 TTAGATTGCAATGACATTAACCTCAATTCCAGCTTAAATATTTGTCCTAT-ACTTTTGTAAGAAA
1 TTAAATTGCAATGACATTAACCTCAATTCCAGCTTTAATATTTGTCCTATGACTTTTGTAAGAAA
*
1124017 TGAATTTTAGATTATATTTCACATAATATTGAAAATT-CTAAAATG-
66 TGAATTTTAGATTATATTTCACATAACATT--AAATTACTAAAATGA
* * *
1124062 TTAAATTGCAATGACATTAACCTCAATTACAACTTTAATAGTTGTCCT-TGACTTTT
1 TTAAATTGCAATGACATTAACCTCAATTCCAGCTTTAATATTTGTCCTATGACTTTT
1124118 ATATAATATT
Statistics
Matches: 148, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
108 1 0.01
109 49 0.33
110 42 0.28
111 40 0.27
112 16 0.11
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (110 bp):
TTAAATTGCAATGACATTAACCTCAATTCCAGCTTTAATATTTGTCCTATGACTTTTGTAAGAAA
TGAATTTTAGATTATATTTCACATAACATTAAATTACTAAAATGA
Found at i:1126082 original size:60 final size:58
Alignment explanation
Indices: 1126016--1126128 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 58
1126006 CATAGTCGGT
* *
1126016 GACCATTTTGTAACTTTTAATAGTCGGGGGACTCAACAAAGTAATACCCTATAGTTGGAG
1 GACCATTTTGTAACTTTTAATAGTC--GGGACTCAACAAAGCAACACCCTATAGTTGGAG
* *
1126076 GACCATTTTGTAACTTTTAATAGTCGGGACTCAATAAAGCAACGCCCTATAGT
1 GACCATTTTGTAACTTTTAATAGTCGGGACTCAACAAAGCAACACCCTATAGT
1126129 CGGGGTTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 24 0.49
60 25 0.51
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (58 bp):
GACCATTTTGTAACTTTTAATAGTCGGGACTCAACAAAGCAACACCCTATAGTTGGAG
Found at i:1130159 original size:117 final size:118
Alignment explanation
Indices: 1130026--1130317 Score: 527
Period size: 117 Copynumber: 2.5 Consensus size: 118
1130016 TTATGAAAAA
**
1130026 TATTTTCCCCATTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTTA
1 TATTTTCTTCATTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTTA
1130091 TAGTTGACATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTA-TTTTT
66 TAGTTGACATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTT
1130143 TA-TTTCTTCATTTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTT
1 TATTTTCTTCA-TTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTT
1130207 ATAGTTGACATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTT
65 ATAGTTGACATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTT
*
1130261 TATTTTCTTCA-TTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTT
1 TATTTTCTTCATTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTT
1130318 TAGACAATAA
Statistics
Matches: 169, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
116 6 0.04
117 148 0.88
118 7 0.04
119 8 0.05
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.59
Consensus pattern (118 bp):
TATTTTCTTCATTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTTA
TAGTTGACATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTT
Found at i:1130261 original size:15 final size:17
Alignment explanation
Indices: 1130243--1130280 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1130233 TTATAAAATG
1130243 TTTTATTATC-T-ATTT
1 TTTTATTATCTTCATTT
*
1130258 TTTTATTTTCTTCATTT
1 TTTTATTATCTTCATTT
1130275 TTTTAT
1 TTTTAT
1130281 GTTTGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATCTTCATTT
Found at i:1130351 original size:117 final size:114
Alignment explanation
Indices: 1130035--1130350 Score: 350
Period size: 117 Copynumber: 2.7 Consensus size: 114
1130025 ATATTTTCCC
* **** *
1130035 CATTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTTATAGTTGACA
1 CATTTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTTATGACAATAATTG--A
* **
1130100 TATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTTATTTCTT
64 TAATTTACTACGTTTTTTATAAAATGTTTTATTATCTATTTTTTATTTCTT
* **** *
1130151 CATTTTTTTTTATGTTTGGTTGATTTAGTACAGGATGGTTAATGTAATTTATTTTTATAGTTGAC
1 CA-TTTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTTATGACAATAATTG--
* **
1130216 ATATTTTTTTACGTTTTTTATAAAATGTTTTATTATCTATTTTTTTATTTTCTT
63 ATAATTTACTACGTTTTTTATAAAATGTTTTATTATCTA-TTTTTTA-TTTCTT
1130270 CA-TTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTT-TAGACAATAATATG-
1 CATTTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTTAT-GACAATAAT-TGA
*
1130332 TAATTTACTAGTGTTTTTT
64 TAATTTACTA-CGTTTTTT
1130351 TTTAACATAA
Statistics
Matches: 184, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
115 7 0.04
116 10 0.05
117 150 0.82
118 9 0.05
119 8 0.04
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (114 bp):
CATTTTTTTTATGTTTGGTTGATTTAGTACAAGATGGTTAATGTAATTTATGACAATAATTGATA
ATTTACTACGTTTTTTATAAAATGTTTTATTATCTATTTTTTATTTCTT
Found at i:1137810 original size:60 final size:61
Alignment explanation
Indices: 1137734--1137855 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
1137724 ATACATCTTT
* ***
1137734 AAATTATAGCGTCTA-TTTATGTTAACCTCTAAATGTTTGAATATTTCAATTTCATCCCCA
1 AAATTATAACGTCTATTTTAAACTAACCTCTAAATGTTTGAATATTTCAATTTCATCCCCA
* ** * *
1137794 AAATTATAACTTCTATTTTAAACTATTCTTTAAATGTTTGAATATTTCAATTTCATCTCCA
1 AAATTATAACGTCTATTTTAAACTAACCTCTAAATGTTTGAATATTTCAATTTCATCCCCA
1137855 A
1 A
1137856 GTGACGAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
60 13 0.25
61 39 0.75
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (61 bp):
AAATTATAACGTCTATTTTAAACTAACCTCTAAATGTTTGAATATTTCAATTTCATCCCCA
Found at i:1141324 original size:18 final size:18
Alignment explanation
Indices: 1141301--1141339 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1141291 TAAAAGAACC
1141301 GGAGATGTGGATAAGCAT
1 GGAGATGTGGATAAGCAT
1141319 GGAGATGTGGATAAGCAT
1 GGAGATGTGGATAAGCAT
1141337 GGA
1 GGA
1141340 TATGGTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.41, T:0.21
Consensus pattern (18 bp):
GGAGATGTGGATAAGCAT
Found at i:1141445 original size:18 final size:15
Alignment explanation
Indices: 1141421--1141461 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
1141411 AGCAATCAAA
1141421 ATAATATTATTTTATTT
1 ATAATATTA-TTTA-TT
1141438 ATTAATATTATTTATT
1 A-TAATATTATTTATT
1141454 ATAATATT
1 ATAATATT
1141462 TTAACATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
16 3 0.13
17 5 0.22
18 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATAATATTATTTATT
Found at i:1141908 original size:15 final size:15
Alignment explanation
Indices: 1141890--1141931 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
1141880 CTGATAATTC
1141890 ATTTTATGTAAATCA
1 ATTTTATGTAAATCA
* *
1141905 ATTTTAAGGTAATTCA
1 ATTTT-ATGTAAATCA
1141921 A-TTTATGTAAA
1 ATTTTATGTAAA
1141932 CCATTTTCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTTTATGTAAATCA
Found at i:1142589 original size:13 final size:13
Alignment explanation
Indices: 1142573--1142597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1142563 CACAATTCAA
1142573 TTTTAAAATTATT
1 TTTTAAAATTATT
1142586 TTTTAAAATTAT
1 TTTTAAAATTAT
1142598 AATTTTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:1143117 original size:19 final size:18
Alignment explanation
Indices: 1143095--1143133 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1143085 TCTAAAAACA
*
1143095 ATATTTTAATATTTTAATC
1 ATATTTTAA-AGTTTAATC
*
1143114 ATATTTTTAAGTTTAATC
1 ATATTTTAAAGTTTAATC
1143132 AT
1 AT
1143134 GTGTTTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (18 bp):
ATATTTTAAAGTTTAATC
Found at i:1147783 original size:45 final size:45
Alignment explanation
Indices: 1147731--1147820 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
1147721 AGTTTTTGGA
1147731 AATGTACAAGTTCTGTATGTTGTAATTGCTCTTTTCTACTAGATT
1 AATGTACAAGTTCTGTATGTTGTAATTGCTCTTTTCTACTAGATT
1147776 AATGTACAAGTTCTGTATGTTGTAATTGCTCTTTTCTACTAGATT
1 AATGTACAAGTTCTGTATGTTGTAATTGCTCTTTTCTACTAGATT
1147821 TTCTTTACTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (45 bp):
AATGTACAAGTTCTGTATGTTGTAATTGCTCTTTTCTACTAGATT
Found at i:1149925 original size:32 final size:32
Alignment explanation
Indices: 1149879--1149948 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
1149869 AGCTACTTGA
* *
1149879 GATCGACTCAATCAAGGCTCGATAAATATTTG
1 GATCGACTCAATCAAGGCTCGATAAATACTCG
*
1149911 GATCGACTCGATCAAGGCTCGATAAATACTCG
1 GATCGACTCAATCAAGGCTCGATAAATACTCG
1149943 GATCGA
1 GATCGA
1149949 ATGGACTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (32 bp):
GATCGACTCAATCAAGGCTCGATAAATACTCG
Done.