Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_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: 1549336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:26 original size:20 final size:20
Alignment explanation
Indices: 1--185 Score: 204
Period size: 20 Copynumber: 9.4 Consensus size: 20
1 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
21 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
42 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
62 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
82 -ATGCGATTTAC-CATACGC
1 GTTGCGATTTACGGATACGC
*
100 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
120 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
140 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
*
160 GTTGCGATTT-C--ATTCGC
1 GTTGCGATTTACGGATACGC
177 GTTGCGATT
1 GTTGCGATT
186 ATTGAAAATC
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
17 14 0.10
18 6 0.04
19 21 0.15
20 83 0.59
21 15 0.11
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1883 original size:14 final size:15
Alignment explanation
Indices: 1864--1892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1854 GTTGAATTCT
1864 GAATAT-TTTTTATA
1 GAATATATTTTTATA
1878 GAATATATTTTTATA
1 GAATATATTTTTATA
1893 ATATAACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
GAATATATTTTTATA
Found at i:8169 original size:12 final size:12
Alignment explanation
Indices: 8152--8196 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
8142 AAAAATTCAA
8152 GAGCTCGATTTT
1 GAGCTCGATTTT
* *
8164 GAGCTCGA-CTC
1 GAGCTCGATTTT
8175 GAGCTCGATTTT
1 GAGCTCGATTTT
8187 GAGCTCGATT
1 GAGCTCGATT
8197 CAAGTTCGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (12 bp):
GAGCTCGATTTT
Found at i:8205 original size:23 final size:23
Alignment explanation
Indices: 8153--8205 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
8143 AAAATTCAAG
*
8153 AGCTCGATTTTGAGCTCGACTCG
1 AGCTCGATTTTGAGCTCGACTCA
*
8176 AGCTCGATTTTGAGCTCGATTCA
1 AGCTCGATTTTGAGCTCGACTCA
*
8199 AGTTCGA
1 AGCTCGA
8206 ACTCAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
AGCTCGATTTTGAGCTCGACTCA
Found at i:14038 original size:23 final size:23
Alignment explanation
Indices: 13990--14039 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13980 TATCACACTT
*
13990 AATATATTAATATTTAGTTAAAA
1 AATATATTAATATTTAGATAAAA
* *
14013 AATATAATTAATTTTTA-ATAATA
1 AATAT-ATTAATATTTAGATAAAA
14036 AATA
1 AATA
14040 ATGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATATATTAATATTTAGATAAAA
Found at i:14088 original size:28 final size:28
Alignment explanation
Indices: 14024--14090 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
14014 ATATAATTAA
14024 TTTTTAATAATAAATAATGAATTTAAAT
1 TTTTTAATAATAAATAATGAATTTAAAT
* * * * * *
14052 ATTTAAATAATCAATAATTATTTTATAT
1 TTTTTAATAATAAATAATGAATTTAAAT
14080 TTTTTAATAAT
1 TTTTTAATAAT
14091 TATAAAATTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TTTTTAATAATAAATAATGAATTTAAAT
Found at i:16828 original size:30 final size:30
Alignment explanation
Indices: 16792--16851 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
16782 CATCATGTCC
16792 TTATTGTTTTTATGACTTGTTTACATTTGA
1 TTATTGTTTTTATGACTTGTTTACATTTGA
16822 TTATTGTTTTTATGACTTGTTTACATTTGA
1 TTATTGTTTTTATGACTTGTTTACATTTGA
16852 CAAACATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (30 bp):
TTATTGTTTTTATGACTTGTTTACATTTGA
Found at i:22125 original size:24 final size:24
Alignment explanation
Indices: 22098--22146 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22088 GATGATGATT
22098 TTTGGAACGAAGTTGAAAACATTC
1 TTTGGAACGAAGTTGAAAACATTC
22122 TTTGGAACGAAGTTGAAAACATTC
1 TTTGGAACGAAGTTGAAAACATTC
22146 T
1 T
22147 AAAAATCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTGGAACGAAGTTGAAAACATTC
Found at i:30863 original size:3 final size:3
Alignment explanation
Indices: 30855--30880 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30845 TCTTTATTGA
30855 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
30881 ATGTTACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33422 original size:23 final size:24
Alignment explanation
Indices: 33377--33422 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
33367 TACTTTGAAC
* * *
33377 AAGTCTATTTTTTTTTAATAAAAA
1 AAGTCTATTGTTTTGTAACAAAAA
33401 AAGTCT-TTGTTTTGTAACAAAA
1 AAGTCTATTGTTTTGTAACAAAA
33423 TATGGGGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
AAGTCTATTGTTTTGTAACAAAAA
Found at i:42001 original size:29 final size:29
Alignment explanation
Indices: 41905--42001 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 29
41895 TTAAAAATAC
* *
41905 TTTAAATATCTAAATAAAAAATAATATAT
1 TTTAAATATTTAAATAAAATATAATATAT
* * *** *
41934 TTTAAAT-CTTAATTTTGAT-TAAAAATAT
1 TTTAAATATTTAAATAAAATAT-AATATAT
41962 TTTAAATATTTAAATAAAATATAATATAT
1 TTTAAATATTTAAATAAAATATAATATAT
41991 TTTAAATATTT
1 TTTAAATATTT
42002 TTTTAAAATA
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.35
29 31 0.61
30 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
TTTAAATATTTAAATAAAATATAATATAT
Found at i:42008 original size:29 final size:29
Alignment explanation
Indices: 41919--42012 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 29
41909 AATATCTAAA
* * *
41919 TAAAAAATAATATATTTTAAATCTTAATTT
1 TAAAATATAATATATTTTAAATATT-TTTT
* * * ***
41949 T-GATTA-AAAATATTTTAAATATTTAAA
1 TAAAATATAATATATTTTAAATATTTTTT
41976 TAAAATATAATATATTTTAAATATTTTTT
1 TAAAATATAATATATTTTAAATATTTTTT
42005 TAAAATAT
1 TAAAATAT
42013 TTTCAATATT
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
27 1 0.02
28 18 0.38
29 27 0.57
30 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
TAAAATATAATATATTTTAAATATTTTTT
Found at i:42021 original size:51 final size:54
Alignment explanation
Indices: 41894--42043 Score: 180
Period size: 57 Copynumber: 2.8 Consensus size: 54
41884 TGTTATTGTA
* * *
41894 ATTAAAAATACTTTAAATATCTAAATAAAAAATAATATATTTTAAATCTTAATTTT
1 ATTAAAAATATTTTAAATATTTAAATAAAATATAATATATTTTAAA--TTAATTTT
41950 GATTAAAAATATTTTAAATATTTAAATAAAATATAATATATTTTAAA-T-ATTTT
1 -ATTAAAAATATTTTAAATATTTAAATAAAATATAATATATTTTAAATTAATTTT
* * * *
42003 -TTTAAAATATTTTCAATATTCAAATAATATATATATATATT
1 ATTAAAAATATTTTAAATATTTAAATAAAATATA-ATATATT
42044 GTTGTCCTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
51 29 0.34
52 7 0.08
53 5 0.06
54 1 0.01
57 43 0.51
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (54 bp):
ATTAAAAATATTTTAAATATTTAAATAAAATATAATATATTTTAAATTAATTTT
Found at i:42034 original size:22 final size:22
Alignment explanation
Indices: 41982--42034 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
41972 TAAATAAAAT
***
41982 ATAATATATTTTAAATATTTTT
1 ATAATATATTTTAAATATTCAA
* * *
42004 TTAAAATATTTTCAATATTCAA
1 ATAATATATTTTAAATATTCAA
42026 ATAATATAT
1 ATAATATAT
42035 ATATATATTG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATATATTTTAAATATTCAA
Found at i:44698 original size:70 final size:68
Alignment explanation
Indices: 44585--44718 Score: 241
Period size: 70 Copynumber: 1.9 Consensus size: 68
44575 TTGATACCCA
*
44585 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAGAGATGCTTGGTC
1 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGA-A-ATGATTGGTC
44650 TTTTT
64 TTTTT
44655 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGATTGGTCT
1 CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGATTGGTCT
44719 GTTTATTGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
68 10 0.16
69 1 0.02
70 52 0.83
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (68 bp):
CCATTGATGAAGTAGGTAGTTCTTAAAAATGTTTAAGAAAATATAAAAGAGAAATGATTGGTCTT
TTT
Found at i:54394 original size:45 final size:45
Alignment explanation
Indices: 54296--54394 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
54286 GTGATAACCT
* * * *
54296 TGGGACCACACCGCTTGGAGCTATTCGAGATAATGCTCATGACCA
1 TGGGACCATACCGCTTGGAGCTATGCGAGATAATGCGCATGAACA
* * * *
54341 TGGGACCATGCCGCTTGGAGTTATGCGAGGTATTGCGCATGAACA
1 TGGGACCATACCGCTTGGAGCTATGCGAGATAATGCGCATGAACA
54386 TGGGACCAT
1 TGGGACCAT
54395 TCACCATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (45 bp):
TGGGACCATACCGCTTGGAGCTATGCGAGATAATGCGCATGAACA
Found at i:57484 original size:21 final size:22
Alignment explanation
Indices: 57460--57500 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57450 ATAATCGTCG
*
57460 TAATTGTCAA-ATAAATAAACC
1 TAATTCTCAATATAAATAAACC
*
57481 TAATTCTCAATTTAAATAAA
1 TAATTCTCAATATAAATAAA
57501 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.34
Consensus pattern (22 bp):
TAATTCTCAATATAAATAAACC
Found at i:58467 original size:15 final size:16
Alignment explanation
Indices: 58429--58469 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
58419 CCAAGAGTTC
*
58429 TAATAAAATAATTAAT
1 TAATAAAATAAATAAT
*
58445 TCAT-AAATAAATAA-
1 TAATAAAATAAATAAT
58459 TAATAAAATAA
1 TAATAAAATAA
58470 TCAAACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAAATAAATAAT
Found at i:59502 original size:26 final size:27
Alignment explanation
Indices: 59473--59531 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
59463 ATAATTTTCC
* *
59473 TTAAAGGATTTGTGTT-ATCTTAATCG
1 TTAAAGGATTTGAGTTCATATTAATCG
59499 TTAACAAGGATTTGAGTTCATATTAATCG
1 TT-A-AAGGATTTGAGTTCATATTAATCG
59528 TTAA
1 TTAA
59532 TCTAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 2 0.07
28 13 0.46
29 11 0.39
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
TTAAAGGATTTGAGTTCATATTAATCG
Found at i:59511 original size:28 final size:29
Alignment explanation
Indices: 59476--59531 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
59466 ATTTTCCTTA
* *
59476 AAGGATTTGTGTT-ATCTTAATCGTTAAC
1 AAGGATTTGAGTTCATATTAATCGTTAAC
59504 AAGGATTTGAGTTCATATTAATCGTTAA
1 AAGGATTTGAGTTCATATTAATCGTTAA
59532 TCTAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (29 bp):
AAGGATTTGAGTTCATATTAATCGTTAAC
Found at i:59859 original size:30 final size:30
Alignment explanation
Indices: 59823--59891 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
59813 GTTAATCCGT
59823 TCATTTTTTTAAGC-CTAATAATATTTTCGG
1 TCATTTTTTT-AGCGCTAATAATATTTTCGG
*
59853 TCA-TTTTTTAGCGTCTAATAATGTTTTCGG
1 TCATTTTTTTAGCG-CTAATAATATTTTCGG
*
59883 TTATTTTTT
1 TCATTTTTT
59892 CGAAATTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 6 0.18
30 20 0.59
31 5 0.15
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.55
Consensus pattern (30 bp):
TCATTTTTTTAGCGCTAATAATATTTTCGG
Found at i:67528 original size:111 final size:111
Alignment explanation
Indices: 67390--67722 Score: 621
Period size: 111 Copynumber: 3.0 Consensus size: 111
67380 ATTACAAAAA
*
67390 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTATTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
67455 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
67501 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
67566 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCTAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
67612 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
67677 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
67723 ATGATTTTCA
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 216 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:67816 original size:18 final size:17
Alignment explanation
Indices: 67786--67829 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
67776 ATTATATTAG
67786 TAAAATATTAAATAAAA
1 TAAAATATTAAATAAAA
*
67803 TAAAATACTTAAATAAAT
1 TAAAATA-TTAAATAAAA
67821 TAAATATAT
1 TAAA-ATAT
67830 AATAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATTAAATAAAA
Found at i:68788 original size:30 final size:30
Alignment explanation
Indices: 68725--68798 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
68715 TTTAAATAGT
* *
68725 TATTATTTTTATATTAATATATTTATGTAAA
1 TATTATTTTT-TATTAAAATATATATGTAAA
*
68756 TATTATTTTTTATTAAAATA-ATATTTATAA
1 TATTATTTTTTATTAAAATATATATGTA-AA
68786 TATTATTTATTTA
1 TATTATTT-TTTA
68799 GAATTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.13
30 19 0.50
31 14 0.37
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TATTATTTTTTATTAAAATATATATGTAAA
Found at i:70548 original size:21 final size:21
Alignment explanation
Indices: 70518--70565 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
70508 GCAGGGGTAC
* *
70518 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
70539 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
70560 ATGCCA
1 ATGCCA
70566 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:70595 original size:21 final size:21
Alignment explanation
Indices: 70569--70662 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
70559 TATGCCATCT
* *
70569 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
70590 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
*
70611 TCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
70632 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
70653 CCGCAGGGTT
1 CCGCAGGGTT
70663 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:71214 original size:28 final size:28
Alignment explanation
Indices: 71182--71277 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 28
71172 GATAAATGTT
* *
71182 TTTAAAATACAAAT-TATATTATTCGAAA
1 TTTAAAATAAAAATAAATATTATTC-AAA
71210 TTTAAAATAAAAATAAAAATATTATTCAAA
1 TTTAAAATAAAAAT--AAATATTATTCAAA
* *
71240 TTTAAATTTAAAATATAATTATAGTATTCGAAA
1 TTTAAA-ATAAAA-ATAA--ATATTATTC-AAA
71273 TTTAA
1 TTTAA
71278 CATTAAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
28 13 0.23
30 11 0.20
31 14 0.25
32 10 0.18
33 8 0.14
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATAAAAATAAATATTATTCAAA
Found at i:71235 original size:31 final size:33
Alignment explanation
Indices: 71197--71277 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 33
71187 AATACAAATT
71197 ATATTATTCGAAATTTAAA-ATAAAA-ATAAAA
1 ATATTATTCGAAATTTAAATATAAAATATAAAA
* **
71228 ATATTATTC-AAATTTAAATTTAAAATATAATT
1 ATATTATTCGAAATTTAAATATAAAATATAAAA
*
71260 ATAGTATTCGAAATTTAA
1 ATATTATTCGAAATTTAA
71278 CATTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.21
31 14 0.33
32 12 0.28
33 8 0.19
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (33 bp):
ATATTATTCGAAATTTAAATATAAAATATAAAA
Found at i:71892 original size:126 final size:126
Alignment explanation
Indices: 71667--72016 Score: 691
Period size: 126 Copynumber: 2.8 Consensus size: 126
71657 AAGTTATTCG
71667 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
1 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
71732 CCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCC
66 CCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCC
71793 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
1 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
71858 CCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCC
66 CCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCC
71919 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
1 CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
*
71984 CCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 CCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
72017 CCGATTATAG
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 223 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (126 bp):
CCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCG
CCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCC
Found at i:72097 original size:8 final size:8
Alignment explanation
Indices: 72084--72124 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
72074 TCACAATCTT
72084 TCAAATTC
1 TCAAATTC
72092 TCAAATTC
1 TCAAATTC
* *
72100 CCAAACTC
1 TCAAATTC
72108 T-AAATTC
1 TCAAATTC
72115 TCAAATTC
1 TCAAATTC
72123 TC
1 TC
72125 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:75139 original size:13 final size:13
Alignment explanation
Indices: 75121--75157 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
75111 CATAAATATA
75121 TTAATATAATTAT
1 TTAATATAATTAT
75134 TTAATATAA-TAT
1 TTAATATAATTAT
*
75146 TTAATATTATTA
1 TTAATATAATTA
75158 GTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATATAATTAT
Found at i:75146 original size:12 final size:12
Alignment explanation
Indices: 75115--75152 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
75105 TAAATACATA
75115 AATATATTAATAT
1 AATAT-TTAATAT
75128 AATTATTTAATAT
1 AA-TATTTAATAT
75141 AATATTTAATAT
1 AATATTTAATAT
75153 TATTAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 11 0.46
14 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTAATAT
Found at i:78478 original size:15 final size:15
Alignment explanation
Indices: 78458--78491 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
78448 CAAAATGCTC
*
78458 GGTGGAGATTAAGGT
1 GGTGGAGATTAAAGT
78473 GGTGGAGATTAAAGT
1 GGTGGAGATTAAAGT
78488 GGTG
1 GGTG
78492 TTTGTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.26
Consensus pattern (15 bp):
GGTGGAGATTAAAGT
Found at i:78861 original size:22 final size:22
Alignment explanation
Indices: 78836--78936 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 22
78826 TTAAAATAAA
*
78836 TTATTATAAAATATGGATTGAT
1 TTATTATAAAATATGGATTAAT
* ** *
78858 TTATTTTAAAATAATTTATTTTAAA
1 TTATTATAAAAT-ATGGA--TTAAT
* * * *
78883 TAATT-TATTAGTATGGATTGAT
1 TTATTATA-AAATATGGATTAAT
*
78905 TTATTTTAAAATATGGATTAAT
1 TTATTATAAAATATGGATTAAT
78927 TTATTATAAA
1 TTATTATAAA
78937 TAATTTATTA
Statistics
Matches: 57, Mismatches: 17, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
22 38 0.67
23 5 0.09
24 5 0.09
25 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TTATTATAAAATATGGATTAAT
Found at i:78885 original size:14 final size:15
Alignment explanation
Indices: 78729--78891 Score: 202
Period size: 15 Copynumber: 10.5 Consensus size: 15
78719 TAATAAGGTT
78729 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
78744 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
78759 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
78774 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
78789 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
78804 AATTATTATAAAATA
1 ATTTATTTTAAAATA
78819 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
78834 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
78853 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
78871 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
78885 ATTTATT
1 ATTTATT
78892 AGTATGGATT
Statistics
Matches: 131, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
14 12 0.09
15 99 0.76
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:78909 original size:32 final size:32
Alignment explanation
Indices: 78871--79460 Score: 269
Period size: 32 Copynumber: 19.4 Consensus size: 32
78861 TTTTAAAATA
78871 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
78903 ATTTA-TTT---TAA---A--A-TATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
78925 ATTTATTATAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
78957 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
78979 ATTTATTTTAAGTAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
79011 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
79033 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
79065 ATTGA-TTT--AT--TTTA-AAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
79091 ATTTA--TT--AT--TGTAGTT-TTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTG
*
79117 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
79149 ATTTATTTTAAA-ATATAAATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
79178 ATTGTAGTTGTATGGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * *
79211 ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-TA-AATAATTTA--TT--AGTATGGATTG
*
79251 ATTTATTCTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
79283 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
79315 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTA-TGGA-TTG
** * ** * * *
79354 TATGGA-TTGATTTATTTTA-AAATATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTG
79385 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
79417 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
79449 ATTTATTTTAAA
1 ATTTATTTTAAA
79461 ATATGGATTG
Statistics
Matches: 430, Mismatches: 60, Indels: 136
0.69 0.10 0.22
Matches are distributed among these distances:
22 41 0.10
23 7 0.02
24 3 0.01
25 13 0.03
26 34 0.08
27 4 0.01
28 9 0.02
29 10 0.02
30 14 0.03
31 30 0.07
32 197 0.46
33 13 0.03
34 10 0.02
35 3 0.01
36 11 0.03
37 6 0.01
38 7 0.02
39 6 0.01
40 12 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:78937 original size:54 final size:54
Alignment explanation
Indices: 78871--79643 Score: 657
Period size: 54 Copynumber: 14.1 Consensus size: 54
78861 TTTTAAAATA
*
78871 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
78925 ATTTATTATAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
78979 ATTTATTTTAAGTAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
79033 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGATTG
* *
79091 ATTTA--TT--AT--TGTAGTT-TTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT--A-AA---A----TATGGATTG
* * * * ***
79149 ATTTATTTT-AA-AA--TA-TA-AATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
79197 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
79251 ATTTATTCTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * ***
79301 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
** ** * ** * * *
79363 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
79417 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
79471 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
79529 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
79583 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
79637 ATTTATT
1 ATTTATT
79644 ATTGTAGTTG
Statistics
Matches: 587, Mismatches: 69, Indels: 126
0.75 0.09 0.16
Matches are distributed among these distances:
48 50 0.09
49 7 0.01
50 20 0.03
51 3 0.01
52 15 0.03
53 9 0.02
54 315 0.54
55 25 0.04
56 10 0.02
57 14 0.02
58 67 0.11
59 2 0.00
60 11 0.02
61 1 0.00
62 15 0.03
63 5 0.01
64 18 0.03
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:78964 original size:22 final size:22
Alignment explanation
Indices: 78948--78989 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
78938 AATTTATTAG
78948 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
78970 TATGGATTGATTTATTTTAA
1 TATGGATTGATTTATTTTAA
78990 GTAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:79053 original size:36 final size:36
Alignment explanation
Indices: 79011--79080 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
79001 GTATGGATTG
79011 ATTTATTT-TA-AAATATAGATTGATTTATTTTAAATA
1 ATTTATTTGTATAAAT-T-GATTGATTTATTTTAAATA
**
79047 ATTTATTTGTATGGATTGATTGATTTATTTTAAA
1 ATTTATTTGTATAAATTGATTGATTTATTTTAAA
79081 ATATGGATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 25 0.83
37 3 0.10
38 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (36 bp):
ATTTATTTGTATAAATTGATTGATTTATTTTAAATA
Found at i:79156 original size:80 final size:80
Alignment explanation
Indices: 78871--79589 Score: 564
Period size: 80 Copynumber: 8.8 Consensus size: 80
78861 TTTTAAAATA
* *
78871 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTATAA
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-T-T--
*
78936 ATAATTTA-TTAGTATGGATTG
62 AT--TGTAGTT-GTATGGATTG
* * * ** * * *
78957 ATTTATTTTAAAATATGGATTGATTTATTTTAAGTAATTTA--TT--AGTATGGATTGATTTA-T
1 ATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*** *
79017 -TT-TA-AAATATAGATTG
62 ATTGTAGTTGTATGGATTG
79033 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTTGTAT-G---GATTGATTTATTTTAAAATATGGATTGATTTATT
*
79098 ATTGTAGTTTTATGGATTG
62 ATTGTAGTTGTATGGATTG
**
79117 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAAATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
79182 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
* *
79197 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTCTAA
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-T-T--
*
79262 ATAATTTA-TTAGTATGGATTG
62 AT--TGTAGTT-GTATGGATTG
79283 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
79348 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
* * * ** * * *
79363 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATT
1 ATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--
* *
79424 TTAAATAATTTATTTGTATGGATTG
60 TT--AT--TGTAGTTGTATGGATTG
* * * * ***
79449 ATTTATTTT-AA-AA--TA--TGGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA-AAATATGGATTGATTTA--TT-
*
79507 AATAATTTA-TTAGTATGGATTG
62 -AT--TGTAGTT-GTATGGATTG
*
79529 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
79590 TTAAATAATT
Statistics
Matches: 522, Mismatches: 64, Indels: 96
0.77 0.09 0.14
Matches are distributed among these distances:
72 9 0.02
75 8 0.02
76 30 0.06
77 3 0.01
78 4 0.01
79 2 0.00
80 207 0.40
81 11 0.02
82 11 0.02
83 5 0.01
84 61 0.12
85 3 0.01
86 139 0.27
87 12 0.02
88 2 0.00
90 15 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTG
Found at i:79331 original size:22 final size:22
Alignment explanation
Indices: 79306--79396 Score: 119
Period size: 22 Copynumber: 4.0 Consensus size: 22
79296 AATTTATTTG
79306 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
79328 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
79354 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
79376 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
79397 TAATTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 35 0.59
23 3 0.05
24 4 0.07
25 3 0.05
26 14 0.24
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:79528 original size:32 final size:32
Alignment explanation
Indices: 79487--79626 Score: 210
Period size: 32 Copynumber: 4.7 Consensus size: 32
79477 TATTGTAGTT
79487 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
79519 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
79551 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
79574 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
79605 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
79627 ATATGGATTG
Statistics
Matches: 98, Mismatches: 0, Indels: 20
0.83 0.00 0.17
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.04
32 68 0.69
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:79577 original size:22 final size:22
Alignment explanation
Indices: 79552--79594 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79542 AATTTATTAG
79552 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
79574 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
79595 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:79644 original size:166 final size:166
Alignment explanation
Indices: 78871--79706 Score: 786
Period size: 166 Copynumber: 5.1 Consensus size: 166
78861 TTTTAAAATA
* *
78871 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTATAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
78936 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-TTAAGTAATT-TAT
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT--GTAGTTGTA-
* * * * *
78999 TAGTATGGATTGA-TTT--AT--TTTA-AAATATAGATTG
128 TA-AATTGATTTATTTTAAATAATTTATTAGTATAGATTG
*
79033 ATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTGATTTA--
1 ATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGATTGATTTATT
* * * * *
79096 TT--AT--TGTAGTT-TTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATT
62 TTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA--TGGATTGATTTA-TTATT
* *** * *
79156 TTA-AAATATAAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
119 GTAGTTGTATAAATTGATTTATTTTAAATAATTTA-TTAGTATAGATTG
* *
79197 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTCTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
** ** *
79262 ATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTATTTGTATGGATTGATT-TA-TTTT
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGA-TTG-ATTTATT-ATTGTAGTTGT
* * *
79324 A-AAATATGGATTGA-TTT--ATTATTGTAGTT-GTATGGATTG
127 ATAAAT-T-GATTTATTTTAAATAATT-TA-TTAGTATAGATTG
** ** * ** * * *
79363 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTT
*
79425 TAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTA
63 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTA
** *
79490 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
128 TAAATTGATTTATTTTAAATAATTTATTAGTATAGATTG
79529 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
79594 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAA
79659 ATTGATTTATTTTAAATAATTTATTAGTATAGATTG
131 ATTGATTTATTTTAAATAATTTATTAGTATAGATTG
79695 ATTTATTTTAAA
1 ATTTATTTTAAA
79707 ATATAGATTG
Statistics
Matches: 561, Mismatches: 66, Indels: 90
0.78 0.09 0.13
Matches are distributed among these distances:
160 60 0.11
161 14 0.02
162 43 0.08
163 17 0.03
164 61 0.11
165 29 0.05
166 310 0.55
167 22 0.04
168 5 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (166 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAA
ATTGATTTATTTTAAATAATTTATTAGTATAGATTG
Found at i:79711 original size:22 final size:22
Alignment explanation
Indices: 79686--79728 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79676 AATTTATTAG
79686 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
79708 TATAGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
79729 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:79725 original size:134 final size:134
Alignment explanation
Indices: 78948--79737 Score: 708
Period size: 134 Copynumber: 5.8 Consensus size: 134
78938 AATTTATTAG
** *
78948 TATGGATTGATTTA-T-TT-TAAAATATGGATTGATTTATTTTAAGTAATTTATTAGTATGGATT
1 TATGGATTGATTTATTATTGTATTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
79010 GATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTT-GTATGGATTGATTGATTTA
66 GATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTAGTAT-G---GATTGATTTA
79074 TTTTAAAA
127 TTTTAAAA
* *
79082 TATGGATTGATTTATTATTGTAGTTTTATGGATTGATTTATTTTAAATAATTTATTTGTATGGAT
1 TATGGATTGATTTATTATTGTA-TTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
* * *
79147 TGATTTATTTTAAAATATAAATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTT
65 TGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTAGTATGGATTGATTTATTT
79205 TAAATAA
130 T-AA-AA
* * * * ** *
79212 TTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTCTAAATAATTTATTAGTAT
1 --TA-T-GGATTGATTTA-TTATTGTATTATATGGATTGATTTATTTTAAATAATTTATTAGTAT
* * * ** * * *
79277 GGATTGATTTATTTT--AA-ATA-ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGA
61 GGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA-TTT--AGTATGGATTGA
***
79338 TTTATTATTGTAGTTG
123 TTTA-T-TT-TA-AAA
**
79354 TATGGATTGATTTA-T-TT-TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTATTGTATTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
* * * ** * * *
79416 GATTTATTTT--AA-ATA-ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
66 GATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA-TTT--AGTATGGATTGATTTA-
***
79477 TATTGTAGTTG
127 T-TT-TA-AAA
*
79488 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTA--TT--AT--TGTATTA-TATGGATTGATTTATTTTAAATAATTTATTAGT
*
79553 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGAT
59 ATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTAGTATGGATTGAT
79617 TTATTTTAAAA
124 TTATTTTAAAA
* ** *
79628 TATGGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATAGAT
1 TATGGATTGATTTATTATTGTA-TTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
79693 TGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATT
65 TGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATT
79738 ATTGTAGTTG
Statistics
Matches: 564, Mismatches: 51, Indels: 81
0.81 0.07 0.12
Matches are distributed among these distances:
128 14 0.02
129 2 0.00
130 9 0.02
131 4 0.01
132 14 0.02
133 1 0.00
134 284 0.50
135 13 0.02
136 10 0.02
137 5 0.01
138 75 0.13
139 1 0.00
140 31 0.05
141 3 0.01
142 6 0.01
143 5 0.01
144 65 0.12
146 4 0.01
147 2 0.00
148 16 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (134 bp):
TATGGATTGATTTATTATTGTATTATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
GATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTAGTATGGATTGATTTATTTT
AAAA
Found at i:79788 original size:30 final size:30
Alignment explanation
Indices: 79752--79808 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
79742 TAGTTGTATG
* *
79752 AATTATTTAAATTTCAGTATTGTAAAATAA
1 AATTATTTAAATCTCAGTATTGCAAAATAA
79782 AATTATTTAAATCTCAGTATTGCAAAA
1 AATTATTTAAATCTCAGTATTGCAAAA
79809 CTCTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTATTTAAATCTCAGTATTGCAAAATAA
Found at i:81359 original size:14 final size:15
Alignment explanation
Indices: 81342--81431 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 15
81332 CACTTATATC
81342 CTAAATCC-TAAACT
1 CTAAATCCTTAAACT
* *
81356 CTAAATTCTCAAAC-
1 CTAAATCCTTAAACT
*
81370 CTAAACCCTTAAA-T
1 CTAAATCCTTAAACT
81384 ACTAAA-CCTTAAAC-
1 -CTAAATCCTTAAACT
81398 CTTAAAT-CTTAAACT
1 C-TAAATCCTTAAACT
* * *
81413 -AAAAACCATAAACT
1 CTAAATCCTTAAACT
81427 CTAAA
1 CTAAA
81432 CTTTATACCC
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
13 4 0.07
14 42 0.72
15 12 0.21
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.27
Consensus pattern (15 bp):
CTAAATCCTTAAACT
Found at i:81374 original size:21 final size:21
Alignment explanation
Indices: 81342--81404 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
81332 CACTTATATC
* *
81342 CTAAATCCTAAACTC-TAAATT
1 CTAAA-CCTAAACCCTTAAATA
81363 CTCAAACCTAAACCCTTAAATA
1 CT-AAACCTAAACCCTTAAATA
81385 CTAAACCTTAAA-CCTTAAAT
1 CTAAACC-TAAACCCTTAAAT
81405 CTTAAACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAAACCTAAACCCTTAAATA
Found at i:81410 original size:21 final size:21
Alignment explanation
Indices: 81334--81415 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
81324 TATCATTGCA
* * *
81334 CTTATATCCTAAATCCTAAACT
1 CTTAAATCTTAAA-CCTAAACC
*
81356 C-TAAATTCTCAAACCTAAACC
1 CTTAAA-TCTTAAACCTAAACC
81377 CTTAAATAC-TAAACCTTAAA-C
1 CTTAAAT-CTTAAACC-TAAACC
81398 CTTAAATCTTAAA-CTAAA
1 CTTAAATCTTAAACCTAAA
81416 AACCATAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
19 4 0.08
20 2 0.04
21 29 0.58
22 15 0.30
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (21 bp):
CTTAAATCTTAAACCTAAACC
Found at i:81418 original size:21 final size:21
Alignment explanation
Indices: 81394--81433 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
81384 ACTAAACCTT
*
81394 AAACCTTAAA-TCTTAAACTAA
1 AAACCATAAACTC-TAAACTAA
81415 AAACCATAAACTCTAAACT
1 AAACCATAAACTCTAAACT
81434 TTATACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCATAAACTCTAAACTAA
Found at i:85945 original size:16 final size:16
Alignment explanation
Indices: 85924--85955 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85914 ATCATTTTAT
85924 TTTATTCAAATTAACA
1 TTTATTCAAATTAACA
85940 TTTATTCAAATTAACA
1 TTTATTCAAATTAACA
85956 GTAAAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTATTCAAATTAACA
Found at i:85977 original size:3 final size:3
Alignment explanation
Indices: 85969--85995 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
85959 AAAGAATGCA
85969 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
85996 GTTTCCGTGC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92372 original size:29 final size:30
Alignment explanation
Indices: 92340--92400 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
92330 TTTGTTATTT
**
92340 TTTTAC-TTTCTTTTGTTATTTTATTTT-TC
1 TTTTACTTTTC-TTTGTTACATTATTTTCTC
*
92369 TTTTCCTTTTCTTTGTTACATTATTTTCTC
1 TTTTACTTTTCTTTGTTACATTATTTTCTC
92399 TT
1 TT
92401 ATTCTATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.10, C:0.15, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTTACTTTTCTTTGTTACATTATTTTCTC
Found at i:92466 original size:18 final size:19
Alignment explanation
Indices: 92440--92475 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
92430 TTTCTACACA
92440 ATAAAATAA-AAATTAAAT
1 ATAAAATAATAAATTAAAT
*
92458 ATAATATAATAAATTAAA
1 ATAAAATAATAAATTAAA
92476 GTAGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAATAATAAATTAAAT
Found at i:92969 original size:12 final size:12
Alignment explanation
Indices: 92949--92998 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
92939 AAAATCATTT
*
92949 AAATCTATTTTA
1 AAATTTATTTTA
92961 AAATTTATTTTA
1 AAATTTATTTTA
* *
92973 AAA--TATATAA
1 AAATTTATTTTA
*
92983 AAAATTATTTTA
1 AAATTTATTTTA
92995 AAAT
1 AAAT
92999 ATGAATTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.27
12 22 0.73
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:93551 original size:22 final size:22
Alignment explanation
Indices: 92987--93630 Score: 846
Period size: 22 Copynumber: 29.3 Consensus size: 22
92977 ATATAAAAAA
*
92987 TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGGATTGAT
***
93009 TTATTTTAAAATATGGAAAAAT
1 TTATTTTAAAATATGGATTGAT
*
93031 TTGTTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
* ***
93053 TTATTTTAAAATAT-AAAAAAT
1 TTATTTTAAAATATGGATTGAT
*
93074 TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGGATTGAT
**
93096 TTATTTTAAAATATGGA-AAATT
1 TTATTTTAAAATATGGATTGA-T
*
93118 TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGGATTGAT
**
93140 TTATTTTAAAATATGGA-AAATT
1 TTATTTTAAAATATGGATTGA-T
93162 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
93184 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
* *
93206 TTATTTTAAAATATGAATTTAT
1 TTATTTTAAAATATGGATTGAT
* *
93228 TTATTTTAAAATATGAATTTAT
1 TTATTTTAAAATATGGATTGAT
***
93250 TTATTTTAAAATATGGAAAAAT
1 TTATTTTAAAATATGGATTGAT
93272 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
93294 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
*
93316 TTATTTTAAAATATTGATTGAT
1 TTATTTTAAAATATGGATTGAT
* * *** *
93338 TTATTTTAAAAAATGAAAAAAAA
1 TTATTTTAAAATATG-GATTGAT
*
93361 TTATTTTAAAATATAGATTGAT
1 TTATTTTAAAATATGGATTGAT
* **
93383 TTGTTTTAAAATATGGA-AAATT
1 TTATTTTAAAATATGGATTGA-T
93405 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
93427 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
*
93449 TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGGATTGAT
*
93471 TTATTTTAAAATATGGATTGAG
1 TTATTTTAAAATATGGATTGAT
*
93493 TTATTTTAAAATATAGATTGAT
1 TTATTTTAAAATATGGATTGAT
* *** *
93515 TTATTTTAAAATATGAAAAAAG
1 TTATTTTAAAATATGGATTGAT
93537 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
93559 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
93581 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
*
93603 TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGGATTGAT
93625 TTATTT
1 TTATTT
93631 GTAGTTGTAT
Statistics
Matches: 539, Mismatches: 75, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
21 20 0.04
22 501 0.93
23 18 0.03
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:94191 original size:24 final size:24
Alignment explanation
Indices: 94164--94218 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
94154 TTAAAATGAT
94164 AAACGAACGAACGTAAACAAACAG
1 AAACGAACGAACGTAAACAAACAG
* **
94188 AAACGAACGAATGTAAACAAACCT
1 AAACGAACGAACGTAAACAAACAG
94212 AAACGAA
1 AAACGAA
94219 AGTTTACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.58, C:0.20, G:0.15, T:0.07
Consensus pattern (24 bp):
AAACGAACGAACGTAAACAAACAG
Found at i:101062 original size:2 final size:2
Alignment explanation
Indices: 101055--101082 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101045 TGATTAAATA
101055 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
101083 TAACTTTGTG
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:103694 original size:59 final size:59
Alignment explanation
Indices: 103601--103721 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 59
103591 AAAATTTGTG
* *
103601 AATCCCACACATGAATATCACCCAAATCCATTTATACATAATTTTTGTGCCTTAATGTC
1 AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
* *** * *
103660 AATCCCACACATGAATATCATCCAAATTTGTTTATATATAAATTTTGTGCCTTGATGAC
1 AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
103719 AAT
1 AAT
103722 TTTATTCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (59 bp):
AATCCCACACATGAATATCACCCAAATCCATTTATACATAAATTTTGTGCCTTAATGAC
Found at i:107775 original size:27 final size:26
Alignment explanation
Indices: 107732--107783 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
107722 TCCTTAAGAC
*
107732 AAATTTTAATTTAATTATTTTTAAAAA
1 AAATTTTAATTTAATTA-ATTTAAAAA
107759 AAATTGTTAATTT-ATTAATTTAAAA
1 AAATT-TTAATTTAATTAATTTAAAA
107784 TTATTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 9 0.39
28 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATTTTAATTTAATTAATTTAAAAA
Found at i:111099 original size:21 final size:21
Alignment explanation
Indices: 111069--111115 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
111059 ACTAAAAACA
111069 TTATTATTTCTACC-AGTTTTG
1 TTATTATTTCTACCGA-TTTTG
*
111090 TTATTTTTTCTACCGATTTTG
1 TTATTATTTCTACCGATTTTG
111111 TTATT
1 TTATT
111116 GTTTGTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.62
Consensus pattern (21 bp):
TTATTATTTCTACCGATTTTG
Found at i:112265 original size:31 final size:31
Alignment explanation
Indices: 112227--112285 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
112217 GAATTCAATA
112227 GTTAAATT-GATATTTTATATAAAATTTATAG
1 GTTAAATTAG-TATTTTATATAAAATTTATAG
*
112258 GTTAAATTAGTATTTTATTTAAAATTTA
1 GTTAAATTAGTATTTTATATAAAATTTA
112286 AAGTCAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (31 bp):
GTTAAATTAGTATTTTATATAAAATTTATAG
Found at i:112877 original size:16 final size:16
Alignment explanation
Indices: 112842--112877 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
112832 TATATTATTT
* *
112842 AATTTTAAATTTCTAG
1 AATTTTAAATTACTAA
112858 AATTTTAAATTACTAA
1 AATTTTAAATTACTAA
112874 AATT
1 AATT
112878 GTGATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTTTAAATTACTAA
Found at i:126275 original size:28 final size:28
Alignment explanation
Indices: 126243--126301 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
126233 CAACCGTAGA
126243 TGGTGGTTGAAGGGTTTTCCTGATTGTG
1 TGGTGGTTGAAGGGTTTTCCTGATTGTG
126271 TGGTGGTTGAAGGGTTTTCCTGATTGTG
1 TGGTGGTTGAAGGGTTTTCCTGATTGTG
126299 TGG
1 TGG
126302 GTCTGGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.10, C:0.07, G:0.41, T:0.42
Consensus pattern (28 bp):
TGGTGGTTGAAGGGTTTTCCTGATTGTG
Found at i:139508 original size:15 final size:15
Alignment explanation
Indices: 139488--139519 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
139478 AAAAGCTTTC
*
139488 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
139503 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
139518 TT
1 TT
139520 CGATCTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Found at i:153217 original size:29 final size:29
Alignment explanation
Indices: 153173--153250 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
153163 GAGTGATGGG
*
153173 GTTGGTGTTGAAAAAAATGGGATGATTGGT
1 GTTGGTGTTG-AAAAAATGGGATGATAGGT
* *
153203 GTTGGTGTTGAAAAAATGGGGTGGTAGGT
1 GTTGGTGTTGAAAAAATGGGATGATAGGT
153232 GTTGGTGTTGAAAAAATGG
1 GTTGGTGTTGAAAAAATGG
153251 TGTTTACAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 35 0.78
30 10 0.22
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (29 bp):
GTTGGTGTTGAAAAAATGGGATGATAGGT
Found at i:153502 original size:50 final size:50
Alignment explanation
Indices: 153427--153574 Score: 251
Period size: 50 Copynumber: 3.0 Consensus size: 50
153417 GTCGATCCAA
* *
153427 CTCTTCCTGTGATAGAATCGAGCAAAAAGGTGACGCTGATCCAACTCCTT
1 CTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
* *
153477 CTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACTCTGATCCAATTCCTT
1 CTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
*
153527 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCC
1 CTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCC
153575 CTCTGTGATG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
CTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
Found at i:153662 original size:44 final size:44
Alignment explanation
Indices: 153608--154568 Score: 442
Period size: 44 Copynumber: 21.7 Consensus size: 44
153598 ATAAAAATGT
*
153608 CGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * * *
153652 CGATCTACCTCATTCTGTGATAGAATC-AAGCAAAAAGTTGACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAA-CGAGATGTCGATGC
* * * * * * * **** *
153696 TGATCCAACTCTTTCTGCGATGGATTTGAGCGAAGATAAAAATGT
1 CGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTCGATGC
*
153741 CGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * * * *
153785 TGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * *** *
153829 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGAT-AAAATGT
1 CGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTCGATGC
153873 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * * *
153917 CGGTCTACCTCCTTCTGTGATAGAATC-AAGCAAAAAGTTGACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAA-CGAGATGTCGATGC
* * * * * * **** *
153961 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGT
1 CGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTCGATGC
*
154006 CGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * * * * *
154050 TGATCTACCTCATTCTGTGATAGAATCGAGCAAAAAGTTGACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * ** * * * * **** *
154094 TGATCCAACTCTTTCTACGATGGATTTGAGCGAAATAAAAATGT
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* *
154138 CAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * * * *
154182 CGGTCTACCTCCTTCTGTGATAGAATC-AAGCAAAAAGTTGACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAA-CGAGATGTCGATGC
* * * * * * **** *
154226 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGT
1 CGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTCGATGC
* * * *
154271 CGATCTACCTCATTTTCTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * * * *
154315 CGGTCTACCTCCTTCTGTGATAGAATC-AAGGAAAAT-T-GACGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTCGATGC
* * * * * * * * **** **
154357 TGATCCAACTCTTTCTGCGATGGATTTGAGCAAAGATAAAAATAT
1 CGATCCACCTCCTTCTGTGATGGAATCGAAC-GAGATGTCGATGC
* * *
154402 CGATCTACCTCTTTTTGTGATGGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
** * *
154446 CGGTCTACTTCCTTCTCCTTTTGTGATGGAATCGAACGAGATATCGATGC
1 C-G---A--TCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * * *
154496 TGATCTACCTCCTTTTGTGATAGAATCGAACGAGATGTCGATGC
1 CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
* * *
154540 TGATCTACCTCCTTCTGTGATAGAATCGA
1 CGATCCACCTCCTTCTGTGATGGAATCGA
154569 GCTAAAAGTT
Statistics
Matches: 644, Mismatches: 251, Indels: 44
0.69 0.27 0.05
Matches are distributed among these distances:
42 22 0.03
43 18 0.03
44 452 0.70
45 113 0.18
46 1 0.00
48 1 0.00
49 1 0.00
50 36 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
Found at i:153769 original size:133 final size:133
Alignment explanation
Indices: 153527--154461 Score: 1599
Period size: 133 Copynumber: 7.1 Consensus size: 133
153517 CCAATTCCTT
* * *
153527 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCCTCTGTGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
153592 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
153657 TAC
131 TAC
* *
153660 CTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* *
153725 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
153790 TAC
131 TAC
*
153793 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
153858 GCGAAGAT-AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
153922 TAC
131 TAC
153925 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* *
153990 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
154055 TAC
131 TAC
* * * *
154058 CTCATTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
154123 GCGAA-ATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
154187 TAC
131 TAC
154190 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * *
154255 GCGAAGATAAAAATGTCGATCTACCTCATTTTCTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
154320 TAC
131 TAC
* *
154323 CTCCTTCTGTGATAGAATCAAG-GAAAA-TTGACGCTGATCCAACTCTTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * *
154386 GCAAAGATAAAAATATCGATCTACCTCTTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
154451 TAC
131 TAC
*
154454 TTCCTTCT
1 CTCCTTCT
154462 CCTTTTGTGA
Statistics
Matches: 762, Mismatches: 38, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
131 106 0.14
132 257 0.34
133 399 0.52
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (133 bp):
CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
TAC
Found at i:154001 original size:265 final size:266
Alignment explanation
Indices: 153527--154461 Score: 1635
Period size: 265 Copynumber: 3.5 Consensus size: 266
153517 CCAATTCCTT
* *
153527 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCCTCTGTGATGGATTTGA
1 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
153592 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
* *
153657 TACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
153722 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
153787 ATCTAC
261 ATCTAC
153793 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
153858 GCGAAGAT-AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
153922 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
153987 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
154052 ATCTAC
261 ATCTAC
* * *
154058 CTCATTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATTTGA
1 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
154123 GCGAA-ATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
154187 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
* * * *
154252 TGAGCGAAGATAAAAATGTCGATCTACCTCATTTTCTGATGGAATCGAACGAGATGTCGATGCCG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
*
154317 GTCTAC
261 ATCTAC
* * *
154323 CTCCTTCTGTGATAGAATCAAG-GAAAA-TTGACGCTGATCCAACTCTTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * *
154386 GCAAAGATAAAAATATCGATCTACCTCTTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
*
154451 TACTTCCTTCT
131 TACCTCCTTCT
154462 CCTTTTGTGA
Statistics
Matches: 641, Mismatches: 26, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
263 39 0.06
264 71 0.11
265 460 0.72
266 71 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (266 bp):
CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
ATCTAC
Found at i:154270 original size:398 final size:398
Alignment explanation
Indices: 153527--154453 Score: 1635
Period size: 398 Copynumber: 2.3 Consensus size: 398
153517 CCAATTCCTT
* * *
153527 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCCTCTGTGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
153592 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
*
153657 TACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTGCGATGGATT
131 TACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATT
* *
153722 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTG
196 TGAGCGAAGATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
*
153787 ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
261 ATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
* *
153852 ATTTGAGCGAAGATAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGC
326 ATTTGAGCGAAGATAAAATGTCGATCCACCTCATTCTCTGATGGAATCGAACGAGATGTCGATGC
153917 CGGTCTAC
391 CGGTCTAC
153925 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
153990 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
*
154055 TACCTCATTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATT
131 TACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATT
154120 TGAGCGAA-ATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
196 TGAGCGAAGATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
*
154184 GTCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
261 ATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
* *
154249 ATTTGAGCGAAGATAAAAATGTCGATCTACCTCATTTTCTGATGGAATCGAACGAGATGTCGATG
326 ATTTGAGCGAAGAT-AAAATGTCGATCCACCTCATTCTCTGATGGAATCGAACGAGATGTCGATG
154314 CCGGTCTAC
390 CCGGTCTAC
* *
154323 CTCCTTCTGTGATAGAATCAAG-GAAAA-TTGACGCTGATCCAACTCTTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * * *
154386 GCAAAGATAAAAATATCGATCTACCTCTTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
154451 TAC
131 TAC
154454 TTCCTTCTCC
Statistics
Matches: 506, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
396 97 0.19
397 135 0.27
398 274 0.54
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (398 bp):
CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGATC
TACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCTTTCTACGATGGATT
TGAGCGAAGATAAAAATGTCAATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
ATCTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
ATTTGAGCGAAGATAAAATGTCGATCCACCTCATTCTCTGATGGAATCGAACGAGATGTCGATGC
CGGTCTAC
Found at i:168225 original size:17 final size:17
Alignment explanation
Indices: 168199--168322 Score: 89
Period size: 17 Copynumber: 7.2 Consensus size: 17
168189 AAGAAGAAAT
*
168199 AAAA-GAGAAAAATGAG
1 AAAATGAGAAAAAAGAG
168215 AAAATGAGAAAAAAGA-
1 AAAATGAGAAAAAAGAG
168231 AAAATGATGGAAAAAA-ACG
1 AAAATGA--GAAAAAAGA-G
*
168250 AAAAGGAGAAAAAATG-G
1 AAAATGAGAAAAAA-GAG
**
168267 ACAAGGGAAGAAAAAATGA-
1 A-AAATG-AGAAAAAA-GAG
168286 AAAATGA-AAAAAAGAG
1 AAAATGAGAAAAAAGAG
*
168302 AAAAATGAAAAAAAAGAG
1 -AAAATGAGAAAAAAGAG
168320 AAA
1 AAA
168323 TAAAAGGAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 25
0.75 0.04 0.21
Matches are distributed among these distances:
15 2 0.02
16 17 0.19
17 31 0.34
18 23 0.26
19 17 0.19
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.06
Consensus pattern (17 bp):
AAAATGAGAAAAAAGAG
Found at i:168244 original size:35 final size:35
Alignment explanation
Indices: 168205--168322 Score: 91
Period size: 35 Copynumber: 3.4 Consensus size: 35
168195 AAATAAAAGA
*
168205 GAAAAATGAGAAAATGAGAAAAAAGAAAAATGATG
1 GAAAAATGAGAAAATGAGAAAAAAGAAAAATGAAG
* * * **
168240 GAAAAA-AACGAAAAGGAGAAAAAATGGACAAGGGAAG
1 GAAAAATGA-GAAAATGAGAAAAAA--GAAAAATGAAG
* *
168277 AAAAAATGA-AAAATGAAAAAAAGAGAAAAATGAA-
1 GAAAAATGAGAAAATGAGAAAAA-AGAAAAATGAAG
*
168311 -AAAAAAGAGAAA
1 GAAAAATGAGAAA
168323 TAAAAGGAGG
Statistics
Matches: 63, Mismatches: 14, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
33 7 0.11
34 4 0.06
35 27 0.43
36 11 0.17
37 13 0.21
38 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.07
Consensus pattern (35 bp):
GAAAAATGAGAAAATGAGAAAAAAGAAAAATGAAG
Found at i:168289 original size:8 final size:8
Alignment explanation
Indices: 168276--168314 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
168266 GACAAGGGAA
168276 GAAAAAAT
1 GAAAAAAT
168284 G-AAAAAT
1 GAAAAAAT
*
168291 GAAAAAAA
1 GAAAAAAT
168299 GAGAAAAAT
1 GA-AAAAAT
168308 GAAAAAA
1 GAAAAAA
168315 AAGAGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
GAAAAAAT
Found at i:168317 original size:18 final size:17
Alignment explanation
Indices: 168284--168322 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
168274 AAGAAAAAAT
168284 GAAAAATGAAAAAAAGA
1 GAAAAATGAAAAAAAGA
168301 GAAAAATGAAAAAAAAGA
1 GAAAAATG-AAAAAAAGA
168319 GAAA
1 GAAA
168323 TAAAAGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
GAAAAATGAAAAAAAGA
Found at i:169935 original size:55 final size:55
Alignment explanation
Indices: 169653--170113 Score: 366
Period size: 55 Copynumber: 8.6 Consensus size: 55
169643 GTTGAAGATT
* * ** * *
169653 GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAA-A--ATT-
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTT-TTATGAAGATTGTTC
* ** *
169704 GAGTCCTATACTCTCTGAATGAATA-AGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCCTATACTCTCTGAAGGAATAGA-GAGCGGACCCGTT-TTATGAAGATTGTTC
* * * ** *
169755 GAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTT-TTATGAAGATTGTTC
* * *
169806 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTTGTTGAAGATTGTTC
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTT-ATGAAGATTGTTC
* * *
169862 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATT-TTCC
1 GAGTCCTATACTCTCTGAA-GGAATAGAGAGCGGACCCGTTTTATGAAGATTGTT-C
* * * * * *
169917 GAGTCCTATACTTTCTGAAAGAATAGGGAGCGGACCTGTTTCATGAAGATTTTTC
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* *
169972 GAGTTCTATACTCTCTGAAGGAATAGAGAGTGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * * *
170028 AAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* *
170083 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCCTATACTCT-CTGAAGGAATAGAGAGC
170114 AGGCTCGTCA
Statistics
Matches: 354, Mismatches: 41, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.00
51 127 0.36
52 7 0.02
54 4 0.01
55 129 0.36
56 84 0.24
57 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:170001 original size:166 final size:162
Alignment explanation
Indices: 169755--170113 Score: 454
Period size: 166 Copynumber: 2.2 Consensus size: 162
169745 GTTGAAGATT
* * *
169755 GAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTTCTATACTCT
1 GAGTCATATACTTTCTGAAAGAATAGGGAGCGGACAAGTTCGATGAAGATTGAGTTCTATACTCT
* * * *
169820 CTGAAGGAATAGAGAGCGGACTCGTTTTGTTGAAGATTGTTCGAGT-TCTATACTCCCTGAACGG
66 CTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCT-TATACTCCCTGAACGA
* * * *
169884 ATAGGGAGCGGACCCGTTTTATGAAGATT-TTCC
130 ATAGAGAGCAGACACATTTTATGAAGATTGTT-C
* **
169917 GAGTCCTATACTTTCTGAAAGAATAGGGAGCGGACCTGTTTC-ATGAAGATTTTTCGAGTTCTAT
1 GAGTCATATACTTTCTGAAAGAATAGGGAGCGGACAAG-TTCGATGAAGA---TT-GAGTTCTAT
* *
169981 ACTCTCTGAAGGAATAGAGAGTGGACCCGTTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGA
61 ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCTTATACTCCCTGA
*
170046 ATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
126 ACGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
* * *
170083 GAGTCTTATACTTCCTGAAGGAATAGGGAGC
1 GAGTCATATACTTTCTGAAAGAATAGGGAGC
170114 AGGCTCGTCA
Statistics
Matches: 170, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
162 39 0.23
163 3 0.02
165 2 0.01
166 123 0.72
167 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (162 bp):
GAGTCATATACTTTCTGAAAGAATAGGGAGCGGACAAGTTCGATGAAGATTGAGTTCTATACTCT
CTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCTTATACTCCCTGAACGAA
TAGAGAGCAGACACATTTTATGAAGATTGTTC
Found at i:170077 original size:111 final size:109
Alignment explanation
Indices: 169811--170113 Score: 355
Period size: 111 Copynumber: 2.7 Consensus size: 109
169801 AGATTGAGTT
* ** *
169811 CTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTTGTTGAAGATTGTTCGAGTTCTATACTCC
1 CTATACTCTCTGAAAGAATAGAGAGCGGAC-C-TTTTCATGAAGATTGTTCGAGTTCTATACTCT
* *
169876 CTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTTTCCGAGTC
64 CTGAA-GGAATAGAGAGCGGACCCGTTTTATGAAGATTTTCCAAGTC
* * *
169922 CTATACTTTCTGAAAGAATAGGGAGCGGACCTGTTTCATGAAGATTTTTCGAGTTCTATACTCTC
1 CTATACTCTCTGAAAGAATAGAGAGCGGACCT-TTTCATGAAGATTGTTCGAGTTCTATACTCTC
*
169987 TGAAGGAATAGAGAGTGGACCCGTTTTATTGAAGATTGTT-CAAGTC
65 TGAAGGAATAGAGAGCGGACCCGTTTTA-TGAAGATT-TTCCAAGTC
* * *
170033 TTATACTCTCTGAATGAATAGAGAGCAGACACATTTT-ATGAAGATTGTTCGAG-TCTTATACT-
1 CTATACTCTCTGAAAGAATAGAGAGCGGAC-C-TTTTCATGAAGATTGTTCGAGTTC-TATACTC
*
170095 TCCTGAAGGAATAGGGAGC
63 T-CTGAAGGAATAGAGAGC
170114 AGGCTCGTCA
Statistics
Matches: 166, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
109 3 0.02
110 55 0.33
111 101 0.61
112 6 0.04
113 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (109 bp):
CTATACTCTCTGAAAGAATAGAGAGCGGACCTTTTCATGAAGATTGTTCGAGTTCTATACTCTCT
GAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTTTCCAAGTC
Found at i:170133 original size:55 final size:55
Alignment explanation
Indices: 169653--170113 Score: 345
Period size: 51 Copynumber: 8.6 Consensus size: 55
169643 GTTGAAGATT
* * ** * *
169653 GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAA-A--ATT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTT-TTATGAAGATTGTTC
* * ** *
169704 GAGTCCTATACTCTCTGAATGAATA-AGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGA-GAGCGGACCCGTT-TTATGAAGATTGTTC
* * * ** *
169755 GAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTT-TTATGAAGATTGTTC
* *
169806 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTTGTTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTT-ATGAAGATTGTTC
* *
169862 GAGT-TCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATT-TTCC
1 GAGTCT-TATACTCTCTGAA-GGAATAGAGAGCGGACCCGTTTTATGAAGATTGTT-C
* * * * * * *
169917 GAGTCCTATACTTTCTGAAAGAATAGGGAGCGGACCTGTTTCATGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
169972 GAGT-TCTATACTCTCTGAAGGAATAGAGAGTGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * *
170028 AAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
170083 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGC
170114 AGGCTCGTCA
Statistics
Matches: 353, Mismatches: 38, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.00
51 127 0.36
52 7 0.02
54 4 0.01
55 127 0.36
56 84 0.24
57 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:185425 original size:29 final size:29
Alignment explanation
Indices: 185371--185488 Score: 175
Period size: 29 Copynumber: 4.1 Consensus size: 29
185361 CAGGGAACAA
*
185371 GGGGTGAT-GGGGTTGGTGTTGAAAAAAAT
1 GGGGTGATAGGTGTTGGTGTTG-AAAAAAT
* *
185400 GGGATGATGGGTGTTGGTGTTGAAAAAAT
1 GGGGTGATAGGTGTTGGTGTTGAAAAAAT
*
185429 GGGGTGGTAGGTGTTGGTGTTGAAAAAAT
1 GGGGTGATAGGTGTTGGTGTTGAAAAAAT
*
185458 GGGGTGGTAGGTGTTGGTGTTGAAAAAAT
1 GGGGTGATAGGTGTTGGTGTTGAAAAAAT
185487 GG
1 GG
185489 TGTTTACAAT
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 71 0.86
30 12 0.14
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (29 bp):
GGGGTGATAGGTGTTGGTGTTGAAAAAAT
Found at i:192760 original size:28 final size:27
Alignment explanation
Indices: 192727--192783 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
192717 TATATTTAAG
*
192727 AAAAAAATTAAAATCTTTAAAAATCTTTT
1 AAAAAATTTAAAA-CTTTAAAAA-CTTTT
*
192756 AAAAAATTTAAAACTTTGAAAACTTTT
1 AAAAAATTTAAAACTTTAAAAACTTTT
192783 A
1 A
192784 TTTCAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 8 0.31
29 12 0.46
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAAAATTTAAAACTTTAAAAACTTTT
Found at i:193260 original size:27 final size:27
Alignment explanation
Indices: 193207--193258 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
193197 AGTGGGGGAT
*
193207 TTTTTATTTTTTAAATATAATAATTTA
1 TTTTTATTATTTAAATATAATAATTTA
193234 TTTTTATTCATTTAAATA-AA-AATTT
1 TTTTTATT-ATTTAAATATAATAATTT
193259 TAAAATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 10 0.43
28 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTATTATTTAAATATAATAATTTA
Found at i:194063 original size:89 final size:89
Alignment explanation
Indices: 193890--194222 Score: 490
Period size: 89 Copynumber: 3.7 Consensus size: 89
193880 CCATAACTGC
* * *
193890 GTCCGTAGGGCTTACCTTAAGCACATAGCAA-AAAGGGAGCCAACCTAAGGATATTCCTT-GGGC
1 GTCCGTAGGG-TTACCCTAAGCAC--A-CAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGC
* *
193953 CTATGGGTCTACCCAAGGGTATTCTTAG
62 CTATGGGCCTACCCAAGGGTATCCTTAG
* * *
193981 GTCCATAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCAAAGGATATGCCTTAGGGCCTAT
1 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
* *
194046 GGGCCTACCCAATGGTATCCTTTG
66 GGGCCTACCCAAGGGTATCCTTAG
* *
194070 GTCCGTAGGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
1 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
194135 GGGCCTACCCAAGGGTATCCTTAG
66 GGGCCTACCCAAGGGTATCCTTAG
**
194159 GTCCGTAGGGTTACCCTAAGCACACGGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
194223 CCCAAGGGTA
Statistics
Matches: 222, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
87 3 0.01
88 26 0.12
89 172 0.77
90 12 0.05
91 9 0.04
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (89 bp):
GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
GGGCCTACCCAAGGGTATCCTTAG
Found at i:194222 original size:178 final size:179
Alignment explanation
Indices: 193890--194222 Score: 544
Period size: 178 Copynumber: 1.9 Consensus size: 179
193880 CCATAACTGC
* * *
193890 GTCCGTAGGGCTTACCTTAAGCACATAGCAAAAAGGGAGCCAACCTAAGGATATTCCTTGGGCCT
1 GTCCGTAGGGCTTACCTTAAGCACACAGC-AAAAGGGAACCAACCTAAGGATATGCCTTGGGCCT
* *
193955 ATGGGTCTACCCAAGGGTATTCTTAGGTCCATAGGGTTACCCTAAGCACACAACAAAGGGAACCA
65 ATGGGCCTACCCAAGGGTATCCTTAGGTCCATAGGGTTACCCTAAGCACACAACAAAGGGAACCA
194020 ACCAAAGGATATGCCTTAGGGCCTATGGGCCTACCCAATGGTATCCTTTG
130 ACCAAAGGATATGCCTTAGGGCCTATGGGCCTACCCAATGGTATCCTTTG
194070 GTCCGTAGGG-TTACCTTAAGCACACAGC-AAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT
1 GTCCGTAGGGCTTACCTTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTT-GGGCCT
* **
194133 ATGGGCCTACCCAAGGGTATCCTTAGGTCCGTAGGGTTACCCTAAGCACACGGCAAAGGGAACCA
65 ATGGGCCTACCCAAGGGTATCCTTAGGTCCATAGGGTTACCCTAAGCACACAACAAAGGGAACCA
* *
194198 ACCTAAGGATATGCCTTGGGGCCTA
130 ACCAAAGGATATGCCTTAGGGCCTA
194223 CCCAAGGGTA
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
177 26 0.18
178 89 0.63
179 17 0.12
180 10 0.07
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (179 bp):
GTCCGTAGGGCTTACCTTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATGCCTTGGGCCTA
TGGGCCTACCCAAGGGTATCCTTAGGTCCATAGGGTTACCCTAAGCACACAACAAAGGGAACCAA
CCAAAGGATATGCCTTAGGGCCTATGGGCCTACCCAATGGTATCCTTTG
Found at i:195905 original size:2 final size:2
Alignment explanation
Indices: 195898--195933 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
195888 AATAAAAATA
*
195898 AT AT AT AT AA AT -T AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
195934 CGTAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:196265 original size:69 final size:69
Alignment explanation
Indices: 196185--196320 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
196175 GAATTACCAT
* *
196185 ACTTTTAATATATAATATAAAGGTAAAGTAATCATACATAAAATATATATAAGACACCACAACCA
1 ACTTTTAATATATAACATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
196250 ACAC
66 ACAC
196254 ACTTTTAATATATAACATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
1 ACTTTTAATATATAACATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
196319 AC
66 AC
196321 GTGGGTCACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (69 bp):
ACTTTTAATATATAACATAAAGGTAAAGTAAACATACATAAAATATATATAAGACACCACAACCA
ACAC
Found at i:207548 original size:24 final size:24
Alignment explanation
Indices: 207497--207563 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
207487 TCCGATCTAG
* *
207497 ATTCTGTTCTGATACCTGACATGG
1 ATTCTGTTCTGATATCTGACATGA
*
207521 ATTCTGTTCTGATATCTGACTTGA
1 ATTCTGTTCTGATATCTGACATGA
* * *
207545 ATTCAGTTTTGATTTCTGA
1 ATTCTGTTCTGATATCTGA
207564 TATCTCCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (24 bp):
ATTCTGTTCTGATATCTGACATGA
Found at i:213603 original size:60 final size:60
Alignment explanation
Indices: 213528--213661 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 60
213518 ATATAAGGAT
* * * * * * *
213528 AAAG-TACACAAATGGTCTCCCGATTATAGGATGTTATTTTGTTGAGTCCCTTGGCTATTG
1 AAAGTTACA-AAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
*
213588 AAAGTTGCAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
1 AAAGTTACAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
213648 AAAGTTACAAAATG
1 AAAGTTACAAAATG
213662 ATCACTCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCCCCGATTATAGAACGTTAATTTGTTGAGTCCCTCGACTATTA
Found at i:222929 original size:18 final size:18
Alignment explanation
Indices: 222908--222945 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
222898 CCTTACACAC
222908 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
*
222926 TTTGCCACGACAACACCA
1 TTTGCCACAACAACACCA
222944 TT
1 TT
222946 CATACTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.37, G:0.08, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:227841 original size:23 final size:23
Alignment explanation
Indices: 227815--227878 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
227805 CAGCTCATAT
227815 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTAAGTGCCACGTAG
227838 AATTGCACC-AGAGTGCCACGTAG
1 AATTGCACCTA-AGTGCCACGTAG
227861 AATTGCACCGT-AGTGCCA
1 AATTGCACC-TAAGTGCCA
227879 TATAATAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (23 bp):
AATTGCACCTAAGTGCCACGTAG
Found at i:228119 original size:103 final size:103
Alignment explanation
Indices: 227896--228212 Score: 573
Period size: 103 Copynumber: 3.1 Consensus size: 103
227886 ATGTCATAAG
* *
227896 GACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
227961 TT-ACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAT
227998 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
228063 TTCACACATGTTCCAAAGAATACATATATATCCCGAAT
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAT
228101 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
* *
228166 CTCACACGTGTTCCAAAGAATACATATATGTCCCGAAT
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAT
228204 GACCACATA
1 GACCACATA
228213 GACCCTCTAC
Statistics
Matches: 207, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
102 65 0.31
103 142 0.69
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAT
Found at i:231665 original size:18 final size:18
Alignment explanation
Indices: 231628--231665 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
231618 CCTTACACAC
*
231628 TTTGCCACAACAACATCA
1 TTTGCCACAACAACACCA
*
231646 TTTGCCACAACAACGCCA
1 TTTGCCACAACAACACCA
231664 TT
1 TT
231666 CATACTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.08, T:0.24
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:232432 original size:2 final size:2
Alignment explanation
Indices: 232425--232461 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
232415 TAAAAATGTG
232425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
232462 TAAAATTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:233980 original size:2 final size:2
Alignment explanation
Indices: 233973--234005 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
233963 TTAGATTACA
*
233973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
234006 GCTCTACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:238503 original size:33 final size:33
Alignment explanation
Indices: 238451--238619 Score: 241
Period size: 33 Copynumber: 5.1 Consensus size: 33
238441 TTTTATCCTC
*
238451 CTCAACTTTACGTTTTTCTTCCACTTTGGGGTT
1 CTCAACTTTCCGTTTTTCTTCCACTTTGGGGTT
* * *
238484 CTCAGCTTTTCGTTTTTCTTCCACCTTGGGGTT
1 CTCAACTTTCCGTTTTTCTTCCACTTTGGGGTT
* *
238517 CTCAACTCTCCGTTTTTCTTCCACCTTGGGGTT
1 CTCAACTTTCCGTTTTTCTTCCACTTTGGGGTT
* *
238550 CTCAACTCTCCGTTTTTCTTCCACTTTGGAGTT
1 CTCAACTTTCCGTTTTTCTTCCACTTTGGGGTT
*
238583 CTCAACTTTCC-TTTTATCTTCCACTTTGGAGTT
1 CTCAACTTTCCGTTTT-TCTTCCACTTTGGGGTT
238616 CTCA
1 CTCA
238620 GTCTGTAACA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
32 4 0.03
33 122 0.97
ACGTcount: A:0.11, C:0.29, G:0.14, T:0.46
Consensus pattern (33 bp):
CTCAACTTTCCGTTTTTCTTCCACTTTGGGGTT
Found at i:241486 original size:22 final size:22
Alignment explanation
Indices: 241443--241490 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
241433 CAAACGACCA
*
241443 AAAATATGTCATAAAATTAGAG
1 AAAATATGTCATAAAATCAGAG
*
241465 AAAATGTGTCATAAAGA-CAGAG
1 AAAATATGTCATAAA-ATCAGAG
241487 AAAA
1 AAAA
241491 ACATAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.21
Consensus pattern (22 bp):
AAAATATGTCATAAAATCAGAG
Found at i:242452 original size:60 final size:60
Alignment explanation
Indices: 242349--242494 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 60
242339 CAAAATGGGT
* * *
242349 AAAG-TACACAAATGGTCC-CCTGACTATAAGGTCTTGCATTGTTGAGT-CTCCCAACTATTA
1 AAAGTTACA-AAATGGTCCTCC-GACTATAAGATATTACATTGTTGAGTCCT-CCAACTATTA
* * * * *
242409 AAGGTTACATAATGGTCCTCCGACTATAAGATATTACTTTGTTGAGTCCTCCGATTATTA
1 AAAGTTACAAAATGGTCCTCCGACTATAAGATATTACATTGTTGAGTCCTCCAACTATTA
242469 AAAGTTACAAAAT-GTCGCTCC-ACTAT
1 AAAGTTACAAAATGGTC-CTCCGACTAT
242495 TCGTATCTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
59 8 0.11
60 56 0.78
61 8 0.11
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCTCCGACTATAAGATATTACATTGTTGAGTCCTCCAACTATTA
Found at i:248667 original size:29 final size:31
Alignment explanation
Indices: 248635--248693 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
248625 TTTTTTGGAT
*
248635 AATATTTATTTTAT-TTTTA-TTTTGATAAA
1 AATAATTATTTTATCTTTTATTTTTGATAAA
248664 AATAATTATTTTATCTTTTATTTTTGATAA
1 AATAATTATTTTATCTTTTATTTTTGATAA
248694 CATTAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (31 bp):
AATAATTATTTTATCTTTTATTTTTGATAAA
Found at i:252017 original size:51 final size:50
Alignment explanation
Indices: 251962--252096 Score: 123
Period size: 51 Copynumber: 2.7 Consensus size: 50
251952 CCCTGCCCTA
251962 CGCTATATGCTGATTTGGCGTCACGTGGGGTATAACACGCCCCCTG-TACCG
1 CGCTATA-GCTGATTTGGCGTCACGTGGGGTATAACACGCCCCCTGTTA-CG
** * * * *
252013 CGCTATACGCTGACATGGCTTACACGT-GGGTATAGCGCGCGCCCTGTTACG
1 CGCTATA-GCTGATTTGGCGT-CACGTGGGGTATAACACGCCCCCTGTTACG
** *
252064 CGCTATAGCTG-TTTATCTGACACGTGGGGTATA
1 CGCTATAGCTGATTTGGC-GTCACGTGGGGTATA
252097 GCGTGGTACA
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
49 7 0.10
50 11 0.16
51 42 0.63
52 7 0.10
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.27
Consensus pattern (50 bp):
CGCTATAGCTGATTTGGCGTCACGTGGGGTATAACACGCCCCCTGTTACG
Found at i:252160 original size:22 final size:22
Alignment explanation
Indices: 252129--252178 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
252119 TACCTTTAAT
252129 TACCCCCAACCTTCCCTATAAA
1 TACCCCCAACCTTCCCTATAAA
*
252151 TACCCTCAACCTTCCCTATAAA
1 TACCCCCAACCTTCCCTATAAA
252173 TACCCC
1 TACCCC
252179 TCGTCCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (22 bp):
TACCCCCAACCTTCCCTATAAA
Found at i:252309 original size:17 final size:18
Alignment explanation
Indices: 252273--252313 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
252263 ATATTATGTA
*
252273 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
252291 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
252308 TTTACT
1 TTTACT
252314 AATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:256146 original size:52 final size:53
Alignment explanation
Indices: 255991--256299 Score: 329
Period size: 52 Copynumber: 5.9 Consensus size: 53
255981 TGGGTTCGCT
* * **
255991 CCCT-TTTCTTCAGAG-GTATAAGACTTGAATCATCTTCAACAAACTTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGAC-TCAA-CATCTTCAACAATCGCGTCTGCC
256044 CCCTA-TTCTTCAGAGAGTATAA-AC-CATA-ATCTTC-ACAATCGCGTCTG-C
1 CCCTATTTCTTCAGAGAGTATAAGACTCA-ACATCTTCAACAATCGCGTCTGCC
* * * *
256092 CCCTATTTCTTCA-AGAGTATAAGACTCGAACGTCTTCAACGATTGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACATCTTCAACAATCGCGTCTGCC
* * *
256145 CCCTATATCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATCGCGTCTG-C
1 CCCTATTTCTTCAGAGAGTATAAGACTCAAC-ATCTTCAACAATCGCGTCTGCC
*
256197 CCCTATTTCTTCAGAGAGTATAAGACTC-ACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCAAC-ATCTTCAACAATCGCGTCTGCC
* *
256250 CCCTATTT-TTCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AAC-ATCTTCAACAATCGCGTC
256300 AGAGAGTATA
Statistics
Matches: 221, Mismatches: 19, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
48 15 0.07
49 19 0.09
50 8 0.04
51 7 0.03
52 81 0.37
53 55 0.25
54 36 0.16
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (53 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCAACATCTTCAACAATCGCGTCTGCC
Found at i:256209 original size:105 final size:103
Alignment explanation
Indices: 255991--256299 Score: 380
Period size: 105 Copynumber: 3.0 Consensus size: 103
255981 TGGGTTCGCT
* *
255991 CCCT-TTTCTTC-AGAGGTATAAGACTTGAATCATCTTCAACAAACT-TGTCTGCCCCCTATTCT
1 CCCTATTTCTTCAAGA-GTATAAGACTCGAA-CATCTTCAAC-AATTGTGTCTGCCCCCTATTCT
*
256053 TCAGAGAGTATAA-A-CCATAATCTTCACAATCGCGTCTGC
63 TCAGAGAGTATAAGACCCACAATCTTCACAATCGCGTCTGC
* *
256092 CCCTATTTCTTCAAGAGTATAAGACTCGAACGTCTTCAACGATTGTGTCTGCCCCCTATATCTTC
1 CCCTATTTCTTCAAGAGTATAAGACTCGAACATCTTCAACAATTGTGTCTGCCCCCTAT-TCTTC
256157 AGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGC
65 AGAGAGTATAAGACCCACAATCTTCA-CAATCGCGTCTGC
* * * *
256197 CCCTATTTCTTCAGAGAGTATAAGACTC--ACAATCTTCATCAATCGCGTCTGCCCCCTATTTTT
1 CCCTATTTCTTCA-AGAGTATAAGACTCGAAC-ATCTTCAACAATTGTGTCTGCCCCCTATTCTT
* *
256260 CAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCGTC
64 CAGAGAGTATAAGAC-C-CACAATCTT-CACAATCGCGTC
256300 AGAGAGTATA
Statistics
Matches: 183, Mismatches: 13, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
100 2 0.01
101 27 0.15
102 36 0.20
103 4 0.02
104 31 0.17
105 50 0.27
106 31 0.17
107 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (103 bp):
CCCTATTTCTTCAAGAGTATAAGACTCGAACATCTTCAACAATTGTGTCTGCCCCCTATTCTTCA
GAGAGTATAAGACCCACAATCTTCACAATCGCGTCTGC
Found at i:256313 original size:39 final size:39
Alignment explanation
Indices: 256259--256337 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
256249 CCCCTATTTT
256259 TCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCG
1 TCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCG
256298 TCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCG
1 TCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCG
256337 T
1 T
256338 GCCCCCTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (39 bp):
TCAGAGAGTATAAGACTCGAACAATCTTCCACGATCGCG
Found at i:256539 original size:49 final size:50
Alignment explanation
Indices: 256380--257115 Score: 714
Period size: 49 Copynumber: 14.8 Consensus size: 50
256370 CAATCTTCAA
* * * * *
256380 CAAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTCGAACA--TCTT
* * *
256433 CAAACGGG-TCGCTCCTTCCTTCTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGAGTATGGAACTCGAACATCTT
* *
256482 C-AACGGGTTCGCT-CTTCTTTCTTTAGGAGTATAGAACTCGAACATCTC
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGAGTATGGAACTCGAACATCTT
*
256530 CAAACGGGTTCGCTCC-T-TTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTT-AGGAGTATGGAACTCGAACATCTT
* *
256579 CAAATGGGTTTGC-CC--CTTTC-TTAGGGAGTATGGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTCGAACA--TCTT
*
256628 C--ACGGGTTCGCTCCCTCTTTC-TTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTCGAACATCTT
*
256676 C-AACTGGGTTCG-TCC-TCTTTCTTAAGGAGTATGGAACT-GAACATCTT
1 CAAAC-GGGTTCGCTCCTTCTTTCTTTAGGAGTATGGAACTCGAACATCTT
* *
256723 -AAACGGGTTCGCTCCTTCTTTCTTTAAGGATTATAGAACTCG--CTATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTT-AGGAGTATGGAACTCGAAC-ATCTT
* * *
256772 CACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTATT
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTCGA-ACATC--TT
*
256825 CAAACGGGCTCGCTCCTT-TTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTT-AGGAGTATGGAACTCGAACATCTT
* * * * *
256875 -AAACGGTTTCGCTCCTTC-TTCTTTAAGGATTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTT-AGGAGTATGGAACTCGAACATCTT
** * * *
256924 CACGCGGGTTCGCTCCTTCCTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTCGAACATCTT
* * * * * *
256975 -TAACAGGTTCGCTCATTCTTTCTTAAGGAGTATAGAACTC-AATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGAGTATGGAACTCGAACATCTT
* * *
257023 CACACGGGTTCGCTCCTTCCTTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTT-CTTTCTTTA-GGAGTATGGAACTCGAACATCTT
* * *
257075 CAAACAGGTTCGCTCCCTC-TTCTCTAGGGAGTATGGAACTC
1 CAAACGGGTTCGCTCCTTCTTTCTTTA-GGAGTATGGAACTC
257116 AAATAATCTT
Statistics
Matches: 581, Mismatches: 65, Indels: 77
0.80 0.09 0.11
Matches are distributed among these distances:
46 8 0.01
47 43 0.07
48 93 0.16
49 155 0.27
50 136 0.23
51 60 0.10
52 60 0.10
53 26 0.04
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (50 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAGGAGTATGGAACTCGAACATCTT
Found at i:256565 original size:97 final size:98
Alignment explanation
Indices: 256385--257115 Score: 679
Period size: 100 Copynumber: 7.4 Consensus size: 98
256375 TTCAACAAAT
* *
256385 GGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGG-TCGCTCCT
1 GGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTC--CAAACGGGTTCGCTCCT
*
256449 TCCTTC-TTAAGGAGTATAGAACTCGAACATCTTCAAC
63 T--TTCTTTAAGGAGTATGGAACTCGAACATCTTCAAC
*
256486 GGGTTCGCTCTTCTTTCTTTA-GGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCCTTTT
1 GGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCCTTTT
* *
256550 CTTTAAGGAGTATAGAACTCGAACATCTTCAAAT
66 CTTTAAGGAGTATGGAACTCGAACATCTTC-AAC
* * ***
256584 GGGTTTGC-CC-CTTTC-TTAGGGAGTATGGAACTCGAACATCTCTTCACGGGTTCGCTCCCTCT
1 GGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCT-CCT-T
*
256646 TTC-TTAGGGAGTATGGAACTCGAACATCTTCAAC
64 TTCTTTAAGGAGTATGGAACTCGAACATCTTCAAC
* * *
256680 TGGGTTCG-TCCTCTTTC-TTAAGGAGTATGGAACT-GAACATCT-TAAACGGGTTCGCTCCTTC
1 -GGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCC-T-
* *
256741 TTTCTTTAAGGATTATAGAACTCG--CTATCTTCACAC
63 TTTCTTTAAGGAGTATGGAACTCGAAC-ATCTTCA-AC
* * * *
256777 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTATTCAAACGGGCTCGCTCC
1 GGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGA-ACATC--TCCAAACGGGTTCGCTCC
*
256841 TTTTTCTTTAAGGAGTATGGAACTCGAACATCTTAAAC
62 -TTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAC
* * * * * * **
256879 GGTTTCGCTCCT-TCTTCTTTAAGGATTATAGAACTCGCATATCTTCACGCGGGTTCGCTCCTTC
1 GGGTTCGCTCCTCT-TTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCCTT-
* * * *
256943 CTTCTCTAGGGAGTATGGAACTCGGACATCTTTAAC
64 -TTCTTTAAGGAGTATGGAACTCGAACATCTTCAAC
* * * * * *
256979 AGGTTCGCTCATTCTTTC-TTAAGGAGTATAGAACTC-AATATCTTCACACGGGTTCGCTCCTTC
1 GGGTTCGCTC-CTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCC-T-
* * *
257042 CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAAC
63 -TTTCTTTAAGGAGTATGGAACTCGAACATCTTC-AAC
* * *
257080 AGGTTCGCTCC-CTCTTCTCTAGGGAGTATGGAACTC
1 GGGTTCGCTCCTCT-TTCTTTAGGGAGTATAGAACTC
257116 AAATAATCTT
Statistics
Matches: 543, Mismatches: 52, Indels: 70
0.82 0.08 0.11
Matches are distributed among these distances:
95 6 0.01
96 75 0.14
97 101 0.19
98 53 0.10
99 78 0.14
100 106 0.20
101 66 0.12
102 35 0.06
103 22 0.04
104 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (98 bp):
GGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCCAAACGGGTTCGCTCCTTTT
CTTTAAGGAGTATGGAACTCGAACATCTTCAAC
Found at i:257569 original size:34 final size:36
Alignment explanation
Indices: 257512--257657 Score: 169
Period size: 34 Copynumber: 4.2 Consensus size: 36
257502 AAAATGGATC
*
257512 TGCTTCACTACT-TTTGGTGAAGACTT-AGATGG-T
1 TGCTTCACTACTCTCTGGTGAAGACTTCAGATGGTT
257545 TGCTTCACTACTCTCTGGTGAAGACTT-ATGATGGTT
1 TGCTTCACTACTCTCTGGTGAAGACTTCA-GATGGTT
* * * * *
257581 TGCTTCACTATTCTCCGGTGAAGGCTTCAGATTG-A
1 TGCTTCACTACTCTCTGGTGAAGACTTCAGATGGTT
* *
257616 TGCTTCACTATTCTC-GGTGAAGGCTTCAGATGGTT
1 TGCTTCACTACTCTCTGGTGAAGACTTCAGATGGTT
257651 TGCTTCA
1 TGCTTCA
257658 TATTCTCCAG
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
33 12 0.12
34 31 0.31
35 27 0.27
36 29 0.29
37 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (36 bp):
TGCTTCACTACTCTCTGGTGAAGACTTCAGATGGTT
Found at i:257601 original size:70 final size:69
Alignment explanation
Indices: 257527--257670 Score: 193
Period size: 70 Copynumber: 2.1 Consensus size: 69
257517 CACTACTTTT
*
257527 GGTGAAGACTT-AGATGGTTGCTTCACTACTCTCTGGTGAAGACTT-ATGATGGTTTGCTTCACT
1 GGTGAAGACTTCAGATGGATGCTTCACTACTCTC-GGTGAAGACTTCA-GATGGTTTGCTTCA-T
257590 ATTCTCC
63 ATTCTCC
* * * *
257597 GGTGAAGGCTTCAGATTGATGCTTCACTATTCTCGGTGAAGGCTTCAGATGGTTTGCTTCATATT
1 GGTGAAGACTTCAGATGGATGCTTCACTACTCTCGGTGAAGACTTCAGATGGTTTGCTTCATATT
257662 CTCC
66 CTCC
*
257666 AGTGA
1 GGTGA
257671 GGCTTAGGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
69 12 0.18
70 34 0.52
71 20 0.30
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (69 bp):
GGTGAAGACTTCAGATGGATGCTTCACTACTCTCGGTGAAGACTTCAGATGGTTTGCTTCATATT
CTCC
Found at i:257674 original size:34 final size:36
Alignment explanation
Indices: 257527--257675 Score: 177
Period size: 34 Copynumber: 4.3 Consensus size: 36
257517 CACTACTTTT
* * *
257527 GGTGAAGACTT-AGATGG-TTGCTTCACTACTCTCT
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
*
257561 GGTGAAGACTT-ATGATGGTTTGCTTCACTATTCTCC
1 GGTGAAGGCTTCA-GATGGTTTGCTTCACTATTCTCC
* *
257597 GGTGAAGGCTTCAGATTG-ATGCTTCACTATTCT-C
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
257631 GGTGAAGGCTTCAGATGGTTTGCTTCA-TATTCTCC
1 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
*
257666 AGTG-AGGCTT
1 GGTGAAGGCTT
257676 AGGATTGACT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
34 42 0.41
35 30 0.29
36 29 0.28
37 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (36 bp):
GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
Found at i:258653 original size:121 final size:122
Alignment explanation
Indices: 258374--258672 Score: 408
Period size: 121 Copynumber: 2.4 Consensus size: 122
258364 TCAATAATTT
* **
258374 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTTGGTCTCGCCCCAACATTATCTTACAC
1 CTTGGTCTGAATC-TTTCATCTCAACATGATGTGGGTTCAGTCT-GCCCCAACATTATCTTACAC
* * * * *
258439 TGGTAAGGGCCTTCAAAATGCCCATCACCTCAAATTGTGAGGCTCATTCTTTATGCCTC
64 TGGTAAGGGCCATCAAAATGCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
*
258498 CTTGGTCTGAATCGTTTCATCTCAACATGATGTGGGTTCAGTCATG-CCCAACATTAT-TTATAC
1 CTTGGTCTGAATC-TTTCATCTCAACATGATGTGGGTTCAGTC-TGCCCCAACATTATCTTACAC
*
258561 TGGTACGGG-CATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
64 TGGTAAGGGCCATCAAAATG-CCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
* *
258620 C-TGGTCTGAATCTTGTCTTCTCAACATGATGTGGGTTCAATCTGCCCCAACAT
1 CTTGGTCTGAATCTT-TCATCTCAACATGATGTGGGTTCAGTCTGCCCCAACAT
258673 ATCACAACTT
Statistics
Matches: 158, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
120 4 0.03
121 53 0.34
122 49 0.31
123 11 0.07
124 40 0.25
125 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (122 bp):
CTTGGTCTGAATCTTTCATCTCAACATGATGTGGGTTCAGTCTGCCCCAACATTATCTTACACTG
GTAAGGGCCATCAAAATGCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
Found at i:262530 original size:20 final size:21
Alignment explanation
Indices: 262505--262641 Score: 83
Period size: 21 Copynumber: 6.6 Consensus size: 21
262495 AATGTGAAGT
262505 GGTCTTCAT-GTCGTTATG-AA
1 GGTCTTC-TCGTCGTTATGAAA
262525 GGTCTTCTCGTCGTTATGAAA
1 GGTCTTCTCGTCGTTATGAAA
*
262546 GGTCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
* * *
262567 TGCCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
262588 GG-CATTCTCGTC-TTGATG-AA
1 GGTC-TTCTCGTCGTT-ATGAAA
* * *
262608 TGACATTCTCGTC-TTGATGAAT
1 GGTC-TTCTCGTCGTT-ATGAAA
*
262630 GCTCTTCTCGTC
1 GGTCTTCTCGTC
262642 CTTGGTACAA
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
19 1 0.01
20 21 0.21
21 77 0.76
22 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (21 bp):
GGTCTTCTCGTCGTTATGAAA
Found at i:262549 original size:21 final size:21
Alignment explanation
Indices: 262523--262641 Score: 118
Period size: 21 Copynumber: 5.7 Consensus size: 21
262513 TGTCGTTATG
262523 AAGGTCTTCTCGTCGTT-ATGA
1 AAGGTCTTCTCGTC-TTGATGA
262544 AAGGTCTTCTCGTCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
** *
262565 ATTGCCTTCTCGTCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
*
262586 ATGG-CATTCTCGTCTTGATG-
1 AAGGTC-TTCTCGTCTTGATGA
* *
262606 AATGACATTCTCGTCTTGATGA
1 AAGGTC-TTCTCGTCTTGATGA
* *
262628 ATGCTCTTCTCGTC
1 AAGGTCTTCTCGTC
262642 CTTGGTACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.06
21 77 0.92
22 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (21 bp):
AAGGTCTTCTCGTCTTGATGA
Found at i:262586 original size:42 final size:42
Alignment explanation
Indices: 262528--262641 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 42
262518 TTATGAAGGT
*
262528 CTTCTCGTCGTT-ATGAAAGGTCTTCTCGTCTTGATGAATTG-C
1 CTTCTCGTC-TTGATGAATGGTCTTCTCGTCTTGATGAA-TGAC
262570 CTTCTCGTCTTGATGAATGG-CATTCTCGTCTTGATGAATGAC
1 CTTCTCGTCTTGATGAATGGTC-TTCTCGTCTTGATGAATGAC
* *
262612 ATTCTCGTCTTGATGAATGCTCTTCTCGTC
1 CTTCTCGTCTTGATGAATGGTCTTCTCGTC
262642 CTTGGTACAA
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
41 5 0.08
42 59 0.91
43 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (42 bp):
CTTCTCGTCTTGATGAATGGTCTTCTCGTCTTGATGAATGAC
Found at i:276102 original size:9 final size:9
Alignment explanation
Indices: 276088--276127 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
276078 GCTGCTGGAA
*
276088 ACCGGTTTG
1 ACCGGTCTG
276097 ACCGGTCTG
1 ACCGGTCTG
*
276106 AACCGGTTTG
1 -ACCGGTCTG
276116 ACCGGTCTG
1 ACCGGTCTG
276125 ACC
1 ACC
276128 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:276111 original size:19 final size:19
Alignment explanation
Indices: 276087--276125 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
276077 GGCTGCTGGA
276087 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
276106 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
276125 A
1 A
276126 CCCGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:276145 original size:17 final size:17
Alignment explanation
Indices: 276123--276183 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
276113 TTGACCGGTC
276123 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
276140 TGACCCGACCCGATCCGACCGT
1 TGACCCGA--C---CCGACCGT
276162 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
276179 TGACC
1 TGACC
276184 GTTGACTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 21 0.54
19 1 0.03
20 1 0.03
22 16 0.41
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:276150 original size:22 final size:22
Alignment explanation
Indices: 276124--276176 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
276114 TGACCGGTCT
276124 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
276146 GACCCGATCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
276168 GACCCGACC
1 GACCCGACC
276177 GTTGACCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:276183 original size:12 final size:12
Alignment explanation
Indices: 276129--276171 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
276119 GGTCTGACCC
276129 GACCCGACCGTT
1 GACCCGACCGTT
*
276141 GACCCGACC--C
1 GACCCGACCGTT
*
276151 GATCCGACCGTT
1 GACCCGACCGTT
276163 GACCCGACC
1 GACCCGACC
276172 CGACCGTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.12
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:283410 original size:19 final size:19
Alignment explanation
Indices: 283356--283452 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
283346 GGCTGCTGGA
* *
283356 AACCGGTTTAACCGGTTTTG
1 AACCGGTTTGACCGG-TCTG
*
283376 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
*
283395 AATCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
283414 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
283433 AACCGGTTTGATCGGTCTG
1 AACCGGTTTGACCGGTCTG
283452 A
1 A
283453 CCTAACCCGA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
18 1 0.01
19 54 0.78
20 14 0.20
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.30
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Done.