Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 261 of 313
Found at i:79950226 original size:2 final size:2
Alignment explanation
Indices: 79950219--79950265 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
79950209 TCCATCTACT
79950219 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
79950261 TC TC T
1 TC TC T
79950266 TCCACTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:79954174 original size:6 final size:6
Alignment explanation
Indices: 79954163--79954197 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
79954153 ATCAGAAAGC
79954163 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGG
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT GAGGG
79954198 GGAAAGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.69, T:0.14
Consensus pattern (6 bp):
GAGGGT
Found at i:79958940 original size:25 final size:25
Alignment explanation
Indices: 79958849--79958942 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
79958839 TCATGTACAT
79958849 GTATGCTCAT-ATGAGCTGTGAAAT-G
1 GTATGCTC-TCATGAGCTGT-AAATCG
* * *
79958874 GTATGCTCAC-TCGAGCTGTAGATCA
1 GTATGCTCTCAT-GAGCTGTAAATCG
* ** *
79958899 GTATGCTCTTACAAGCTATAAATCG
1 GTATGCTCTCATGAGCTGTAAATCG
79958924 GTATGCTCTCATGAGCTGT
1 GTATGCTCTCATGAGCTGT
79958943 GGAGTATCCG
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
24 4 0.08
25 47 0.92
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (25 bp):
GTATGCTCTCATGAGCTGTAAATCG
Found at i:79961185 original size:25 final size:25
Alignment explanation
Indices: 79961157--79961213 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
79961147 ACTTGTGAAG
79961157 CCTTTGTGGTGAGTCACCTATAAAA
1 CCTTTGTGGTGAGTCACCTATAAAA
* * *
79961182 CCTTTGTGGTGAGTCACTTGTAAAG
1 CCTTTGTGGTGAGTCACCTATAAAA
79961207 CCTTTGT
1 CCTTTGT
79961214 TATAATAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (25 bp):
CCTTTGTGGTGAGTCACCTATAAAA
Found at i:79962548 original size:21 final size:21
Alignment explanation
Indices: 79962522--79962564 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
79962512 TTTGGGTGGA
**
79962522 TCAGCTCTTGCGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
79962543 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
79962564 T
1 T
79962565 GGCGTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:79967441 original size:43 final size:43
Alignment explanation
Indices: 79967125--79967440 Score: 418
Period size: 43 Copynumber: 7.3 Consensus size: 43
79967115 TTTTAGAAAT
* * * * * **
79967125 AAACGCCGCTAAAGAACAAGGCCTTTAGCGACGCTATTCTGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
79967168 AAACGCCGCTAATAG-CCATGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAA-AGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
79967211 TAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
79967254 AAACGTCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
79967297 AAACGCCGCTAAAGACCATGACATTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
79967340 AAACGCCGTTAAAGACCAAGACCTTTAGCGGCGATTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
79967383 AAACGCCTCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
79967426 AAATGCCGCTAAAGA
1 AAACGCCGCTAAAGA
79967441 ATAAACCTTT
Statistics
Matches: 238, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
42 2 0.01
43 234 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:79968029 original size:16 final size:17
Alignment explanation
Indices: 79968003--79968034 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
79967993 ATTTTAGAAA
79968003 AAAATAATAATAAAAAT
1 AAAATAATAATAAAAAT
79968020 AAAA-AATAATAAAAA
1 AAAATAATAATAAAAA
79968035 GGTACTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAATAATAAAAAT
Found at i:79971571 original size:14 final size:15
Alignment explanation
Indices: 79971543--79971573 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
79971533 ACATAAATCG
79971543 TAAACCCCTAACCCT
1 TAAACCCCTAACCCT
79971558 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
79971572 TA
1 TA
79971574 TAATTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:79972599 original size:82 final size:82
Alignment explanation
Indices: 79972486--79972681 Score: 279
Period size: 82 Copynumber: 2.4 Consensus size: 82
79972476 TAAATCTGAG
* *
79972486 CATTAGCGGC-CCTTTTCAACAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTAAAAAA
1 CATTAGCGGCGCTTTTTCAA-AAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTAAAAAA
* * *
79972550 TGCCGCTAAATCCCTAAA
65 CGCCGCTAAAACCCAAAA
* *
79972568 CATTAGCGTCGCTTCTTT-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTAAAAAA
1 CATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTAAAAAA
79972632 CGCCGCTAAAACCCAAAA
65 CGCCGCTAAAACCCAAAA
* *
79972650 CATTAGCGGCGCTTTTTCAAAATCGCCACTAA
1 CATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
79972682 TGCCTCAAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 3 0.03
82 91 0.90
83 4 0.04
84 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (82 bp):
CATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTAAAAAAC
GCCGCTAAAACCCAAAA
Found at i:79972666 original size:41 final size:41
Alignment explanation
Indices: 79972486--79972681 Score: 223
Period size: 41 Copynumber: 4.8 Consensus size: 41
79972476 TAAATCTGAG
* * * * * *
79972486 CATTAGCGGCCCTTTTCAACAAACACCGCTAAAGCCCTGAG
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTAAA
* * *
79972527 CATTAGCGGCGCTTATTAAAAAATGCCGCTAAATCCCTAAA
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTAAA
* * *
79972568 CATTAGCGTCGCTTCTTT-AAAAACGCCGCTAAAGCCCTGAG
1 CATTAGCGGCGCTT-TTTAAAAAACGCCGCTAAAGCCCTAAA
* *
79972609 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAAAA
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTAAA
* * *
79972650 CATTAGCGGCGCTTTTTCAAAATCGCCACTAA
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAA
79972682 TGCCTCAAAA
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
40 3 0.02
41 125 0.96
42 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (41 bp):
CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTAAA
Found at i:79972810 original size:40 final size:40
Alignment explanation
Indices: 79972760--79972843 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
79972750 CTAATGCTCA
* *
79972760 TTTAGAAAGCGCCACTAATACTTGATCTTTAGTGGCATTT
1 TTTAAAAAGCGCCACTAATACTTGATCTTTAGCGGCATTT
** * *
79972800 TTTAAAAAGCGCCGTTAATGCTTGATTTTTAGCGGCATTT
1 TTTAAAAAGCGCCACTAATACTTGATCTTTAGCGGCATTT
79972840 TTTA
1 TTTA
79972844 TCCAAACGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (40 bp):
TTTAAAAAGCGCCACTAATACTTGATCTTTAGCGGCATTT
Found at i:79977475 original size:21 final size:21
Alignment explanation
Indices: 79977449--79977491 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
79977439 GTGAGATTCT
*
79977449 AACTTTTTATTGATTAAACTA
1 AACTTTTTATTCATTAAACTA
79977470 AACTTTTTATTCATTAAACTA
1 AACTTTTTATTCATTAAACTA
79977491 A
1 A
79977492 GTGAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
AACTTTTTATTCATTAAACTA
Found at i:79984481 original size:20 final size:21
Alignment explanation
Indices: 79984458--79984501 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
79984448 GGTATGCAGT
79984458 TTTTAG-ATGATTTA-AATGTG
1 TTTTAGTATG-TTTATAATGTG
*
79984478 TTTTAGTTTGTTTATAATGTG
1 TTTTAGTATGTTTATAATGTG
79984499 TTT
1 TTT
79984502 GTAATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (21 bp):
TTTTAGTATGTTTATAATGTG
Found at i:79985447 original size:74 final size:74
Alignment explanation
Indices: 79985326--79985513 Score: 367
Period size: 74 Copynumber: 2.5 Consensus size: 74
79985316 CAAAAAAAAT
79985326 TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAGTACACTACAATATATTTGTATATTA
1 TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAGTACACTACAATATATTTGTATATTA
79985391 TATATGGAA
66 TATATGGAA
79985400 TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAGTACACTACAATATATTTGTATATTA
1 TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAGTACACTACAATATATTTGTATATTA
79985465 TATATGGAA
66 TATATGGAA
*
79985474 TAATGAGACTCTACTCACATTCCTGACCACCAGATGATAG
1 TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAG
79985514 ATTTTGTTTC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 113 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (74 bp):
TAATGAGACTCTACTCACATTCCTGACCACTAGATGATAGTACACTACAATATATTTGTATATTA
TATATGGAA
Found at i:79986548 original size:32 final size:32
Alignment explanation
Indices: 79986500--79986638 Score: 183
Period size: 32 Copynumber: 4.4 Consensus size: 32
79986490 AATCTCTACT
* *
79986500 AGCCATAAGTA-TAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
79986531 AGCCATCAGTAGTAGTAATATGATCGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
* * *
79986563 AGCCATCAGTAGAAGTGATATGATCGGCACAC
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
***
79986595 AGCCTAT-AGTAACGGTAATATGATCGGCACAA
1 AGCC-ATCAGTAGTAGTAATATGATCGGCACAA
79986627 AGCCATCAGTAG
1 AGCCATCAGTAG
79986639 CATCGCAGCA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
31 12 0.13
32 80 0.85
33 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGTAGTAATATGATCGGCACAA
Found at i:79986669 original size:26 final size:26
Alignment explanation
Indices: 79986640--79986705 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
79986630 CATCAGTAGC
*
79986640 ATCGCAGCAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
79986666 ATCGTAGAAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
79986692 ACCGTAGCAAAGCT
1 ATCGTAGCAAAGCT
79986706 ACCAGTAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (26 bp):
ATCGTAGCAAAGCTGCCAACAATAGT
Found at i:79986890 original size:24 final size:24
Alignment explanation
Indices: 79986807--79986941 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
79986797 GCCATGCACA
** *
79986807 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
*** *
79986831 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATTTAAATCACAGAC
*
79986855 AAATCAGTCATTTAAATCATAGAC
1 AAATCAGTCATTTAAATCACAGAC
* * *
79986879 AAATCAGTCATTTATATCTCGGAC
1 AAATCAGTCATTTAAATCACAGAC
* * * * *
79986903 AAATTAATCACTTACATCACAGAT
1 AAATCAGTCATTTAAATCACAGAC
*
79986927 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
79986942 CCTCGAGGGC
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:79987102 original size:27 final size:27
Alignment explanation
Indices: 79987006--79987102 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
79986996 TAACAGAGGT
*
79987006 ATTACAATCATTTTGC-CTACAGGGGC
1 ATTACAATCATTTTACACTACAGGGGC
* ** *
79987032 ATCACGGTCATTTTACCCTACAGGGGC
1 ATTACAATCATTTTACACTACAGGGGC
* *
79987059 ATTGCGATCATTTTACACTACAGGGGC
1 ATTACAATCATTTTACACTACAGGGGC
79987086 ATTACAATCATTTTACA
1 ATTACAATCATTTTACA
79987103 AATATTGAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.20
27 48 0.80
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (27 bp):
ATTACAATCATTTTACACTACAGGGGC
Found at i:79991432 original size:24 final size:24
Alignment explanation
Indices: 79991361--79991432 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
79991351 TATAACAGAA
* *
79991361 AGCTCACAAAGAGC-CTATAACGGAT
1 AGCTC-CAAAGAGCAAT-TAACGGGT
* *
79991386 AGCTCCAAATAGTAATTAACGGGT
1 AGCTCCAAAGAGCAATTAACGGGT
*
79991410 AGCTCCGAAGAGCAATTAACGGG
1 AGCTCCAAAGAGCAATTAACGGG
79991433 AAGCATCGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 33 0.85
25 6 0.15
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACGGGT
Found at i:79991538 original size:26 final size:26
Alignment explanation
Indices: 79991479--79991539 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
79991469 AGCACTAAAG
* *
79991479 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCC
*
79991505 GGAAGCTCACGAAGAGCCATATAA-CC
1 GGAAGCTCACAAAGAGCC-TATAATCC
*
79991531 GGACGCTCA
1 GGAAGCTCA
79991540 TAAGAGCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCC
Found at i:79995153 original size:27 final size:27
Alignment explanation
Indices: 79995115--79995172 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
79995105 CTATATATAG
**
79995115 AGTCTGCTGGGATAGTAAACATTAGGT
1 AGTCTGCTGGGATAGTAAACACGAGGT
*
79995142 AGTCTGCTGGGATATTAAACACGAGGT
1 AGTCTGCTGGGATAGTAAACACGAGGT
79995169 AGTC
1 AGTC
79995173 CGTTAGGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (27 bp):
AGTCTGCTGGGATAGTAAACACGAGGT
Found at i:80000505 original size:23 final size:23
Alignment explanation
Indices: 80000479--80000528 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
80000469 GCTCGATTTG
*
80000479 TTTAGCATTTGCGAACATGTTCA
1 TTTAGCATTCGCGAACATGTTCA
* *
80000502 TTTAGCATTCGTGAACATGTTCG
1 TTTAGCATTCGCGAACATGTTCA
80000525 TTTA
1 TTTA
80000529 ATGCTCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (23 bp):
TTTAGCATTCGCGAACATGTTCA
Found at i:80000934 original size:3 final size:3
Alignment explanation
Indices: 80000926--80000955 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
80000916 TTGTTTGATC
80000926 TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
80000956 AAGAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:80011225 original size:6 final size:6
Alignment explanation
Indices: 80011214--80011253 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
80011204 ATGTGCCGAC
*
80011214 TACTGT TACTGT TACTAAT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACT-GT TACTGT TACTGT TACTGT TAC
80011254 CGACTCGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:80011283 original size:45 final size:45
Alignment explanation
Indices: 80011233--80011433 Score: 321
Period size: 45 Copynumber: 4.5 Consensus size: 45
80011223 TGTTACTAAT
80011233 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
80011278 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
80011323 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
* * * * * * *
80011368 TACTGTTACCGCTACCGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
* *
80011413 TACTGTTACTGCTACCGTTAC
1 TACTGTTACTGTTACTGTTAC
80011434 TGATTACTGT
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 148 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
Found at i:80018745 original size:20 final size:18
Alignment explanation
Indices: 80018698--80018746 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
80018688 CAATATAAAC
80018698 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
80018715 ATTAACA-TAATATGTTTAAT
1 ATTAA-ATTAATA--TTTAAT
80018735 ATTAAATTAATA
1 ATTAAATTAATA
80018747 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 1 0.04
20 16 0.59
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:80019216 original size:24 final size:25
Alignment explanation
Indices: 80019187--80019237 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
80019177 AAATATCATA
*
80019187 TTAATTTTAATTAATC-TAATTAAT
1 TTAATTTTAATTAATCAAAATTAAT
* *
80019211 TTAATTTTACTTGATCAAAATTAAT
1 TTAATTTTAATTAATCAAAATTAAT
80019236 TT
1 TT
80019238 TTCTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (25 bp):
TTAATTTTAATTAATCAAAATTAAT
Found at i:80026394 original size:24 final size:24
Alignment explanation
Indices: 80026347--80026394 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
80026337 GATGAATTAT
* *
80026347 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
80026371 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
80026395 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:80026914 original size:15 final size:15
Alignment explanation
Indices: 80026894--80026924 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
80026884 GAAATCATGT
80026894 ATGAAATTATAATAC
1 ATGAAATTATAATAC
80026909 ATGAAATTATAATAC
1 ATGAAATTATAATAC
80026924 A
1 A
80026925 GTTTGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
ATGAAATTATAATAC
Found at i:80028028 original size:30 final size:28
Alignment explanation
Indices: 80027994--80028081 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 28
80027984 TTTTAAAATA
80027994 TTTATATTAATTATTTAAAAATATTGAATT
1 TTTATATTAATTATTTAAAAA-ATT-AATT
* * *
80028024 TTTATGTTAATTATTT-TAAAAGTAA--
1 TTTATATTAATTATTTAAAAAATTAATT
80028049 TTTATATTAATTATTTAAAAAAATTTAATT
1 TTTATATTAATTATTT-AAAAAA-TTAATT
80028079 TTT
1 TTT
80028082 TATGTTATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
25 15 0.32
27 6 0.13
28 5 0.11
29 3 0.06
30 18 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTATATTAATTATTTAAAAAATTAATT
Found at i:80028062 original size:55 final size:54
Alignment explanation
Indices: 80027984--80028088 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 54
80027974 AAAATATGAT
*
80027984 TTTTAAAATATTTATATTAATTATTTAAAAATATTGAA-TTTTTATGTTAATTA
1 TTTTAAAATATTTATATTAATTATTTAAAAAAATTGAATTTTTTATGTTAATTA
*
80028037 TTTTAAAAGTAATTTATATTAATTATTTAAAAAAATTTAATTTTTTATGTTA
1 TTTTAAAA-T-ATTTATATTAATTATTTAAAAAAATTGAATTTTTTATGTTA
80028089 TGCACCAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 8 0.17
54 1 0.02
55 27 0.57
56 11 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (54 bp):
TTTTAAAATATTTATATTAATTATTTAAAAAAATTGAATTTTTTATGTTAATTA
Found at i:80029622 original size:21 final size:20
Alignment explanation
Indices: 80029596--80029649 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
80029586 AACAGCGGTG
80029596 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TACTGTA
*
80029617 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTGTA
80029638 GCGGTGAGATTA
1 GCGGTGAGATTA
80029650 GAAACAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.30
Consensus pattern (20 bp):
GCGGTGAGATTAATACTGTA
Found at i:80030484 original size:13 final size:14
Alignment explanation
Indices: 80030461--80030489 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
80030451 AATCATTTAC
80030461 TAAATTATTAAATA
1 TAAATTATTAAATA
80030475 TAAA-TATTAAATA
1 TAAATTATTAAATA
80030488 TA
1 TA
80030490 GTTATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATTATTAAATA
Found at i:80051751 original size:3 final size:3
Alignment explanation
Indices: 80051743--80051768 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
80051733 TACAATAAAA
80051743 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
80051769 ATACTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:80052592 original size:14 final size:14
Alignment explanation
Indices: 80052573--80052599 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80052563 CTTGTTTGCA
80052573 CTTTTTCTTTTTTC
1 CTTTTTCTTTTTTC
80052587 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
80052600 TGTCAACTCA
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTCTTTTTTC
Found at i:80054411 original size:28 final size:26
Alignment explanation
Indices: 80054359--80054411 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
80054349 GTGATTACAT
* *
80054359 GTTCAAATTAATATTTTCAATTTATA
1 GTTCAAAATAATAATTTCAATTTATA
*
80054385 GTTCATAAATAATAATTTGAATATTAT
1 GTTCA-AAATAATAATTTCAAT-TTAT
80054412 GTGAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 13 0.59
28 4 0.18
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (26 bp):
GTTCAAAATAATAATTTCAATTTATA
Found at i:80055960 original size:5 final size:5
Alignment explanation
Indices: 80055950--80055974 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
80055940 ACATTCGTTA
80055950 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
80055975 CTTGTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:80060046 original size:18 final size:18
Alignment explanation
Indices: 80060025--80060077 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
80060015 TTTTTTTTAT
*
80060025 TTTTATAAAATTTTTGAA
1 TTTTATAAAATTTTTAAA
*
80060043 TTTTAT-CAATTATTTAAA
1 TTTTATAAAATT-TTTAAA
*
80060061 TTTTA-ATAATTTTTAAA
1 TTTTATAAAATTTTTAAA
80060078 AAAATTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATAAAATTTTTAAA
Found at i:80060488 original size:51 final size:51
Alignment explanation
Indices: 80060429--80060536 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 51
80060419 TTTCTTTCCA
*
80060429 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCTCTC
1 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTC
*
80060480 AATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCCCTC
1 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTC
80060531 AATTTC
1 AATTTC
80060537 ATTTTTTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTC
Found at i:80060566 original size:10 final size:10
Alignment explanation
Indices: 80060551--80060602 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
80060541 TTTAAAATAA
80060551 TTTTATATTT
1 TTTTATATTT
80060561 TTTTATATTT
1 TTTTATATTT
* **
80060571 TTTTAAAATAA
1 TTTT-ATATTT
*
80060582 TTTTAAATTT
1 TTTTATATTT
80060592 TTTTATATTT
1 TTTTATATTT
80060602 T
1 T
80060603 CATCAATGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 28 0.80
11 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:80060576 original size:31 final size:31
Alignment explanation
Indices: 80060538--80060602 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
80060528 CTCAATTTCA
*
80060538 TTTTTTAAAATAATTTTATATTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
80060569 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
80060600 TTT
1 TTT
80060603 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTTTAAAATAATTTTAAATTTTTTTATAT
Found at i:80061695 original size:7 final size:7
Alignment explanation
Indices: 80061683--80061707 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
80061673 AGTCGATTGA
80061683 TATTTAG
1 TATTTAG
80061690 TATTTAG
1 TATTTAG
80061697 TATTTAG
1 TATTTAG
80061704 TATT
1 TATT
80061708 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:80062385 original size:18 final size:18
Alignment explanation
Indices: 80062359--80062393 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80062349 AGGTGTGTTT
* *
80062359 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
80062377 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
80062394 TCCTTTTTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:80062883 original size:71 final size:71
Alignment explanation
Indices: 80062795--80062979 Score: 307
Period size: 71 Copynumber: 2.6 Consensus size: 71
80062785 TATTTAAATT
* *
80062795 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCAAGTTA
1 TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCAAGTTA
80062860 TTTTGA
66 TTTTGA
* * * *
80062866 TATTATTTGAAATAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAAGTTTTTCGAGTTA
1 TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCAAGTTA
80062931 TTTTGA
66 TTTTGA
80062937 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATATAATAAAATAGAAGTT-TATTTGATGTAATA
80062980 AAAACCCTAA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 92 0.88
72 13 0.12
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (71 bp):
TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAAGTTTTTCAAGTTA
TTTTGA
Found at i:80063001 original size:18 final size:18
Alignment explanation
Indices: 80062978--80063030 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
80062968 TTTGATGTAA
80062978 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAATTTAAT
80062996 TAAAAACCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAATTTAAT
80063019 TAAAAACCCTAA
1 TAAAAACCCTAA
80063031 CCCTAACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
18 11 0.37
20 1 0.03
21 1 0.03
23 17 0.57
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAATTTAAT
Found at i:80063011 original size:23 final size:23
Alignment explanation
Indices: 80062985--80063065 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 23
80062975 TAATAAAAAC
80062985 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
80063008 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AACCCTAA
80063037 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
80063060 CTCTAA
1 C-CTAA
80063066 CCTAATTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
23 21 0.41
24 4 0.08
25 3 0.06
27 3 0.06
29 20 0.39
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.30
Consensus pattern (23 bp):
CCTAATTTAATTAAAAACCCTAA
Found at i:80063033 original size:29 final size:29
Alignment explanation
Indices: 80063000--80063251 Score: 366
Period size: 30 Copynumber: 8.6 Consensus size: 29
80062990 TTTAATTAAA
80063000 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
80063029 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
80063058 AACTCTAACCTAATTTAATTAAAAACCC-
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
80063086 ACTGCCCTAACCTAATTTAATTAAAAA-CCT
1 A--ACCCTAACCTAATTTAATTAAAAACCCT
* *
80063116 ACTGCCCTAACCTAATTTAATTAAAAATCCT
1 A--ACCCTAACCTAATTTAATTAAAAACCCT
*
80063147 AAACCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
80063176 AAACCCTAACCTAATTTAATTAAAAACCC-
1 -AACCCTAACCTAATTTAATTAAAAACCCT
*
80063205 ACTGCCCTAACCTAATTTAATTAAAAACCCT
1 A--ACCCTAACCTAATTTAATTAAAAACCCT
80063236 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
80063252 TACATAATTT
Statistics
Matches: 206, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.01
29 97 0.47
30 102 0.50
31 5 0.02
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.29
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:80063155 original size:89 final size:88
Alignment explanation
Indices: 80062999--80063251 Score: 395
Period size: 89 Copynumber: 2.9 Consensus size: 88
80062989 ATTTAATTAA
*
80062999 AAACCCTAACCTAATTTAATTAAAAACC-CTAACCCTAACCTAATTTAATTAAAAACCCT-AACT
1 AAACCCTAACCTAATTTAATTAAAAACCACT-GCCCTAACCTAATTTAATTAAAAACCCTAAAC-
80063062 CTAACCTAATTTAATTAAAAACCC-
64 CTAACCTAATTTAATTAAAAACCCT
** *
80063086 ACTGCCCTAACCTAATTTAATTAAAAACCTACTGCCCTAACCTAATTTAATTAAAAATCCTAAAC
1 A-AACCCTAACCTAATTTAATTAAAAACC-ACTGCCCTAACCTAATTTAATTAAAAACCCTAAAC
80063151 CTAACCTAATTTAATTAAAAACCCT
64 CTAACCTAATTTAATTAAAAACCCT
*
80063176 AAACCCTAACCTAATTTAATTAAAAACCCACTGCCCTAACCTAATTTAATTAAAAACCCTAACCC
1 AAACCCTAACCTAATTTAATTAAAAA-CCACTGCCCTAACCTAATTTAATTAAAAACCCTAAACC
80063241 TAACCTAATTT
65 TAACCTAATTT
80063252 TACATAATTT
Statistics
Matches: 152, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
87 1 0.01
88 25 0.16
89 118 0.78
90 8 0.05
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.28
Consensus pattern (88 bp):
AAACCCTAACCTAATTTAATTAAAAACCACTGCCCTAACCTAATTTAATTAAAAACCCTAAACCT
AACCTAATTTAATTAAAAACCCT
Found at i:80063312 original size:55 final size:55
Alignment explanation
Indices: 80063246--80063481 Score: 438
Period size: 55 Copynumber: 4.3 Consensus size: 55
80063236 AACCCTAACC
80063246 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
*
80063301 TAATTTTACATAATTTGATAATTTTACTAGCCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
*
80063356 TAATTTTGCATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
80063411 TAA-TTTAGCATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTA-CATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
80063466 TAATTTTACATAATTT
1 TAATTTTACATAATTT
80063482 TACATAATGT
Statistics
Matches: 175, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
54 3 0.02
55 168 0.96
56 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:80063480 original size:10 final size:10
Alignment explanation
Indices: 80063465--80063489 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
80063455 TTTGGACTTA
80063465 ATAATTTTAC
1 ATAATTTTAC
80063475 ATAATTTTAC
1 ATAATTTTAC
80063485 ATAAT
1 ATAAT
80063490 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:80068447 original size:14 final size:14
Alignment explanation
Indices: 80068430--80068504 Score: 78
Period size: 14 Copynumber: 5.4 Consensus size: 14
80068420 CTTCAATCCC
*
80068430 CAATTTTCAATTTT
1 CAATTTTGAATTTT
* * *
80068444 CAATCTTCAATCTT
1 CAATTTTGAATTTT
*
80068458 CAAATTTGAATTTT
1 CAATTTTGAATTTT
*
80068472 GAATTTTGAATTTT
1 CAATTTTGAATTTT
*
80068486 GAATTTTGAATTTT
1 CAATTTTGAATTTT
*
80068500 GAATT
1 CAATT
80068505 CTTAATCCGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 53 1.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (14 bp):
CAATTTTGAATTTT
Found at i:80068452 original size:7 final size:7
Alignment explanation
Indices: 80068417--80068460 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
80068407 TTCCTTCCTA
80068417 AATCTTC
1 AATCTTC
**
80068424 AATCCCC
1 AATCTTC
*
80068431 AATTTTC
1 AATCTTC
*
80068438 AATTTTC
1 AATCTTC
80068445 AATCTTC
1 AATCTTC
80068452 AATCTTC
1 AATCTTC
80068459 AA
1 AA
80068461 ATTTGAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (7 bp):
AATCTTC
Found at i:80068454 original size:21 final size:21
Alignment explanation
Indices: 80068421--80068504 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 21
80068411 TTCCTAAATC
**
80068421 TTCAATCCCCAATTTTCAATT
1 TTCAATCTTCAATTTTCAATT
* *
80068442 TTCAATCTTCAATCTTCAAAT
1 TTCAATCTTCAATTTTCAATT
* * * *
80068463 TTGAATTTTGAATTTTGAATT
1 TTCAATCTTCAATTTTCAATT
* * * *
80068484 TTGAATTTTGAATTTTGAATT
1 TTCAATCTTCAATTTTCAATT
80068505 CTTAATCCGC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (21 bp):
TTCAATCTTCAATTTTCAATT
Found at i:80068472 original size:7 final size:7
Alignment explanation
Indices: 80068462--80068504 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
80068452 AATCTTCAAA
80068462 TTTGAAT
1 TTTGAAT
80068469 TTTGAAT
1 TTTGAAT
80068476 TTTGAAT
1 TTTGAAT
80068483 TTTGAAT
1 TTTGAAT
80068490 TTTGAAT
1 TTTGAAT
80068497 TTTGAAT
1 TTTGAAT
80068504 T
1 T
80068505 CTTAATCCGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (7 bp):
TTTGAAT
Found at i:80070349 original size:63 final size:63
Alignment explanation
Indices: 80070223--80070359 Score: 148
Period size: 63 Copynumber: 2.2 Consensus size: 63
80070213 TAACCTATTT
* * * * * ** *
80070223 TTTTATCACAAGCATCATAGCACACACACCCATTCCCTGCATCATCACATTCAATTCTTGTTTA
1 TTTTA-CACAACCATCACAGCACACACAACCATTCCCTACATCAACACATTCAACACTAGTTTA
* * * *
80070287 TTTTACACAACCATCACAGCACGCACAATCATTCCCTACATCAACACATTTAGCACTAGTTTA
1 TTTTACACAACCATCACAGCACACACAACCATTCCCTACATCAACACATTCAACACTAGTTTA
*
80070350 GTTTACACAA
1 TTTTACACAA
80070360 GCACCACAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
63 55 0.92
64 5 0.08
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.30
Consensus pattern (63 bp):
TTTTACACAACCATCACAGCACACACAACCATTCCCTACATCAACACATTCAACACTAGTTTA
Found at i:80074444 original size:18 final size:18
Alignment explanation
Indices: 80074423--80074472 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
80074413 GTTGAATTTT
*
80074423 ATAATTCAAATAACTCAA
1 ATAATTCGAATAACTCAA
* *
80074441 ATAACTT-GAATAATTCTA
1 ATAA-TTCGAATAACTCAA
80074459 ATAATTCGAATAAC
1 ATAATTCGAATAAC
80074473 ATATTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAATTCGAATAACTCAA
Found at i:80083136 original size:28 final size:26
Alignment explanation
Indices: 80083105--80083285 Score: 85
Period size: 29 Copynumber: 6.3 Consensus size: 26
80083095 TGATATAAAC
80083105 TTATTAAAATTATAAAAACTTAAAAACA
1 TTATTAAAATTATAAAAA-TTAAAAA-A
* *
80083133 TTA-TAAAACTATAAAAATTAATAAA
1 TTATTAAAATTATAAAAATTAAAAAA
* * *
80083158 TTCTGATAAATTATAAAAAAATTATAAAA
1 TTATTA-AAATTAT--AAAAATTAAAAAA
* * *
80083187 TTAATAAAACTTATTTAAAATTGGAAAATA
1 TTATTAAAA-TTA-TAAAAATT--AAAAAA
* * *
80083217 TGTATTATAATTCTTAAAAAATAAAAAATA
1 T-TATTAAAATT-AT-AAAAATTAAAAA-A
*
80083247 TATATTAAAATTATATAAACTTATAAAAA
1 T-TATTAAAATTATA-AAAATTA-AAAAA
*
80083276 TCATTTAAAA
1 TTA-TTAAAA
80083286 AACCATAAAA
Statistics
Matches: 113, Mismatches: 25, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
25 3 0.03
26 7 0.06
27 19 0.17
28 14 0.12
29 35 0.31
30 24 0.21
31 11 0.10
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (26 bp):
TTATTAAAATTATAAAAATTAAAAAA
Found at i:80083139 original size:27 final size:26
Alignment explanation
Indices: 80083101--80083176 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
80083091 AATTTGATAT
80083101 AAAC-TTATTAAAATTATAAAAACTTAA
1 AAACATTA-TAAAATTATAAAAA-TTAA
*
80083128 AAACATTATAAAACTATAAAAATTAA
1 AAACATTATAAAATTATAAAAATTAA
* *
80083154 TAA-ATTCTGATAAATTATAAAAA
1 AAACATTAT-A-AAATTATAAAAA
80083177 AATTATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 7 0.17
27 28 0.67
28 3 0.07
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.32
Consensus pattern (26 bp):
AAACATTATAAAATTATAAAAATTAA
Found at i:80083156 original size:10 final size:9
Alignment explanation
Indices: 80083016--80083276 Score: 74
Period size: 10 Copynumber: 27.9 Consensus size: 9
80083006 TATTTTTCTC
*
80083016 ATAAAAAAT
1 ATAAAAATT
*
80083025 ATTAAAAATA
1 A-TAAAAATT
* *
80083035 AGAAAAGTT
1 ATAAAAATT
80083044 ATAATAAA--
1 ATAA-AAATT
80083052 ATAAAAA-T
1 ATAAAAATT
*
80083060 ATTAAATATT
1 A-TAAAAATT
80083070 A-AAAAA-T
1 ATAAAAATT
80083077 ATAAAAATAT
1 ATAAAAAT-T
* *
80083087 ATTAAATTT
1 ATAAAAATT
*
80083096 GATATAAACTT
1 -ATA-AAAATT
*
80083107 ATTAAAATT
1 ATAAAAATT
80083116 ATAAAAACTT
1 ATAAAAA-TT
80083126 A-AAAACATT
1 ATAAAA-ATT
*
80083135 AT-AAAACT
1 ATAAAAATT
80083143 ATAAAAATT
1 ATAAAAATT
*
80083152 A-ATAAATT
1 ATAAAAATT
* *
80083160 CTGATAAATT
1 AT-AAAAATT
80083170 ATAAAAAAATT
1 AT--AAAAATT
80083181 AT-AAAATT
1 ATAAAAATT
*
80083189 AATAAAACTT
1 -ATAAAAATT
*
80083199 ATTTAAAATT
1 A-TAAAAATT
**
80083209 GGAAAATATGT
1 ATAAAA-AT-T
* *
80083220 ATTATAATT
1 ATAAAAATT
* *
80083229 CTTAAAAAAT
1 -ATAAAAATT
80083239 A-AAAAATAT
1 ATAAAAAT-T
80083248 ATATTAAAATT
1 ATA--AAAATT
*
80083259 ATATAAACTT
1 ATA-AAAATT
80083269 ATAAAAAT
1 ATAAAAAT
80083277 CATTTAAAAA
Statistics
Matches: 184, Mismatches: 41, Indels: 54
0.66 0.15 0.19
Matches are distributed among these distances:
7 5 0.03
8 35 0.19
9 55 0.30
10 64 0.35
11 20 0.11
12 5 0.03
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:80083200 original size:18 final size:18
Alignment explanation
Indices: 80083101--80083200 Score: 73
Period size: 18 Copynumber: 5.4 Consensus size: 18
80083091 AATTTGATAT
80083101 AAACTTATTAAAATT-ATAA
1 AAACTTA-TAAAATTAAT-A
*
80083120 AAACTTAAAAACATT-ATA
1 AAACTTATAAA-ATTAATA
80083138 AAAC-TATAAAAATTAATA
1 AAACTTAT-AAAATTAATA
* * *
80083156 AATTCTGAT-AAATTATAAA
1 AA-ACTTATAAAATTA-ATA
*
80083175 AAAATTATAAAATTAATA
1 AAACTTATAAAATTAATA
80083193 AAACTTAT
1 AAACTTAT
80083201 TTAAAATTGG
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.08
18 34 0.53
19 23 0.36
20 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (18 bp):
AAACTTATAAAATTAATA
Found at i:80083750 original size:21 final size:21
Alignment explanation
Indices: 80083726--80083789 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
80083716 TTTTTATAAG
80083726 TTTATATCAATTTTATAAAAT-
1 TTTATAT-AATTTTATAAAATA
**
80083747 TTTAATATGTTTTTATAAAATA
1 TTT-ATATAATTTTATAAAATA
*
80083769 TGTTTTATTAATTTTATAAAA
1 T-TTATA-TAATTTTATAAAA
80083790 GTTATTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 14 0.41
22 7 0.21
23 13 0.38
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTATATAATTTTATAAAATA
Found at i:80083814 original size:20 final size:21
Alignment explanation
Indices: 80083780--80083828 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
80083770 GTTTTATTAA
*
80083780 TTTTATAAAAGTTATTAGAAT
1 TTTTATAAAAGTTATAAGAAT
* * *
80083801 TTTTATAATA-TTATAATAGT
1 TTTTATAAAAGTTATAAGAAT
80083821 TTTTATAA
1 TTTTATAA
80083829 GTGTATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
TTTTATAAAAGTTATAAGAAT
Found at i:80090246 original size:22 final size:22
Alignment explanation
Indices: 80090221--80090263 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
80090211 TATCCAAACA
80090221 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
80090243 ATAATAGTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
80090264 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:80090276 original size:22 final size:22
Alignment explanation
Indices: 80090229--80090278 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
80090219 CAATAATAAC
* *
80090229 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
80090251 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
80090273 AAAATA
1 AAAATA
80090279 CAAGAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:80092000 original size:18 final size:18
Alignment explanation
Indices: 80091977--80092023 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
80091967 TGCTAATATG
80091977 ATAATATTTTAAAAATAA
1 ATAATATTTTAAAAATAA
*
80091995 ATAATATTCTAAAAAATAA
1 ATAATATT-TTAAAAATAA
80092014 ATAATATTTT
1 ATAATATTTT
80092024 TATAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATATTTTAAAAATAA
Found at i:80095488 original size:13 final size:12
Alignment explanation
Indices: 80095470--80095499 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
80095460 AAAATTTCAC
80095470 TTTTTTATATATT
1 TTTTTTATA-ATT
80095483 TTTTTTATAATT
1 TTTTTTATAATT
80095495 TTTTT
1 TTTTT
80095500 AAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:80095578 original size:19 final size:19
Alignment explanation
Indices: 80095510--80095576 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
80095500 AAAAATATAA
80095510 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTA-AAATT
*
80095530 ATTTT-AAAATTTAAAATTT
1 ATTTTGAAATTTTAAAA-TT
80095549 ATTTTGAAATTTTGAAAATT
1 ATTTTGAAATTTT-AAAATT
80095569 ATTTTGAA
1 ATTTTGAA
80095577 TTATTTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 9 0.22
20 21 0.51
21 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAATT
Found at i:80095675 original size:9 final size:9
Alignment explanation
Indices: 80095661--80095699 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
80095651 TATATCAATC
80095661 ATTATTTGA
1 ATTATTTGA
**
80095670 ATTATTCAA
1 ATTATTTGA
80095679 ATTATTTGA
1 ATTATTTGA
*
80095688 GTTATTTGA
1 ATTATTTGA
80095697 ATT
1 ATT
80095700 GTGAAATTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (9 bp):
ATTATTTGA
Found at i:80096208 original size:21 final size:22
Alignment explanation
Indices: 80096177--80096220 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
80096167 TCGTTCAATA
* *
80096177 AAATGTTTTTTTTTTCTTTGTG
1 AAATGTTTTTTCTTTATTTGTG
80096199 AAAT-TTTTTTCTTTATTTGTG
1 AAATGTTTTTTCTTTATTTGTG
80096220 A
1 A
80096221 GATGCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (22 bp):
AAATGTTTTTTCTTTATTTGTG
Found at i:80098660 original size:74 final size:75
Alignment explanation
Indices: 80098516--80098679 Score: 190
Period size: 74 Copynumber: 2.2 Consensus size: 75
80098506 ACTGTTAATA
* * * * *
80098516 GTTAGCGGTGCTTATCTAAAAGCGCCGCAAAACTGTTAAGCAAAAGATGTCGTTTTTTATTTAGC
1 GTTAGTGGCGCTTATCTAAAAACGCCACAAAACTGTTAAGCAAAAGATGTCGTTTTTTATATAGC
*
80098581 ATTTAG-GGC
66 ATTTAGAGAC
* * * *
80098590 TTTTAGTGGCGCTTGTCTAAAAACGCCAC-AAACTGTTAAG-AGAATGATGTCTTTTTTTATATA
1 -GTTAGTGGCGCTTATCTAAAAACGCCACAAAACTGTTAAGCA-AAAGATGTCGTTTTTTATATA
*
80098653 GCTTTTAGAGAC
64 GCATTTAGAGAC
80098665 GTTAGTGGCGCTTAT
1 GTTAGTGGCGCTTAT
80098680 TAGAAACCTC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
73 1 0.01
74 49 0.66
75 24 0.32
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (75 bp):
GTTAGTGGCGCTTATCTAAAAACGCCACAAAACTGTTAAGCAAAAGATGTCGTTTTTTATATAGC
ATTTAGAGAC
Found at i:80099051 original size:22 final size:22
Alignment explanation
Indices: 80099025--80099074 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
80099015 TCTATAATTT
80099025 AGGGTTTAAGGGA-TATGGGTTA
1 AGGGTTT-AGGGATTATGGGTTA
* *
80099047 AGGGTTTATGGATTATGGTTTA
1 AGGGTTTAGGGATTATGGGTTA
80099069 AGGGTT
1 AGGGTT
80099075 GGGGTTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
AGGGTTTAGGGATTATGGGTTA
Found at i:80099084 original size:13 final size:13
Alignment explanation
Indices: 80099066--80099100 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
80099056 GGATTATGGT
*
80099066 TTAAGGGTTGGGG
1 TTAAGGGTTGAGG
80099079 TTAAGGGTTGAGG
1 TTAAGGGTTGAGG
*
80099092 TTAGGGGTT
1 TTAAGGGTT
80099101 TAGGGGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (13 bp):
TTAAGGGTTGAGG
Found at i:80099316 original size:14 final size:14
Alignment explanation
Indices: 80099240--80099348 Score: 71
Period size: 14 Copynumber: 7.8 Consensus size: 14
80099230 GTTCTATGAT
*
80099240 TTAAGGTTTAAGGG
1 TTAAGGGTTAAGGG
* * *
80099254 ATATGGGTTAGGGG
1 TTAAGGGTTAAGGG
* * * *
80099268 TTTATGGATTATGGT
1 -TTAAGGGTTAAGGG
80099283 TTAAGGGTT--GGTG
1 TTAAGGGTTAAGG-G
*
80099296 TTTAGGGTTAAGGG
1 TTAAGGGTTAAGGG
80099310 TTAAGGGTTAAGGG
1 TTAAGGGTTAAGGG
*
80099324 TT-GGGGTTAAGGG
1 TTAAGGGTTAAGGG
*
80099337 TTTAGGGGTTAA
1 -TTAAGGGTTAA
80099349 TAGTTAATGT
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
12 2 0.03
13 18 0.24
14 35 0.47
15 20 0.27
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAAGGG
Found at i:80099323 original size:21 final size:21
Alignment explanation
Indices: 80099240--80099348 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 21
80099230 GTTCTATGAT
* * *
80099240 TTAAGGTTTAAGGGATATGGG
1 TTAAGGGTTAAGGGTTAAGGG
* * * * *
80099261 TTAGGGGTTTATGGATTATGGT
1 TTAAGGG-TTAAGGGTTAAGGG
*
80099283 TTAAGGGTT--GGTGTTTAGGG
1 TTAAGGGTTAAGG-GTTAAGGG
80099303 TTAAGGGTTAAGGGTTAAGGG
1 TTAAGGGTTAAGGGTTAAGGG
* *
80099324 TT-GGGGTTAAGGGTTTAGGGG
1 TTAAGGGTTAAGGG-TTAAGGG
80099345 TTAA
1 TTAA
80099349 TAGTTAATGT
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.03
20 23 0.34
21 24 0.36
22 18 0.27
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTAAGGG
Found at i:80101579 original size:17 final size:17
Alignment explanation
Indices: 80101559--80101593 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
80101549 CTTTACCATA
80101559 TTTG-TTTAATTTAATAT
1 TTTGATTTAATTT-ATAT
80101576 TTTGATTTAATTTATAT
1 TTTGATTTAATTTATAT
80101593 T
1 T
80101594 AAGTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTGATTTAATTTATAT
Found at i:80101860 original size:43 final size:43
Alignment explanation
Indices: 80101808--80101894 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
80101798 TTCCTATGTT
80101808 TCCCTACATACTTTTCTTACAAAAACACATCCAAATGTTTAAA
1 TCCCTACATACTTTTCTTACAAAAACACATCCAAATGTTTAAA
*
80101851 TCCCTACATAGTTTTCTTACAAAAACACATCCAAATGTTTAAA
1 TCCCTACATACTTTTCTTACAAAAACACATCCAAATGTTTAAA
80101894 T
1 T
80101895 TTCTGATTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (43 bp):
TCCCTACATACTTTTCTTACAAAAACACATCCAAATGTTTAAA
Found at i:80102408 original size:9 final size:9
Alignment explanation
Indices: 80102394--80102441 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
80102384 TAAAAATATA
80102394 ATAACCTAC
1 ATAACCTAC
80102403 ATAACCTAC
1 ATAACCTAC
*
80102412 ATATA-ATAC
1 ATA-ACCTAC
80102421 ATAACCTAC
1 ATAACCTAC
*
80102430 ATAACTTAC
1 ATAACCTAC
80102439 ATA
1 ATA
80102442 TAATACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAACCTAC
Found at i:80102423 original size:18 final size:18
Alignment explanation
Indices: 80102400--80102461 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
80102390 TATAATAACC
80102400 TACATAACCTACATATAA
1 TACATAACCTACATATAA
*
80102418 TACATAACCTACATA-ACT
1 TACATAACCTACATATA-A
*
80102436 TACATATA-ATACATATAA
1 TACATA-ACCTACATATAA
80102454 TACATAAC
1 TACATAAC
80102462 TTACCGGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 2 0.05
18 33 0.89
19 2 0.05
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
TACATAACCTACATATAA
Found at i:80102425 original size:27 final size:27
Alignment explanation
Indices: 80102394--80102450 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
80102384 TAAAAATATA
80102394 ATAACCTACATAACCTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
*
80102421 ATAACCTACATAACTTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
80102448 ATA
1 ATA
80102451 TAATACATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (27 bp):
ATAACCTACATAACCTACATATAATAC
Found at i:80102457 original size:27 final size:27
Alignment explanation
Indices: 80102394--80102465 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
80102384 TAAAAATATA
* *
80102394 ATAACCTACATAACCTACATATAATAC
1 ATAACATACATAACTTACATATAATAC
*
80102421 ATAACCTACATAACTTACATATAATAC
1 ATAACATACATAACTTACATATAATAC
80102448 ATATA-ATACATAACTTAC
1 ATA-ACATACATAACTTAC
80102466 CGGGATGTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (27 bp):
ATAACATACATAACTTACATATAATAC
Found at i:80102516 original size:39 final size:40
Alignment explanation
Indices: 80102457--80102532 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
80102447 CATATAATAC
* *
80102457 ATAACTTACCGGGATGTATATTATATCTTAA-TTACACTT
1 ATAACTTACAGGGATATATATTATATCTTAACTTACACTT
80102496 ATAACTTACAGGGATATATATTATATCTTAACTTACA
1 ATAACTTACAGGGATATATATTATATCTTAACTTACA
80102533 TAACTTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (40 bp):
ATAACTTACAGGGATATATATTATATCTTAACTTACACTT
Found at i:80102536 original size:9 final size:9
Alignment explanation
Indices: 80102524--80102560 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
80102514 TATTATATCT
80102524 TAACTTACA
1 TAACTTACA
80102533 TAACTTACA
1 TAACTTACA
80102542 TAACTTACA
1 TAACTTACA
*
80102551 TAGCTTACA
1 TAACTTACA
80102560 T
1 T
80102561 TATACTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (9 bp):
TAACTTACA
Found at i:80102705 original size:9 final size:9
Alignment explanation
Indices: 80102664--80102721 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
80102654 ATCATATCAC
80102664 AACTTACAT
1 AACTTACAT
**
80102673 AACGAACAT
1 AACTTACAT
*
80102682 AACCTACATAGT
1 AACTTAC--A-T
80102694 AACTTACAT
1 AACTTACAT
80102703 AACTTACAT
1 AACTTACAT
*
80102712 AATTTACAT
1 AACTTACAT
80102721 A
1 A
80102722 CATAAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 31 0.77
10 1 0.03
11 1 0.03
12 7 0.17
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:80105632 original size:27 final size:27
Alignment explanation
Indices: 80105599--80105670 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
80105589 GTGATTTCAT
80105599 ATATTTAAATATTTTATAAATTTATAA
1 ATATTTAAATATTTTATAAATTTATAA
* ** ** *
80105626 ATTTTTAGTTATTTTATGTATTTATAT
1 ATATTTAAATATTTTATAAATTTATAA
*
80105653 ATATTT-AATTTTTTATAA
1 ATATTTAAATATTTTATAA
80105671 TAATATATTA
Statistics
Matches: 33, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
ATATTTAAATATTTTATAAATTTATAA
Found at i:80111318 original size:153 final size:153
Alignment explanation
Indices: 80111040--80111348 Score: 618
Period size: 153 Copynumber: 2.0 Consensus size: 153
80111030 CTTAGTTTTG
80111040 TAAGTTTCTTTTTTCACCAAAAAAAAATATTACATGCAGTTAAATGTGTATGATACTATTTTTTG
1 TAAGTTTCTTTTTTCACCAAAAAAAAATATTACATGCAGTTAAATGTGTATGATACTATTTTTTG
80111105 TAATATAATATGTATTAAATATAAATATATCCCACATTATAAAAGAAATTCATATTATCATATTA
66 TAATATAATATGTATTAAATATAAATATATCCCACATTATAAAAGAAATTCATATTATCATATTA
80111170 ATTTTAATTATACAAATATTACT
131 ATTTTAATTATACAAATATTACT
80111193 TAAGTTTCTTTTTTCACCAAAAAAAAATATTACATGCAGTTAAATGTGTATGATACTATTTTTTG
1 TAAGTTTCTTTTTTCACCAAAAAAAAATATTACATGCAGTTAAATGTGTATGATACTATTTTTTG
80111258 TAATATAATATGTATTAAATATAAATATATCCCACATTATAAAAGAAATTCATATTATCATATTA
66 TAATATAATATGTATTAAATATAAATATATCCCACATTATAAAAGAAATTCATATTATCATATTA
80111323 ATTTTAATTATACAAATATTACT
131 ATTTTAATTATACAAATATTACT
80111346 TAA
1 TAA
80111349 TTTTTTGTTT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 156 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.42
Consensus pattern (153 bp):
TAAGTTTCTTTTTTCACCAAAAAAAAATATTACATGCAGTTAAATGTGTATGATACTATTTTTTG
TAATATAATATGTATTAAATATAAATATATCCCACATTATAAAAGAAATTCATATTATCATATTA
ATTTTAATTATACAAATATTACT
Found at i:80114886 original size:24 final size:25
Alignment explanation
Indices: 80114846--80114894 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
80114836 TATAAGATAT
80114846 ATAATTTTTTAAAAAAAGTT-TAAAA
1 ATAATTTTTTAAAAAAA-TTCTAAAA
*
80114871 ATAATTTTTT-ATAAAATTCTAAAA
1 ATAATTTTTTAAAAAAATTCTAAAA
80114895 TATATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 10 0.45
25 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAATTTTTTAAAAAAATTCTAAAA
Found at i:80114920 original size:31 final size:33
Alignment explanation
Indices: 80114871--80114931 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
80114861 AAGTTTAAAA
80114871 ATAATTTTTTATAAAATTCTAAAAT-ATATAATT
1 ATAATTTTTTATAAAATTC-AAAATAATATAATT
80114904 ATAA-TTTTT-TAAAATTCAAAATAATATA
1 ATAATTTTTTATAAAATTCAAAATAATATA
80114932 TAAAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 13 0.48
32 5 0.19
33 4 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
ATAATTTTTTATAAAATTCAAAATAATATAATT
Found at i:80114932 original size:33 final size:33
Alignment explanation
Indices: 80114871--80114934 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
80114861 AAGTTTAAAA
*
80114871 ATAATTTTTTATAAAATTCTAAAATATATAATT
1 ATAATTTTTTATAAAATTCAAAAATATATAATT
80114904 ATAA-TTTTT-TAAAATTCAAAATAATATATAA
1 ATAATTTTTTATAAAATTC-AAA-AATATATAA
80114935 AAATTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 8 0.29
32 7 0.25
33 13 0.46
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAATTTTTTATAAAATTCAAAAATATATAATT
Found at i:80114974 original size:20 final size:19
Alignment explanation
Indices: 80114930--80114967 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
80114920 CAAAATAATA
*
80114930 TATAAAAATTGAAAAGTGT
1 TATAAAAATTGAAAAATGT
*
80114949 TATAAAAATTTAAAAATGT
1 TATAAAAATTGAAAAATGT
80114968 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
TATAAAAATTGAAAAATGT
Found at i:80115033 original size:26 final size:27
Alignment explanation
Indices: 80114999--80115053 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
80114989 AAAAAAAAAC
80114999 TTAGAAATTTAAATACTTTTTAAAATT
1 TTAGAAATTTAAATACTTTTTAAAATT
* * *
80115026 TTAG-AATTTTATTATTTTTTAAAATT
1 TTAGAAATTTAAATACTTTTTAAAATT
80115052 TT
1 TT
80115054 TTATAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (27 bp):
TTAGAAATTTAAATACTTTTTAAAATT
Found at i:80115045 original size:18 final size:17
Alignment explanation
Indices: 80115024--80115057 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
80115014 CTTTTTAAAA
*
80115024 TTTTAGAATTTTATTATT
1 TTTTAAAATTTT-TTATT
80115042 TTTTAAAATTTTTTAT
1 TTTTAAAATTTTTTAT
80115058 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAAATTTTTTATT
Found at i:80115189 original size:28 final size:28
Alignment explanation
Indices: 80115131--80115190 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
80115121 GTAAATTTTA
* * *
80115131 TTTTTATATTTTTATAATTTATATGTTT
1 TTTTTAGATTTTTATAATTTATATCTAT
*
80115159 TTTTTAGA-TTTTATATATTTATTTCTAT
1 TTTTTAGATTTTTATA-ATTTATATCTAT
80115187 TTTT
1 TTTT
80115191 AATGTGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (28 bp):
TTTTTAGATTTTTATAATTTATATCTAT
Found at i:80118828 original size:12 final size:12
Alignment explanation
Indices: 80118797--80118822 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
80118787 TTAATCCCAA
80118797 AATAATAATGAT
1 AATAATAATGAT
80118809 AATAATAATGAT
1 AATAATAATGAT
80118821 AA
1 AA
80118823 CTATAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:80119753 original size:17 final size:18
Alignment explanation
Indices: 80119721--80119755 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
80119711 ACATATTACC
*
80119721 TATCATAATATCATCACA
1 TATCACAATATCATCACA
80119739 TATCACAAT-TCATCACA
1 TATCACAATATCATCACA
80119756 CATTAGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (18 bp):
TATCACAATATCATCACA
Found at i:80122249 original size:20 final size:20
Alignment explanation
Indices: 80122221--80122260 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
80122211 TAAATGTACT
80122221 TCCAACCCATTTGAAATATA
1 TCCAACCCATTTGAAATATA
*
80122241 TCCAGCCCATTTGAAATATA
1 TCCAACCCATTTGAAATATA
80122261 CTTATTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (20 bp):
TCCAACCCATTTGAAATATA
Found at i:80122668 original size:17 final size:16
Alignment explanation
Indices: 80122642--80122676 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
80122632 AATTTAAGTA
80122642 ATTAAAATGATATTAAT
1 ATTAAAATGAT-TTAAT
*
80122659 ATTAATATGATTTAAT
1 ATTAAAATGATTTAAT
80122675 AT
1 AT
80122677 AAACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTAAAATGATTTAAT
Found at i:80123251 original size:11 final size:11
Alignment explanation
Indices: 80123235--80123266 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
80123225 TAATATTCTA
80123235 TCAAATTCCTC
1 TCAAATTCCTC
*
80123246 TCAAATTTCTC
1 TCAAATTCCTC
80123257 TCAAATTCCT
1 TCAAATTCCT
80123267 ATTTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAATTCCTC
Found at i:80123255 original size:22 final size:23
Alignment explanation
Indices: 80123221--80123266 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
80123211 TCTAATATTA
*
80123221 TCTCTAATATTCTATCAAATTCC
1 TCTCAAATATTCTATCAAATTCC
*
80123244 TCTCAAAT-TTCTCTCAAATTCC
1 TCTCAAATATTCTATCAAATTCC
80123266 T
1 T
80123267 ATTTAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (23 bp):
TCTCAAATATTCTATCAAATTCC
Found at i:80123320 original size:24 final size:25
Alignment explanation
Indices: 80123292--80123339 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
80123282 AATTTGTTAA
*
80123292 TTATTTTTTAAAAA-GTTTTAAATT
1 TTATTTTTAAAAAATGTTTTAAATT
*
80123316 TTATTTTTAAAAAATTTTTTAAAT
1 TTATTTTTAAAAAATGTTTTAAAT
80123340 CGTAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTTTTAAAAAATGTTTTAAATT
Found at i:80128919 original size:43 final size:43
Alignment explanation
Indices: 80128839--80128920 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
80128829 GGCTATGCGC
* *
80128839 TACTGTAGCAAAAGTGCATCCGCGTGGGAGTTTTTTCAGGGGT
1 TACTGTAGCAAAAGTGCATCCACGTGGGAGTTCTTTCAGGGGT
80128882 TACTGTAGCAAAAGTGC-TCCACGTGGGAGCTTCTTTCAG
1 TACTGTAGCAAAAGTGCATCCACGTGGGAG-TTCTTTCAG
80128921 TATTTCTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 11 0.31
43 25 0.69
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
TACTGTAGCAAAAGTGCATCCACGTGGGAGTTCTTTCAGGGGT
Found at i:80129093 original size:126 final size:126
Alignment explanation
Indices: 80128869--80129547 Score: 1155
Period size: 126 Copynumber: 5.4 Consensus size: 126
80128859 CGCGTGGGAG
* * *
80128869 TTTTTTCAGGGGTTACTGTAGCAAAAGTGC-TCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
* * *
80128933 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTATTCAAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
* * * **
80128994 TTTTTTTAGGGGCAACTGTAGAAAAAGCAAGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
80129059 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
80129120 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
80129185 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
80129246 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
80129311 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
*
80129372 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGA
1 TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
* * * * *
80129437 CAAAACATCATTCTTAAAGCATTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
* * *
80129498 TTTTCTCA-AGACATACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 TTTTTTCAGGGGC-TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
80129548 AAATTAACAA
Statistics
Matches: 527, Mismatches: 25, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
125 25 0.05
126 502 0.95
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (126 bp):
TTTTTTCAGGGGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTTCTCAGAAACGTCTACTCGAAATTA
Found at i:80129771 original size:94 final size:95
Alignment explanation
Indices: 80129581--80129809 Score: 289
Period size: 94 Copynumber: 2.4 Consensus size: 95
80129571 AGTAACCCTA
* * *
80129581 AACCCCAAACCCAAATTTATTTGAGTTTTTTTCTTAAAAATCCTAAACACTAAACCCTAAACTAA
1 AACCCTAAACCCTAATTTATTTGA--TTTTTTCTT-AAAACCCTAAACACTAAACCCTAAACTAA
*
80129646 TTTATTAAAAATTTATAATTAATTTACTCAAGT
63 TTTATTAAAAATTTATAATTAAATTACTCAAGT
* * * * ** *
80129679 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAACCCTTAACTCTAAACCCTAATTTGATTT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAACCCTAAACACTAAACCCTAAACTAATTT
** *
80129744 -TTAAATTTTTTTAATTAAATTACTCAAGT
66 ATTAAAAATTTATAATTAAATTACTCAAGT
*
80129773 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAA
80129810 AATAATAAAC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 59 0.52
95 26 0.23
96 8 0.07
98 21 0.18
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAACCCTAAACACTAAACCCTAAACTAATTT
ATTAAAAATTTATAATTAAATTACTCAAGT
Found at i:80129853 original size:94 final size:93
Alignment explanation
Indices: 80129581--80129855 Score: 268
Period size: 94 Copynumber: 2.9 Consensus size: 93
80129571 AGTAACCCTA
* * *
80129581 AACCCCAAACCCAAATTTATTTGAGTTTTTTTCTT-AAAAATCCTAAACACTAAACCCTAAACTA
1 AACCCTAAACCCTAATTTATTTGA--TTTTTTCTTAAAAAAT--TAAACACTAAACCCTAATCTA
*
80129645 ATTTATTAAAAATTTATAATTAATTTACTCAAGT
62 A-TT-TTAAAAATTTATAATTAAATTACTCAAGT
* * ** * * *
80129679 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAACCCTT-AACTCTAAACCCTAATTTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAA-AATTAAACACTAAACCCTAATCT-AAT
** *
80129743 TTTAAATTTTTTTAATTAAATTACTCAAGT
64 TTTAAAAATTTATAATTAAATTACTCAAGT
* * * *
80129773 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAATAATAAACACGAAA-ACTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAAT--TAAACACTAAACCCTAATCTAAT
*
80129837 TTTGAAAATTTATAATTAA
64 TTTAAAAATTTATAATTAA
80129856 TTTAATTGAC
Statistics
Matches: 142, Mismatches: 29, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
93 1 0.01
94 76 0.54
95 23 0.16
96 17 0.12
97 3 0.02
98 22 0.15
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (93 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAATTAAACACTAAACCCTAATCTAATTT
TAAAAATTTATAATTAAATTACTCAAGT
Found at i:80136742 original size:20 final size:20
Alignment explanation
Indices: 80136717--80136762 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
80136707 TATTTTTATG
*
80136717 ATGATTAGAATCATATTTAC
1 ATGATTAGAATCATAATTAC
* * *
80136737 ATGATTTGAGTGATAATTAC
1 ATGATTAGAATCATAATTAC
80136757 ATGATT
1 ATGATT
80136763 TTTTATCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGATTAGAATCATAATTAC
Found at i:80139965 original size:28 final size:28
Alignment explanation
Indices: 80139926--80140012 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
80139916 GTTATGAAAG
* *
80139926 ATATATGAAAGTCTGCCAAGATTATCTT
1 ATATATGGAAGTCTGTCAAGATTATCTT
* *
80139954 ATATGTGGAAGTTTGTCAAGATTATCTT
1 ATATATGGAAGTCTGTCAAGATTATCTT
* *
80139982 ATATATGGAAATCTGTCAGGATTATCTT
1 ATATATGGAAGTCTGTCAAGATTATCTT
80140010 ATA
1 ATA
80140013 AGTTGGATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (28 bp):
ATATATGGAAGTCTGTCAAGATTATCTT
Found at i:80141716 original size:262 final size:262
Alignment explanation
Indices: 80141251--80141755 Score: 947
Period size: 262 Copynumber: 1.9 Consensus size: 262
80141241 TATATTAGAT
*
80141251 CAAAGTATATAATTGGAAGTAAATTCATGAATATTGCAAGGTTAAATCGATGACTTTTGGTTTCC
1 CAAAGTATATAATTGGAAGTAAAATCATGAATATTGCAAGGTTAAATCGATGACTTTTGGTTTCC
*
80141316 GTAATACTTGTACTCAGTGAATATTAATTTCGGATAATTGAAAGTAGTATCTTGTAGTCCAAATC
66 GTAATACTTGTACTCAGTGAATATTAATTTCGGATAATTGAAAGTAGTATCTTGCAGTCCAAATC
*
80141381 CGATGATCAGGTCAGATATGGGGTGTTTCATTACCAATAGAAAATAGACACTTTTAACACTGACT
131 CGATGATCAGGTCAGATATGGGGTGTTTCATTACCAATAGAAAATAGAAACTTTTAACACTGACT
80141446 AAGTAGGTTATCATTGAAGACTTTCAACAACTATTAGCAGAGTTTGAATACTTTTAACAACTATT
196 AAGTAGGTTATCATTGAAGACTTTCAACAACTATTAGCAGAGTTTGAATACTTTTAACAACTATT
80141511 AG
261 AG
*
80141513 CAAAGTATATAATTGGAAGTAAAATCATGAATATTGCAAGGTTAAATTGATGACTTTTGGTTTCC
1 CAAAGTATATAATTGGAAGTAAAATCATGAATATTGCAAGGTTAAATCGATGACTTTTGGTTTCC
* * *
80141578 GTAATACTTGTACTCAGTGAATATTAATTTTGGATAATTGAAAGTAGTATCTTGCAGTTCGAATC
66 GTAATACTTGTACTCAGTGAATATTAATTTCGGATAATTGAAAGTAGTATCTTGCAGTCCAAATC
80141643 CGATGATCAGGTCAGATATGGGGTGTTTCATTACCAATAGAAAATAGAAACTTTTAACACTGACT
131 CGATGATCAGGTCAGATATGGGGTGTTTCATTACCAATAGAAAATAGAAACTTTTAACACTGACT
80141708 AAGTAGGTTATCATTGAAGACTTTCAACAACTATTAGCAGAGTTTGAA
196 AAGTAGGTTATCATTGAAGACTTTCAACAACTATTAGCAGAGTTTGAA
80141756 GATGTCTTCC
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
262 236 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (262 bp):
CAAAGTATATAATTGGAAGTAAAATCATGAATATTGCAAGGTTAAATCGATGACTTTTGGTTTCC
GTAATACTTGTACTCAGTGAATATTAATTTCGGATAATTGAAAGTAGTATCTTGCAGTCCAAATC
CGATGATCAGGTCAGATATGGGGTGTTTCATTACCAATAGAAAATAGAAACTTTTAACACTGACT
AAGTAGGTTATCATTGAAGACTTTCAACAACTATTAGCAGAGTTTGAATACTTTTAACAACTATT
AG
Found at i:80150775 original size:27 final size:29
Alignment explanation
Indices: 80150716--80150786 Score: 121
Period size: 27 Copynumber: 2.6 Consensus size: 29
80150706 AAAAATAAAA
80150716 ATTTACCAAAATAT-TACAACTTTTTTTT
1 ATTTACCAAAATATATACAACTTTTTTTT
80150744 ATTTACCAAAATATATA-AAC-TTTTTTT
1 ATTTACCAAAATATATACAACTTTTTTTT
80150771 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
80150787 CAAAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.55
28 17 0.40
29 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTTACCAAAATATATACAACTTTTTTTT
Found at i:80151076 original size:19 final size:21
Alignment explanation
Indices: 80151038--80151076 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
80151028 AAAAATTGAT
*
80151038 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
80151059 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
80151077 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:80151140 original size:3 final size:3
Alignment explanation
Indices: 80151122--80151159 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
80151112 AAAATAAAAG
*
80151122 TAT TAGT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
80151160 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:80151164 original size:3 final size:3
Alignment explanation
Indices: 80151158--80151210 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
80151148 ATTATTATTA
80151158 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
80151206 TTG TT
1 TTG TT
80151211 AGTATGAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:80157744 original size:19 final size:19
Alignment explanation
Indices: 80157709--80157746 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
80157699 TTTAAACACA
80157709 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
80157728 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
80157747 ACCTTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:80157810 original size:12 final size:12
Alignment explanation
Indices: 80157777--80157900 Score: 74
Period size: 12 Copynumber: 11.2 Consensus size: 12
80157767 CCTTTCTTCC
80157777 CTCTTCTTC-TT
1 CTCTTCTTCTTT
*
80157788 CT-TT-TTTTTT
1 CTCTTCTTCTTT
*
80157798 CTCTTCTCCTTT
1 CTCTTCTTCTTT
*
80157810 C-CCT-TTCTTT
1 CTCTTCTTCTTT
80157820 C-CTTCTTTCTTT
1 CTCTTC-TTCTTT
*
80157832 CT-TTTTTC-TT
1 CTCTTCTTCTTT
* *
80157842 CTCTACTCCTTT
1 CTCTTCTTCTTT
80157854 -TCTTCTTCTTT
1 CTCTTCTTCTTT
*
80157865 CT-TTCCTTTTTT
1 CTCTT-CTTCTTT
*
80157877 CTCTTCTCCTTT
1 CTCTTCTTCTTT
80157889 C-CTT-TTCTTT
1 CTCTTCTTCTTT
80157899 CT
1 CT
80157901 TTCCTTTCCT
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
9 2 0.02
10 24 0.28
11 26 0.31
12 31 0.36
13 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (12 bp):
CTCTTCTTCTTT
Found at i:80157829 original size:4 final size:4
Alignment explanation
Indices: 80157812--80157925 Score: 67
Period size: 4 Copynumber: 27.2 Consensus size: 4
80157802 TCTCCTTTCC
* *
80157812 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTACTC CTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CT--TT CTTT CT-TT
*
80157858 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT
*
80157903 CCTTT CCTTT CTTT TTTT CTTT C
1 -CTTT -CTTT CTTT CTTT CTTT C
80157926 CCTCCTTCTG
Statistics
Matches: 88, Mismatches: 8, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
3 12 0.14
4 49 0.56
5 21 0.24
6 5 0.06
7 1 0.01
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:80157881 original size:14 final size:14
Alignment explanation
Indices: 80157862--80157926 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
80157852 TTTCTTCTTC
80157862 TTTCTTTCCTTT-T
1 TTTCTTTCCTTTCT
80157875 TTCTCTTCTCCTTTCCT
1 TT-TCTT-TCCTTT-CT
80157892 TTTCTTT-CTTTCCT
1 TTTCTTTCCTTT-CT
*
80157906 TTCCTTT-CTTT-T
1 TTTCTTTCCTTTCT
80157918 TTTCTTTCC
1 TTTCTTTCC
80157927 CTCCTTCTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
12 7 0.16
13 3 0.07
14 21 0.47
15 7 0.16
16 4 0.09
17 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTTTCCTTTCT
Found at i:80157891 original size:5 final size:5
Alignment explanation
Indices: 80157861--80157913 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
80157851 TTTTCTTCTT
*
80157861 CTTT- CTTTC CTTT- -TTTC TCTTCTC CTTTC CTTTT CTTT- CTTTC CTTTC
1 CTTTC CTTTC CTTTC CTTTC -CTT-TC CTTTC CTTTC CTTTC CTTTC CTTTC
80157909 CTTTC
1 CTTTC
80157914 TTTTTTTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
3 3 0.07
4 8 0.19
5 24 0.57
6 5 0.12
7 2 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
CTTTC
Found at i:80157902 original size:34 final size:38
Alignment explanation
Indices: 80157811--80157907 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 38
80157801 TTCTCCTTTC
*
80157811 CCTTTCTTTCCTTCTTTCTTT-CTTTTTTCTTCTCTACT
1 CCTTTCCTT-CTTCTTTCTTTCCTTTTTTCTTCTCTACT
*
80157849 CCTTTTCTTCTTCTTTCTTTCCTTTTTTC-TCT-T-CT
1 CCTTTCCTTCTTCTTTCTTTCCTTTTTTCTTCTCTACT
80157884 CCTTTCCTT-TTCTTTCTTTCCTTT
1 CCTTTCCTTCTTCTTTCTTTCCTTT
80157908 CCTTTCTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
34 15 0.27
35 10 0.18
36 1 0.02
37 14 0.25
38 15 0.27
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (38 bp):
CCTTTCCTTCTTCTTTCTTTCCTTTTTTCTTCTCTACT
Found at i:80157918 original size:24 final size:21
Alignment explanation
Indices: 80157778--80157912 Score: 109
Period size: 19 Copynumber: 6.9 Consensus size: 21
80157768 CTTTCTTCCC
*
80157778 TCTTCTTCTTCTTT--TTTTT
1 TCTTCTTCTCCTTTCCTTTTT
80157797 TC-TCTTCTCCTTTCCCTTTCTT
1 TCTTCTTCTCCTTT-CCTTT-TT
80157819 TCCTTCTT-T-CTTT-CTTTTT
1 T-CTTCTTCTCCTTTCCTTTTT
*
80157838 TCTTC-TCTAC--TCCTTTTCT
1 TCTTCTTCTCCTTTCCTTTT-T
80157857 TCTTCTT-T-CTTTCCTTTTT
1 TCTTCTTCTCCTTTCCTTTTT
*
80157876 TC-TCTTCTCCTTTCCTTTTC
1 TCTTCTTCTCCTTTCCTTTTT
80157896 T-TTCTT-TCCTTTCCTTT
1 TCTTCTTCTCCTTTCCTTT
80157913 CTTTTTTTCT
Statistics
Matches: 98, Mismatches: 2, Indels: 32
0.74 0.02 0.24
Matches are distributed among these distances:
17 2 0.02
18 25 0.26
19 28 0.29
20 27 0.28
21 3 0.03
22 7 0.07
23 2 0.02
24 4 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (21 bp):
TCTTCTTCTCCTTTCCTTTTT
Found at i:80158000 original size:27 final size:27
Alignment explanation
Indices: 80157967--80158042 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
80157957 TAATACCAAC
80157967 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
80157994 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
80158021 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
80158043 GTGACCAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:80158142 original size:27 final size:28
Alignment explanation
Indices: 80158107--80158180 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
80158097 TTTGGTTTTT
*
80158107 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGATAAATAAAAAAAAG
80158134 TTTATATATTTTGATAAATAAAAAAAAG
1 TTTATATATTTTGATAAATAAAAAAAAG
80158162 TTGTA-ATATTTTGATAAAT
1 TT-TATATATTTTGATAAAT
80158181 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 18 0.41
28 24 0.55
29 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGATAAATAAAAAAAAG
Found at i:80158424 original size:55 final size:55
Alignment explanation
Indices: 80158353--80158463 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
80158343 TATATTCCCG
**
80158353 ACTTGTACAGACAATTTAAATTTTTTGTCAGTATATCAGAATATAGCTTTCATCT
1 ACTTGTACAGACAATTTAAATTTACTGTCAGTATATCAGAATATAGCTTTCATCT
* * *
80158408 ACTTGTACGGAGAATTTAAGTTTACTGTCAGTATATCAGAATATAGCTTTCATCT
1 ACTTGTACAGACAATTTAAATTTACTGTCAGTATATCAGAATATAGCTTTCATCT
80158463 A
1 A
80158464 TACAGACGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (55 bp):
ACTTGTACAGACAATTTAAATTTACTGTCAGTATATCAGAATATAGCTTTCATCT
Done.