Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_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: 1119982
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:253420 original size:42 final size:42
Alignment explanation
Indices: 253365--253471 Score: 180
Period size: 42 Copynumber: 2.5 Consensus size: 42
253355 ACCTGATTAC
253365 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
253407 TTAACTTTAATGATTTAATAATAATTACTTGACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
253449 TTATA-TTTAATGATATAATAATA
1 TTA-ACTTTAATGATTTAATAATA
253472 GTAAATATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (42 bp):
TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
Found at i:253424 original size:28 final size:27
Alignment explanation
Indices: 253365--253462 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 27
253355 ACCTGATTAC
* * *
253365 TTAACTTTAATGATTTAA-TAATAATTAC
1 TTAA-TTTAATGATTTAACT-TTAATGAT
253393 TTAACTTTAATGATTTAACTTTAATGAT
1 TTAA-TTTAATGATTTAACTTTAATGAT
* * * *
253421 TTAATAATAATTACTTGACTTTAATGAT
1 TTAAT-TTAATGATTTAACTTTAATGAT
253449 TTATATTTAATGAT
1 TTA-ATTTAATGAT
253463 ATAATAATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 53 0.93
29 3 0.05
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (27 bp):
TTAATTTAATGATTTAACTTTAATGAT
Found at i:255994 original size:28 final size:28
Alignment explanation
Indices: 255941--255994 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
255931 GGTCCAAAGC
* *
255941 TTATTTCAAATTATGTAACAACATATCA
1 TTATTTCAAAGTATGTAACAAAATATCA
* *
255969 TTATTTCGAAGTATGTAATAAAATAT
1 TTATTTCAAAGTATGTAACAAAATAT
255995 AATCACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (28 bp):
TTATTTCAAAGTATGTAACAAAATATCA
Found at i:256472 original size:27 final size:29
Alignment explanation
Indices: 256434--256498 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
256424 CCCCGTGAAT
*
256434 TCCCAC-GTCCAGCC-CCACATGCAGAGC
1 TCCCACTGTCCAGCCGCCACATGCACAGC
256461 TCCCACTG-CCAGCCAGGGCCACATGCACAGC
1 TCCCACTGTCCAGCC---GCCACATGCACAGC
256492 TCCCACT
1 TCCCACT
256499 TTTAACAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 12 0.38
28 1 0.03
31 19 0.59
ACGTcount: A:0.22, C:0.48, G:0.18, T:0.12
Consensus pattern (29 bp):
TCCCACTGTCCAGCCGCCACATGCACAGC
Found at i:257194 original size:20 final size:21
Alignment explanation
Indices: 257169--257219 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
257159 AATGCCCAAT
* *
257169 AATAATAAAACTGATA-AAAG
1 AATAATAAAACCGATAGAAAA
257189 AATAATAAAACCGATAGAAAA
1 AATAATAAAACCGATAGAAAA
*
257210 AATAACAAAA
1 AATAATAAAA
257220 TCAATAGCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.16
Consensus pattern (21 bp):
AATAATAAAACCGATAGAAAA
Found at i:257226 original size:21 final size:22
Alignment explanation
Indices: 257184--257226 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
257174 TAAAACTGAT
* *
257184 AAAAGAATAATAAAACCGATAG
1 AAAAGAATAACAAAACCAATAG
*
257206 AAAA-AATAACAAAATCAATAG
1 AAAAGAATAACAAAACCAATAG
257227 CACTTTATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAAGAATAACAAAACCAATAG
Found at i:261487 original size:256 final size:255
Alignment explanation
Indices: 261032--261543 Score: 990
Period size: 256 Copynumber: 2.0 Consensus size: 255
261022 AAGGGAAAAA
261032 ACCGGCAACCCAGATCAGAAACAACAGAAGAAGCAAACCCAGTTGGCTCGACGAGGAAGATGATT
1 ACCGGCAACCCAGATCAGAAACAACAGAAGAAGC-AACCCAGTTGGCTCGACGAGGAAGATGATT
261097 CTGATTTAGTATCGGAGTTTCGAGATCTCCCGACCAAGTTCCAGGAAACCTGATCCCGGACCTTG
65 CTGATTTAGTATCGGAGTTTCGAGATCTCCCGACCAAGTTCCAGGAAACCTGATCCCGGACCTTG
261162 AGATGATCTCGAGAACCTCAAAAGTTTACATCACCAAATACAACAAAGAGTTCACCAAACAGTTC
130 AGATGATCTCGAGAACCTCAAAAGTTTACATCACCAAATACAACAAAGAGTTCACCAAACAGTTC
261227 AAACCATATGTCGGCAACAAACACGCCCCCACCATCGCCACTGTAATCTCTTGTGCTTTCC
195 AAACCATATGTCGGCAACAAACACGCCCCCACCATCGCCACTGTAATCTCTTGTGCTTTCC
261288 ACCGGCAACCCAGATTCAGAAACAACAGAAGAAGC-ACCCAGTTGGCTCGACGAGGAAGATGATT
1 ACCGGCAACCCAGA-TCAGAAACAACAGAAGAAGCAACCCAGTTGGCTCGACGAGGAAGATGATT
261352 CTGATTTAGTATCGGAGTTTCGAGATCTCCCGACCAAGTTCCAGGAAACCCTGATCCCGGACCTT
65 CTGATTTAGTATCGGAGTTTCGAGATCTCCCGACCAAGTTCCAGGAAA-CCTGATCCCGGACCTT
261417 GAGATGATCTCGAGAACCTCAAAAGTTTACATCACCAAATACAACAAAGAGTTCACCAAACAGTT
129 GAGATGATCTCGAGAACCTCAAAAGTTTACATCACCAAATACAACAAAGAGTTCACCAAACAGTT
261482 CAAACCATATGTCGGCAACAAACACGCCCCCACCATCGCCACTGTAATCTCTTGTGCTTTCC
194 CAAACCATATGTCGGCAACAAACACGCCCCCACCATCGCCACTGTAATCTCTTGTGCTTTCC
261544 TTTTAATCCC
Statistics
Matches: 254, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
255 77 0.30
256 157 0.62
257 20 0.08
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (255 bp):
ACCGGCAACCCAGATCAGAAACAACAGAAGAAGCAACCCAGTTGGCTCGACGAGGAAGATGATTC
TGATTTAGTATCGGAGTTTCGAGATCTCCCGACCAAGTTCCAGGAAACCTGATCCCGGACCTTGA
GATGATCTCGAGAACCTCAAAAGTTTACATCACCAAATACAACAAAGAGTTCACCAAACAGTTCA
AACCATATGTCGGCAACAAACACGCCCCCACCATCGCCACTGTAATCTCTTGTGCTTTCC
Found at i:264571 original size:22 final size:22
Alignment explanation
Indices: 264546--264611 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
264536 CTGATTGATT
264546 CGATCGAGCCGACTGAGCCGCC
1 CGATCGAGCCGACTGAGCCGCC
* *
264568 CGATCGAGCCGACTGAGTCGCT
1 CGATCGAGCCGACTGAGCCGCC
* * *
264590 TGACCGAGCCGAGCTGACCCGC
1 CGATCGAGCCGA-CTGAGCCGC
264612 GTTGACCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 30 0.81
23 7 0.19
ACGTcount: A:0.18, C:0.38, G:0.32, T:0.12
Consensus pattern (22 bp):
CGATCGAGCCGACTGAGCCGCC
Found at i:272873 original size:74 final size:72
Alignment explanation
Indices: 272784--272931 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 72
272774 GATCAGATCA
*
272784 TATTTAAGTTTAGGATGAAAAACATTCAATTTGACTTAAATTAAAAAAATATATATAATTATATT
1 TATTTAAGTTTAGGATGAAAAACATTCAATTTGACTTAAATT-AAAAAATA-ATATAATTATACT
272849 CTATATATC
64 CTATATATC
272858 TATTTAAGTTTAGGATGAAAAACATTCAATTTGACTTAAATTAAAAAATAATATAATTATACTCT
1 TATTTAAGTTTAGGATGAAAAACATTCAATTTGACTTAAATTAAAAAATAATATAATTATACTCT
272923 ATATATC
66 ATATATC
272930 TA
1 TA
272932 GGGATAATTA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 23 0.32
73 8 0.11
74 42 0.58
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (72 bp):
TATTTAAGTTTAGGATGAAAAACATTCAATTTGACTTAAATTAAAAAATAATATAATTATACTCT
ATATATC
Found at i:273148 original size:38 final size:38
Alignment explanation
Indices: 273093--273179 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
273083 TATAATTAAT
*
273093 ATTATAAGATATAATGTTTCTTTTATTGATCTAGGGTA
1 ATTATAAGATATAATGTTTCTTTTATTGATATAGGGTA
* * *
273131 ATTATAAGATTTTATGTTTCTTTTATTGATATAGGGTG
1 ATTATAAGATATAATGTTTCTTTTATTGATATAGGGTA
273169 ATTATAAGATA
1 ATTATAAGATA
273180 ATATTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (38 bp):
ATTATAAGATATAATGTTTCTTTTATTGATATAGGGTA
Found at i:273567 original size:17 final size:17
Alignment explanation
Indices: 273545--273578 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
273535 AGATCAAAAC
*
273545 AAAATTAAATTTAGATA
1 AAAATTAAACTTAGATA
*
273562 AAAATTTAACTTAGATA
1 AAAATTAAACTTAGATA
273579 TATCCTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAATTAAACTTAGATA
Found at i:275970 original size:2 final size:2
Alignment explanation
Indices: 275963--275991 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
275953 TCGACCCCAA
275963 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
275992 ATGCTCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:278750 original size:2 final size:2
Alignment explanation
Indices: 278743--278784 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
278733 TTAGGTTTTG
278743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
278785 TGCGCTGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:289521 original size:31 final size:31
Alignment explanation
Indices: 289485--289543 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
289475 AACTTAAAAG
* *
289485 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
289516 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
289544 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:289599 original size:32 final size:32
Alignment explanation
Indices: 289558--289620 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
289548 ACAACTACAA
289558 TAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
289590 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
289621 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (32 bp):
TAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:289626 original size:22 final size:22
Alignment explanation
Indices: 289600--289702 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
289590 TAATAAATTA
289600 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
289622 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
289645 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
*
289669 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
*
289691 TTTATAATAAAT
1 TTTAAAATAAAT
289703 TATTTTAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 35 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:289674 original size:15 final size:15
Alignment explanation
Indices: 289645--289771 Score: 115
Period size: 15 Copynumber: 8.5 Consensus size: 15
289635 AATCCATACT
289645 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
289659 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
289674 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
289696 AATAAATTATTTTAA
1 AATAAATTATTTTAA
289711 AAT--A--A--TTAA
1 AATAAATTATTTTAA
*
289720 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
289735 AATAAATCATTTTAA
1 AATAAATTATTTTAA
289750 AATAAATTATTTTAA
1 AATAAATTATTTTAA
289765 AATAAAT
1 AATAAAT
289772 AACCTTATTA
Statistics
Matches: 93, Mismatches: 6, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
9 7 0.08
11 2 0.02
13 2 0.02
14 9 0.10
15 55 0.59
16 1 0.01
17 1 0.01
18 2 0.02
19 2 0.02
20 1 0.01
21 1 0.01
22 10 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:289747 original size:39 final size:38
Alignment explanation
Indices: 289645--289756 Score: 147
Period size: 37 Copynumber: 3.0 Consensus size: 38
289635 AATCCATACT
* *
289645 AATAAATTA-TTTAAAATAAATTATTTTAAAATAAATC
1 AATAAATTATTTTATAATAAATTATTTTAAAATAAATA
** *
289682 AATCTA-TATTTTATAATAAATTATTTTAAAATAATTAA
1 AATAAATTATTTTATAATAAATTATTTTAAAATAAAT-A
*
289720 AATAAATTATTTTATAATAAATCATTTTAAAATAAAT
1 AATAAATTATTTTATAATAAATTATTTTAAAATAAAT
289757 TATTTTAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
36 2 0.03
37 29 0.46
38 4 0.06
39 28 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (38 bp):
AATAAATTATTTTATAATAAATTATTTTAAAATAAATA
Found at i:311171 original size:25 final size:25
Alignment explanation
Indices: 311143--311195 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
311133 TAACGAGGCA
311143 TTATATATGCTAATTAATATCGTGT
1 TTATATATGCTAATTAATATCGTGT
311168 TTATATATGCTAATTAATATCGTGT
1 TTATATATGCTAATTAATATCGTGT
311193 TTA
1 TTA
311196 GTTATTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (25 bp):
TTATATATGCTAATTAATATCGTGT
Found at i:312588 original size:15 final size:15
Alignment explanation
Indices: 312540--312593 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
312530 AAGTTTAAAT
*
312540 ATAATTTAAAAATAA
1 ATAATTAAAAAATAA
*
312555 CA-AATCTAAAAAAT-C
1 -ATAAT-TAAAAAATAA
312570 ATAATTAAAAAATAA
1 ATAATTAAAAAATAA
312585 ATAA-TAAAA
1 ATAATTAAAA
312594 TTTTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 14 0.44
15 10 0.31
16 8 0.25
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATTAAAAAATAA
Found at i:312711 original size:64 final size:63
Alignment explanation
Indices: 312625--312783 Score: 255
Period size: 64 Copynumber: 2.5 Consensus size: 63
312615 TTATATGATA
312625 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-AAAAATTAATAT
*
312690 TAAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
* * *
312753 TAAAATTAAAATCAAATAATATAAAATTAAA
1 TAAAATTAATATC-TATAATATAATATTAAA
312784 TAAAACCTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
63 24 0.27
64 58 0.65
65 7 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (63 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
Found at i:312734 original size:26 final size:25
Alignment explanation
Indices: 312681--312761 Score: 96
Period size: 24 Copynumber: 3.2 Consensus size: 25
312671 TTATTTAAAA
312681 AATTAATATT-AAAATTAATATCTAT
1 AATTAATATTAAAAATTAATAT-TAT
312706 AATATAATATTAAAATATTAATATT-T
1 AAT-TAATATTAAAA-ATTAATATTAT
* *
312732 AATTTAT-TTAAAAATTAATATTAA
1 AATTAATATTAAAAATTAATATTAT
312756 AATTAA
1 AATTAA
312762 AATCAAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
23 9 0.18
24 11 0.22
25 6 0.12
26 11 0.22
27 4 0.08
28 8 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTAATATTAAAAATTAATATTAT
Found at i:312748 original size:23 final size:26
Alignment explanation
Indices: 312684--312754 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
312674 TTTAAAAAAT
312684 TAATATT-AAAATTAATATCTATAATA
1 TAATATTAAAAATTAATAT-TATAATA
312710 TAATATTAAAATATTAATATT-TAAT-
1 TAATATTAAAA-ATTAATATTATAATA
*
312735 TTAT-TTAAAAATTAATATTA
1 TAATATTAAAAATTAATATTA
312755 AAATTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 9 0.22
24 6 0.15
25 3 0.07
26 11 0.27
27 4 0.10
28 8 0.20
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
TAATATTAAAAATTAATATTATAATA
Found at i:331631 original size:29 final size:29
Alignment explanation
Indices: 331575--331639 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
331565 CTAACCTTAC
*
331575 TTAA-ATTTTAAGATTTAAGGTTTGGAAT
1 TTAAGATTTTAAGATTTAAGGTTTAGAAT
* *
331603 TTAGGATTTTAAGA-TTAAGATTTTAGAAT
1 TTAAGATTTTAAGATTTAAG-GTTTAGAAT
331632 TTAAGATT
1 TTAAGATT
331640 AAAATAGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (29 bp):
TTAAGATTTTAAGATTTAAGGTTTAGAAT
Found at i:331637 original size:15 final size:15
Alignment explanation
Indices: 331599--331639 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
331589 TTAAGGTTTG
*
331599 GAATTTAGGATTTTA
1 GAATTTAAGATTTTA
331614 -AGA-TTAAGATTTTA
1 GA-ATTTAAGATTTTA
331628 GAATTTAAGATT
1 GAATTTAAGATT
331640 AAAATAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (15 bp):
GAATTTAAGATTTTA
Found at i:335106 original size:2 final size:2
Alignment explanation
Indices: 335099--335171 Score: 123
Period size: 2 Copynumber: 37.5 Consensus size: 2
335089 TTCTACACAA
*
335099 AT AT AT AT AT AT AT CT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
335140 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
335172 ATTGTTTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:336701 original size:29 final size:29
Alignment explanation
Indices: 336668--336745 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
336658 TATTTATATT
* * *
336668 TAGGGTCTCATTCTTTTATTCTTTACA-A
1 TAGGGTCTCATTCTTTCAGTCTTTACAGC
*
336696 TCAGGG-CTCCACTCTTTCAGTCTTTACAGC
1 T-AGGGTCT-CATTCTTTCAGTCTTTACAGC
*
336726 TATGGTCTCATTCTTT-AGTC
1 TAGGGTCTCATTCTTTCAGTC
336746 ACTAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.17
29 30 0.75
30 3 0.08
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (29 bp):
TAGGGTCTCATTCTTTCAGTCTTTACAGC
Found at i:346355 original size:28 final size:28
Alignment explanation
Indices: 346294--346348 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
346284 TTACAACTTT
* *
346294 TGTTATTTTGGTCCTTCAAGTTTTTTGA
1 TGTTATTTTGGTCCTTCAACTTTATTGA
346322 TGTTATTTTGGT-CTTCAAACTTTATTG
1 TGTTATTTTGGTCCTTC-AACTTTATTG
346349 TTTTTATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.56
Consensus pattern (28 bp):
TGTTATTTTGGTCCTTCAACTTTATTGA
Found at i:346691 original size:2 final size:2
Alignment explanation
Indices: 346684--346709 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
346674 AATTCATCAA
346684 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
346710 TAACTGTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:349921 original size:3 final size:3
Alignment explanation
Indices: 349913--349964 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
349903 TTATTTTTAA
* * *
349913 ATT ATT ATT TTT ATT ATC ATT ATT ATT ATT AAT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
349958 ATT ATT A
1 ATT ATT A
349965 AATAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:349936 original size:18 final size:17
Alignment explanation
Indices: 349902--349964 Score: 72
Period size: 18 Copynumber: 3.6 Consensus size: 17
349892 TTTCATTAAA
* *
349902 ATTATTTTTAAATTATT
1 ATTATTATTATATTATT
*
349919 ATTTTTATTATCATTATT
1 ATTATTATTAT-ATTATT
*
349937 ATTATTAATATATATATT
1 ATTATTATTATAT-TATT
349955 ATTATTATTA
1 ATTATTATTA
349965 AATAAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 10 0.26
18 28 0.74
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATTATATTATT
Found at i:349964 original size:21 final size:21
Alignment explanation
Indices: 349913--349965 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
349903 TTATTTTTAA
**
349913 ATTATTATTTTTATTATCATT
1 ATTATTATTAATATTATCATT
349934 ATTATTATTAATATATAT-ATT
1 ATTATTATTAATAT-TATCATT
349955 ATTATTATTAA
1 ATTATTATTAA
349966 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTAATATTATCATT
Found at i:352267 original size:201 final size:201
Alignment explanation
Indices: 351922--352323 Score: 804
Period size: 201 Copynumber: 2.0 Consensus size: 201
351912 TATTTTGAAT
351922 TCTTAAATTCTATTATTAGAGACAATTTATAATCGACAGAGACCAATTTTGGGCGTTGTGGGGGT
1 TCTTAAATTCTATTATTAGAGACAATTTATAATCGACAGAGACCAATTTTGGGCGTTGTGGGGGT
351987 GCTAATCCTTCCCCAAACGTAACCGACCACAAATCCCTTTTTATTATTAAAAAGAATGAATTTTT
66 GCTAATCCTTCCCCAAACGTAACCGACCACAAATCCCTTTTTATTATTAAAAAGAATGAATTTTT
352052 GGTTAAATGCAGACCAATTTCTCTTTTAAAATGATATTTTCTTAAAAACTATTTTAAAAGATGAT
131 GGTTAAATGCAGACCAATTTCTCTTTTAAAATGATATTTTCTTAAAAACTATTTTAAAAGATGAT
352117 TTTTTA
196 TTTTTA
352123 TCTTAAATTCTATTATTAGAGACAATTTATAATCGACAGAGACCAATTTTGGGCGTTGTGGGGGT
1 TCTTAAATTCTATTATTAGAGACAATTTATAATCGACAGAGACCAATTTTGGGCGTTGTGGGGGT
352188 GCTAATCCTTCCCCAAACGTAACCGACCACAAATCCCTTTTTATTATTAAAAAGAATGAATTTTT
66 GCTAATCCTTCCCCAAACGTAACCGACCACAAATCCCTTTTTATTATTAAAAAGAATGAATTTTT
352253 GGTTAAATGCAGACCAATTTCTCTTTTAAAATGATATTTTCTTAAAAACTATTTTAAAAGATGAT
131 GGTTAAATGCAGACCAATTTCTCTTTTAAAATGATATTTTCTTAAAAACTATTTTAAAAGATGAT
352318 TTTTTA
196 TTTTTA
352324 GGTATTTGAC
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (201 bp):
TCTTAAATTCTATTATTAGAGACAATTTATAATCGACAGAGACCAATTTTGGGCGTTGTGGGGGT
GCTAATCCTTCCCCAAACGTAACCGACCACAAATCCCTTTTTATTATTAAAAAGAATGAATTTTT
GGTTAAATGCAGACCAATTTCTCTTTTAAAATGATATTTTCTTAAAAACTATTTTAAAAGATGAT
TTTTTA
Found at i:356979 original size:132 final size:132
Alignment explanation
Indices: 356830--357092 Score: 463
Period size: 132 Copynumber: 2.0 Consensus size: 132
356820 CAAGTTCTTC
*
356830 TAAAAAAAGTCATATATTCAAAGCATGACCTTGATCGGGTATTTGGCAGTTCGGTGTTTGCTCTA
1 TAAAAAAAGTCATATATTCAAAGCATGACCTTGATCGGGTATTTGGCAGTTCGGTGTTTGCTCCA
* *
356895 TTGTGATTGTCAAGTCAAAGACATTGTGATGAGTTGAATCCTTTAATTAGTCCAATAAAGGCTAA
66 CTATGATTGTCAAGTCAAAGACATTGTGATGAGTTGAATCCTTTAATTAGTCCAATAAAGGCTAA
356960 TA
131 TA
*
356962 TAAAAAAAGTTATATATTCAAAGCATGACCTTGATCGGGTATTTGGCAGTTCGGTGTTTGCTCCA
1 TAAAAAAAGTCATATATTCAAAGCATGACCTTGATCGGGTATTTGGCAGTTCGGTGTTTGCTCCA
* * *
357027 CTATGATTGTTAAGTCAAAGACATTGTGATGAGTTGAATCGTTTAATTAGTCCAATGAAGGCTAA
66 CTATGATTGTCAAGTCAAAGACATTGTGATGAGTTGAATCCTTTAATTAGTCCAATAAAGGCTAA
357092 T
131 T
357093 GTCAATAAAG
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 124 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (132 bp):
TAAAAAAAGTCATATATTCAAAGCATGACCTTGATCGGGTATTTGGCAGTTCGGTGTTTGCTCCA
CTATGATTGTCAAGTCAAAGACATTGTGATGAGTTGAATCCTTTAATTAGTCCAATAAAGGCTAA
TA
Found at i:359361 original size:75 final size:74
Alignment explanation
Indices: 359230--359474 Score: 321
Period size: 75 Copynumber: 3.3 Consensus size: 74
359220 GGCAAGAAGA
* * * * *
359230 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATATTAACGCATTTTGAACG
1 AAATGCTGGGGCATGCTGAAAG-CCATTTCAATCAG-AATCAGGAATGTTGATGCATTTTGAACG
359294 TTTGTATCAGC
64 TTTGTATCAGC
* *
359305 AAATGCTGGGGCATACTGAAAGCCAATTTCAATCAGAATCAGGAATGTTGATGCATTTTGAACAT
1 AAATGCTGGGGCATGCTGAAAGCC-ATTTCAATCAGAATCAGGAATGTTGATGCATTTTGAACGT
* *
359370 TTGTGTCAGA
65 TTGTATCAGC
* * *
359380 AAATGCTGGGGCATGCTGAAAGTCCTTTTCAATCAGAATCAGGAATGTTGATGTATTTTGAAAGT
1 AAATGCTGGGGCATGCTGAAAG-CCATTTCAATCAGAATCAGGAATGTTGATGCATTTTGAACGT
**
359445 TCATATCAGC
65 TTGTATCAGC
359455 AAATGCTGGGGCATGCTGAA
1 AAATGCTGGGGCATGCTGAA
359475 GGCCCACATC
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
74 5 0.03
75 142 0.95
76 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (74 bp):
AAATGCTGGGGCATGCTGAAAGCCATTTCAATCAGAATCAGGAATGTTGATGCATTTTGAACGTT
TGTATCAGC
Found at i:360330 original size:107 final size:107
Alignment explanation
Indices: 360144--360436 Score: 322
Period size: 107 Copynumber: 2.7 Consensus size: 107
360134 GCCACAGCTG
* * * * * ** *
360144 GATGAATGTATTGTCAAATGTTTTACAAGCATCTGTGCAGAAGTCACA-G-TTGGATGAATGTAT
1 GATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGGATGAATGTGT
* *
360207 TGTCAAATGTTTTTACAAACATCTGGGCAGAAGCCACAGGAAA
66 TGTCAAATG-TTTTACAAACATCTGGACAGAAACCACAGGAAA
* * *
360250 TGATGAATGTGTTATCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGG-GGAATATG
1 -GATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGGATGAATGTG
* * *
360314 TTGTCAAATGTTTTACAAACATTTGTACATAAACCACAGGAAA
65 TTGTCAAATGTTTTACAAACATCTGGACAGAAACCACAGGAAA
** * * * * * *
360357 GGGGAATATGTTGTCAAATATTTTACAAACCTCTAGGCAGAAGCCATTGGAAAGGATTAATGTGT
1 GATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGGATGAATGTGT
*
360422 TGTCAAATATTTTAC
66 TGTCAAATGTTTTAC
360437 GAACCAGTTA
Statistics
Matches: 155, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
106 47 0.30
107 90 0.58
108 16 0.10
109 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (107 bp):
GATGAATGTGTTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGGATGAATGTGT
TGTCAAATGTTTTACAAACATCTGGACAGAAACCACAGGAAA
Found at i:360355 original size:53 final size:53
Alignment explanation
Indices: 360154--360436 Score: 273
Period size: 53 Copynumber: 5.3 Consensus size: 53
360144 GATGAATGTA
* * * ** * * *
360154 TTGTCAAATGTTTTACAAGCATCTGTGCAGAAGTCACA-G-TTGGATGAATGTA
1 TTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAAGG-GGAATATG
** *
360206 TTGTCAAATGTTTTTACAAACATCTGGGCAGAAGCCACAGGAAATGATGAATGTG
1 TTGTCAAATG-TTTTACAAACATCTGGGCAGAAGCCACAGGAAA-GGGGAATATG
* *
360261 TTATCAAATGTTTTACAAACATCTGGGCAGAAGCCATAGGAAAGGGGAATATG
1 TTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAAGGGGAATATG
* ** * *
360314 TTGTCAAATGTTTTACAAACATTTGTACATAAACCACAGGAAAGGGGAATATG
1 TTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAAGGGGAATATG
* * * ** ** *
360367 TTGTCAAATATTTTACAAACCTCTAGGCAGAAGCCATTGGAAAGGATTAATGTG
1 TTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAAGG-GGAATATG
*
360421 TTGTCAAATATTTTAC
1 TTGTCAAATGTTTTAC
360437 GAACCAGTTA
Statistics
Matches: 194, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
52 10 0.05
53 113 0.58
54 54 0.28
55 16 0.08
56 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (53 bp):
TTGTCAAATGTTTTACAAACATCTGGGCAGAAGCCACAGGAAAGGGGAATATG
Found at i:360825 original size:22 final size:22
Alignment explanation
Indices: 360797--360854 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
360787 TACATCTACA
360797 CTCTTCAAAGATGATAGATTAT
1 CTCTTCAAAGATGATAGATTAT
*
360819 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTAT
360841 CT-TGTCAAAGATGA
1 CTCT-TCAAAGATGA
360855 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTAT
Found at i:361593 original size:45 final size:45
Alignment explanation
Indices: 361524--362008 Score: 801
Period size: 45 Copynumber: 10.8 Consensus size: 45
361514 CTATTTCCCA
* *
361524 CATCTGTAAGCCTTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
361569 CATCTGTAAGCCCTTCAGTACATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * * *
361614 AATATGTAAGCCCTTCAATGCATGATGTTCTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
361659 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
361704 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
361749 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
361794 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
361839 CATCTGTAAGCCCTTCAGTGCATGATGTTCTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
361884 CATCTGTAATCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
361929 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTT-GGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
**
361973 CATCTGTAAGTTCTTCAGTGCATGATGTTTTCAAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
362009 AAAACCTTCG
Statistics
Matches: 414, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
44 39 0.09
45 375 0.91
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:361675 original size:20 final size:20
Alignment explanation
Indices: 361650--361721 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
361640 GTTCTCAAAA
361650 CCTTCAGGTCATCTGTAAGC
1 CCTTCAGGTCATCTGTAAGC
*
361670 CCTTCA-GTGCATGATGTTTTCAAAG-
1 CCTTCAGGT-CAT-CTG---T--AAGC
361695 CCTTCAGGTCATCTGTAAGC
1 CCTTCAGGTCATCTGTAAGC
361715 CCTTCAG
1 CCTTCAG
361722 TGCATGATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
19 5 0.12
20 16 0.39
21 3 0.07
24 3 0.07
25 9 0.22
26 5 0.12
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (20 bp):
CCTTCAGGTCATCTGTAAGC
Found at i:362133 original size:77 final size:77
Alignment explanation
Indices: 361951--362388 Score: 692
Period size: 77 Copynumber: 5.8 Consensus size: 77
361941 CTTCAGTGCA
* *
361951 TGATGTTTTCAAAACCTT-GGGTCATCTGTAAGTTCTTCAGTGCATGATGTTTTCAAAAAAAACC
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAAAGCC
362015 TTCGGGAGCTTTT
65 TTCGGGAGCTTTT
* *
362028 TGATATTTTTAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCAC
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGC-C
* *
362093 -TCAGGATCTTTT
65 TTCGGGAGCTTTT
* *
362105 AGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
362170 TCGGGAGCTTTT
66 TCGGGAGCTTTT
*
362182 TGATGTTTTCAAAACCTTTGGGT--TCTGT-AGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
*
362244 TTGGGAGCTTTT
66 TCGGGAGCTTTT
*
362256 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGGCC-
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
362320 -CGGGAGCTTTT
66 TCGGGAGCTTTT
* *
362331 TGATGTTTTCAAAACCTTCGGGTTATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
362389 GCCTTCAGTG
Statistics
Matches: 334, Mismatches: 21, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
74 66 0.20
75 71 0.21
76 6 0.02
77 155 0.46
78 36 0.11
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (77 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
TCGGGAGCTTTT
Found at i:362269 original size:151 final size:153
Alignment explanation
Indices: 361951--362388 Score: 690
Period size: 151 Copynumber: 2.9 Consensus size: 153
361941 CTTCAGTGCA
* *
361951 TGATGTTTTCAAAACCTT-GGGTCATCTGTAAGTTCTTCAGTGCATGATGTTTTCAAAAAAAACC
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAAAGCC
* *
362015 TTCGGGAGCTTTTTGATATTTTTAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTT
65 TTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT-ATCTGTAAGTCCTTCAGTGCATGATGTT
*
362080 TTCAAAAAAGCACTCAGGATCTTTT
129 TTCAAAAAAGCACTCAGGAGCTTTT
* *
362105 AGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
*
362170 TCGGGAGCTTTTTGATGTTTTCAAAACCTTTGGGT-TCTGT-AGTCCTTCAGTGCATGATGTTTT
66 TCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTATCTGTAAGTCCTTCAGTGCATGATGTTTT
**
362233 CAAAAAAGC-CTTTGGGAGCTTTT
131 CAAAAAAGCAC-TCAGGAGCTTTT
*
362256 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGGCC-
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
*
362320 -CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTTATCTGTAAGCCCTTCAGTGCATGATGTTT
66 TCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGG-TATCTGTAAGTCCTTCAGTGCATGATGTTT
362384 TCAAA
130 TCAAA
362389 GCCTTCAGTG
Statistics
Matches: 264, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
149 32 0.12
150 2 0.01
151 107 0.41
152 31 0.12
154 58 0.22
155 34 0.13
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (153 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCT
TCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTATCTGTAAGTCCTTCAGTGCATGATGTTTT
CAAAAAAGCACTCAGGAGCTTTT
Found at i:362396 original size:25 final size:25
Alignment explanation
Indices: 362365--362413 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
362355 ATCTGTAAGC
362365 CCTTCAGTGCATGATGTTTTCAAAG
1 CCTTCAGTGCATGATGTTTTCAAAG
362390 CCTTCAGTGCATGATGTTTTCAAA
1 CCTTCAGTGCATGATGTTTTCAAA
362414 AAAGGCTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTCAAAG
Found at i:362476 original size:102 final size:100
Alignment explanation
Indices: 362290--362482 Score: 298
Period size: 102 Copynumber: 1.9 Consensus size: 100
362280 ATCTGTAAGT
* *
362290 CCTTCAGTGCATGATGTTTTCAAAAAGGCCCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTT
1 CCTTCAGTGCATGATGTTTTCAAAAAGGCCCGGGAGCTATTTGATGTTTTCAAAACCTTCGGGTC
*
362355 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAG
66 ATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAG
*
362390 CCTTCAGTGCATGATGTTTTCAAAAAAGGCTTCGGGAGCTATTTGATGTTTTCAAAACCTTCGGG
1 CCTTCAGTGCATGATGTTTTC-AAAAAGGC-CCGGGAGCTATTTGATGTTTTCAAAACCTTCGGG
* *
362455 TCATCTGTAAG-TCTTATAGTGCAAGATG
64 TCATCTGTAAGCCCTT-CAGTGCAAGATG
362483 ATAAGACCTT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
100 21 0.25
101 11 0.13
102 52 0.62
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (100 bp):
CCTTCAGTGCATGATGTTTTCAAAAAGGCCCGGGAGCTATTTGATGTTTTCAAAACCTTCGGGTC
ATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAG
Found at i:364706 original size:49 final size:49
Alignment explanation
Indices: 364651--364764 Score: 146
Period size: 49 Copynumber: 2.3 Consensus size: 49
364641 ACTATTTATA
364651 ATTAATATTAAAATA-ATT-ATATATTATA-ATTATAATTAATATAATTAAT
1 ATTAATATTAAAATATATTAATATA-TATAGATTATAATT--TATAATTAAT
* * *
364700 ATTAATATTAAATTATATTAATATATATAGTTTATAATTTGTAATTAAT
1 ATTAATATTAAAATATATTAATATATATAGATTATAATTTATAATTAAT
364749 ATTAATA-TAAAATATA
1 ATTAATATTAAAATATA
364765 GTCTATAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
48 8 0.14
49 30 0.52
50 7 0.12
51 13 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (49 bp):
ATTAATATTAAAATATATTAATATATATAGATTATAATTTATAATTAAT
Found at i:364779 original size:31 final size:30
Alignment explanation
Indices: 364742--364816 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 30
364732 TATAATTTGT
364742 AATTAATATTAATATAAAATATA-GTCTATA
1 AATTAATATTAATATAAAATATATGT-TATA
*
364772 AAGTTAATATTAATATAAACTATATGTTATA
1 AA-TTAATATTAATATAAAATATATGTTATA
364803 AATT-ATA-TAATATA
1 AATTAATATTAATATA
364817 GTTTATAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 7 0.17
29 3 0.07
30 4 0.10
31 26 0.62
32 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATATGTTATA
Found at i:364841 original size:88 final size:89
Alignment explanation
Indices: 364747--364926 Score: 226
Period size: 88 Copynumber: 2.0 Consensus size: 89
364737 TTTGTAATTA
* * *
364747 ATATTAATATAAAATATAGTCTATA-A-AGTTAATATTAATATAAACTATAT-GT-TATAAATTA
1 ATATTAATATAAAATATAGT-TA-AGATAATTAACATTAATATAAACTATATAGTACATAAA-TA
*
364808 TATAA-TATAGTTTATAAACTATATGCT
63 TA-AACTATAGTTTATAAACTATATACT
* *
364835 ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAAATATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATAAATATAA
*
364900 ACTATAGTTTATAAATTATATACT
66 ACTATAGTTTATAAACTATATACT
364924 ATA
1 ATA
364927 GGTTATAAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
86 1 0.01
87 3 0.04
88 43 0.54
89 29 0.36
90 4 0.05
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (89 bp):
ATATTAATATAAAATATAGTTAAGATAATTAACATTAATATAAACTATATAGTACATAAATATAA
ACTATAGTTTATAAACTATATACT
Found at i:364907 original size:20 final size:21
Alignment explanation
Indices: 364866--364907 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
364856 AAGATAATTA
364866 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
364888 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
364908 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:364924 original size:21 final size:21
Alignment explanation
Indices: 364895--364947 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
364885 AGTACATTAA
* *
364895 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
364916 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
364937 TATAAACTATA
1 TATAAACTATA
364948 TAGTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:364981 original size:18 final size:18
Alignment explanation
Indices: 364958--365151 Score: 137
Period size: 18 Copynumber: 11.3 Consensus size: 18
364948 TAGTACACTA
*
364958 ATATAGTTTACATATACT
1 ATATAGTTTATATATACT
364976 ATATAGTTTATATATAC-
1 ATATAGTTTATATATACT
* *
364993 -TA-A-TTAACTATATAAT
1 ATATAGTTTA-TATATACT
365009 ATATAGTTTATATATACT
1 ATATAGTTTATATATACT
* * *
365027 A-ATGAAATATATATATAAT
1 ATAT--AGTTTATATATACT
* *
365046 GTATAGTTTATATATACC
1 ATATAGTTTATATATACT
365064 ATATAGTTTATATATA-T
1 ATATAGTTTATATATACT
*
365081 -TATA-TATATATATA-T
1 ATATAGTTTATATATACT
*
365096 ATATAGATATATAATATA-T
1 ATATAG-TTTAT-ATATACT
*
365115 ATATA-TATATATATA-T
1 ATATAGTTTATATATACT
*
365131 ATATA-TATATATATA-T
1 ATATAGTTTATATATACT
365147 ATATA
1 ATATA
365152 TATAGATATA
Statistics
Matches: 148, Mismatches: 16, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.02
15 17 0.11
16 37 0.25
17 9 0.06
18 55 0.37
19 25 0.17
20 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (18 bp):
ATATAGTTTATATATACT
Found at i:365006 original size:2 final size:2
Alignment explanation
Indices: 365001--365165 Score: 169
Period size: 2 Copynumber: 82.0 Consensus size: 2
364991 ACTAATTAAC
* *
365001 TA TA TA -A TA TA TA GTT TA TA TA TA CTA -A TGA AA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA
* * * *
365042 TA -A TG TA TA GTT TA TA TA TA CCA TA TA GTT TA TA TA TA T- TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
*
365083 TA TA TA TA TA TA TA TA TA GA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
365124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
365166 GGCCATATGT
Statistics
Matches: 136, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
1 5 0.04
2 124 0.91
3 7 0.05
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:365012 original size:33 final size:33
Alignment explanation
Indices: 364969--365155 Score: 131
Period size: 33 Copynumber: 5.7 Consensus size: 33
364959 TATAGTTTAC
* * *
364969 ATATACTATATAGTTTATATATACTAATTAACT
1 ATATAATATATAGTTTATATATACTAATGAAAT
365002 ATATAATATATAGTTTATATATACTAATGAAAT
1 ATATAATATATAGTTTATATATACTAATGAAAT
* **
365035 ATATATATAATGTATAGTTTATATATACCATATAGTTTAT
1 ATATA-AT-A--TATAGTTTATATATACTA-AT-G-AAAT
* * *
365075 ATATATTATATA-TATATATATA-T-AT-AGAT
1 ATATAATATATAGTTTATATATACTAATGAAAT
* *
365104 ATATAATATATA-TATATATATA-T-AT-ATAT
1 ATATAATATATAGTTTATATATACTAATGAAAT
*
365133 ATATATATATATA-TATATATATA
1 ATATA-ATATATAGTTTATATATA
365156 GATATATATA
Statistics
Matches: 133, Mismatches: 13, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
29 34 0.26
30 17 0.13
32 2 0.02
33 35 0.26
34 2 0.02
35 10 0.08
36 4 0.03
37 17 0.13
38 3 0.02
39 2 0.02
40 7 0.05
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (33 bp):
ATATAATATATAGTTTATATATACTAATGAAAT
Found at i:365251 original size:32 final size:32
Alignment explanation
Indices: 365120--365269 Score: 95
Period size: 32 Copynumber: 5.0 Consensus size: 32
365110 TATATATATA
** * * *
365120 TATATATATATATATATAT-ATATATATA-TA
1 TATATATATATATATAGGTCATATGTAAACTG
* *
365150 TATATAGATATATATAGGCCATATGTAAAC--
1 TATATATATATATATAGGTCATATGTAAACTG
* * *
365180 TATATAGTATATAAATA--TCA-A-CT--ATTG
1 TATATA-TATATATATAGGTCATATGTAAACTG
*
365207 TATATATATATATATAGGTCCTATGTAAACTG
1 TATATATATATATATAGGTCATATGTAAACTG
* * *
365239 TATATGTTTATATATAGTTCATATGTAAACT
1 TATATATATATATATAGGTCATATGTAAACT
365270 ATAATTCATA
Statistics
Matches: 90, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
25 1 0.01
26 9 0.10
27 7 0.08
28 3 0.03
29 3 0.03
30 22 0.24
31 15 0.17
32 30 0.33
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (32 bp):
TATATATATATATATAGGTCATATGTAAACTG
Found at i:365277 original size:18 final size:18
Alignment explanation
Indices: 365251--365285 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
365241 TATGTTTATA
*
365251 TATAGTTCATATGTAAAC
1 TATAATTCATATGTAAAC
365269 TATAATTCATATGTAAA
1 TATAATTCATATGTAAA
365286 TATCAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
TATAATTCATATGTAAAC
Found at i:365313 original size:18 final size:18
Alignment explanation
Indices: 365290--365411 Score: 96
Period size: 18 Copynumber: 6.8 Consensus size: 18
365280 TGTAAATATC
365290 AACTATAGTTTATATGTA
1 AACTATAGTTTATATGTA
365308 AACTATAG-TTAGTA--TA
1 AACTATAGTTTA-TATGTA
*
365324 AACTATATAGTTTATAAGTA
1 AAC--TATAGTTTATATGTA
*
365344 AACTATAGTTTATATATA
1 AACTATAGTTTATATGTA
* *
365362 AA-TATCAACTTTAGTATCT-
1 AACTAT--AGTTTA-TATGTA
*
365381 -A-TATAGTTCATATGTA
1 AACTATAGTTTATATGTA
365397 AACTATAGTTTATAT
1 AACTATAGTTTATAT
365412 ATAGTTCATA
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
15 4 0.05
16 9 0.11
17 7 0.08
18 47 0.56
19 8 0.10
20 9 0.11
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (18 bp):
AACTATAGTTTATATGTA
Found at i:365337 original size:89 final size:87
Alignment explanation
Indices: 365122--365339 Score: 203
Period size: 89 Copynumber: 2.5 Consensus size: 87
365112 TATATATATA
* ** * * *
365122 TATATATATATATATATATATATATATA-TATATAG-ATATATATAGGCCATATGTAAACTATAT
1 TATATATATAAATATAGGTCTATATAAACTATATAGTTTATATATAGGCCATATGTAAACTATAT
*
365185 AGTATATAAATATCAACTATTG
66 AGTATATAAATATCAACTATAG
* * * **
365207 TATATATATATATATAGGTCCTATGTAAACTGTATATGTTTATATATAGTTCATATGTAAACTAT
1 TATATATATAAATATAGGT-CTATATAAACTATATA-GTTTATATATAGGCCATATGTAAACTAT
*
365272 AATTCA-TATGTAAATATCAACTATAG
64 -A-T-AGTATATAAATATCAACTATAG
* *
365298 TTTATATGTAAACTATA-GT-TAGTATAAACTATATAGTTTATA
1 TATATATATAAA-TATAGGTCTA-TATAAACTATATAGTTTATA
365340 AGTAAACTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
85 17 0.16
86 6 0.06
87 5 0.05
88 1 0.01
89 32 0.30
90 12 0.11
91 30 0.28
92 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (87 bp):
TATATATATAAATATAGGTCTATATAAACTATATAGTTTATATATAGGCCATATGTAAACTATAT
AGTATATAAATATCAACTATAG
Found at i:365360 original size:29 final size:29
Alignment explanation
Indices: 365327--365442 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 29
365317 TAGTATAAAC
*
365327 TATATAGTTTATAAGTAAACTATAGTTTA
1 TATATAGTTCATAAGTAAACTATAGTTTA
* * * * *
365356 TATATA---AAT-A-TCAACTTTAGTATC
1 TATATAGTTCATAAGTAAACTATAGTTTA
*
365380 TATATAGTTCATATGTAAACTATAGTTTA
1 TATATAGTTCATAAGTAAACTATAGTTTA
* *
365409 TATATAGTTCATATGTAAACTA-AGTTCA
1 TATATAGTTCATAAGTAAACTATAGTTTA
365437 TATATA
1 TATATA
365443 TATAAATATA
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
24 16 0.23
25 1 0.01
26 2 0.03
27 2 0.03
28 11 0.16
29 38 0.54
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (29 bp):
TATATAGTTCATAAGTAAACTATAGTTTA
Found at i:365451 original size:29 final size:29
Alignment explanation
Indices: 365380--365473 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
365370 CTTTAGTATC
**
365380 TATATAGTTCATATGTAAACTATAGTT-TA
1 TATATAGTAAATATGTAAACTA-AGTTATA
**
365409 TATATAGTTCATATGTAAACTAAGTTCATA
1 TATATAGTAAATATGTAAACTAAGTT-ATA
365439 TATATA-TAAATA--TAAACT-AGTTTATA
1 TATATAGTAAATATGTAAACTAAG-TTATA
*
365465 TAAATAGTA
1 TATATAGTA
365474 TAGAATATAG
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.17
27 10 0.17
28 4 0.07
29 26 0.45
30 8 0.14
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (29 bp):
TATATAGTAAATATGTAAACTAAGTTATA
Found at i:365494 original size:29 final size:29
Alignment explanation
Indices: 365462--365528 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
365452 AAACTAGTTT
365462 ATATAAATAGTATAGAATATAG-TATATAA
1 ATATAAATAG-ATAGAATATAGTTATATAA
** *
365491 ATATAAAT-GATATTATGTAGTTTATATAA
1 ATATAAATAGATAGAATATAG-TTATATAA
365520 ATATAAATA
1 ATATAAATA
365529 TAAACCCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 8 0.25
28 1 0.03
29 23 0.72
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (29 bp):
ATATAAATAGATAGAATATAGTTATATAA
Found at i:365606 original size:2 final size:2
Alignment explanation
Indices: 365556--365596 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
365546 ATCCTAAACC
365556 TA TA -A TA T- TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
365595 TA
1 TA
365597 AAACTATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:365805 original size:20 final size:20
Alignment explanation
Indices: 365782--365839 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
365772 TATAGTTTAT
*
365782 ACATAATATATATATATAAA
1 ACATAATTTATATATATAAA
*
365802 ACATATAGTTTATATATATAAT
1 ACATA-A-TTTATATATATAAA
*
365824 ACATACTTTATATATA
1 ACATAATTTATATATA
365840 AACTATATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.45
21 1 0.03
22 17 0.52
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (20 bp):
ACATAATTTATATATATAAA
Found at i:365866 original size:20 final size:19
Alignment explanation
Indices: 365742--365868 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 19
365732 TGATATAAAC
365742 TATATAGTAT-TATAGTTTA
1 TATATA-TATATATAGTTTA
* * *
365761 TACATGGTACATATAGTTTA
1 TATAT-ATATATATAGTTTA
*
365781 TACATA-ATATATA---TA
1 TATATATATATATAGTTTA
* *
365796 TATA-AAACATATAGTTTA
1 TATATATATATATAGTTTA
* *
365814 TATATATAATACATACTTTA
1 TATATAT-ATATATAGTTTA
* *
365834 TATATAAACTATATAGTTAA
1 TATATATA-TATATAGTTTA
365854 TATTATATATATATA
1 TA-TATATATATATA
365869 TTAGTTGTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
14 1 0.01
15 11 0.13
18 12 0.15
19 8 0.10
20 45 0.55
21 5 0.06
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (19 bp):
TATATATATATATAGTTTA
Found at i:366410 original size:218 final size:216
Alignment explanation
Indices: 365954--366854 Score: 1494
Period size: 215 Copynumber: 4.2 Consensus size: 216
365944 TTCCTTTTTG
*
365954 TGTTTAATTTATTTAAATTTTTATTTTTAA-TTCA-ATTTGTTCAA-TTAGTCCTCCACA-TTTA
1 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
366015 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAAATTGGCCCATAACTTTT
66 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTT
* *
366080 TAAATGGGTATAATTTAGTACTTTTTTTTATTAATTTCAACATCACAATTTAAAATTATTTCAAT
130 TAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGAT
366145 TTGATCCCTCATCAATGTGTGT
195 TTGATCCCTCATCAATGTGTGT
* * *
366167 TGTTTAATTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
366232 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
66 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
* *
366297 AAATGGGTAT-TTTTAGTACTTTTTTGTA-TAATTTCAACATCACAGTTTAAAATTACTTATTTC
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTT-AAA--A-TTATTTC
366360 GATTTGATCCCTCATCAATGTGTGT
192 GATTTGATCCCTCATCAATGTGTGT
* *
366385 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTATTCAATTTAGTCATCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
*
366450 TTTGCATCTTAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
66 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
* *
366515 AAATGGGTATAATTTAGTAATTTTTTG-AATAATTTCAACATCACAATTTAAAATTATTTCGATT
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATT
* * *
366579 TGATCGCTCATCAATATATGT
196 TGATCCCTCATCAATGTGTGT
366600 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
1 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
* * *
366665 TTTGCATCTAAAATTGATCCATACTTATTACTTAATTCTATTTTT-AATTGGCCCATAACTTTTT
66 TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
* * *
366729 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTTAACCTCATAATTTAAAATTATTTCGATT
131 AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATT
366794 TGATCCCTCATCAATGTGTGT
196 TGATCCCTCATCAATGTGTGT
*
366815 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTT
1 TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTT
366855 TTCTGAAGTC
Statistics
Matches: 643, Mismatches: 34, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
213 28 0.04
214 68 0.11
215 253 0.39
216 47 0.07
217 45 0.07
218 169 0.26
219 33 0.05
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (216 bp):
TGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTA
TTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATT
TGATCCCTCATCAATGTGTGT
Found at i:367803 original size:26 final size:26
Alignment explanation
Indices: 367740--367954 Score: 380
Period size: 26 Copynumber: 8.3 Consensus size: 26
367730 CATCACAAGT
367740 TAAAAATATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
*
367766 T-AAAATGTAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
*
367791 TAAAAAAATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
* *
367817 TAAAAAAAAAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
367843 TAAAAA-ATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
367868 TAAAAATATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
367894 TAAAAATATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
367920 TAAAAATATAAATCAAATTGAAATTA
1 TAAAAATATAAATCAAATTGAAATTA
367946 TAAAAATAT
1 TAAAAATAT
367955 TATTAAATAT
Statistics
Matches: 182, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
25 48 0.26
26 134 0.74
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
TAAAAATATAAATCAAATTGAAATTA
Found at i:367830 original size:77 final size:77
Alignment explanation
Indices: 367740--367951 Score: 370
Period size: 77 Copynumber: 2.7 Consensus size: 77
367730 CATCACAAGT
*
367740 TAAAAATATAAATCAAATTGAAATTATAAAATGTAAATCAAATTGAAATTATAAAAAAATAAATC
1 TAAAAATATAAATCAAATTGAAATTATAAAATATAAATCAAATTGAAATTATAAAAAAATAAATC
367805 AAATTGAAATTA
66 AAATTGAAATTA
* * * *
367817 TAAAAAAAAAAATCAAATTGAAATTATAAAAAATAAATCAAATTGAAATTATAAAAATATAAATC
1 TAAAAATATAAATCAAATTGAAATTATAAAATATAAATCAAATTGAAATTATAAAAAAATAAATC
367882 AAATTGAAATTA
66 AAATTGAAATTA
367894 TAAAAATATAAATCAAATTGAAATTATAAAAATATAAATCAAATTGAAATTATAAAAA
1 TAAAAATATAAATCAAATTGAAATTAT-AAAATATAAATCAAATTGAAATTATAAAAA
367952 TATTATTAAA
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 97 0.77
78 29 0.23
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (77 bp):
TAAAAATATAAATCAAATTGAAATTATAAAATATAAATCAAATTGAAATTATAAAAAAATAAATC
AAATTGAAATTA
Found at i:371178 original size:16 final size:16
Alignment explanation
Indices: 371155--371196 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
371145 GAAGAACAAC
371155 ATAAAAATGAC-TAAA
1 ATAAAAATGACTTAAA
371170 ATGAAAAATG-CTTAAA
1 AT-AAAAATGACTTAAA
*
371186 ATACAAATGAC
1 ATAAAAATGAC
371197 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (16 bp):
ATAAAAATGACTTAAA
Found at i:371729 original size:31 final size:30
Alignment explanation
Indices: 371665--371741 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
371655 CCCGTCCCCA
*
371665 TCCCCGTCCTCGTTTAACATAAACAGTTTT
1 TCCCCGTCCCCGTTTAACATAAACAGTTTT
*
371695 TCCCCGTCCCCGTTTAACATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACAGTTTT
* *
371725 TTCCCATCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
371742 TTCGGTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACAGTTTT
Found at i:372969 original size:3 final size:3
Alignment explanation
Indices: 372961--372991 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
372951 AAAAATAAAT
372961 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
372992 TATATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:373305 original size:49 final size:47
Alignment explanation
Indices: 373251--373353 Score: 118
Period size: 47 Copynumber: 2.1 Consensus size: 47
373241 ATGAAATATA
* * * *
373251 AATATCAAATCTTGAAGGAGAGGGATATGTTCCACTT-CTTTCTGAAGGG
1 AATATCAAATCTCGAA-AAGAGAGACATGTTCCACTTAC--TCTGAAGGG
**
373300 AATATCAAATCTCGAAAAGAGAGACATGTTCTGCTTACTCTGAAGGG
1 AATATCAAATCTCGAAAAGAGAGACATGTTCCACTTACTCTGAAGGG
373347 AATATCA
1 AATATCA
373354 GATATGGGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 16 0.34
48 15 0.32
49 16 0.34
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (47 bp):
AATATCAAATCTCGAAAAGAGAGACATGTTCCACTTACTCTGAAGGG
Found at i:373454 original size:48 final size:48
Alignment explanation
Indices: 373393--373704 Score: 358
Period size: 48 Copynumber: 6.5 Consensus size: 48
373383 GGCAGACTTA
*
373393 TTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
* * * *
373441 TTGCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACTTG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
* * * * *
373489 CTCCTCTTACTCTAAAGGGAATATCAAATCTTTGAGAAGAGAGACCTG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
* * * **
373537 TTCTGCTTACTCTGAAGGGAATATCAGATCTGGGGAAGTTAA-A-AGATATG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCT-TGGAA---AAGAGAGACCTG
* * * *
373587 TTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
** * * *
373635 TTTTGCTTACTCTGAAGGGAATATAAAATCTTAGATAAGAGAGACCTG
1 TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
373683 TTCCGCTTACTCTGAAGGGAAT
1 TTCCGCTTACTCTGAAGGGAAT
373705 TTCAGATTCT
Statistics
Matches: 218, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
46 2 0.01
47 1 0.00
48 175 0.80
49 4 0.02
50 33 0.15
51 1 0.00
52 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (48 bp):
TTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTG
Found at i:373550 original size:96 final size:96
Alignment explanation
Indices: 373386--373704 Score: 417
Period size: 96 Copynumber: 3.3 Consensus size: 96
373376 CAATCGGGGC
* * * *
373386 AGACTTATTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACCTGTTGC-GCTTA
1 AGACTTGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTT-CTGCTTA
373450 CTCTGAAGGGAATATCAAATCTTGGAAAAAAA
65 CTCTGAAGGGAATATCAAATCTTGGAAAAAAA
* *
373482 AGACTTGCTCCTCTTACTCTAAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCTGCTTAC
1 AGACTTGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCTGCTTAC
* * **
373547 TCTGAAGGGAATATCAGATCTGGGGAAGTTAAA
66 TCTGAAGGGAATATCAAATCT-TGGAA-AAAAA
* *
373580 AGA-TATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATGTTTTGCTTA
1 AGACT-TGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCTGCTTA
* * * * *
373644 CTCTGAAGGGAATATAAAATCTTAGATAAGAG
65 CTCTGAAGGGAATATCAAATCTTGGAAAAAAA
* *
373676 AGACCTGTTCCGCTTACTCTGAAGGGAAT
1 AGACTTGTTCCTCTTACTCTGAAGGGAAT
373705 TTCAGATTCT
Statistics
Matches: 193, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 104 0.54
97 7 0.04
98 81 0.42
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (96 bp):
AGACTTGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCTGCTTAC
TCTGAAGGGAATATCAAATCTTGGAAAAAAA
Found at i:373664 original size:146 final size:146
Alignment explanation
Indices: 373446--373711 Score: 399
Period size: 146 Copynumber: 1.8 Consensus size: 146
373436 ACCTGTTGCG
*
373446 CTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACTTGCTCCTCTTACTCTAAAGGGAAT
1 CTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACATGCTCCTCTTACTCTAAAGGGAAT
* * *
373511 ATCAAATCTTTGAGAAGAGAGACCTGTTCTGCTTACTCTGAAGGGAATATCAGATCTGGGGAAGT
66 ATAAAATCTTAGAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATCTGGGGAAGT
373576 TAAAAGATATGTTCCT
131 TAAAAGATATGTTCCT
* * * * ** *
373592 CTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATG-TTTTGCTTACTCTGAAGGGAA
1 CTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACATGCTCCT-CTTACTCTAAAGGGAA
* *
373656 TATAAAATCTTAGATAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCAGAT
65 TATAAAATCTTAGAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGAT
373712 TCTGAACGGA
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
145 2 0.02
146 104 0.98
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (146 bp):
CTTACTCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACATGCTCCTCTTACTCTAAAGGGAAT
ATAAAATCTTAGAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATCTGGGGAAGT
TAAAAGATATGTTCCT
Found at i:373749 original size:261 final size:258
Alignment explanation
Indices: 373451--373969 Score: 799
Period size: 261 Copynumber: 2.0 Consensus size: 258
373441 TTGCGCTTAC
*
373451 TCTGAAGGGAATATCAAATCTTGGAAAAAAAAGACTTGCTCCTCTTACTCTAAAGGGAATATCAA
1 TCTGAACGGAATATCAAATCTTGGAAAAAAAAGACTTGCTCCTCTTACTCTAAAGGGAATATCAA
* * * *
373516 ATCTTTGAGAAGAGAGACCTGTTCTGCTTACTCTGAAGGGAATATCAGATCTGGGGAAGTTAAAA
66 ATCTTTAAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGATCTGGGGAAGTTAAAA
* * *
373581 GA-TATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATGTT-TTGCTTA
131 GACT-TGTTCCTCTTACTCTAAAGGGAATATC-AAT-ATTGAGAAGAGAGACATGTTCCT-CTTA
* * *
373644 CTCTGAAGGGAATATAAAATCTTAGATAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCA
192 CTCTGAAGGGAATATAAAATCTTAGAGAAGAGAGA-CTGTTCCACTTACTCTGAAGGGAATATCA
373709 GAT
256 GAT
* * * *
373712 TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACTTGTTCCTCTTACTCTGAAGGGAATATTAA
1 TCTGAACGGAATATCAAATCTTGGAAAAAAAAGACTTGCTCCTCTTACTCTAAAGGGAATATCAA
* *
373777 ATCTTTAAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGATCTGGGGAAGTTGAGA
66 ATCTTTAAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGATCTGGGGAAGTTAAAA
373842 GACTTGTTCCTCTTACTCTAAAGGGAATATCAATATTGAGAAGAGAGACATGTTCCTCTTACTCT
131 GACTTGTTCCTCTTACTCTAAAGGGAATATCAATATTGAGAAGAGAGACATGTTCCTCTTACTCT
* * *
373907 GAAGGGAATATCAAATCTTGGAGAAGAGAGACTGTTCCATTTACTCTGAAGGGAATATCAGAT
196 GAAGGGAATATAAAATCTTAGAGAAGAGAGACTGTTCCACTTACTCTGAAGGGAATATCAGAT
373970 CTGGAAAGAG
Statistics
Matches: 236, Mismatches: 20, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
258 29 0.12
259 55 0.23
260 4 0.02
261 147 0.62
262 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (258 bp):
TCTGAACGGAATATCAAATCTTGGAAAAAAAAGACTTGCTCCTCTTACTCTAAAGGGAATATCAA
ATCTTTAAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGATCTGGGGAAGTTAAAA
GACTTGTTCCTCTTACTCTAAAGGGAATATCAATATTGAGAAGAGAGACATGTTCCTCTTACTCT
GAAGGGAATATAAAATCTTAGAGAAGAGAGACTGTTCCACTTACTCTGAAGGGAATATCAGAT
Found at i:373753 original size:67 final size:67
Alignment explanation
Indices: 373645--373771 Score: 191
Period size: 67 Copynumber: 1.9 Consensus size: 67
373635 TTTTGCTTAC
* * *
373645 TCTGAAGGGAATATAAAATCTTAGATAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCAG
1 TCTGAACGGAATATAAAATCTTAGAAAAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCAG
373710 AT
66 AT
* * * *
373712 TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACTTGTTCCTCTTACTCTGAAGGGAAT
1 TCTGAACGGAATATAAAATCTTAGAAAAAAGAGACCTGTTCCGCTTACTCTGAAGGGAAT
373772 ATTAAATCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (67 bp):
TCTGAACGGAATATAAAATCTTAGAAAAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCAG
AT
Found at i:373793 original size:48 final size:48
Alignment explanation
Indices: 373712--373971 Score: 296
Period size: 48 Copynumber: 5.4 Consensus size: 48
373702 AATTTCAGAT
* *
373712 TCTGAACGGAATATCAAATCTTGGAA-AAAAGAGACTTGTTCCTCTTAC
1 TCTGAAGGGAATATCAAATCTT-GAAGAAGAGAGACTTGTTCCTCTTAC
* * * * *
373760 TCTGAAGGGAATATTAAATCTTTAAGAAGAGAGACCTATTCCGCTTAC
1 TCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCTCTTAC
* * * **
373808 TCTGAAGAGAATATCAGATCTGGGGAAGTTGAGAGACTTGTTCCTCTTAC
1 TCTGAAGGGAATATCAAATCT--TGAAGAAGAGAGACTTGTTCCTCTTAC
* * *
373858 TCTAAAGGGAATATC-AATATTG-AGAAGAGAGACATGTTCCTCTTAC
1 TCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCTCTTAC
*
373904 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGAC-TGTTCCAT-TTAC
1 TCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCC-TCTTAC
*
373951 TCTGAAGGGAATATCAGATCT
1 TCTGAAGGGAATATCAAATCT
373972 GGAAAGAGAT
Statistics
Matches: 178, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
46 35 0.20
47 39 0.22
48 68 0.38
49 3 0.02
50 33 0.19
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (48 bp):
TCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACTTGTTCCTCTTAC
Found at i:373802 original size:115 final size:115
Alignment explanation
Indices: 373597--373826 Score: 329
Period size: 115 Copynumber: 2.0 Consensus size: 115
373587 TTCCTCTTAC
* * * * *
373597 TCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATGTTTTGCTTACTCTGAAGGGAATATAAA
1 TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCTGAAGGGAATATAAA
* * * *
373662 ATCTTAGATAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATTTCAGAT
66 ATCTTAGAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGAT
* *
373712 TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACTTGTTCCT-CTTACTCTGAAGGGAATATTA
1 TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACATGTT-CTGCTTACTCTGAAGGGAATATAA
373776 AATCTTTA-AGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGAT
65 AATC-TTAGAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGAT
373827 CTGGGGAAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
115 98 0.96
116 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (115 bp):
TCTGAACGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCTGAAGGGAATATAAA
ATCTTAGAGAAGAGAGACCTATTCCGCTTACTCTGAAGAGAATATCAGAT
Found at i:376683 original size:133 final size:133
Alignment explanation
Indices: 376445--376711 Score: 534
Period size: 133 Copynumber: 2.0 Consensus size: 133
376435 CATCGCAACA
376445 TGCCCTTCTTTCTTGGCTTGGTATTTTAATCGGATGCGGACAAAATGTCACAACTAGCATAATCA
1 TGCCCTTCTTTCTTGGCTTGGTATTTTAATCGGATGCGGACAAAATGTCACAACTAGCATAATCA
376510 ATTACTAGAATTTCTAGAACACTTCTGTTTCAGTTCTCTTAAATCTTCCATGTTCAAGCTTCTTA
66 ATTACTAGAATTTCTAGAACACTTCTGTTTCAGTTCTCTTAAATCTTCCATGTTCAAGCTTCTTA
376575 GAC
131 GAC
376578 TGCCCTTCTTTCTTGGCTTGGTATTTTAATCGGATGCGGACAAAATGTCACAACTAGCATAATCA
1 TGCCCTTCTTTCTTGGCTTGGTATTTTAATCGGATGCGGACAAAATGTCACAACTAGCATAATCA
376643 ATTACTAGAATTTCTAGAACACTTCTGTTTCAGTTCTCTTAAATCTTCCATGTTCAAGCTTCTTA
66 ATTACTAGAATTTCTAGAACACTTCTGTTTCAGTTCTCTTAAATCTTCCATGTTCAAGCTTCTTA
376708 GAC
131 GAC
376711 T
1 T
376712 CCTCTAACAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (133 bp):
TGCCCTTCTTTCTTGGCTTGGTATTTTAATCGGATGCGGACAAAATGTCACAACTAGCATAATCA
ATTACTAGAATTTCTAGAACACTTCTGTTTCAGTTCTCTTAAATCTTCCATGTTCAAGCTTCTTA
GAC
Found at i:379648 original size:16 final size:15
Alignment explanation
Indices: 379613--379657 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
379603 CTATCAATAT
*
379613 TCTTATAATTTA-TA
1 TCTTATAATTTATTC
379627 TCTTATAATTATATTC
1 TCTTATAATT-TATTC
379643 TCTTAT-ATTTATTC
1 TCTTATAATTTATTC
379657 T
1 T
379658 TTTACTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 16 0.57
15 5 0.18
16 7 0.25
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTTATAATTTATTC
Found at i:380055 original size:23 final size:23
Alignment explanation
Indices: 379974--380048 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
379964 CTCATATAAA
*
379974 TGCACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
379997 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
380020 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
380043 TGCACC
1 TGCACC
380049 ATAGTGCTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:385660 original size:17 final size:17
Alignment explanation
Indices: 385638--385676 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
385628 ATTAAATCAG
385638 CCGATTTCAATCTCCAA
1 CCGATTTCAATCTCCAA
385655 CCGATTTCAATCTCCAA
1 CCGATTTCAATCTCCAA
385672 CCGAT
1 CCGAT
385677 GAGCAGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (17 bp):
CCGATTTCAATCTCCAA
Found at i:386615 original size:15 final size:15
Alignment explanation
Indices: 386595--386630 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
386585 CCACCATCGG
* *
386595 TTTTTTTATATCTGT
1 TTTTTTTAAATCAGT
386610 TTTTTTTAAATCAGT
1 TTTTTTTAAATCAGT
386625 TTTTTT
1 TTTTTT
386631 CAAACCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTTTTTAAATCAGT
Found at i:386750 original size:21 final size:22
Alignment explanation
Indices: 386724--386765 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
386714 GGTGAAAAAA
386724 CCGGATCGG-TTTTTATCCGAT
1 CCGGATCGGTTTTTTATCCGAT
*
386745 CCGGATTGGTTTTTTATCCGA
1 CCGGATCGGTTTTTTATCCGA
386766 CTTTGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (22 bp):
CCGGATCGGTTTTTTATCCGAT
Found at i:388144 original size:2 final size:2
Alignment explanation
Indices: 388137--388169 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
388127 TTATATGCCA
*
388137 AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
388170 TATATATATA
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:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:388174 original size:2 final size:2
Alignment explanation
Indices: 388169--388202 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
388159 ACACACACAC
*
388169 AT AT AT AT AT AT AT AT AT A- AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
388203 CAAGACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:390120 original size:23 final size:23
Alignment explanation
Indices: 390093--390139 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
390083 TGGTAGTTGG
390093 TTTAATGG-ATATTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
390116 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
390139 T
1 T
390140 ATGGTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:392962 original size:193 final size:191
Alignment explanation
Indices: 392605--392991 Score: 690
Period size: 193 Copynumber: 2.0 Consensus size: 191
392595 CTGAAAGTGG
392605 TGAAGCTGAATTACATGATGATAGCATTTCTAAGAATGACAAGGAGGAGGATCTTACTAAGGCAC
1 TGAAGCTGAATTACATGATGATAGC--TTCTAAGAATGACAAGGAGGAGGATCTTACTAAGGCAC
392670 CAATTCTGATGCCAAGGCAAAACCAATTCCTTTTACTGTCAAGAAGATAGACCTCCACCACCCTT
64 CAATTCTGATGCCAAGGCAAAACCAATTCCTTTTACTGTCAAGAAGATAGACCTCCACCACCCTT
392735 CCCGCAAAGATTGAAGAAGCATAATGATGAAGTTCAGTTC-AGAACTTCGTGGACATTCTTGA
129 CCCGCAAAGATTGAAGAAGCATAATGATGAAGTTCAGTTCAAGAACTTCGTGGACATTCTTGA
392797 TGAAGCTGAATTACATGATGATAGC-TCTAAGAATGACAAGGAGGAGGATCTTACTAAGGCACCA
1 TGAAGCTGAATTACATGATGATAGCTTCTAAGAATGACAAGGAGGAGGATCTTACTAAGGCACCA
392861 GATTCTGATGCCAAGGC-AAACCAATTCCTTTTACTGCAGTCAAGGAAGATAGACCTCCACCACC
66 -ATTCTGATGCCAAGGCAAAACCAATTCCTTTTACT---GTCAA-GAAGATAGACCTCCACCACC
392925 CTTCCCGCAAAGATTGAAGAAGCATAATGATGAAGTTCAGTTCAAGAACTTCGTGGACATTCTTG
126 CTTCCCGCAAAGATTGAAGAAGCATAATGATGAAGTTCAGTTCAAGAACTTCGTGGACATTCTTG
392990 A
191 A
392991 T
1 T
392992 CAGCTCCATA
Statistics
Matches: 189, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
189 57 0.30
190 16 0.08
192 30 0.16
193 63 0.33
194 23 0.12
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (191 bp):
TGAAGCTGAATTACATGATGATAGCTTCTAAGAATGACAAGGAGGAGGATCTTACTAAGGCACCA
ATTCTGATGCCAAGGCAAAACCAATTCCTTTTACTGTCAAGAAGATAGACCTCCACCACCCTTCC
CGCAAAGATTGAAGAAGCATAATGATGAAGTTCAGTTCAAGAACTTCGTGGACATTCTTGA
Found at i:393874 original size:44 final size:44
Alignment explanation
Indices: 393810--393904 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
393800 TTAGAGCTTA
* *
393810 AGACTTTGCCAGGGCATCTTAAATATGTTTACTTAGGTAGTAATG
1 AGACTTTGCCAGGGCATCTTAAATATATTTACTT-GGTAGCAATG
393855 AGACTTT-CCAGGGCATCTTAAATATATTTACTTGGTAGCAATG
1 AGACTTTGCCAGGGCATCTTAAATATATTTACTTGGTAGCAATG
*
393898 AAACTTT
1 AGACTTT
393905 ACTGGTGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 15 0.32
44 25 0.53
45 7 0.15
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (44 bp):
AGACTTTGCCAGGGCATCTTAAATATATTTACTTGGTAGCAATG
Found at i:397067 original size:20 final size:20
Alignment explanation
Indices: 397044--397088 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
397034 TTAACTTTTT
*
397044 CTTTTCTCTTTC-TTCATTAA
1 CTTTTCTATTTCATT-ATTAA
*
397064 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATTATTAA
397084 CTTTT
1 CTTTT
397089 ACTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTCTATTTCATTATTAA
Found at i:400330 original size:23 final size:23
Alignment explanation
Indices: 400286--400332 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
400276 TGGTGGTTGG
*
400286 TTTAATGGATGTTTAGACTTTAT
1 TTTAATGGATATTTAGACTTTAT
*
400309 TTTAATGGTATATTTA-AGTTTAT
1 TTTAATGG-ATATTTAGACTTTAT
400332 T
1 T
400333 GTGTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (23 bp):
TTTAATGGATATTTAGACTTTAT
Found at i:400842 original size:11 final size:11
Alignment explanation
Indices: 400826--400856 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
400816 TTTTTTTCAT
*
400826 TTTATTTGCTG
1 TTTATTTACTG
400837 TTTATTTACTG
1 TTTATTTACTG
400848 TTTATTTAC
1 TTTATTTAC
400857 CATTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.65
Consensus pattern (11 bp):
TTTATTTACTG
Found at i:411016 original size:10 final size:9
Alignment explanation
Indices: 410985--411056 Score: 72
Period size: 10 Copynumber: 7.6 Consensus size: 9
410975 AGGGCTGGAA
410985 ACCGGTTTG
1 ACCGGTTTG
*
410994 ACCAGTTTCG
1 ACCGGTTT-G
411004 ACCGGTTCTG
1 ACCGGTT-TG
* *
411014 ACCTGTTCG
1 ACCGGTTTG
411023 AACCGGTTTG
1 -ACCGGTTTG
*
411033 ACCGGTCTG
1 ACCGGTTTG
411042 AACCGGTTTG
1 -ACCGGTTTG
411052 ACCGG
1 ACCGG
411057 ACTGACCCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 21 0.41
10 29 0.57
11 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.29, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:411055 original size:19 final size:20
Alignment explanation
Indices: 410984--411056 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 20
410974 GAGGGCTGGA
* *
410984 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCGGTCTCG
*
411004 -ACCGGTTCTGACCTGT-TCG
1 AACCGGTT-TGACCGGTCTCG
411023 AACCGGTTTGACCGGTCT-G
1 AACCGGTTTGACCGGTCTCG
411042 AACCGGTTTGACCGG
1 AACCGGTTTGACCGG
411057 ACTGACCCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.27
Consensus pattern (20 bp):
AACCGGTTTGACCGGTCTCG
Found at i:411061 original size:19 final size:19
Alignment explanation
Indices: 411022--411061 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
411012 TGACCTGTTC
*
411022 GAACCGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGACT
411041 GAACCGGTTTGACCGGACT
1 GAACCGGTTTGACCGGACT
411060 GA
1 GA
411062 CCCGACCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (19 bp):
GAACCGGTTTGACCGGACT
Found at i:411107 original size:22 final size:22
Alignment explanation
Indices: 411079--411121 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
411069 CAACCCGATT
411079 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
411101 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
411122 GTTGACCTTG
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:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:411121 original size:17 final size:18
Alignment explanation
Indices: 411059--411109 Score: 77
Period size: 17 Copynumber: 2.8 Consensus size: 18
411049 TTGACCGGAC
*
411059 TGACCCGACCCAACCCGAT
1 TGACCCGACCCGA-CCGAT
411078 TGACCCGACCCGACCG-T
1 TGACCCGACCCGACCGAT
411095 TGACCCGACCCGACC
1 TGACCCGACCCGACC
411110 CGACCGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.52
18 3 0.10
19 12 0.39
ACGTcount: A:0.22, C:0.49, G:0.20, T:0.10
Consensus pattern (18 bp):
TGACCCGACCCGACCGAT
Found at i:411123 original size:7 final size:7
Alignment explanation
Indices: 411111--411147 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
411101 GACCCGACCC
411111 GACCGTT
1 GACCGTT
411118 GACCGTT
1 GACCGTT
411125 GACC-TT
1 GACCGTT
411131 GACCGTT
1 GACCGTT
411138 GACCGTT
1 GACCGTT
411145 GAC
1 GAC
411148 TTCCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:411134 original size:13 final size:14
Alignment explanation
Indices: 411111--411147 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
411101 GACCCGACCC
411111 GACCGTTGACCGTT
1 GACCGTTGACCGTT
411125 GACC-TTGACCGTT
1 GACCGTTGACCGTT
411138 GACCGTTGAC
1 GACCGTTGAC
411148 TTCCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:413351 original size:24 final size:24
Alignment explanation
Indices: 413324--413386 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
413314 TACCTCACAA
413324 GGATTATGTTCTGATATATGACCT
1 GGATTATGTTCTGATATATGACCT
* *
413348 GGATGATGTTCTGATATTTGACCT
1 GGATTATGTTCTGATATATGACCT
* *
413372 GAATTATGTTTTGAT
1 GGATTATGTTCTGAT
413387 TTTTGATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (24 bp):
GGATTATGTTCTGATATATGACCT
Found at i:413661 original size:156 final size:156
Alignment explanation
Indices: 413413--413716 Score: 466
Period size: 156 Copynumber: 1.9 Consensus size: 156
413403 TACGAACGGA
* *
413413 AAATGTTTTATTTGGGTGGTATTGTTGGAGGAAGAATACTTGTAAGCTGCTCGGCTTTGTGCTCA
1 AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGAATACTTGCAAGCTGCTCGGCTTTGTGCTCA
* * *
413478 GAGCCTTACTTAATGTGACGATGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTTTTCGG
66 GAGCCTAACTCAATGTGACGATGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGG
* *
413543 TTGGAGGGATTACTATGGTTTTTGAT
131 CTGCAGGGATTACTATGGTTTTTGAT
* * *
413569 AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGTATACTTGCAGGCT-CTTCGGCTTTGTGCTT
1 AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGAATACTTGCAAGCTGC-TCGGCTTTGTGCTC
* * * *
413633 AGGGCCTAACTCGATGTGACGGTGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTGG
65 AGAGCCTAACTCAATGTGACGATGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCG
413698 GCTGCAGGGATTACTATGG
130 GCTGCAGGGATTACTATGG
413717 CTTCTGAATT
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
155 1 0.01
156 132 0.99
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (156 bp):
AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGAATACTTGCAAGCTGCTCGGCTTTGTGCTCA
GAGCCTAACTCAATGTGACGATGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGG
CTGCAGGGATTACTATGGTTTTTGAT
Found at i:413743 original size:13 final size:13
Alignment explanation
Indices: 413725--413749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
413715 GGCTTCTGAA
413725 TTTTAAAAAGATG
1 TTTTAAAAAGATG
413738 TTTTAAAAAGAT
1 TTTTAAAAAGAT
413750 TTATATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAGATG
Found at i:415754 original size:37 final size:37
Alignment explanation
Indices: 415710--415781 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
415700 CTAGGTCAAC
415710 TCGTTGACTTTGAACGAGTCAACCCGCTGACCGTTGA
1 TCGTTGACTTTGAACGAGTCAACCCGCTGACCGTTGA
* * *
415747 TCGTTGACTTTGACCGAGTCAATCCGTTGACCGTT
1 TCGTTGACTTTGAACGAGTCAACCCGCTGACCGTT
415782 TACTTTGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (37 bp):
TCGTTGACTTTGAACGAGTCAACCCGCTGACCGTTGA
Found at i:418072 original size:24 final size:24
Alignment explanation
Indices: 418045--418123 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
418035 TTGAATTCTT
* *
418045 TTATGATACCTGACATGGATTATG
1 TTATGATATCTGACCTGGATTATG
418069 TTATGATATCTGACCTGGA-TACTG
1 TTATGATATCTGACCTGGATTA-TG
*
418093 TTATGATATCTGACCTGAATTATG
1 TTATGATATCTGACCTGGATTATG
*
418117 TTTTGAT
1 TTATGAT
418124 TTTTGATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.04
24 45 0.92
25 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.42
Consensus pattern (24 bp):
TTATGATATCTGACCTGGATTATG
Found at i:418449 original size:157 final size:156
Alignment explanation
Indices: 418150--418456 Score: 470
Period size: 157 Copynumber: 2.0 Consensus size: 156
418140 CACAGACGGA
* * * *
418150 AAATGTTTTATTTGGGGGTATTGTTGGAGAAAGAATACTTGTAGGCTCATCAGCTTTGTGCTCAG
1 AAATGTTTTATTTGGGGGTATTGTTGGAGAAAGAATACTAGCAAGCTCATCAGCTTTGTGCTCAA
*
418215 GGCCTTACTCGATGTGACGGTGGGTGTATGGTTCTAGGGAACCTACACATTATGATGTGTTCAGT
66 GGCCTTACTCGATGTGACGGTGGGTGTATGGTTCTAGGGAACCTACACATTATGATGTGTTCAGC
418280 TGAAGGGATTACTATGGTTTTTTTAT
131 TGAAGGGATTACTATGGTTTTTTTAT
* * * *
418306 AAATGTTTTATTTGGGGGGTATTGTTGGAGGAAGTATACTAGCAAGCTCATCGGCTTTGTTCTCA
1 AAATGTTTTATTT-GGGGGTATTGTTGGAGAAAGAATACTAGCAAGCTCATCAGCTTTGTGCTCA
* * * **
418371 ATGCCTTACTCGATGTGATGGTGGGTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTGGG
65 AGGCCTTACTCGATGTGACGGTGGGTGTATGGTTCTAGGGAACCTACACATTATGATGTGTTCAG
*
418436 CTGGAGGGATTACTATGGTTT
130 CTGAAGGGATTACTATGGTTT
418457 CTGAATTTTA
Statistics
Matches: 135, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
156 13 0.10
157 122 0.90
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (156 bp):
AAATGTTTTATTTGGGGGTATTGTTGGAGAAAGAATACTAGCAAGCTCATCAGCTTTGTGCTCAA
GGCCTTACTCGATGTGACGGTGGGTGTATGGTTCTAGGGAACCTACACATTATGATGTGTTCAGC
TGAAGGGATTACTATGGTTTTTTTAT
Found at i:421700 original size:18 final size:18
Alignment explanation
Indices: 421677--421728 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
421667 TGTGTTATAT
*
421677 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGGACATA
421695 GTGGTCATTCGGGACATA
1 GTGGTCATTCGGGACATA
*
421713 GTGGTCATTTGGGACA
1 GTGGTCATTCGGGACA
421729 AATTCTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (18 bp):
GTGGTCATTCGGGACATA
Found at i:423718 original size:7 final size:7
Alignment explanation
Indices: 423706--423775 Score: 140
Period size: 7 Copynumber: 10.0 Consensus size: 7
423696 ATGCTTGGAC
423706 GAAGAAG
1 GAAGAAG
423713 GAAGAAG
1 GAAGAAG
423720 GAAGAAG
1 GAAGAAG
423727 GAAGAAG
1 GAAGAAG
423734 GAAGAAG
1 GAAGAAG
423741 GAAGAAG
1 GAAGAAG
423748 GAAGAAG
1 GAAGAAG
423755 GAAGAAG
1 GAAGAAG
423762 GAAGAAG
1 GAAGAAG
423769 GAAGAAG
1 GAAGAAG
423776 AGAAAGAGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 63 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:426463 original size:96 final size:94
Alignment explanation
Indices: 426348--426525 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 94
426338 TTGAAAATGT
*
426348 TATTGCATATGCATGATGCTTCTATAGTCATGGGTGTAGTATCGAATGTCCTTTCTCCATTCACA
1 TATTGCATATGCATGATGCTTCTATAGTCATGGATGTAGTATCGAATGTCCTTTCTCCATTCACA
*
426413 TAATGACGTCTCAATCTTAGTAAAAACGC
66 CAATGACGTCTCAATCTTAGTAAAAACGC
* * * * * * *
426442 TATTGCATGGATGCTTGATGCTTCTATAGTCATGTATGTGGTATCGATTGTCTTTTCTTCGTTCA
1 TATTGCAT--ATGCATGATGCTTCTATAGTCATGGATGTAGTATCGAATGTCCTTTCTCCATTCA
426507 CACAATGACGTCTCAATCT
64 CACAATGACGTCTCAATCT
426526 CATTCCCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 8 0.11
96 65 0.89
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (94 bp):
TATTGCATATGCATGATGCTTCTATAGTCATGGATGTAGTATCGAATGTCCTTTCTCCATTCACA
CAATGACGTCTCAATCTTAGTAAAAACGC
Found at i:427960 original size:30 final size:28
Alignment explanation
Indices: 427921--427990 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 28
427911 TATTAAGATG
* *
427921 AAATAATTTATTATCAATTATT-TAAATACT
1 AAATTATTTAATAT-AATT-TTATAAATA-T
*
427951 AATTTATTTAAATATAATTTTATAAATAT
1 AAATTATTT-AATATAATTTTATAAATAT
427980 AAATTATTTAA
1 AAATTATTTAA
427991 AAAGTTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.06
29 11 0.32
30 17 0.50
31 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
AAATTATTTAATATAATTTTATAAATAT
Found at i:427968 original size:15 final size:15
Alignment explanation
Indices: 427938--427991 Score: 74
Period size: 14 Copynumber: 3.6 Consensus size: 15
427928 TTATTATCAA
427938 TTATTTAAATACTAAT
1 TTATTTAAATA-TAAT
427954 TTATTTAAATATAAT
1 TTATTTAAATATAAT
* *
427969 TT-TATAAATATAAA
1 TTATTTAAATATAAT
427983 TTATTTAAA
1 TTATTTAAA
427992 AAGTTAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.35
15 11 0.32
16 11 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATTTAAATATAAT
Found at i:428086 original size:19 final size:20
Alignment explanation
Indices: 428051--428092 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
428041 TTACTAATAA
428051 AAATAATACAAACTAATT-G
1 AAATAATACAAACTAATTAG
* *
428070 AAATAATATAAATTAATTAG
1 AAATAATACAAACTAATTAG
428090 AAA
1 AAA
428093 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAATACAAACTAATTAG
Found at i:428360 original size:15 final size:14
Alignment explanation
Indices: 428327--428353 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
428317 GTTCTAATCT
428327 AATAATTATTTTTA
1 AATAATTATTTTTA
428341 AATAATTATTTTT
1 AATAATTATTTTT
428354 TTCATAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATAATTATTTTTA
Found at i:437725 original size:3 final size:3
Alignment explanation
Indices: 437717--437751 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
437707 GATACTATCA
437717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
437752 CAAAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:440225 original size:148 final size:144
Alignment explanation
Indices: 439951--440242 Score: 523
Period size: 148 Copynumber: 2.0 Consensus size: 144
439941 CCGACTCCCG
439951 AACTCAAATTTTGGTAACGCAACCCCAAGGTGTCTTTTTATTAAAATTAATATTTTATTAAAATG
1 AACTCAAATTTTGGTAACGCAACCCCAAGGTGTCTTTTTATTAAAATTAATATTTTATTAAAATG
440016 ACAAATTTGGTTTTATCTTATGCCAGAAGAAAAACACTTACTTTTTAGAGACGAGATTTAGAAAA
66 ACAAATTTGGTTTTATCTTATGCCAGAAGAAAAACACTTACTTTTTAGAGACGAGATTTAGAAAA
440081 CAACGACACTTGTT
131 CAACGACACTTGTT
*
440095 AACTCAAATTTTGGTAACGCAAACCCCAAGTTTGTCTTTTTAATTAAAATTAATATTTTATTAAA
1 AACTCAAATTTTGGTAACGC-AACCCCAAG-GTGTCTTTTT-ATTAAAATTAATATTTTATTAAA
440160 ATGACAAATATTGTGTTTTATCTTATGCCAGAAG-AAAACACTTACTTTTTAGAGACGAGATTTA
63 ATGACAAAT-TTG-GTTTTATCTTATGCCAGAAGAAAAACACTTACTTTTTAGAGACGAGATTTA
440224 GAAAACAACGACACTTGTT
126 GAAAACAACGACACTTGTT
440243 TTCACCGGCG
Statistics
Matches: 142, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
144 20 0.14
145 9 0.06
146 9 0.06
147 32 0.23
148 52 0.37
149 20 0.14
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (144 bp):
AACTCAAATTTTGGTAACGCAACCCCAAGGTGTCTTTTTATTAAAATTAATATTTTATTAAAATG
ACAAATTTGGTTTTATCTTATGCCAGAAGAAAAACACTTACTTTTTAGAGACGAGATTTAGAAAA
CAACGACACTTGTT
Found at i:441086 original size:35 final size:34
Alignment explanation
Indices: 441038--441104 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
441028 AACCTTAATC
* *
441038 TAGTCCTTTTTAGGATGGTTTCTCTAGAAATTTGT
1 TAGTCCTTCTTAGGATCGTTTCTCTA-AAATTTGT
*
441073 TAGTCCTTCTTAGGATCGTTTCTTTAAAATTT
1 TAGTCCTTCTTAGGATCGTTTCTCTAAAATTT
441105 CATCTTAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.49
Consensus pattern (34 bp):
TAGTCCTTCTTAGGATCGTTTCTCTAAAATTTGT
Found at i:441281 original size:45 final size:45
Alignment explanation
Indices: 441146--441684 Score: 566
Period size: 45 Copynumber: 12.0 Consensus size: 45
441136 AAAACCTCAA
* * * * * *
441146 CTTGACTTTCTCATGAAGAAGAGTAAATATTTTAGTGATGCCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
441191 CTTGGCTTTCTCTTGAAAAGGAGTCAATC-TTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
441235 CTTTACTTTCACATGAAGAGGAATGAATCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
441280 CTTGAATTTCTCGTAAAGAGGAGTCAATCTTTTAGTGTTATCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * ** * *
441325 CTTGACTTTCTCATGAAGAAGAGAGAATCTTTCAGTGTTATCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
*
441370 CTTGAATTTCTCGTGAAGAGGAGTCAAT-TTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * *
441414 CTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGATATTATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
441459 CTTGACTTTCTCGCGAAAAGGATTCGATCTTTTAGTGTTGTCCTT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
**
441504 CTTGACTTTCTCGCAAAGAGGAGTCAA-CATTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTTAGTGTTGTCATT
* * * *
441549 CTTGACTTTCTTGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
441594 CTTGACTTTCTCGCGAAGAGTAGTCAACCTTTTAATGATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * **
441639 CTTGACTTTCTAG-GAAAATGAGTCAA-CTTTTTAGTAATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTTAGTGTTGTCATT
441683 CT
1 CT
441685 CAACTTGACT
Statistics
Matches: 418, Mismatches: 71, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
43 1 0.00
44 100 0.24
45 316 0.76
46 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
Found at i:441673 original size:179 final size:178
Alignment explanation
Indices: 441146--441669 Score: 617
Period size: 179 Copynumber: 2.9 Consensus size: 178
441136 AAAACCTCAA
* * * * *
441146 CTTGACTTTCTCATGAAGAAGAGTAAATATTTTAGTGATGCCATTCTTGGCTTTCTCT-TGAAAA
1 CTTGACTTTCTCATGAAGAAGAGTAAACATTTTAGTGTTGTCATTCTTGACTTTCT-TGTGAAGA
* * * * *
441210 GGAGTCAA-TCTTTAGTGTTGTCATTCTTTACTTTCACATGAAGAGGAATGAATCTTTTAGTGTT
65 GGAGTCAACT-TTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGAT
* *
441274 GTCATTCTTGAATTTCTCGTAAAGAGGAGTCAATCTTTTAGTGTTATCATT
129 GTCATTCTTGACTTTCTCGGAAA-AGGAGTCAATCTTTTAGTGTTATCATT
* * * *
441325 CTTGACTTTCTCATGAAGAAGAG-AGAATC-TTTCAGTGTTATCATTCTTGAATTTCTCGTGAAG
1 CTTGACTTTCTCATGAAGAAGAGTA-AA-CATTTTAGTGTTGTCATTCTTGACTTTCTTGTGAAG
*
441388 AGGAGTCAATTTTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGAT
64 AGGAGTCAACTTTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGAT
* * * * * *
441453 ATTATTCTTGACTTTCTCGCGAAAAGGATTCGATCTTTTAGTGTTGTCCTT
129 GTCATTCTTGACTTTCTCG-GAAAAGGAGTCAATCTTTTAGTGTTATCATT
*** * * *
441504 CTTGACTTTCTCGCAAAGAGGAGTCAACATTTTAGTGTTGTCATTCTTGACTTTCTTGCGAAGAG
1 CTTGACTTTCTCATGAAGAAGAGTAAACATTTTAGTGTTGTCATTCTTGACTTTCTTGTGAAGAG
* ** * * *
441569 GAGTCAACCTTTTAGTGATGTCATTCTTGACTTTCTCGCGAAGAGTAGTCAACCTTTTAATGATG
66 GAGTCAA-CTTTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGATG
* *
441634 TCATTCTTGACTTTCTAGGAAAATGAGTCAA-CTTTT
130 TCATTCTTGACTTTCTCGGAAAAGGAGTCAATCTTTT
441670 TAGTAATGTC
Statistics
Matches: 292, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
178 7 0.02
179 216 0.74
180 69 0.24
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (178 bp):
CTTGACTTTCTCATGAAGAAGAGTAAACATTTTAGTGTTGTCATTCTTGACTTTCTTGTGAAGAG
GAGTCAACTTTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGATGT
CATTCTTGACTTTCTCGGAAAAGGAGTCAATCTTTTAGTGTTATCATT
Found at i:441673 original size:224 final size:224
Alignment explanation
Indices: 441175--441673 Score: 574
Period size: 224 Copynumber: 2.2 Consensus size: 224
441165 AGAGTAAATA
* * * ** * * * * * *
441175 TTTTAGTGATGCCATTCTTGGCTTTCTCTTGAAAAGGAGTCAATC-TTTAGTGTTGTCATTCTTT
1 TTTTAATGATGTCATTCTTGACTTTCTCAGGAAAAGGAATCAACCTTTTAGTGATATTATTCTTG
* ** * * *
441239 ACTTTCACATGAAGAGGAAT-GAATCTTTTAGTGTTGTCATTCTTGAATTTCTCGTAAAGAGGAG
66 ACTTTCTCGCGAAAAGGATTCG-ATCTTTTAGTGTTGTCATTCTTGAATTTCTCGCAAAGAGGAG
* * * *
441303 TCAATCTTTTAGTGTTATCATTCTTGACTTTCTCATGAAGAAGAGAGAATCTTTCAGTGTTATCA
130 TCAATCTTTTAGTGTTATCATTCTTGACTTTCTCACGAAGAAGAGACAACCTTTCAGTGATATCA
* *
441368 TTCTTGAATTTCTCGTGAAGAGGAGTCAAT
195 TTCTTGAATTTCTCGCGAAGAGGAGTCAAC
* * * *
441398 TTTTAGTGTTGTCATTCTTGACTTTCTCATGAAGAGGAATCAACCTTTTAGTGATATTATTCTTG
1 TTTTAATGATGTCATTCTTGACTTTCTCAGGAAAAGGAATCAACCTTTTAGTGATATTATTCTTG
* *
441463 ACTTTCTCGCGAAAAGGATTCGATCTTTTAGTGTTGTCCTTCTTGACTTTCTCGCAAAGAGGAGT
66 ACTTTCTCGCGAAAAGGATTCGATCTTTTAGTGTTGTCATTCTTGAATTTCTCGCAAAGAGGAGT
* ** * * * *
441528 CAA-CATTTTAGTGTTGTCATTCTTGACTTTCTTGCGAAGAGGAGTCAACCTTTTAGTGATGTCA
131 CAATC-TTTTAGTGTTATCATTCTTGACTTTCTCACGAAGAAGAGACAACCTTTCAGTGATATCA
* *
441592 TTCTTGACTTTCTCGCGAAGAGTAGTCAACC
195 TTCTTGAATTTCTCGCGAAGAGGAGTCAA-C
* * *
441623 TTTTAATGATGTCATTCTTGACTTTCT-AGGAAAATGAGTCAACTTTTTAGT
1 TTTTAATGATGTCATTCTTGACTTTCTCAGGAAAAGGAATCAACCTTTTAGT
441674 AATGTCATTC
Statistics
Matches: 231, Mismatches: 41, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
223 39 0.17
224 166 0.72
225 26 0.11
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (224 bp):
TTTTAATGATGTCATTCTTGACTTTCTCAGGAAAAGGAATCAACCTTTTAGTGATATTATTCTTG
ACTTTCTCGCGAAAAGGATTCGATCTTTTAGTGTTGTCATTCTTGAATTTCTCGCAAAGAGGAGT
CAATCTTTTAGTGTTATCATTCTTGACTTTCTCACGAAGAAGAGACAACCTTTCAGTGATATCAT
TCTTGAATTTCTCGCGAAGAGGAGTCAAC
Found at i:442325 original size:38 final size:39
Alignment explanation
Indices: 442260--442352 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
442250 TTTCTTAGGC
* * * *
442260 TCGTTTCTCTGGAAACCTTAATTTTGTCTATCTTAAG-A
1 TCGTTTCTCTAGAAACCTCAATCTTGTCTATCATAAGAA
* * *
442298 TCGTTTCCCTAGAAACCTCAGTCTTGTCTTTCATAAGAA
1 TCGTTTCTCTAGAAACCTCAATCTTGTCTATCATAAGAA
442337 T-GTTTCTCTAGAAACC
1 TCGTTTCTCTAGAAACC
442353 AACTTTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 44 0.96
39 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (39 bp):
TCGTTTCTCTAGAAACCTCAATCTTGTCTATCATAAGAA
Found at i:443158 original size:3 final size:3
Alignment explanation
Indices: 443150--443174 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
443140 TGTTTTCAAG
443150 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
443175 ATTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:443668 original size:20 final size:20
Alignment explanation
Indices: 443617--443668 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
443607 GAGATCAAAC
* *
443617 CGAAAATAAGAGGGACGGAT
1 CGAAAATAAGGGGGACGAAT
*
443637 CTGAAAAAAAGGGGGAC-AACT
1 C-GAAAATAAGGGGGACGAA-T
443658 CGAAAATAAGG
1 CGAAAATAAGG
443669 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.48, C:0.12, G:0.31, T:0.10
Consensus pattern (20 bp):
CGAAAATAAGGGGGACGAAT
Found at i:444904 original size:46 final size:46
Alignment explanation
Indices: 444837--444928 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
444827 AATGCTTGTG
444837 AAATGCTCACTTTCTCAACAAAGAAGCATGTCAAAAATTATAGTTT
1 AAATGCTCACTTTCTCAACAAAGAAGCATGTCAAAAATTATAGTTT
444883 AAATGCTCACTTTCTCAACAAAGAAGCATGTCAAAAATTATAGTTT
1 AAATGCTCACTTTCTCAACAAAGAAGCATGTCAAAAATTATAGTTT
444929 CTTCATATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (46 bp):
AAATGCTCACTTTCTCAACAAAGAAGCATGTCAAAAATTATAGTTT
Done.