Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000827.1 Hibiscus syriacus cultivar Beakdansim tig00001601_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: 101729
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4210 original size:24 final size:23
Alignment explanation
Indices: 4179--4225 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4169 TGTGAGGAGG
*
4179 TATGGAAAGCGAAAAAAGAAAAA
1 TATGGAAAGAGAAAAAAGAAAAA
**
4202 TATGAGAAAGAGGCAAAAGAAAAA
1 TATG-GAAAGAGAAAAAAGAAAAA
4226 GAGGTCACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.64, C:0.04, G:0.23, T:0.09
Consensus pattern (23 bp):
TATGGAAAGAGAAAAAAGAAAAA
Found at i:12581 original size:20 final size:20
Alignment explanation
Indices: 12551--12598 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
12541 AAATCATAAA
*
12551 TCCATAATAATTTCAAACTT
1 TCCAAAATAATTTCAAACTT
*
12571 TCCTAAATAATTTCAAACTT
1 TCCAAAATAATTTCAAACTT
12591 TCCAAAAT
1 TCCAAAAT
12599 CTTCATTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TCCAAAATAATTTCAAACTT
Found at i:14319 original size:30 final size:31
Alignment explanation
Indices: 14256--14337 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 31
14246 TAAAATATAT
14256 AACTTTT-CAAAA-TTATATTTTTAGTCCCTA
1 AACTTTTACAAAATTTATA-TTTTAGTCCCTA
*
14286 AACTTTTACAAAATTTATACTTTAG-CCAC-A
1 AACTTTTACAAAATTTATATTTTAGTCC-CTA
14316 AAC-TTTA-AAAATTTATATTTTA
1 AACTTTTACAAAATTTATATTTTA
14338 ATCACTGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 14 0.30
29 4 0.09
30 13 0.28
31 11 0.23
32 5 0.11
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (31 bp):
AACTTTTACAAAATTTATATTTTAGTCCCTA
Found at i:19461 original size:32 final size:32
Alignment explanation
Indices: 19402--19462 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
19392 AGTGGCTTTA
* * *
19402 TTGTGCATTATCTGAATATAATGCTAACTCTG
1 TTGTGCATTATCCGAATACAATACTAACTCTG
* *
19434 TTGTGCATTCTCCGAATGCAATACTAACT
1 TTGTGCATTATCCGAATACAATACTAACT
19463 TTTTTTGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (32 bp):
TTGTGCATTATCCGAATACAATACTAACTCTG
Found at i:20804 original size:32 final size:30
Alignment explanation
Indices: 20737--20808 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 30
20727 ACGATACTCG
* *
20737 AACCCAAAAATTGGTATTTTAGGCTAAAAA
1 AACCCAAAATTTGGTATTTTAAGCTAAAAA
20767 AACCCAAAATTTGGTATTTTAAGCTAAAAAA
1 AACCCAAAATTTGGTATTTTAAGCT-AAAAA
20798 ACACCCAAAAT
1 A-ACCCAAAAT
20809 CATCATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 23 0.61
31 6 0.16
32 9 0.24
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.25
Consensus pattern (30 bp):
AACCCAAAATTTGGTATTTTAAGCTAAAAA
Found at i:23778 original size:13 final size:13
Alignment explanation
Indices: 23760--23785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23750 AAGACGTATC
23760 AGGAACAATATTT
1 AGGAACAATATTT
23773 AGGAACAATATTT
1 AGGAACAATATTT
23786 GATGTTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AGGAACAATATTT
Found at i:24700 original size:36 final size:35
Alignment explanation
Indices: 24634--24701 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
24624 TCTTTTGACT
*
24634 AATTTAAATATATTATATTAGATTCGTGTAATATA
1 AATTTAAATATATTATATTAGATTCATGTAATATA
**
24669 AATTTAAA-ATATTATTTATTATTTTCATGTAAT
1 AATTTAAATATATTA--TATTAGATTCATGTAAT
24702 TAATTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 8 0.29
36 14 0.50
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (35 bp):
AATTTAAATATATTATATTAGATTCATGTAATATA
Found at i:28997 original size:60 final size:60
Alignment explanation
Indices: 28933--29047 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
28923 AATGGTCCTT
*
28933 TGACTATAATG-TGTTGATTTATTGAGTTC-CCCGACTATCAAAAGTTACAAAATGAACCCC
1 TGACTATAA-GATATTGATTTATTGAG-TCACCCGACTATCAAAAGTTACAAAATGAACCCC
* * * * *
28993 TGACTATAAGATATTGTTTTGTTGAGTCACTCGACTATTAAAAGTTACACAATGA
1 TGACTATAAGATATTGATTTATTGAGTCACCCGACTATCAAAAGTTACAAAATGA
29048 TCACCTCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.06
60 44 0.94
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (60 bp):
TGACTATAAGATATTGATTTATTGAGTCACCCGACTATCAAAAGTTACAAAATGAACCCC
Found at i:29939 original size:15 final size:15
Alignment explanation
Indices: 29902--29940 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
29892 AACATCTTTC
*
29902 TTAAATGATTTATTA
1 TTAAATGTTTTATTA
29917 TTAAATGTTTTATTA
1 TTAAATGTTTTATTA
29932 TTAAATGTT
1 TTAAATGTT
29941 ATATAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TTAAATGTTTTATTA
Found at i:35641 original size:30 final size:30
Alignment explanation
Indices: 35542--35643 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
35532 GATTCAATAT
* * *
35542 TTTAGGTATTTATTTTGAT-CAAAATATAC
1 TTTAGGTACTTATTTTGATAAAAAATAAAC
*
35571 TTTAGGTACACT-TTTTGACTAAAAAGATAAA-
1 TTTAGGTAC-TTATTTTGA-TAAAAA-ATAAAC
* *
35602 TTTAAGTACTTATTTTGATAAAAAAAAAAC
1 TTTAGGTACTTATTTTGATAAAAAATAAAC
35632 TTTAGGTACTTA
1 TTTAGGTACTTA
35644 AATAAAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
29 18 0.31
30 20 0.34
31 17 0.29
32 4 0.07
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTAGGTACTTATTTTGATAAAAAATAAAC
Found at i:40057 original size:111 final size:111
Alignment explanation
Indices: 39942--40171 Score: 424
Period size: 111 Copynumber: 2.1 Consensus size: 111
39932 TCATTTCAAT
*
39942 AAAAAAATATCAATTTAATTTATGACATGACAATGATTCCGTCGTAAATTTTGTTCAACTTTAAT
1 AAAAAAATATCAATTTAATTTATGACATGACAATGATTCCGTCGAAAATTTTGTTCAACTTTAAT
*
40007 TAAAATATTCCAATTTAATTTCTGATGGAATAGTCATTCCGTCGGA
66 TAAAATATACCAATTTAATTTCTGATGGAATAGTCATTCCGTCGGA
40053 AAAAAAATATCAATTTAATTTATGACATGACAATGATTCCGTCGAAAATTTTGTTCAACTTTAAT
1 AAAAAAATATCAATTTAATTTATGACATGACAATGATTCCGTCGAAAATTTTGTTCAACTTTAAT
*
40118 TAAAATATACCAATTTAATTTGTGATGGAATAGTCATTCCGTCGGA
66 TAAAATATACCAATTTAATTTCTGATGGAATAGTCATTCCGTCGGA
40164 AATAAAAA
1 AA-AAAAA
40172 ATAACTACAT
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
111 110 0.96
112 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (111 bp):
AAAAAAATATCAATTTAATTTATGACATGACAATGATTCCGTCGAAAATTTTGTTCAACTTTAAT
TAAAATATACCAATTTAATTTCTGATGGAATAGTCATTCCGTCGGA
Found at i:40426 original size:41 final size:41
Alignment explanation
Indices: 40381--40460 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
40371 AATTCTACCA
* *
40381 ACTCTT-TCAAATCTTCTCTGCGATACCACACCAACAAAGCC
1 ACTCTTCT-AAATATTCTCTGCGAGACCACACCAACAAAGCC
* *
40422 ACTCTTCTAAATATTCTCTGCGGGACCACACTAACAAAG
1 ACTCTTCTAAATATTCTCTGCGAGACCACACCAACAAAG
40461 ACACACTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.25
Consensus pattern (41 bp):
ACTCTTCTAAATATTCTCTGCGAGACCACACCAACAAAGCC
Found at i:44561 original size:18 final size:18
Alignment explanation
Indices: 44538--44582 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
44528 GCAAAGGTTA
44538 ATGCCCAAAGATAATGTC
1 ATGCCCAAAGATAATGTC
44556 ATGCCCAAAGATAATGTC
1 ATGCCCAAAGATAATGTC
44574 ATGCCCAAA
1 ATGCCCAAA
44583 AAAATTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (18 bp):
ATGCCCAAAGATAATGTC
Found at i:46195 original size:31 final size:31
Alignment explanation
Indices: 46157--46224 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
46147 AAAATATTTT
46157 AAATTTGTGATGGAATATGTGGACCCATCAC
1 AAATTTGTGATGGAATATGTGGACCCATCAC
**
46188 AAATTTGTGATGGAATATGTGGATTCATCAC
1 AAATTTGTGATGGAATATGTGGACCCATCAC
46219 AAATTT
1 AAATTT
46225 ATGACAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (31 bp):
AAATTTGTGATGGAATATGTGGACCCATCAC
Found at i:46287 original size:31 final size:31
Alignment explanation
Indices: 46213--46288 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
46203 TATGTGGATT
* *
46213 CATCACAAATTTATGACAGATTCACCTATTC
1 CATCACAAATTTCTAACAGATTCACCTATTC
46244 CATCACAAATTTCTAACAGATTCACCTATTC
1 CATCACAAATTTCTAACAGATTCACCTATTC
*
46275 CGTCACAAATTTCT
1 CATCACAAATTTCT
46289 TACGGTCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (31 bp):
CATCACAAATTTCTAACAGATTCACCTATTC
Found at i:46933 original size:18 final size:17
Alignment explanation
Indices: 46902--46944 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
46892 TATTATTACC
*
46902 TAATTTTTTAAATTAATA
1 TAATTATTTAAATT-ATA
*
46920 TAATTATTTGAATTATA
1 TAATTATTTAAATTATA
*
46937 TTATTATT
1 TAATTATT
46945 AATTTTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TAATTATTTAAATTATA
Found at i:47769 original size:14 final size:14
Alignment explanation
Indices: 47750--47788 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47740 TAATGGGGAG
47750 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
47764 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
47778 GAATCTCTGCA
1 TAATCCCTGCA
47789 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:50813 original size:2 final size:2
Alignment explanation
Indices: 50768--50796 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50758 AATGTGTAAG
50768 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 A
50797 CACACAAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50937 original size:21 final size:20
Alignment explanation
Indices: 50911--50949 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
50901 AGTGTACTAG
50911 GAAAATGACCCATCTATTTAT
1 GAAAATGACCCATC-ATTTAT
50932 GAAAATGACCCATCATTT
1 GAAAATGACCCATCATTT
50950 TCATAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
GAAAATGACCCATCATTTAT
Found at i:61038 original size:490 final size:486
Alignment explanation
Indices: 60073--61033 Score: 1541
Period size: 490 Copynumber: 2.0 Consensus size: 486
60063 ATCTTAGCAC
* * *
60073 TGTGATATATGTTAATCATTCGGACCGAGATACTTCACAAATATTTGCTTCTTACTACTAACTAC
1 TGTGATACATGTTAATCATTCGGACCAAGATACTTCACAAATATTTGCTTCTTAATACTAACTAC
* ** * *
60138 ACTAGTTGAATTGATTATTTTTAGAATCTTCATTGAACAAATCTTTGTGAGATGAATATGTAACC
66 ACTAATTGAATTGATTATTTTTAGAATCAGCATTGAACAAATCTTGGCGAGATGAATATGTAACC
* *
60203 CAACGATATTTATTATATTTTTTTATTGCAACAGTATCAAGAATGAGATGTTTAAGTCGTGCTCC
131 CAACGATATTTATTATATTTTTGTATTGCAACAGTATCAAGAATGACATGTTTAAGTCGTGCTCC
* * * *
60268 ATATCTTTTAGGGGTAGTACAACATTTATGTTCATTGGTATCTTCAAAATTTATCTAAAGATATT
196 ATAACTTTTAGGGATAGTACAACATTTACGTTCATCGGTATCTTCAAAATTTATCTAAAGATATT
* *
60333 TACTTATTCCAAAACGTAAGGGTATAGATAACAATATATTAAAAGGTAACTAGTTAGTTTTTAAA
261 CACTTATTCCAAAACGTAAGGGTATAGATAACAATATATTAAAAGGTAACTAGTAAGTTTTTAAA
*
60398 CTAAATTTCTTTTTTTTTTTGAAGTTGTGTGGTCAGTGTGGGTACCTAAAACAAGAATTATTTAT
326 CTAAATTTC---TATTTTTTGAAGTTGTGTGGTCA-TGTGGGTACCTAAAACAAGAATTATTTAT
* * *
60463 GTTAATTAAATATTTCAATTTTTAATTTTTTATAATAGAAAAATTAATTTGTATAAGTGAACCAC
387 GTTAATTAAATATTTCAATTTTTAATTTTTTATAATAGAAAAATTAATTTATACAACTGAACCAC
**
60528 AATTAAATCATTCGAATTAAAAAATATCTCAGTAT
452 AATTAAAAAATTCGAATTAAAAAATATCTCAGTAT
* * *
60563 TGTGATACATGTTAATCATTCGGACTAAGATACTTCACGAATATTTTCTTCTTAATACTAACTAC
1 TGTGATACATGTTAATCATTCGGACCAAGATACTTCACAAATATTTGCTTCTTAATACTAACTAC
* *
60628 ACTAATTGAATTGATTATTTTTAGAATCAGCATTGAATAGATCTTGGCGAGATGAATATGTAACC
66 ACTAATTGAATTGATTATTTTTAGAATCAGCATTGAACAAATCTTGGCGAGATGAATATGTAACC
* * *
60693 CAACGATATTTATTATATTTTTGTATTGCAATAGTATCAATAATGACATGTTTAAGTCGTGTTCC
131 CAACGATATTTATTATATTTTTGTATTGCAACAGTATCAAGAATGACATGTTTAAGTCGTGCTCC
60758 ATAACTTTTAGGGATAGTACAACATTTACGTTCATCGGTATCTTCAAAATTTATCTAAAGATATT
196 ATAACTTTTAGGGATAGTACAACATTTACGTTCATCGGTATCTTCAAAATTTATCTAAAGATATT
* *
60823 CACTTATTCCAAAACGTGAGGGTATAGATAACAATATATTGAAAGGTAACTAGTAAGTTTTTAAA
261 CACTTATTCCAAAACGTAAGGGTATAGATAACAATATATTAAAAGGTAACTAGTAAGTTTTTAAA
60888 CTAAATTTC-ATTTTTTGAAGTTGTGTGGTC-TGTGGGTACCTAAAACAAGAATTATTTATGTTA
326 CTAAATTTCTATTTTTTGAAGTTGTGTGGTCATGTGGGTACCTAAAACAAGAATTATTTATGTTA
*
60951 ATTAAA-ATTTTCAATTTTTAATTTTTTATAATAGAAAAATTAATTTATACAACTGAACCACAGT
391 ATTAAATA-TTTCAATTTTTAATTTTTTATAATAGAAAAATTAATTTATACAACTGAACCACAAT
* *
61015 TAAAAAATTTGAAATAAAA
455 TAAAAAATTCGAATTAAAA
61034 TTAAATTTAA
Statistics
Matches: 435, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
483 1 0.00
484 106 0.24
486 20 0.05
490 308 0.71
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (486 bp):
TGTGATACATGTTAATCATTCGGACCAAGATACTTCACAAATATTTGCTTCTTAATACTAACTAC
ACTAATTGAATTGATTATTTTTAGAATCAGCATTGAACAAATCTTGGCGAGATGAATATGTAACC
CAACGATATTTATTATATTTTTGTATTGCAACAGTATCAAGAATGACATGTTTAAGTCGTGCTCC
ATAACTTTTAGGGATAGTACAACATTTACGTTCATCGGTATCTTCAAAATTTATCTAAAGATATT
CACTTATTCCAAAACGTAAGGGTATAGATAACAATATATTAAAAGGTAACTAGTAAGTTTTTAAA
CTAAATTTCTATTTTTTGAAGTTGTGTGGTCATGTGGGTACCTAAAACAAGAATTATTTATGTTA
ATTAAATATTTCAATTTTTAATTTTTTATAATAGAAAAATTAATTTATACAACTGAACCACAATT
AAAAAATTCGAATTAAAAAATATCTCAGTAT
Found at i:61208 original size:28 final size:29
Alignment explanation
Indices: 61126--61226 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 29
61116 TTCATTTAAG
* *
61126 TACCTAAAATATTTTTTGGTCAAAATAAA
1 TACCTAAAATATTTTATAGTCAAAATAAA
* *
61155 TACCTAAAATTATATTTCTAGCCAAAATAAA
1 TACCTAAAA-TAT-TTTATAGTCAAAATAAA
* **
61186 TACCTAAAGTATTTTAT-GTCAAAATAGG
1 TACCTAAAATATTTTATAGTCAAAATAAA
*
61214 TACCTAAACTATT
1 TACCTAAAATATT
61227 CAAACTTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 20 0.33
29 13 0.21
30 6 0.10
31 22 0.36
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TACCTAAAATATTTTATAGTCAAAATAAA
Found at i:61358 original size:27 final size:28
Alignment explanation
Indices: 61323--61375 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
61313 TTTAGATACC
*
61323 TATTTTGAT-CAAAAAATACTTTAAACT
1 TATTTTGATAAAAAAAATACTTTAAACT
61350 TATTTTGATAAAAAAAATACTTTAAA
1 TATTTTGATAAAAAAAATACTTTAAA
61376 TATTTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (28 bp):
TATTTTGATAAAAAAAATACTTTAAACT
Found at i:61389 original size:26 final size:27
Alignment explanation
Indices: 61333--61393 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
61323 TATTTTGATC
**
61333 AAAAAATACTTTAAACTTATTTTGATAA
1 AAAAAATACTTTAAAC-TATTTAAATAA
*
61361 AAAAAATACTTTAAA-TATTTAAATGA
1 AAAAAATACTTTAAACTATTTAAATAA
61387 AAAAAAT
1 AAAAAAT
61394 GATGTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 15 0.50
28 15 0.50
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAAATACTTTAAACTATTTAAATAA
Found at i:61392 original size:28 final size:27
Alignment explanation
Indices: 61322--61380 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
61312 TTTTAGATAC
*
61322 CTATTTTGAT-CAAAAAATACTTTAAA
1 CTATTTTGATAAAAAAAATACTTTAAA
61348 CTTATTTTGATAAAAAAAATACTTTAAA
1 C-TATTTTGATAAAAAAAATACTTTAAA
61376 -TATTT
1 CTATTT
61381 AAATGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 6 0.20
27 9 0.30
28 15 0.50
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (27 bp):
CTATTTTGATAAAAAAAATACTTTAAA
Found at i:61663 original size:13 final size:13
Alignment explanation
Indices: 61645--61673 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61635 GGGTGCTTGA
61645 TGCGATTACTAGC
1 TGCGATTACTAGC
61658 TGCGATTACTAGC
1 TGCGATTACTAGC
61671 TGC
1 TGC
61674 ATTTAGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (13 bp):
TGCGATTACTAGC
Found at i:62783 original size:23 final size:23
Alignment explanation
Indices: 62757--62801 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62747 ATCAAAAAAC
*
62757 GTGCCACA-AAGGCAAAGATAAAT
1 GTGCAACACAAGG-AAAGATAAAT
*
62780 GTGCAACACAAGGATAGATAAA
1 GTGCAACACAAGGAAAGATAAA
62802 CTTTATCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (23 bp):
GTGCAACACAAGGAAAGATAAAT
Found at i:63676 original size:43 final size:43
Alignment explanation
Indices: 63627--64000 Score: 412
Period size: 43 Copynumber: 8.7 Consensus size: 43
63617 CAATAGGTCA
* *
63627 AGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTTG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* ** * *
63670 ATATCTATAGCAACGTTTTTGGAACAAACGTCGCAAAAGGTTG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * *
63713 ATATCTATAGCGGCGTTTTTGGAACAAACACCGCAAAATATTG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * * *
63756 ATATCTATAGCAGCATTTTTGGAACAAACGTCGCAAAAGATCG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
** *
63799 AGATCTATAGCGGCG-TTTTGGAACAAACGCCATAAAAGATCG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * * * **
63841 AGACCTATAGCAGTGTTTTTGGAACAATCACCGCAAAAGATCA
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * *
63884 AGATCTATAGCGGCATTTTTGGAACAAACGCCTCAAAAGA-TA
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * ** * *
63926 AGATCTATTGTGGCGTTTTTGGAACAAACGTTGCAAAAG-GTC
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
63968 AGATCTATAGCGGCGTTTTTGGATACAAACGCC
1 AGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
64001 ACTAATTATC
Statistics
Matches: 278, Mismatches: 50, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
42 92 0.33
43 186 0.67
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (43 bp):
AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
Found at i:63758 original size:86 final size:86
Alignment explanation
Indices: 63613--64000 Score: 467
Period size: 86 Copynumber: 4.5 Consensus size: 86
63603 AACAAAAAAT
* * * * * *
63613 GTCGCAATAGGTCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTTGATATCTAT
1 GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTAT
*
63678 AGCAACGTTTTTGGAACAAAC
66 AGCAGCGTTTTTGGAACAAAC
* * * * * *
63699 GTCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACACCGCAAAATATTGATATCTAT
1 GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTAT
*
63764 AGCAGCATTTTTGGAACAAAC
66 AGCAGCGTTTTTGGAACAAAC
** * *
63785 GTCGCAAAAGATCGAGATCTATAGCGGCG-TTTTGGAACAAACGCCATAAAAGATCGAGACCTAT
1 GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTAT
* *
63849 AGCAGTGTTTTTGGAACAATC
66 AGCAGCGTTTTTGGAACAAAC
** * * * *
63870 ACCGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCTCAAAAGA-TAAGATCTAT
1 GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTAT
* **
63934 TGTGGCGTTTTTGGAACAAAC
66 AGCAGCGTTTTTGGAACAAAC
* *
63955 GTTGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATACAAACGCC
1 GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
64001 ACTAATTATC
Statistics
Matches: 258, Mismatches: 42, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
84 22 0.09
85 112 0.43
86 124 0.48
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (86 bp):
GTCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTGAGATCTAT
AGCAGCGTTTTTGGAACAAAC
Found at i:63890 original size:128 final size:128
Alignment explanation
Indices: 63615--63997 Score: 437
Period size: 128 Copynumber: 3.0 Consensus size: 128
63605 CAAAAAATGT
* * * *
63615 CGCAATAGGTCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTTGATATCTATAG
1 CGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAA-GATGAGATCTATAG
** * * * * * * *
63680 CAACGTTTTTGGAACAAACGTCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACAC
65 CGGCGTTTTTGGAACAAACGCCACAAAAGATCGAGACCTATAGCAGCGTTTTTGGAACAAACAC
* ** * * *
63744 CGCAAAATATTGATATCTATAGCAGCATTTTTGGAACAAACGTCGCAAAAGATCGAGATCTATAG
1 CGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGAT-GAGATCTATAG
* * *
63809 CGGCG-TTTTGGAACAAACGCCATAAAAGATCGAGACCTATAGCAGTGTTTTTGGAACAATCAC
65 CGGCGTTTTTGGAACAAACGCCACAAAAGATCGAGACCTATAGCAGCGTTTTTGGAACAAACAC
* * * *
63872 CGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCTCAAAAGATAAGATCTATTGT
1 CGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGATGAGATCTATAGC
*** * * *
63937 GGCGTTTTTGGAACAAACGTTGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATACAAAC
66 GGCGTTTTTGGAACAAACGCCACAAAAGATCGAGACCTATAGCAGCGTTTTTGGA-ACAAAC
63998 GCCACTAATT
Statistics
Matches: 210, Mismatches: 41, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
127 33 0.16
128 122 0.58
129 55 0.26
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (128 bp):
CGCAAAAGATCAAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGATGAGATCTATAGC
GGCGTTTTTGGAACAAACGCCACAAAAGATCGAGACCTATAGCAGCGTTTTTGGAACAAACAC
Found at i:65020 original size:32 final size:33
Alignment explanation
Indices: 64984--65086 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 33
64974 CATCCATTTG
*
64984 TTTTATTTTTA-CTATTACTATTATTATTATTA
1 TTTTATTTTTATCTATTACTATTATTAATATTA
* *
65016 TTTTA-TTTTATTTATTATTATTATTAATATTA
1 TTTTATTTTTATCTATTACTATTATTAATATTA
* * * ** *
65048 TTATATTATTATTTATTTTTATTATTAATA-AA
1 TTTTATTTTTATCTATTACTATTATTAATATTA
65080 TTTTATT
1 TTTTATT
65087 ATTACAAAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 5 0.08
32 34 0.56
33 22 0.36
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (33 bp):
TTTTATTTTTATCTATTACTATTATTAATATTA
Found at i:65030 original size:23 final size:23
Alignment explanation
Indices: 65014--65073 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
65004 TTATTATTAT
*
65014 TATTTTATTTTATTTATTATTAT
1 TATTTTATATTATTTATTATTAT
*
65037 TA-TTAATATTATTATATTATTATT
1 TATTTTATATTATT-TATTATTA-T
65061 TATTTT-TATTATT
1 TATTTTATATTATT
65074 AATAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 9 0.29
23 10 0.32
24 10 0.32
25 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTATATTATTTATTATTAT
Found at i:65031 original size:26 final size:25
Alignment explanation
Indices: 65002--65090 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
64992 TTACTATTAC
*
65002 TATTATTATTATTATTTTATTTTATT
1 TATTATTATTATTATTTTATTATA-T
*
65028 TATTATTATTATTAATATTATTATAT
1 TATTATTATTATT-ATTTTATTATAT
* * *
65054 TATTATTTATTTTTATTATTAATAAAT
1 TATTA-TTATTATTATT-TTATTATAT
65081 T-TTATTATTA
1 TATTATTATTA
65091 CAAAACAGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
25 5 0.09
26 24 0.45
27 24 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTATTATTATTATTTTATTATAT
Found at i:65032 original size:20 final size:20
Alignment explanation
Indices: 65007--65066 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 20
64997 ATTACTATTA
65007 TTATTATTATTTTATTTTAT
1 TTATTATTATTTTATTTTAT
*
65027 TTATTATTATTATTAATATTAT
1 TTATTATTATT-TT-ATTTTAT
65049 TATATTATTA-TTTATTTT
1 T-TATTATTATTTTATTTT
65067 TATTATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 8 0.23
23 8 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTATTATTTTATTTTAT
Found at i:65090 original size:3 final size:3
Alignment explanation
Indices: 64986--65074 Score: 94
Period size: 3 Copynumber: 30.0 Consensus size: 3
64976 TCCATTTGTT
* * *
64986 TTA TTT TTA CTA TTA CTA TTA TTA TTA TTA TT- TTA TT- TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
65030 TTA TTA TTA TTA ATA TTA TTA -TA TTA TTA TTTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
65075 ATAAATTTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 6 0.08
3 59 0.83
4 6 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65473 original size:20 final size:20
Alignment explanation
Indices: 65444--65481 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65434 CAACTAGTAG
* *
65444 GGTGAGTCACCACATAGCTC
1 GGTGACTCACCAAATAGCTC
65464 GGTGACTCACCAAATAGC
1 GGTGACTCACCAAATAGC
65482 CACCCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (20 bp):
GGTGACTCACCAAATAGCTC
Found at i:66502 original size:19 final size:17
Alignment explanation
Indices: 66478--66515 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
66468 TAGAATTTAA
66478 TAATAAATATATATAATTT
1 TAATAAATA-ATAT-ATTT
66497 TAATAAATAATATATTT
1 TAATAAATAATATATTT
66514 TA
1 TA
66516 CATGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATAAATAATATATTT
Found at i:66609 original size:67 final size:66
Alignment explanation
Indices: 66479--66610 Score: 144
Period size: 67 Copynumber: 2.0 Consensus size: 66
66469 AGAATTTAAT
** *
66479 AATAAATATATATAATTTTAATAAATAATATATTTTACATGTTTATTTTAATATATTATTATATT
1 AATAAATATATATAATTTTAATAAATAATATATTTTA-ATGTTTATTAAAATATATTAATATATT
66544 TA
65 TA
* * *
66546 AATACATATATATAGTTTTATTAAATAATAT-TGATTT-AT-TTTATTAAAATACTATTTAATAT
1 AATAAATATATATAATTTTAATAAATAATATAT--TTTAATGTTTATTAAAATA-TA-TTAATAT
66608 ATT
62 ATT
66611 ATTTTTAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
65 10 0.18
66 5 0.09
67 37 0.67
68 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (66 bp):
AATAAATATATATAATTTTAATAAATAATATATTTTAATGTTTATTAAAATATATTAATATATTT
A
Found at i:66717 original size:13 final size:16
Alignment explanation
Indices: 66699--66741 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
66689 CTATTTTCTG
*
66699 ATATTTTAAA-TAAAT
1 ATATTTTAAATTATAT
66714 AT-TTTTAAATTATAT
1 ATATTTTAAATTATAT
66729 ATATTTT-AATTAT
1 ATATTTTAAATTAT
66742 TTTTAGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 7 0.28
15 14 0.56
16 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTTTAAATTATAT
Found at i:67179 original size:21 final size:21
Alignment explanation
Indices: 67153--67528 Score: 114
Period size: 21 Copynumber: 17.6 Consensus size: 21
67143 GATTTACATA
67153 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
67174 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* ** *
67195 TTCGCGTTGCGATTTTCCAAA
1 TTCGCATTGCGATAGTCCAAG
* * *
67216 TTCGACTATCGCAAT-G-CGAACTTTG
1 TTCG-C-ATTGCGATAGTCCAA----G
* *
67241 ACTATCGCATTGCGAT-TTACATA-
1 --T-TCGCATTGCGATAGTCCA-AG
67264 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
67285 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* ** *
67306 TTCGCGTTGCGATTTTCCAAA
1 TTCGCATTGCGATAGTCCAAG
* * * * * *
67327 TTCGACTATCGCAACACGAACTTCGAC
1 TTCG-C-ATTGCGATA-G---TCCAAG
* *
67354 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
67375 TTCGCATTGCGATAGTTCAAG
1 TTCGCATTGCGATAGTCCAAG
67396 TTCGC----CGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*** *
67413 TTCATGTTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCCAAG
* ** *
67434 TTCGCGTTGCGATTTTCCAAA
1 TTCGCATTGCGATAGTCCAAG
*
67455 TTCG--TTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
67474 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
* *
67497 TTCG--TTCCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
67516 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
67529 TTATTCCAGA
Statistics
Matches: 256, Mismatches: 66, Indels: 66
0.66 0.17 0.17
Matches are distributed among these distances:
17 14 0.05
19 25 0.10
20 26 0.10
21 143 0.56
22 3 0.01
23 19 0.07
26 11 0.04
27 8 0.03
28 7 0.03
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:67279 original size:90 final size:90
Alignment explanation
Indices: 67126--67297 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 90
67116 CAACGCGAAC
* *
67126 TTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 TTCGACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTC
* *
67191 GAAGTTCGCGTTGCGATTTTCCAAA
66 CAAGTTCGCATTGCGATTTTCCAAA
*
67216 TTCGACTATCGCAATGCGAACTTTGAC-TA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGAT
1 TTCGACTATCGCAATGCG-A-TTT-ACATATTCGCATTGCGATAGTACA-AGTTCGCATTGCGAT
*
67277 AGTCCAAGTTTGCATTGCGAT
62 AGTCCAAGTTCGCATTGCGAT
67298 AGTCGAAGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
90 51 0.71
91 14 0.19
92 5 0.07
93 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (90 bp):
TTCGACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTC
CAAGTTCGCATTGCGATTTTCCAAA
Found at i:67307 original size:111 final size:111
Alignment explanation
Indices: 67113--67400 Score: 531
Period size: 111 Copynumber: 2.6 Consensus size: 111
67103 GTTTCCAGAT
67113 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
67178 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
66 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
* * *
67224 TCGCAATGCGAACTTTGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTTG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
67289 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
66 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
* *
67335 TCGCAACACGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTTCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
67400 C
66 C
67401 CGATAGTCCA
Statistics
Matches: 169, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 169 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (111 bp):
TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
Found at i:67508 original size:42 final size:42
Alignment explanation
Indices: 67418--67553 Score: 231
Period size: 42 Copynumber: 3.3 Consensus size: 42
67408 CCAAGTTCAT
*
67418 GTTGCGATAGTCAAAGTTCGCGTTGCGA-TT-TTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
67458 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
* *
67500 GTTCCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAGATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
67542 GTTGCGATAGTC
1 GTTGCGATAGTC
67554 CAAAATCGCA
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 27 0.30
41 2 0.02
42 61 0.68
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (42 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
Found at i:67544 original size:21 final size:20
Alignment explanation
Indices: 67478--67549 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
67468 TCGAAGTTCG
67478 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCC-AATT
* * *
67499 CGTTCCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAA-TT
67518 CGCGTTGCGATTTATTCCAGATT
1 --CGTTGCGATTTATTCCA-ATT
67541 CGTTGCGAT
1 CGTTGCGAT
67550 AGTCCAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
21 23 0.59
23 7 0.18
24 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTATTCCAATT
Found at i:68309 original size:21 final size:21
Alignment explanation
Indices: 68283--68354 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
68273 ATTTTGGACT
68283 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
68304 ATCGCAACGTGAACTTCGACT--
1 ATCGCAAC--GAATTTGGAATAA
*
68325 ACCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
68346 ATCGCAACG
1 ATCGCAACG
68355 CGAACTTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 8 0.21
21 23 0.59
23 8 0.21
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:68338 original size:42 final size:42
Alignment explanation
Indices: 68279--68374 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
68269 TGCGATTTTG
*
68279 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
68321 GACTACCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
68363 GACTATCGCAAC
1 GACTATCGCAAC
68375 TAACTTGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:68370 original size:21 final size:21
Alignment explanation
Indices: 68304--68374 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
68294 TTTGGAATAA
* *
68304 ATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTTGACT
* *
68325 ACCGCAA--CGAA-TTTGGAAT
1 ATCGCAACGCGAACTTT-GACT
68344 AAATCGCAACGCGAACTTTGACT
1 --ATCGCAACGCGAACTTTGACT
68367 ATCGCAAC
1 ATCGCAAC
68375 TAACTTGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.05
19 6 0.16
21 20 0.53
23 7 0.18
24 3 0.08
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTTGACT
Found at i:69172 original size:21 final size:21
Alignment explanation
Indices: 69146--69200 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
69136 AAACCATTCA
69146 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
69167 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCGGTACCCCCTT
*
69188 GGGTGGAATCGGT
1 GGGGGGAATCGGT
69201 TCCCTCTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.20
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTT
Found at i:69479 original size:21 final size:21
Alignment explanation
Indices: 69452--69675 Score: 144
Period size: 21 Copynumber: 10.6 Consensus size: 21
69442 TTTTCAACAA
*
69452 AATCGCAACGCGAACTTGGACT
1 AATCGCAA-GCGAACTTGGAAT
*
69474 -ATCGCAA-CGAATTTGGAAT
1 AATCGCAAGCGAACTTGGAAT
*
69493 AAATCGCAA-CGAATTTGGAAT
1 -AATCGCAAGCGAACTTGGAAT
*
69514 AAATCGC-AGCGAATTTGGAAT
1 -AATCGCAAGCGAACTTGGAAT
* *
69535 AAATCGCAACGCGAACTTCGACT
1 -AATCGCAA-GCGAACTTGGAAT
*
69558 -ATTGCAA-CGAACTTGGAAT
1 AATCGCAAGCGAACTTGGAAT
*
69577 AAATCGCAA-CGAATTTGGAAT
1 -AATCGCAAGCGAACTTGGAAT
* *
69598 AAATCGCAGCGCGAACTTCG-AT
1 -AATCGCA-AGCGAACTTGGAAT
* * *
69620 TATCGCAACGCGAACTTCGACT
1 AATCGCAA-GCGAACTTGGAAT
* *
69642 -ATCGCAATGCGAACTTCGACT
1 AATCGCAA-GCGAACTTGGAAT
69663 -ATCGCAATGCGAA
1 AATCGCAA-GCGAA
69676 TATGTAAATC
Statistics
Matches: 174, Mismatches: 17, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
19 20 0.11
20 1 0.01
21 132 0.76
22 4 0.02
23 17 0.10
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (21 bp):
AATCGCAAGCGAACTTGGAAT
Found at i:69520 original size:42 final size:42
Alignment explanation
Indices: 69474--69605 Score: 178
Period size: 42 Copynumber: 3.1 Consensus size: 42
69464 AACTTGGACT
69474 ATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAA
* * * *
69516 ATCGCAGCGAATTTGGAATAAATCGCAACGCGAACTTCGACT--
1 ATCGCAACGAATTTGGAATAAATCGCAA--CGAATTTGGAATAA
* *
69558 ATTGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAA
69600 ATCGCA
1 ATCGCA
69606 GCGCGAACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
40 9 0.12
42 57 0.76
44 9 0.12
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (42 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAA
Found at i:69565 original size:63 final size:63
Alignment explanation
Indices: 69495--69629 Score: 225
Period size: 63 Copynumber: 2.1 Consensus size: 63
69485 TTTGGAATAA
* *
69495 ATCGCAACGAATTTGGAATAAATCGCAGCGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
69558 ATTGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAGCGCGAACTTCGATT
1 ATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
69621 ATCGCAACG
1 ATCGCAACG
69630 CGAACTTCGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (63 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:69592 original size:84 final size:84
Alignment explanation
Indices: 69451--69657 Score: 310
Period size: 84 Copynumber: 2.4 Consensus size: 84
69441 GTTTTCAACA
* *
69451 AAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAA
1 AAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAA
* *
69516 ATCGCA-GCGAATTTGGAAT
66 ATCGCACGCGAACTTCG-AT
*
69535 AAATCGCAACGCGAACTTCGACTATTGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAA
1 AAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAA
69600 ATCGCAGCGCGAACTTCGAT
66 ATCGCA-CGCGAACTTCGAT
*
69620 -TATCGCAACGCGAACTTCGACTATCGCAATGCGAACTT
1 AAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTT
69658 CGACTATCGC
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
84 95 0.85
85 2 0.02
86 15 0.13
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (84 bp):
AAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAA
ATCGCACGCGAACTTCGAT
Found at i:69646 original size:63 final size:62
Alignment explanation
Indices: 69495--69648 Score: 193
Period size: 63 Copynumber: 2.4 Consensus size: 62
69485 TTTGGAATAA
* * *
69495 ATCGCAACGAATTTGGAATAAATCGCAGCGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAACTTCGAAT-AATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* * * *
69558 ATTGCAACGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAGCGCGAACTTCGATT
1 ATCGCAACGAACTTCGAAT-AATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
69621 ATCGCAACGCGAACTTCGACT-ATCGCAA
1 ATCGCAA--CGAACTTCGAATAATCGCAA
69649 TGCGAACTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 71 0.88
65 10 0.12
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (62 bp):
ATCGCAACGAACTTCGAATAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:71597 original size:20 final size:21
Alignment explanation
Indices: 71574--71618 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
71564 CATTATATGT
**
71574 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
71594 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
71615 ATAT
1 ATAT
71619 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:73028 original size:3 final size:3
Alignment explanation
Indices: 73020--73119 Score: 139
Period size: 3 Copynumber: 33.7 Consensus size: 3
73010 TTAATATATT
* * *
73020 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA AAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
73067 TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73115 TAA TA
1 TAA TA
73120 TGGATAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:73455 original size:119 final size:119
Alignment explanation
Indices: 73274--75772 Score: 4452
Period size: 119 Copynumber: 21.2 Consensus size: 119
73264 TTCTCCAGAT
** * *
73274 GAGTTCTTCTCATTATGAACT-TT-CTGCTGGGGATGATGTTCCATCAA-ATGATGAATTCAAGC
1 GAGTTCTTCTCATTATGAACTCTTCCT-CTGGAAATGATGATCCATCAATTTGATGAATTCAAGC
*
73336 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
73391 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
73456 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
73510 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
73575 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
73629 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
73694 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
73748 GAGTTCTTCTCATTATGAACTCTTCCTCTAGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
73813 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
73867 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
73932 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
73986 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
74051 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
74105 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
74170 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
74224 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
74289 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
74343 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
74408 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
74462 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
74527 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
74581 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
74646 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
74700 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
74765 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
74819 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
74884 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
74938 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
75003 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
75057 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
75122 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
75176 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAATTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
75241 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
75295 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
75360 AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAC
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* * *
75414 GAGTTCTTCTCATTATGAACT-TT-CTCTGGCAATGATAATCCATCAA-GTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
75476 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT-A-
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* * * * * *
75527 -AGTTTTTCTCATTATGAACT-TT-CTCTGGAAATGTTAATCCATCGA-GTGATGAATTCGAGCA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
*
75588 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT-A-
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
** * * * * * *
75639 -AGTTCTTCTCATTATGAA--CTTCCTCTGGAAAAAATAATTCATCAA-GTAATGAATTCAGGGA
1 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
* *
75700 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGAT---
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
75750 GAGTTCTTCTCATTATGAACTCT
1 GAGTTCTTCTCATTATGAACTCT
75773 AACTGACACT
Statistics
Matches: 2328, Mismatches: 46, Indels: 19
0.97 0.02 0.01
Matches are distributed among these distances:
111 2 0.00
112 219 0.09
114 3 0.00
115 9 0.00
116 54 0.02
117 42 0.02
118 22 0.01
119 1977 0.85
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (119 bp):
GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCA
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:76326 original size:22 final size:22
Alignment explanation
Indices: 76301--76355 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
76291 CATAAAGTTT
*
76301 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
76323 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
76345 TCATCTTTGAA
1 TCATCTTTGAA
76356 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:79128 original size:83 final size:83
Alignment explanation
Indices: 78988--79252 Score: 451
Period size: 83 Copynumber: 3.2 Consensus size: 83
78978 CTTATTTCTA
* *
78988 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATTAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
79052 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
* *
79071 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
*
79136 GAACACTTCTAGAAGATG
66 GAACACTTCCAGAAGATG
*
79154 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
79219 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
79237 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
79253 TTGTTCCATT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 2 0.01
83 170 0.99
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:84182 original size:14 final size:14
Alignment explanation
Indices: 84149--84200 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
84139 TATGACATAA
* *
84149 AAATGCAAAGATGCC
1 AAATGTAAAAATG-C
* *
84164 AAATGTAGATATGC
1 AAATGTAAAAATGC
*
84178 AAATGTAAAAATGT
1 AAATGTAAAAATGC
84192 AAATGTAAA
1 AAATGTAAA
84201 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (14 bp):
AAATGTAAAAATGC
Found at i:85817 original size:17 final size:17
Alignment explanation
Indices: 85785--85830 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
85775 TTAATACCTG
*
85785 AATAA-AAAAAACAAT-
1 AATAATAAAAAATAATA
*
85800 ATTAATATAAAAATAATA
1 AATAATA-AAAAATAATA
85818 AATAATAAAAAAT
1 AATAATAAAAAAT
85831 TTGAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 4 0.16
16 1 0.04
17 14 0.56
18 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAATAAAAAATAATA
Found at i:86540 original size:20 final size:21
Alignment explanation
Indices: 86517--86561 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
86507 CATTATATGT
**
86517 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
86537 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
86558 ATAT
1 ATAT
86562 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:87923 original size:3 final size:3
Alignment explanation
Indices: 87909--88000 Score: 127
Period size: 3 Copynumber: 31.7 Consensus size: 3
87899 TTAATATATT
* *
87909 TAA TAA -AA TAA TAA TAA TAA TAA -AA TAA AAA TAA T-A TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
87954 TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
88001 TGGATAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
2 6 0.08
3 72 0.92
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:89749 original size:182 final size:181
Alignment explanation
Indices: 88974--89746 Score: 1062
Period size: 182 Copynumber: 4.3 Consensus size: 181
88964 CAGGTAAAAT
* *
88974 ATGACAAAATCGGTAAAACGA-TACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCA
1 ATGACAAAACCGGTAAAGC-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCA
*
89038 ACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAAATAT
65 A-ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAATAT
* *
89102 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACATG-TCTAAAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-CGATCT-CAAA
* * *
89156 ATGACAAAACCGGTAAA-AAATACCGGATATGTTGAAAGTATCGATAATTTAATATAAGTATCAA
1 ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAA
* * *
89220 ATTTTTTTTGGAATTT-AAA-AG-AGAAGTTATAGCTCCTATAAAGTGTCGATACTTTAAAAAAA
66 A---CTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAATA
* * * *
89282 TGTATCGATCTATAACAATATAACAGGTAAAAATATGATAAAATCGATCCCAAA
128 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCAAA
* * *
89336 ATGACAAATCCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATC-A
* *
89401 CACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAAAAT
65 AACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA--AAAAT
* * * * *
89465 -T-TATCGATCCGTAACAATATAACAGCTAAAAAAATGACAAAATCGGTCTCAAA
127 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCAAA
* * * *
89518 ATGACAAAACCGATAAAGAACTACTGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATC-A
89583 AACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAATATG
65 AACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAATATG
* * *
89648 TATCGATCTATTACAATATAACATGTAAAAATATGACAAAACCGATCTCAAA
130 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCAAA
* *
89700 ATGACAAAACCGGTAAAGCACTACTGAATATGTTGAAAGTGTCGATA
1 ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATA
89747 CTTGAATAAG
Statistics
Matches: 523, Mismatches: 51, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
179 9 0.02
180 63 0.12
181 137 0.26
182 298 0.57
183 12 0.02
184 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAA
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAATATGT
ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCAAA
Found at i:90201 original size:19 final size:19
Alignment explanation
Indices: 90179--90253 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
90169 CTTTTATTTA
90179 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
*
90198 ATATTATAGGTAAACAATG
1 ATATTATAGGTAAAAAATG
* * * *
90217 ATATTACATGTAGAAAGTG
1 ATATTATAGGTAAAAAATG
* *
90236 ATATTCTAGGTAGAAAAT
1 ATATTATAGGTAAAAAAT
90254 AAATATGGAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:91585 original size:22 final size:22
Alignment explanation
Indices: 91535--91589 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
91525 AATGTTTTTG
91535 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
91557 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
91579 CTTTTATTATA
1 -TTTTATTATA
91590 AATGCATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 10 0.36
23 3 0.11
24 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:91834 original size:9 final size:9
Alignment explanation
Indices: 91820--91869 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
91810 GTTATTGTCA
91820 AGGAGGCAG
1 AGGAGGCAG
*
91829 AGGAGGTAG
1 AGGAGGCAG
91838 AGGAGGCAG
1 AGGAGGCAG
*
91847 AGGAGGTAG
1 AGGAGGCAG
91856 AGGAGGCAG
1 AGGAGGCAG
*
91865 TGGAG
1 AGGAG
91870 TCAGTGGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.32, C:0.06, G:0.56, T:0.06
Consensus pattern (9 bp):
AGGAGGCAG
Found at i:91869 original size:27 final size:27
Alignment explanation
Indices: 91820--91878 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
91810 GTTATTGTCA
*
91820 AGGAGGCAGAGGAGGTAGAGGAGGCAG
1 AGGAGGCAGAGGAGGCAGAGGAGGCAG
* * *
91847 AGGAGGTAGAGGAGGCAGTGGAGTCAG
1 AGGAGGCAGAGGAGGCAGAGGAGGCAG
*
91874 TGGAG
1 AGGAG
91879 AAGGAAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.54, T:0.08
Consensus pattern (27 bp):
AGGAGGCAGAGGAGGCAGAGGAGGCAG
Found at i:91874 original size:9 final size:9
Alignment explanation
Indices: 91821--91878 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
91811 TTATTGTCAA
*
91821 GGAGGCAGA
1 GGAGGCAGT
* *
91830 GGAGGTAGA
1 GGAGGCAGT
*
91839 GGAGGCAGA
1 GGAGGCAGT
* *
91848 GGAGGTAGA
1 GGAGGCAGT
91857 GGAGGCAGT
1 GGAGGCAGT
*
91866 GGAGTCAGT
1 GGAGGCAGT
91875 GGAG
1 GGAG
91879 AAGGAAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.55, T:0.09
Consensus pattern (9 bp):
GGAGGCAGT
Found at i:91878 original size:18 final size:18
Alignment explanation
Indices: 91820--91869 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
91810 GTTATTGTCA
91820 AGGAGGCAGAGGAGGTAG
1 AGGAGGCAGAGGAGGTAG
91838 AGGAGGCAGAGGAGGTAG
1 AGGAGGCAGAGGAGGTAG
*
91856 AGGAGGCAGTGGAG
1 AGGAGGCAGAGGAG
91870 TCAGTGGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.56, T:0.06
Consensus pattern (18 bp):
AGGAGGCAGAGGAGGTAG
Found at i:93819 original size:19 final size:19
Alignment explanation
Indices: 93795--93840 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
93785 ATAGGGTTAG
93795 TTTTGTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
*
93814 TTTTGTATACGATTTATAA
1 TTTTGTATAAGATTTATAA
93833 TTTTGTAT
1 TTTTGTAT
93841 GTGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTGTATAAGATTTATAA
Found at i:95303 original size:197 final size:199
Alignment explanation
Indices: 94210--95504 Score: 1965
Period size: 197 Copynumber: 6.5 Consensus size: 199
94200 GTAAACTTAT
* * * * *
94210 GTGTCGATACATTTATAACAAGTATCGATCCTAAAAACATCGAAACCCATAATTATAATGTAAAA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
* * * *
94275 GGTAAATTAACAATTTAACCGGTCTAAATATACCGATTTTTGAGAAAATAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
94340 TCGAAACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-C
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
94404 AAAA
196 AAAA
* *
94408 GATGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 G-TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAAT
94473 AGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
65 AGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
* * *
94538 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCTAGTGCATG
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACG
94603 AAAAAA
195 -AAAAA
* * * * *
94609 GTGTCGATACATTTATAACAAATGTCGATCCCAAAAAACATGGAAACTCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCC-AAAAACATCGAAACCCAAAATTTTAATGTAAT
* *
94674 AGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAAACAGGTGTACAAAAAG
65 AGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAG-AAAACAGGTGTACAAAAAG
94739 TATCGACAC-AATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCAC
129 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCAC
*
94803 AAAAAA
194 GAAAAA
* * *
94809 GTTTCAATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
*
94874 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAG-AAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
94938 TCGACACAAATAAAACAAGTGTCAATACTTTTTGTCCAAAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
*
95003 ATAA
196 AAAA
*
95007 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
*
95072 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
95137 TCGACACAAA-AAAACAAGTGTCAATACTTTT-GTCCAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
*
95200 ATAA
196 AAAA
* * * *
95204 GTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGAAACACAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
* * ** * * *
95269 GGTCATTTTGCAATGTAACCGGTATAATTATACCGGTTTTTGAGAAAACAGATGT--AAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
95332 TCGATACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
95397 AAAA
196 AAAA
* * * *
95401 GTATCGATACATTTATAACAAGTATCGATCCTAAGAACATCGAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
* * ** * * *
95466 GGTCATTTTGCAATGTAACCGGTATAATTATACCTGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
95505 AATTTGAAAA
Statistics
Matches: 1030, Mismatches: 58, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
195 17 0.02
196 20 0.02
197 304 0.30
198 185 0.18
199 283 0.27
200 63 0.06
201 130 0.13
202 28 0.03
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGA
AAAA
Found at i:96910 original size:21 final size:21
Alignment explanation
Indices: 96886--96928 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
96876 TCATTGCTCA
*
96886 ATGAAGTCTCCATGTTGCGTG
1 ATGAAGTCTCCATATTGCGTG
*
96907 ATGAAGTCTCTATATTGCGTG
1 ATGAAGTCTCCATATTGCGTG
96928 A
1 A
96929 CGGATTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (21 bp):
ATGAAGTCTCCATATTGCGTG
Found at i:98410 original size:24 final size:24
Alignment explanation
Indices: 98359--98411 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
98349 TTTCATTTAT
* * *
98359 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
98383 AATTTGAGTTTGAATTTAAATATA
1 AATTTGAGTTTGAATTTAAATATA
98407 AATTT
1 AATTT
98412 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:99142 original size:199 final size:200
Alignment explanation
Indices: 98597--99263 Score: 954
Period size: 200 Copynumber: 3.3 Consensus size: 200
98587 TCGATATATA
* *
98597 TTGTCCATAATGTA-TTTCCAAACCAAGTGCACGAGAAAAGTGTCGATACATTTATAACAAGTAT
1 TTGTCCATAATGTATTTTCCAAACCAAGTGCAC-AAAAAAGTGTCGATACATTTATAACAAGTGT
* *
98661 CGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACAATGTAACCAGTCT
65 CGATCCC-AAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCT
* * *
98726 AAATAAACCGATTTT-TGAGAAAACATGTATACATAAAGCATCGACACAAATCCAACAAGTGTCG
129 AAATAAACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATCCAACAAGTGTCG
*
98790 ATACATT
194 ATACTTT
* * *
98797 TTGTCCAGAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATTTATAACAAGTGTC
1 TTGTCCATAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATTTATAACAAGTGTC
* * * * **
98862 GATACTAAAATCATCGAAACACATAGA-TATAATGTAATAGGTAAAATAACAATGTAATCGACCT
66 GATCCCAAAA-CATCGAAACACATA-ATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCT
*
98926 AAATACACCGG-TTTATGAGAAAA-AAGTATACATAAAGTATCGACACAAATCCAACAAGTGTCG
129 AAATAAACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATCCAACAAGTGTCG
98989 ATACTTT
194 ATACTTT
* *
98996 TTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTTTCGATACATTTATAACATGTGTC
1 TTGTCCATAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATTTATAACAAGTGTC
* * * * *
99060 GATCCCAAATACATCAAAAC-CTATAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
66 GATCCCAAA-ACATCGAAACAC-ATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCT
** * *
99124 AAATTTACCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCG
129 AAATAAACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATCCAACAAGTGTCG
99189 ATACTTT
194 ATACTTT
99196 TTGTCCATAATGTATTTTCCAAACCAAGTGCACAACAAAA-TGTCGATACATTTATAACAAGTGT
1 TTGTCCATAATGTATTTTCCAAACCAAGTGCACAA-AAAAGTGTCGATACATTTATAACAAGTGT
99260 CGAT
65 CGAT
99264 ACAAAAAAAC
Statistics
Matches: 417, Mismatches: 39, Indels: 21
0.87 0.08 0.04
Matches are distributed among these distances:
197 2 0.00
198 89 0.21
199 90 0.22
200 180 0.43
201 52 0.12
202 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (200 bp):
TTGTCCATAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATTTATAACAAGTGTC
GATCCCAAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAA
ATAAACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGAT
ACTTT
Found at i:99404 original size:162 final size:163
Alignment explanation
Indices: 99136--99433 Score: 517
Period size: 162 Copynumber: 1.8 Consensus size: 163
99126 ATTTACCGGT
* ** *
99136 TTTATGAGAAAATAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATACTTTTTGTC
1 TTTATGAGAAAACAAATATACATAAAGTATCAACACAAATCCAACAAGTGTCGATACTTTTTGTC
99201 CATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGATACATTTATAACAAGTGTCGATAC
66 CATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGATACATTTATAACAAGTGTCGATAC
99266 AAAAAAACGAAAACATCGGCCTAAATACATCGG
131 AAAAAAACGAAAACATCGGCCTAAATACATCGG
*
99299 TTTATGAGAAAACAAATATACATAAAGTATCAACA-AAATTCAACAAGTGTCGATACTTTTTGTC
1 TTTATGAGAAAACAAATATACATAAAGTATCAACACAAATCCAACAAGTGTCGATACTTTTTGTC
* *
99363 CATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATTTATAACAAGTGTCGATAC
66 CATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGATACATTTATAACAAGTGTCGATAC
*
99428 TAAAAA
131 AAAAAA
99434 CATCGAAACA
Statistics
Matches: 127, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
162 96 0.76
163 31 0.24
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (163 bp):
TTTATGAGAAAACAAATATACATAAAGTATCAACACAAATCCAACAAGTGTCGATACTTTTTGTC
CATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGATACATTTATAACAAGTGTCGATAC
AAAAAAACGAAAACATCGGCCTAAATACATCGG
Found at i:99586 original size:360 final size:360
Alignment explanation
Indices: 98918--99629 Score: 1083
Period size: 360 Copynumber: 2.0 Consensus size: 360
98908 TAACAATGTA
* *
98918 ATCGACCTAAATACACCGGTTTATGAGAAAAAAGTATACATAAAGTATCGACACAAATCCAACAA
1 ATCGACCTAAATACACCGGTTTATGAGAAAAAAATATACATAAAGTATCAACACAAATCCAACAA
*
98983 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTTTCGATACATTT
66 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTGTCGATACATTT
* * * * * ** *
99048 ATAACATGTGTCGATCCCAAATACATCAAAACCTATAATTATAATGTAATAGGTCACTTTACAAT
131 ATAACAAGTGTCGATACCAAAAACATCAAAACCTATAATGATAATGTAATAGGTAAAATAACAAT
* ** ** * *
99113 GTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACACAAATCC
196 GTAACCAGACTAAATACACCGGATTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
99178 AACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGAT
261 AACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGAT
99243 ACATTTATAACAAGTGTCGATACAAAAAAACGAAAAC
326 --ATTTATAACAAGTGTCGATACAAAAAAACGAAAAC
* * *
99280 ATCGGCCTAAATACATCGGTTTATGAGAAAACAAATATACATAAAGTATCAACA-AAATTCAACA
1 ATCGACCTAAATACACCGGTTTATGAGAAAA-AAATATACATAAAGTATCAACACAAATCCAACA
* *
99344 AGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACAT
65 AGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTGTCGATACAT
* *
99409 TTATAACAAGTGTCGATACTAAAAACATCGAAACAC-AT-A-GATAATGTAATAGGTAAAATAAC
129 TTATAACAAGTGTCGATACCAAAAACATCAAAAC-CTATAATGATAATGTAATAGGTAAAATAAC
99471 AATGTAACCAGACTAAATACACC-GATTTATGAGAAAACAGGTATACATAAAGTATCGACACAAA
193 AATGTAACCAGACTAAATACACCGGATTTATGAGAAAACAGGTATACATAAAGTATCGACACAAA
* * *
99535 TCCAACAAGTGTTGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTC
258 TCCAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTC
*
99600 GATATTTATAACAAGTGTCGATACTAAAAA
323 GATATTTATAACAAGTGTCGATACAAAAAA
99630 CATTGAAACA
Statistics
Matches: 318, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
358 26 0.08
360 104 0.33
361 36 0.11
362 80 0.25
363 71 0.22
364 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (360 bp):
ATCGACCTAAATACACCGGTTTATGAGAAAAAAATATACATAAAGTATCAACACAAATCCAACAA
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTGTCGATACATTT
ATAACAAGTGTCGATACCAAAAACATCAAAACCTATAATGATAATGTAATAGGTAAAATAACAAT
GTAACCAGACTAAATACACCGGATTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
AACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAACAAAATGTCGAT
ATTTATAACAAGTGTCGATACAAAAAAACGAAAAC
Found at i:99631 original size:19 final size:19
Alignment explanation
Indices: 99593--99631 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99583 GTGCACGACA
* * *
99593 AAGTGTCGATATTTATAAC
1 AAGTGTCGATACTAAAAAC
99612 AAGTGTCGATACTAAAAAC
1 AAGTGTCGATACTAAAAAC
99631 A
1 A
99632 TTGAAACACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (19 bp):
AAGTGTCGATACTAAAAAC
Found at i:99653 original size:198 final size:196
Alignment explanation
Indices: 99286--99660 Score: 635
Period size: 198 Copynumber: 1.9 Consensus size: 196
99276 AAACATCGGC
* * *
99286 CTAAATACATCGGTTTATGAGAAAACAAATATACATAAAGTATCAACAAAATTCAACAAGTGTCG
1 CTAAATACACCGATTTATGAGAAAACAAATATACATAAAGTATCAACAAAATCCAACAAGTGTCG
99351 ATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATTTATAAC
66 ATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATA-ATTTATAAC
99416 AAGTGTCGATACTAAAAACATCGAAACACATAGATAATGTAATAGGTAAAATAACAATGTAACCA
130 AAGTGTCGATACTAAAAACATCGAAACACATAGATAATGTAATAGGTAAAATAACAATGTAACCA
99481 GA
195 GA
** * *
99483 CTAAATACACCGATTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTT
1 CTAAATACACCGATTTATGAGAAAACAAATATACATAAAGTATCAACA-AAATCCAACAAGTGTC
99548 GATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGAT-ATTTATAAC
65 GATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATAATTTATAAC
*
99612 AAGTGTCGATACTAAAAACATTGAAACACATAGATATAATGTAATAGGT
130 AAGTGTCGATACTAAAAACATCGAAACACATAG--ATAATGTAATAGGT
99661 CACTTACATA
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
196 41 0.25
197 43 0.26
198 83 0.50
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (196 bp):
CTAAATACACCGATTTATGAGAAAACAAATATACATAAAGTATCAACAAAATCCAACAAGTGTCG
ATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATAATTTATAACA
AGTGTCGATACTAAAAACATCGAAACACATAGATAATGTAATAGGTAAAATAACAATGTAACCAG
A
Found at i:100040 original size:197 final size:190
Alignment explanation
Indices: 99646--100075 Score: 496
Period size: 193 Copynumber: 2.2 Consensus size: 190
99636 AACACATAGA
* * * * *
99646 TATAATGTAATAGGTCACTTAC-ATATAACGGTTTAAATTTA-CTGGTTTTGAGCTAATAGGTAT
1 TATAATGTAATAGGTCACTTACAATGTATCGGTTTAAATTTATCAGGTTTTGAACAAATAGGTAT
*
99709 ACATAAAGTATCGACACTTATTTATTTGTGTCGATACTTTTATCCTAATGAATTCCCAAACTATG
66 ACATAAAGTATCGACACTTATTTATTTGTGTCGATACTTTTATCCTAATGAATTCCCAAACGATG
* * *
99774 TGCAAAAGTGTCGATACATTTATTAAAAGTATCAACCTCAAATACATCGAGGCCAAAAAT
131 TGCAAAAGTGTCGATACATTTATAAAAAGTATCAACCCCAAATACATCGAGACCAAAAAT
*
99834 TATAATGTAATAGGTCACTTTACAATGTATCCGGTTTAAATTTATCAGTTTTATGAACAAATAGG
1 TATAATGTAATAGGTCAC-TTACAATGTAT-CGGTTTAAATTTATCAGGTTT-TGAACAAATAGG
* * * * * *
99899 TCTACGTAATGTATCGATACTT-TTTGCA-TT-TGTCGATACTTTATGTCCATAATGAA-TGCCA
63 TATACATAAAGTATCGACACTTATTT--ATTTGTGTCGATACTTT-TATCC-TAATGAATTCCCA
*
99960 AACGATGTCCACGCATAAAGTGTCGATACATTTATAAAAAGTAT-GACCCCAAATACATCGAGAC
124 AACGATGT----GCA-AAAGTGTCGATACATTTATAAAAAGTATCAACCCCAAATACATCGAGAC
***
100024 TGGAAAT
184 CAAAAAT
* *
100031 TATAATGTAATAGGTCAATTACAATGTAATCGGTTGAAATTTATC
1 TATAATGTAATAGGTCACTTACAATGT-ATCGGTTTAAATTTATC
100076 GGTGTAAAAA
Statistics
Matches: 205, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
188 18 0.09
189 4 0.02
190 4 0.02
191 13 0.06
192 20 0.10
193 45 0.22
194 8 0.04
196 23 0.11
197 43 0.21
198 27 0.13
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (190 bp):
TATAATGTAATAGGTCACTTACAATGTATCGGTTTAAATTTATCAGGTTTTGAACAAATAGGTAT
ACATAAAGTATCGACACTTATTTATTTGTGTCGATACTTTTATCCTAATGAATTCCCAAACGATG
TGCAAAAGTGTCGATACATTTATAAAAAGTATCAACCCCAAATACATCGAGACCAAAAAT
Done.