Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 184 of 211
Found at i:56968602 original size:7 final size:7
Alignment explanation
Indices: 56968592--56968622 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
56968582 AGATTATAGA
56968592 ATTAGGG
1 ATTAGGG
56968599 ATTAGGG
1 ATTAGGG
56968606 ATTAGGG
1 ATTAGGG
56968613 ATTAGGG
1 ATTAGGG
56968620 ATT
1 ATT
56968623 TTGATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (7 bp):
ATTAGGG
Found at i:56968830 original size:108 final size:111
Alignment explanation
Indices: 56968686--56968897 Score: 250
Period size: 115 Copynumber: 1.9 Consensus size: 111
56968676 GTTAAGATCA
* * * * *
56968686 GTTAGGGATTTAGTGTTTATGGATTCGGTGTCAGGTTA-T-GATTTAGATTAATTAGTGTGTTTT
1 GTTAGGGATTTAGGGATTAGGGATTCGGGGTCAGGTTAGTAGATTTAGATTAATTAGTATGTTTT
*
56968749 AATTTATACATTAAATAATATTTAAGGGTTAGGGATTCAGGGTCGT
66 AATTTATACATTAAATAAGATTTAAGGGTTAGGGATTCAGGGTCGT
* *
56968795 GTTAGGG-TTTAGGGATTAGGGATTTGGGGTTAGGTTAGGGTTTAGGATTTAGATTAATTAGTAT
1 GTTAGGGATTTAGGGATTAGGGATTCGGGGTCAGGTTA--G--TA-GATTTAGATTAATTAGTAT
* * * *
56968859 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGG
61 GTTTTAATTTATACATTAAATAAGATTTAAGGGTTAGGG
56968898 GTTATGAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
108 24 0.29
109 7 0.08
113 1 0.01
115 52 0.62
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (111 bp):
GTTAGGGATTTAGGGATTAGGGATTCGGGGTCAGGTTAGTAGATTTAGATTAATTAGTATGTTTT
AATTTATACATTAAATAAGATTTAAGGGTTAGGGATTCAGGGTCGT
Found at i:56968912 original size:21 final size:22
Alignment explanation
Indices: 56968879--56968928 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
56968869 ATATATTAAA
56968879 TAAG-GTTTAGGGGTTAGGGGT
1 TAAGAGTTTAGGGGTTAGGGGT
* *
56968900 TATGAGTTT-GGGGTTTGGGGT
1 TAAGAGTTTAGGGGTTAGGGGT
56968921 TAAGAGTT
1 TAAGAGTT
56968929 AGTGATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
TAAGAGTTTAGGGGTTAGGGGT
Found at i:56968929 original size:28 final size:29
Alignment explanation
Indices: 56968882--56968945 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
56968872 TATTAAATAA
* * *
56968882 GGTTTAGGGGTTAGGGGTTA-TGAGTTTGG
1 GGTTTAGGGGTTAAGAGTTAGTGA-TTTAG
56968911 GGTTT-GGGGTTAAGAGTTAGTGATTTAG
1 GGTTTAGGGGTTAAGAGTTAGTGATTTAG
56968939 GGTTTAG
1 GGTTTAG
56968946 AAATTCGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (29 bp):
GGTTTAGGGGTTAAGAGTTAGTGATTTAG
Found at i:56969683 original size:24 final size:25
Alignment explanation
Indices: 56969656--56969703 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
56969646 TTGATAAATT
56969656 TTATGTGT-GGTG-TTTAATTTTTCG
1 TTAT-TGTCGGTGTTTTAATTTTTCG
*
56969680 TTATTGTCTGTGTTTTAATTTTTC
1 TTATTGTCGGTGTTTTAATTTTTC
56969704 ATATGTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 7 0.33
25 11 0.52
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (25 bp):
TTATTGTCGGTGTTTTAATTTTTCG
Found at i:56970119 original size:43 final size:42
Alignment explanation
Indices: 56970027--56970232 Score: 220
Period size: 43 Copynumber: 4.8 Consensus size: 42
56970017 TTTTTGCGAG
* *
56970027 AAGCGCCGCTAAAGGTTTGTTCTTTAGCAGCGTTTGTGGAAA
1 AAGCGCCGCTAAAGGTTTGATCTTTAGCGGCGTTTGTGGAAA
* * *
56970069 AAACGCCGCTAAAGGTTGTGGTCTATAGCGGCGTTTGCT-GAAA
1 AAGCGCCGCTAAAGGTT-TGATCTTTAGCGGCGTTTG-TGGAAA
* * * *
56970112 AAGCGCCGCTAAAGGTCATGACCTTTAGTGGAGTTTGTAGG-AA
1 AAGCGCCGCTAAAGGT-TTGATCTTTAGCGGCGTTTGT-GGAAA
* *
56970155 AAGCGCCGCTAAAGGTCTTGATCTTTAACGGCGTTTGTGGCAA
1 AAGCGCCGCTAAAGGT-TTGATCTTTAGCGGCGTTTGTGGAAA
* *
56970198 AAGCGCCGCTAAAGGTCTTGGTC-TTACCGGCGTTT
1 AAGCGCCGCTAAAGGT-TTGATCTTTAGCGGCGTTT
56970233 TTTCTGGTGC
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.21
43 108 0.77
44 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTTTGATCTTTAGCGGCGTTTGTGGAAA
Found at i:56970388 original size:13 final size:14
Alignment explanation
Indices: 56970372--56970502 Score: 81
Period size: 14 Copynumber: 9.0 Consensus size: 14
56970362 TCTTCTCCTT
56970372 TTCTTTTT-TTTCC
1 TTCTTTTTCTTTCC
56970385 TTCTTTTTCTTT-C
1 TTCTTTTTCTTTCC
*
56970398 TTTTTTCTTCTTCTCC
1 TTCTTT-TTCTT-TCC
*
56970414 TTTCCTTTTCTTTCC
1 -TTCTTTTTCTTTCC
56970429 TTCTTTTCCTTTCTTTCC
1 TTC--TT--TTTCTTTCC
* * *
56970447 TCTCATTTCCTTTTCT
1 T-TCTTTTTC-TTTCC
56970463 TTCTTTTTCTTT-C
1 TTCTTTTTCTTTCC
* *
56970476 TT-TCTTTCTTTCT
1 TTCTTTTTCTTTCC
*
56970489 TTCTTCTTCTTTCC
1 TTCTTTTTCTTTCC
56970503 CTCTCCTTCT
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
12 8 0.09
13 18 0.20
14 22 0.24
15 13 0.14
16 12 0.13
17 5 0.06
18 10 0.11
19 2 0.02
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTTTTCTTTCC
Found at i:56970389 original size:24 final size:23
Alignment explanation
Indices: 56970362--56970444 Score: 91
Period size: 24 Copynumber: 3.7 Consensus size: 23
56970352 TTTTCTCTTC
56970362 TCTTCTCCTTTTCTTTTTTTTCCT
1 TCTTCTCC-TTTCTTTTTTTTCCT
* *
56970386 TCTTTTTCTTTC--TTTTTT-CT
1 TCTTCTCCTTTCTTTTTTTTCCT
*
56970406 TCTTCTCCTTTCCTTTTCTTTCCT
1 TCTTCTCCTTT-CTTTTTTTTCCT
*
56970430 TCTTTTCCTTTCTTT
1 TCTTCTCCTTTCTTT
56970445 CCTCTCATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 11 0.22
21 7 0.14
23 13 0.27
24 18 0.37
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTTCTCCTTTCTTTTTTTTCCT
Found at i:56970397 original size:4 final size:4
Alignment explanation
Indices: 56970390--56970501 Score: 74
Period size: 4 Copynumber: 27.0 Consensus size: 4
56970380 TTTCCTTCTT
*
56970390 TTTC TTTC TTT- TTTC -TTC TTCTCC TTTCC TTTTC TTTC CTTC TTTTCC
1 TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C -TTTC TTTC TTTC -TTT-C
*
56970438 TTTC TTTCC TCTC ATTTCC TTTTC TTTC -TT- TTTC TTTC TTTC TTTC
1 TTTC TTT-C TTTC -TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTTC
56970484 TTTC TTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC
56970502 CCTCTCCTTC
Statistics
Matches: 90, Mismatches: 5, Indels: 26
0.74 0.04 0.21
Matches are distributed among these distances:
3 16 0.18
4 47 0.52
5 16 0.18
6 11 0.12
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:56970416 original size:44 final size:44
Alignment explanation
Indices: 56970362--56970498 Score: 165
Period size: 44 Copynumber: 3.1 Consensus size: 44
56970352 TTTTCTCTTC
56970362 TCTTCTCCTTTTCTTTTTTTTCCTTCTTTTTCTTTCTTTTTTCT
1 TCTTCTCCTTTTCTTTTTTTTCCTTCTTTTTCTTTCTTTTTTCT
* * * **
56970406 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTCCTTTCTTTCCTC-
1 TCTTCTCCTTTTCTTTTTTTTCCTTCTTTTTCTTTCTTTTTTCT
*
56970449 TCATT-TCCTTTTCTTTCTTTTT-CTT-TCTTTCTTTCTTTCTTTCT
1 TC-TTCTCCTTTTCTTT-TTTTTCCTTCTTTTTCTTTCTTT-TTTCT
56970493 TCTTCT
1 TCTTCT
56970499 TTCCCTCTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 11 0.14
43 19 0.25
44 47 0.61
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (44 bp):
TCTTCTCCTTTTCTTTTTTTTCCTTCTTTTTCTTTCTTTTTTCT
Found at i:56970424 original size:19 final size:19
Alignment explanation
Indices: 56970357--56970501 Score: 97
Period size: 18 Copynumber: 8.1 Consensus size: 19
56970347 CATTGTTTTC
56970357 TCTTCTCTTCTCCTTTTC-T
1 TCTTCTCTT-TCCTTTTCTT
56970376 T-TT-T-TTTCCTTCTT-TT
1 TCTTCTCTTTCCTT-TTCTT
56970392 TCTT-TC-TT--TTTTC-T
1 TCTTCTCTTTCCTTTTCTT
56970406 TCTTCTCCTTTCCTTTTCTT
1 TCTTCT-CTTTCCTTTTCTT
56970426 TCCTTCT-TTTCC-TTTCTT
1 T-CTTCTCTTTCCTTTTCTT
*
56970444 TCCTCTCATTTCCTTTTCTT
1 TCTTCTC-TTTCCTTTTCTT
*
56970464 TCTTTTTCTTT-C-TTTCTT
1 TC-TTCTCTTTCCTTTTCTT
56970482 TCTT-TCTTT-CTTCTTCTT
1 TCTTCTCTTTCCTT-TTCTT
56970500 TC
1 TC
56970502 CCTCTCCTTC
Statistics
Matches: 105, Mismatches: 3, Indels: 37
0.72 0.02 0.26
Matches are distributed among these distances:
14 7 0.07
15 8 0.08
16 13 0.12
17 15 0.14
18 24 0.23
19 17 0.16
20 13 0.12
21 8 0.08
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTCTCTTTCCTTTTCTT
Found at i:56970479 original size:38 final size:40
Alignment explanation
Indices: 56970379--56970488 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 40
56970369 CTTTTCTTTT
* *
56970379 TTTTCCTTCTTTTTCTTTCTTT-TTTCTTCTTCTCCTTTCC
1 TTTTCTTTCTTTTTCTTTCTTTCTTTC-TCTTCTCATTTCC
* *
56970419 TTTTCTTTCCTTCTT-TTCCTTTCTTTC-C-TCTCATTTCC
1 TTTTCTTT-CTTTTTCTTTCTTTCTTTCTCTTCTCATTTCC
56970457 TTTTCTTTCTTTTTCTTTCTTTCTTTCT-TTCT
1 TTTTCTTTCTTTTTCTTTCTTTCTTTCTCTTCT
56970489 TTCTTCTTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
37 5 0.08
38 28 0.47
39 4 0.07
40 13 0.22
41 9 0.15
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (40 bp):
TTTTCTTTCTTTTTCTTTCTTTCTTTCTCTTCTCATTTCC
Found at i:56970515 original size:26 final size:26
Alignment explanation
Indices: 56970439--56970515 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
56970429 TTCTTTTCCT
*
56970439 TTCTTTCCTCTCATTTCCTTTTCTTTCTTT
1 TTCTTTCC-CTC--TTCC-TTTCTTTCTTC
** *
56970469 TTCTTTCTTTCTTTCTTTCTTTCTTC
1 TTCTTTCCCTCTTCCTTTCTTTCTTC
56970495 TTCTTTCCCTC-TCCTTCTCTT
1 TTCTTTCCCTCTTCCTT-TCTT
56970516 CCCTCCACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
25 4 0.10
26 23 0.59
27 3 0.08
29 2 0.05
30 7 0.18
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.66
Consensus pattern (26 bp):
TTCTTTCCCTCTTCCTTTCTTTCTTC
Found at i:56970587 original size:27 final size:27
Alignment explanation
Indices: 56970556--56970614 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
56970546 TAAATGGGCA
56970556 GTGCCGCCCATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* * *
56970583 GTGCCGTCCATGGGAATGGCACCTTTG
1 GTGCCGCCCATGGGAATGGCACCATCG
56970610 GTGCC
1 GTGCC
56970615 ACCTATCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:56985930 original size:13 final size:13
Alignment explanation
Indices: 56985909--56985942 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
56985899 TTTTAGTTTT
*
56985909 ATTGGGTTGGGTA
1 ATTGAGTTGGGTA
56985922 ATTGAGTTGGGTA
1 ATTGAGTTGGGTA
56985935 ATTGAGTT
1 ATTGAGTT
56985943 TGGGCTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (13 bp):
ATTGAGTTGGGTA
Found at i:56986480 original size:20 final size:21
Alignment explanation
Indices: 56986438--56986481 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
56986428 TTAAGTTTTT
* *
56986438 AAATTTTTTGAAAAAGTATAA
1 AAATATTTTAAAAAAGTATAA
56986459 AAATATTTTAAAAAA-T-TAA
1 AAATATTTTAAAAAAGTATAA
56986478 AAAT
1 AAAT
56986482 TAAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATATTTTAAAAAAGTATAA
Found at i:56988803 original size:12 final size:12
Alignment explanation
Indices: 56988786--56988839 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
56988776 AACTAATCCT
56988786 CTCTCAAATTTC
1 CTCTCAAATTTC
*
56988798 CTCTC-AATTTG
1 CTCTCAAATTTC
*
56988809 CTCTCAGA-TTC
1 CTCTCAAATTTC
56988820 CT-TCCAAATTT-
1 CTCT-CAAATTTC
56988831 CTCTCAAAT
1 CTCTCAAAT
56988840 CCATATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 24 0.71
12 9 0.26
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:56988872 original size:51 final size:51
Alignment explanation
Indices: 56988799--56988898 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
56988789 TCAAATTTCC
56988799 TCTCAATTTGCTCTCAGATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAGATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
56988850 TCTCAATTTGCTCTCA-ATTTCCTCTTAAATTTCTTTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAGA-TTCCTCTCAAATTTCTCTCAAATCCATATTT
56988899 TTAAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 41 0.95
52 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.03, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAGATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:56990056 original size:7 final size:7
Alignment explanation
Indices: 56990044--56990069 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56990034 TAGTCGATTG
56990044 GTATTTA
1 GTATTTA
56990051 GTATTTA
1 GTATTTA
56990058 GTATTTA
1 GTATTTA
56990065 GTATT
1 GTATT
56990070 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:56991046 original size:21 final size:21
Alignment explanation
Indices: 56991016--56991064 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
56991006 AGATGCCCTA
*
56991016 CCGGAGGAACCAAAATCC-CCG
1 CCGGAAGAACCAAAA-CCGCCG
*
56991037 CCGGAAGAACCACAACCGCCG
1 CCGGAAGAACCAAAACCGCCG
56991058 CCGGAAG
1 CCGGAAG
56991065 CTGGACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.33, C:0.39, G:0.27, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACCAAAACCGCCG
Found at i:56991767 original size:13 final size:13
Alignment explanation
Indices: 56991749--56991790 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
56991739 TTAGTTTGGC
*
56991749 AATGCTTTTGAAA
1 AATGCTTTTAAAA
56991762 AATGCTTTTAAAA
1 AATGCTTTTAAAA
* *
56991775 AATGCTGTGAAAA
1 AATGCTTTTAAAA
56991788 AAT
1 AAT
56991791 ATTTTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (13 bp):
AATGCTTTTAAAA
Found at i:56992008 original size:30 final size:30
Alignment explanation
Indices: 56991974--56992031 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
56991964 ATAACTTGTT
56991974 AATA-TTTTAA-TATATGAAATATAAATTTTA
1 AATATTTTTAAGTA-AT-AAATATAAATTTTA
56992004 AATATTTTTAAGTAATAAATATAAATTT
1 AATATTTTTAAGTAATAAATATAAATTT
56992032 AATTAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 16 0.62
31 8 0.31
32 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
AATATTTTTAAGTAATAAATATAAATTTTA
Found at i:57008600 original size:18 final size:20
Alignment explanation
Indices: 57008554--57008595 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 20
57008544 TTCATAGCTC
57008554 AAGTGTCAAATTATCTTAAACTT
1 AAGTGTCAAATTATCTT-AA--T
57008577 AAGTGTCAAATTATCTTAA
1 AAGTGTCAAATTATCTTAA
57008596 AGTGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
AAGTGTCAAATTATCTTAAT
Found at i:57022985 original size:50 final size:50
Alignment explanation
Indices: 57022870--57023118 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
57022860 GATAATAACA
* * ** *
57022870 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
57022921 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
57022971 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
57023021 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTACGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
57023076 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
57023119 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 3 0.02
56 39 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:57023056 original size:100 final size:104
Alignment explanation
Indices: 57022869--57023118 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
57022859 TGATAATAAC
**
57022869 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATGATGGTGCCCATGCCATG
*
57022934 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTACGG
* * *
57022971 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGAT-GGTGCCCATGCCATG
57023034 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTACGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTACGG
* *
57023076 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57023119 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 3 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTACGG
Found at i:57023236 original size:13 final size:13
Alignment explanation
Indices: 57023218--57023244 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57023208 GATCATTATC
57023218 AAATAAATTCATA
1 AAATAAATTCATA
57023231 AAATAAATTCATA
1 AAATAAATTCATA
57023244 A
1 A
57023245 TTGCTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAATTCATA
Found at i:57023491 original size:30 final size:30
Alignment explanation
Indices: 57023456--57023513 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57023446 CCTCGACTCT
*
57023456 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
57023486 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
57023514 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:57030418 original size:15 final size:15
Alignment explanation
Indices: 57030393--57030427 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57030383 GACTCTATTT
*
57030393 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
57030407 TAATTAATATTAAGA
1 TAATTAATATTAAGA
57030422 TAATTA
1 TAATTA
57030428 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:57030428 original size:29 final size:29
Alignment explanation
Indices: 57030393--57030451 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
57030383 GACTCTATTT
*
57030393 TAATTATATTAGGA-TAATTAATATTAAGA
1 TAATTAT-TAAGGATTAATTAATATTAAGA
* *
57030422 TAATTATTAAGGATTATTTAATTTTAAGA
1 TAATTATTAAGGATTAATTAATATTAAGA
57030451 T
1 T
57030452 TTTATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (29 bp):
TAATTATTAAGGATTAATTAATATTAAGA
Found at i:57033309 original size:42 final size:42
Alignment explanation
Indices: 57033251--57033340 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
57033241 ATATTGAAAA
*
57033251 TTTTA-AACTTGAGCCTGATCTAATTCGCTCGTATTAATTTT
1 TTTTAGAACTTGAGCCTGATCTAATCCGCTCGTATTAATTTT
*
57033292 TTTTAGAATTTGAGCCTGATCTAATCCGCTCGTATTAATTTT
1 TTTTAGAACTTGAGCCTGATCTAATCCGCTCGTATTAATTTT
57033334 TTTTAGA
1 TTTTAGA
57033341 CTTTTTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 5 0.11
42 41 0.89
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (42 bp):
TTTTAGAACTTGAGCCTGATCTAATCCGCTCGTATTAATTTT
Found at i:57034492 original size:15 final size:15
Alignment explanation
Indices: 57034472--57034502 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57034462 CATCATATTT
57034472 AGCATCAAAACCTAA
1 AGCATCAAAACCTAA
57034487 AGCATCAAAACCTAA
1 AGCATCAAAACCTAA
57034502 A
1 A
57034503 ATAAGTTTAC
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:0.26, G:0.06, T:0.13
Consensus pattern (15 bp):
AGCATCAAAACCTAA
Found at i:57034657 original size:22 final size:22
Alignment explanation
Indices: 57034627--57034668 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57034617 ACACTAAAAC
* *
57034627 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCAGCGCTTTTTT
57034649 AGGCCTTTAGCAGCGCTTTT
1 AGGCCTTTAGCAGCGCTTTT
57034669 CAGTGCCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCAGCGCTTTTTT
Found at i:57034772 original size:43 final size:43
Alignment explanation
Indices: 57034723--57034886 Score: 195
Period size: 43 Copynumber: 3.8 Consensus size: 43
57034713 TGCGTCGCTA
*
57034723 ACTTTAGCGGCGCTTACCACACAAACGCCGCTAAAGGTCATGG
1 ACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGG
* * * *
57034766 TCTTTAGCAGCGCTTACAAAACAAACGCCGCTGAAGGTCATGG
1 ACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGG
* * **
57034809 ACTTTAGCGGCGCTTACCAAACAAATGCCGCTAAA-GACAACG
1 ACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGG
* * **
57034851 ACCTTTAGCGGTGCTTCCCTTACAAACGCCGCTAAA
1 A-CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAA
57034887 TACCATGACC
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 5 0.05
43 97 0.95
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (43 bp):
ACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGG
Found at i:57034897 original size:43 final size:43
Alignment explanation
Indices: 57034724--57035018 Score: 165
Period size: 43 Copynumber: 6.9 Consensus size: 43
57034714 GCGTCGCTAA
* * * **
57034724 CTTTAGCGGCGCTTACCACACAAACGCCGCTAAAGGTC-ATGGT
1 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAA-GACAACGAC
* * * * **
57034767 CTTTAGCAGCGCTTACAAAACAAACGCCGCTGAAGGTCATGGA-
1 CTTTAGCGGCGCTTACCAAACAAACGCCGCT-AAAGACAACGAC
*
57034810 CTTTAGCGGCGCTTACCAAACAAATGCCGCTAAAGACAACGAC
1 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGACAACGAC
* * ** * * *
57034853 CTTTAGCGGTGCTTCCCTTACAAACGCCGCTAAATACCATGAC
1 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGACAACGAC
** * * * * *** *
57034896 CTTTAGCGGCAATTCTCCATA-AAATGCTGCTAAAGACCTTGAT
1 CTTTAGCGGCGCTT-ACCAAACAAACGCCGCTAAAGACAACGAC
* * *
57034939 CTTTAGCGGCGCTTTTACC--ACAAACGCCGCTAAAGAC-CCTAAT
1 CTTTAGCGGCGC--TTACCAAACAAACGCCGCTAAAGACAAC-GAC
*
57034982 CTTTAACGGCGCTTTTACC--ACAAACGCCGCTAAAGAC
1 CTTTAGCGGCGC--TTACCAAACAAACGCCGCTAAAGAC
57035019 CATTACCTTT
Statistics
Matches: 203, Mismatches: 41, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
42 8 0.04
43 184 0.91
44 9 0.04
45 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGACAACGAC
Found at i:57035029 original size:43 final size:43
Alignment explanation
Indices: 57034810--57035040 Score: 177
Period size: 43 Copynumber: 5.4 Consensus size: 43
57034800 AGGTCATGGA
* * **
57034810 CTTTAGCGGCGC--TTACCAAACAAATGCCGCTAAAGACAACGAC
1 CTTTAGCGGCGCTTTTACC--ACAAACGCCGCTAAAGACCATTAC
* * * *
57034853 CTTTAGCGGTGC--TTCCCTTACAAACGCCGCTAAATACCATGAC
1 CTTTAGCGGCGCTTTTACC--ACAAACGCCGCTAAAGACCATTAC
** * * * * *
57034896 CTTTAGCGGCAATTCT-CCATAAAATGCTGCTAAAGACC-TTGAT
1 CTTTAGCGGCGCTTTTACCA-CAAACGCCGCTAAAGACCATT-AC
* * *
57034939 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTAAT
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATTAC
*
57034982 CTTTAACGGCGCTTTTACCACAAACGCCGCTAAAGACCATTAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATTAC
* *
57035025 CTTTAGTGGCGTTTTT
1 CTTTAGCGGCGCTTTT
57035041 TAAAATGCCA
Statistics
Matches: 150, Mismatches: 32, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
42 2 0.01
43 141 0.94
44 6 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATTAC
Found at i:57035483 original size:66 final size:66
Alignment explanation
Indices: 57035394--57035518 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
57035384 TTGCTGCCGT
57035394 ATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGTTGCT
1 ATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-ATTGAACCTCAGCTTCTCTCGTTGCT
57035458 GC
65 GC
* *
57035460 ATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCG
1 ATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTATTGAACCTCAGCTTCTCTCG
57035519 ATGTTGCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
65 1 0.02
66 50 0.91
67 4 0.07
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (66 bp):
ATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTATTGAACCTCAGCTTCTCTCGTTGCTG
C
Found at i:57035539 original size:66 final size:66
Alignment explanation
Indices: 57035411--57035539 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
57035401 TTAAGCTGCT
* ** *
57035411 GCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGTTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTCAAGTTGT
57035476 A
66 A
* * *
57035477 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCACTTCAAGTT
1 GCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTCAAGTT
57035540 TTGTAATTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 51 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTCAAGTTGT
A
Found at i:57035637 original size:23 final size:24
Alignment explanation
Indices: 57035607--57035652 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
57035597 GAATTTCAGC
57035607 TTGAGCCATATG-GTCGCTTGCAT
1 TTGAGCCATATGTGTCGCTTGCAT
*
57035630 TTGAGCCATTTGTTGTCGCTTGC
1 TTGAGCCATATG-TGTCGCTTGC
57035653 CGAGTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (24 bp):
TTGAGCCATATGTGTCGCTTGCAT
Found at i:57040807 original size:20 final size:20
Alignment explanation
Indices: 57040724--57040810 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
57040714 GCATCATAGA
*
57040724 TGCATAACAGGGGCACTGAAG
1 TGCA-AACAGGGGCACCGAAG
* * *
57040745 TGTAGACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
* *
57040765 TGAAAATAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
57040785 TGCAAACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
57040805 TGCAAA
1 TGCAAA
57040811 TCCCGTACAA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 46 0.85
21 6 0.11
ACGTcount: A:0.37, C:0.18, G:0.33, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:57042180 original size:11 final size:11
Alignment explanation
Indices: 57042160--57042193 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57042150 TTAAAATTTC
*
57042160 TTAATGAAACT
1 TTAATAAAACT
*
57042171 TTAATAAAACA
1 TTAATAAAACT
57042182 TTAATAAAACT
1 TTAATAAAACT
57042193 T
1 T
57042194 CGTAAGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (11 bp):
TTAATAAAACT
Found at i:57046165 original size:13 final size:13
Alignment explanation
Indices: 57046149--57046201 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
57046139 AGAAAAAATA
*
57046149 AAAAGGAAAGAAG
1 AAAATGAAAGAAG
57046162 AAAAT-AAAGAACTAG
1 AAAATGAAAG-A--AG
*
57046177 AAAATGAAAGAAA
1 AAAATGAAAGAAG
57046190 AAAATGAAAGAA
1 AAAATGAAAGAA
57046202 CGATAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.12
13 18 0.53
15 8 0.24
16 4 0.12
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.08
Consensus pattern (13 bp):
AAAATGAAAGAAG
Found at i:57048127 original size:48 final size:44
Alignment explanation
Indices: 57048072--57048204 Score: 118
Period size: 39 Copynumber: 3.0 Consensus size: 44
57048062 ACAAACATTT
57048072 TAGAAAATTGATATACGAAAATATAAAATTCGACCAACAAATAA
1 TAGAAAATTGATATACGAAAATATAAAATTCGACCAACAAATAA
* * * **
57048116 TAGGGCTAAAATTGATTTAC-AAATACAAAAAATAT-G---AAC--ATTC
1 TA--G--AAAATTGATATACGAAA-ATATAAAAT-TCGACCAACAAATAA
57048159 TAGAAAATTGATATACGAAAATATAAAATTCGACCAACAAATAA
1 TAGAAAATTGATATACGAAAATATAAAATTCGACCAACAAATAA
57048203 TA
1 TA
57048205 CAGACTAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 26
0.65 0.10 0.25
Matches are distributed among these distances:
38 1 0.02
39 20 0.30
40 3 0.05
41 1 0.02
42 3 0.05
43 4 0.06
44 6 0.09
45 3 0.05
46 1 0.02
47 3 0.05
48 20 0.30
49 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (44 bp):
TAGAAAATTGATATACGAAAATATAAAATTCGACCAACAAATAA
Found at i:57048166 original size:87 final size:88
Alignment explanation
Indices: 57047954--57048414 Score: 516
Period size: 90 Copynumber: 5.2 Consensus size: 88
57047944 AACAAAATAA
* * * *
57047954 ATTTATAGATACAAGAAAATACGAAAATTCTAGAAAACTAATATACGAAAATATAAAATTTGACC
1 ATTTACAGATACAA-AAAATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGACC
* *
57048019 AACATATAATACGGGCTAAAATTG
65 AACAAATAATACGGACTAAAATTG
* * *
57048043 ATTTACAGATACAAAAAATACAAACATTTTAGAAAATTGATATACGAAAATATAAAATTCGACCA
1 ATTTACAGATACAAAAAATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGACCA
*
57048108 ACAAATAATA-GGGCTAAAATTG
66 ACAAATAATACGGACTAAAATTG
* * *
57048130 ATTTACAAATACAAAAAATATGAACATTCTAGAAAATTGATATACGAAAATATAAAATTCGACCA
1 ATTTACAGATACAAAAAATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGACCA
*
57048195 ACAAATAATACAGACTAAAATAT-
66 ACAAATAATACGGACTAAAAT-TG
* * * * *
57048218 TTTTACAAAT-CTAAAATTATTACGAACATTCTAGAAAACTAATATACAAAAATATAAAATTCGA
1 ATTTACAGATAC-AAAA--AATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGA
* *
57048282 CAAACAAATAATACGAACTAAAATAT-
63 CCAACAAATAATACGGACTAAAAT-TG
* ** * * * * * * * *
57048308 TTTTATTGATCCAAAAATAATTCTATCATTTTACAAAACTGATATATGAAAATATAAAATTTGAC
1 ATTTACAGATAC-AAAA-AATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGAC
**
57048373 CAACAAATAATACAAACTAAAATTG
64 CAACAAATAATACGGACTAAAATTG
57048398 ATTTACAGATACAAAAA
1 ATTTACAGATACAAAAA
57048415 TAATAAGAAA
Statistics
Matches: 322, Mismatches: 43, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
87 84 0.26
88 76 0.24
89 19 0.06
90 138 0.43
91 5 0.02
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (88 bp):
ATTTACAGATACAAAAAATACGAACATTCTAGAAAACTGATATACGAAAATATAAAATTCGACCA
ACAAATAATACGGACTAAAATTG
Found at i:57048905 original size:58 final size:59
Alignment explanation
Indices: 57048828--57048962 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 59
57048818 GGATGTTGAC
* * *
57048828 CATCAGTGTCCCAGTACCAAAAAATATT-TTTTTT-TAATTCTGGTACAAGGGTGTCGGT
1 CATCAGTGTCCCAGCACCAAAAAAAATTATTTTTTAAAATT-TGGTACAAGGGTGTCGGT
* * * * *
57048886 CATCTGTGTCCTAGCACCAAAAAAAATTATTTTTTAAAATTTGGTATAAGGGTG-CTAGC
1 CATCAGTGTCCCAGCACCAAAAAAAATTATTTTTTAAAATTTGGTACAAGGGTGTC-GGT
*
57048945 CATCAGTGTGCCAGCACC
1 CATCAGTGTCCCAGCACC
57048963 CCAAATTTTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 25 0.40
59 34 0.54
60 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (59 bp):
CATCAGTGTCCCAGCACCAAAAAAAATTATTTTTTAAAATTTGGTACAAGGGTGTCGGT
Found at i:57056588 original size:27 final size:27
Alignment explanation
Indices: 57056558--57056620 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
57056548 GACTTGGACT
* * *
57056558 TGTAGTGCCCAGAGGAAAGGTCTTAGC
1 TGTAGTGCCCAAAGAAAAGGTCATAGC
* * *
57056585 TGTAGTGCACAAAGAAAAGTTCATAGT
1 TGTAGTGCCCAAAGAAAAGGTCATAGC
57056612 TGTAGTGCC
1 TGTAGTGCC
57056621 TGGAGAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (27 bp):
TGTAGTGCCCAAAGAAAAGGTCATAGC
Found at i:57056639 original size:27 final size:27
Alignment explanation
Indices: 57056609--57056668 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
57056599 AAAAGTTCAT
*
57056609 AGTTGTAGTGCCTGGAGAAAAGCTTGG
1 AGTTGTAGTGCCTGGACAAAAGCTTGG
* * * *
57056636 AGTTCTAGTTCCTGGACTAAAGCTTGT
1 AGTTGTAGTGCCTGGACAAAAGCTTGG
57056663 AGTTGT
1 AGTTGT
57056669 GCTGATTGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.33
Consensus pattern (27 bp):
AGTTGTAGTGCCTGGACAAAAGCTTGG
Found at i:57068860 original size:46 final size:45
Alignment explanation
Indices: 57068793--57069083 Score: 361
Period size: 46 Copynumber: 6.6 Consensus size: 45
57068783 TTTGAGTACT
* *
57068793 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
57068839 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
57068875 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
57068921 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
57068967 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * * *
57069013 TTTGACCAAGTAAAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGT-GAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
57069059 TTTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
57069084 ATCATACGTA
Statistics
Matches: 220, Mismatches: 13, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
36 28 0.13
38 1 0.00
39 2 0.01
40 4 0.02
42 4 0.02
43 15 0.07
44 1 0.00
46 145 0.66
47 20 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:57068875 original size:36 final size:36
Alignment explanation
Indices: 57068829--57068901 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
57068819 GGTAGCTTTA
57068829 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57068865 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
57068901 G
1 G
57068902 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:57068896 original size:82 final size:86
Alignment explanation
Indices: 57068793--57069040 Score: 333
Period size: 82 Copynumber: 2.8 Consensus size: 86
57068783 TTTGAGTACT
* *
57068793 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57068858 GATAAGTG-CT-A-T-ACTTA
66 GATAAGTGCCTCACTAACTTA
* *
57068875 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57068940 GATAAGTGGTAGCCTCAGCTACACTTA
66 GATAA---GT-GCCTCA-CTA-ACTTA
* * * *
57068967 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATTTGACCAAGTAAAAAAAG
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT-GAAAAAG
57069032 TGATAAGTG
65 TGATAAGTG
57069041 GTAGCCTAGC
Statistics
Matches: 146, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
82 67 0.46
85 2 0.01
86 1 0.01
87 2 0.01
88 1 0.01
89 1 0.01
90 3 0.02
92 58 0.40
93 11 0.08
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (86 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCCTCACTAACTTA
Found at i:57078756 original size:31 final size:31
Alignment explanation
Indices: 57078721--57078780 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
57078711 TTTTTTAATT
57078721 AATAGTTTAGTGACTTAAATGAAAACTTTTG
1 AATAGTTTAGTGACTTAAATGAAAACTTTTG
* *
57078752 AATAGTTTGGTGATTTAAATGAAAACTTT
1 AATAGTTTAGTGACTTAAATGAAAACTTT
57078781 CTACTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (31 bp):
AATAGTTTAGTGACTTAAATGAAAACTTTTG
Found at i:57078808 original size:31 final size:31
Alignment explanation
Indices: 57078768--57078827 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
57078758 TTGGTGATTT
* *
57078768 AAATGAAAACTT-TCTACTAATTTAGTGACCA
1 AAATAAAAACTTACCTA-TAATTTAGTGACCA
*
57078799 AAATAAAAACTTACCTATAGTTTAGTGAC
1 AAATAAAAACTTACCTATAATTTAGTGAC
57078828 TAATAATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (31 bp):
AAATAAAAACTTACCTATAATTTAGTGACCA
Found at i:57080264 original size:42 final size:42
Alignment explanation
Indices: 57080110--57080282 Score: 184
Period size: 42 Copynumber: 4.1 Consensus size: 42
57080100 ACGCCGGTAA
**** * *
57080110 CTAAAGGTCATGTTCTTTAGCGGCGCTACAAAAAAAATGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCAACAAACGCCG
* * * *
57080152 CTAAAGGTCAGGGTCTTTAGCGGCGCTTTTCCTACAAACACCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTT-CAACAAACGCCG
* *
57080195 CTAAAGGTCATGTTTTTTAGCGACGCTTTTCAACAAACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCAACAAACGCCG
* * * *
57080237 CTGAAGATCATGTTCTTTAGCGGCGCTTGTTCCACAAATGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGCTT-TTCAACAAACGCCG
57080280 CTA
1 CTA
57080283 TTTGTTTGGT
Statistics
Matches: 106, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
42 59 0.56
43 47 0.44
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTTTAGCGGCGCTTTTCAACAAACGCCG
Found at i:57080282 original size:85 final size:85
Alignment explanation
Indices: 57080110--57080274 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 85
57080100 ACGCCGGTAA
* * *
57080110 CTAAAGGTCATGTTCTTTAGCGGCGCTACAAAAAAAATGCCGCTAAAGGTCAGGGTCTTTAGCGG
1 CTAAAGGTCATGTTCTTTAGCGACGCTACAAAAAAAACGCCGCTAAAGATCAGGGTCTTTAGCGG
57080175 CGCTTTTCCTACAAACACCG
66 CGCTTTTCCTACAAACACCG
* **** * * * *
57080195 CTAAAGGTCATGTTTTTTAGCGACGCTTTTCAACAAACGCCGCTGAAGATCATGTTCTTTAGCGG
1 CTAAAGGTCATGTTCTTTAGCGACGCTACAAAAAAAACGCCGCTAAAGATCAGGGTCTTTAGCGG
57080260 CGCTTGTTCC-ACAAA
66 CGCTT-TTCCTACAAA
57080275 TGCCGCTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
85 63 0.94
86 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (85 bp):
CTAAAGGTCATGTTCTTTAGCGACGCTACAAAAAAAACGCCGCTAAAGATCAGGGTCTTTAGCGG
CGCTTTTCCTACAAACACCG
Found at i:57080655 original size:21 final size:21
Alignment explanation
Indices: 57080631--57080679 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
57080621 TCTGCTCTGT
* *
57080631 TCTGCTTCCCTCGCTGCAGCG
1 TCTGCTTCCCTCGATGCAGCA
* *
57080652 TCTGCTTCTCTCGATGCCGCA
1 TCTGCTTCCCTCGATGCAGCA
57080673 TCTGCTT
1 TCTGCTT
57080680 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.39, G:0.20, T:0.35
Consensus pattern (21 bp):
TCTGCTTCCCTCGATGCAGCA
Found at i:57080744 original size:21 final size:21
Alignment explanation
Indices: 57080716--57080787 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
57080706 TTCTTTTGAA
*
57080716 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
57080737 CCTTTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
* *
57080758 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTGCAG
57080779 CCTCTGCTT
1 CCTCTGCTT
57080788 TAAGTTGTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:57080822 original size:108 final size:108
Alignment explanation
Indices: 57080633--57080827 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 108
57080623 TGCTCTGTTC
* * *
57080633 TGCTTCCCTCGCTGCAGCGTCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTT
1 TGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTT
*
57080698 CTTCATATTTCTTTTGAACCTCTGCTTCTCTCGCTGCAGCCTT
66 CTTCATATTTCCTTTGAACCTCTGCTTCTCTCGCTGCAGCCTT
* * *
57080741 TGCTTCCCTCGCTGCCGCCTCTGCTTCCCTCGCTACCGCCTCTGCTTTAAGTTGTAGCTGGAGTT
1 TGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTT
57080806 CTTCATATTTCCTTTGAACCTC
66 CTTCATATTTCCTTTGAACCTC
57080828 AACTGTGGTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.11, C:0.33, G:0.18, T:0.38
Consensus pattern (108 bp):
TGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTT
CTTCATATTTCCTTTGAACCTCTGCTTCTCTCGCTGCAGCCTT
Found at i:57084645 original size:22 final size:22
Alignment explanation
Indices: 57084620--57084665 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
57084610 AAACTCTATT
*
57084620 CCTTAGACCC-TAAATCGTAAAC
1 CCTTA-ACCCTTAAACCGTAAAC
*
57084642 CCTTAACCCTTAAACCTTAAAC
1 CCTTAACCCTTAAACCGTAAAC
57084664 CC
1 CC
57084666 ATGAACCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.37, G:0.04, T:0.24
Consensus pattern (22 bp):
CCTTAACCCTTAAACCGTAAAC
Found at i:57085063 original size:39 final size:40
Alignment explanation
Indices: 57084977--57085064 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 40
57084967 CCGACCATAT
* *
57084977 TCCTTAAACCCTGAATCATAGAACATATATAAACCTTAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCTTAAA
57085017 TCC-TAAACCCTAAATCATAAAACATATATAAA-CTATAAA
1 TCCTTAAACCCTAAATCATAAAACATATATAAACCT-TAAA
57085056 -CCTTAAACC
1 TCCTTAAACC
57085065 TCAACCCTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 4 0.09
39 37 0.84
40 3 0.07
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (40 bp):
TCCTTAAACCCTAAATCATAAAACATATATAAACCTTAAA
Found at i:57085733 original size:208 final size:208
Alignment explanation
Indices: 57085455--57086114 Score: 1043
Period size: 208 Copynumber: 3.2 Consensus size: 208
57085445 TTTTGGCAAT
* * * * * * * * *
57085455 GCGCCACTAATGTCTCTAAATCTGAAAAAGAAAACGCTATCGTTTGCCTAAAACTATTATCGATA
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACCGATA
*
57085520 ATGCTTGAATTTTGCGGCATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
66 ATGCTTGACTTTTGCGGCATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
*
57085585 CGGCGTATGCTTAAAACTTTTTGCAGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
131 CGGCGTATGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
* *
57085650 TGATTTCTTCGAA
196 CGATTTCTTTGAA
* *
57085663 GCACCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCATTTGCCTAAAACTATTACCGATA
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACCGATA
* *
57085728 ATGCTTGACTTTTGCCGTATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
66 ATGCTTGACTTTTGCGGCATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
* *
57085793 CGACGTATGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGTGG
131 CGGCGTATGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
57085858 CGATTTCTTTGAA
196 CGATTTCTTTGAA
*
57085871 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCGTTTGCCTAAAACTATTACCGATA
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACCGATA
* * * *
57085936 ATGCTTGACTTTTACGGCATTTTTTGCAAAGCGTCACTAATGTCCCTAAGCACAACAGAAAACGA
66 ATGCTTGACTTTTGCGGCATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
* * * *
57086001 CGGCGTATGCTTAAAACTTTTTACGGCGCTTCCTCTAAAGCACTGCTAATGATTGACTTCAGCGA
131 CGGCGTATGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
*
57086066 CGATTTCTTTGTA
196 CGATTTCTTTGAA
57086079 GCGCCACTATTG-GTTCTAAAACTCAACAAGAAAACG
1 GCGCCACTATTGTG-TCTAAAACTCAACAAGAAAACG
57086115 ACGTCGTTCG
Statistics
Matches: 416, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
207 1 0.00
208 415 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (208 bp):
GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACCGATA
ATGCTTGACTTTTGCGGCATTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
CGGCGTATGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
CGATTTCTTTGAA
Found at i:57096122 original size:42 final size:42
Alignment explanation
Indices: 57096066--57096165 Score: 191
Period size: 42 Copynumber: 2.4 Consensus size: 42
57096056 CTATATGAAC
*
57096066 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
57096108 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
57096150 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
57096166 TACCGAGAGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
Found at i:57098054 original size:23 final size:22
Alignment explanation
Indices: 57098011--57098054 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
57098001 TTTCAAGTCA
57098011 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
57098034 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
57098055 TTCTTAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:57098151 original size:23 final size:23
Alignment explanation
Indices: 57098125--57098171 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
57098115 ATAAGTGCCA
*
57098125 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
57098148 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
57098171 C
1 C
57098172 GAAGCTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:57098179 original size:32 final size:32
Alignment explanation
Indices: 57098138--57098203 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57098128 TGATATGTAG
57098138 CCGAAGCTACCACTGAAATGTAGCCGAAGCTA
1 CCGAAGCTACCACTGAAATGTAGCCGAAGCTA
57098170 CCGAAGCTACCACTGAAATGTAGCCGAAGCTA
1 CCGAAGCTACCACTGAAATGTAGCCGAAGCTA
57098202 CC
1 CC
57098204 ACTGATCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.15
Consensus pattern (32 bp):
CCGAAGCTACCACTGAAATGTAGCCGAAGCTA
Found at i:57099918 original size:23 final size:24
Alignment explanation
Indices: 57099881--57099970 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 24
57099871 TTCAATTCAA
57099881 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTTGGTGTAAAAATGCT
** * *
57099905 GTCCAA-TTTGGTGTCTATATACT
1 GTCCAATTTTGGTGTAAAAATGCT
* * **
57099928 GCCCAA-TTTGGTGTATATTTGCT
1 GTCCAATTTTGGTGTAAAAATGCT
**
57099951 GTTAAATTTTGGTGTAAAAA
1 GTCCAATTTTGGTGTAAAAA
57099971 AAATGTTGTA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 35 0.69
24 16 0.31
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (24 bp):
GTCCAATTTTGGTGTAAAAATGCT
Found at i:57103080 original size:28 final size:28
Alignment explanation
Indices: 57103047--57103106 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
57103037 ACTTGTGTTA
57103047 CAAACTTTGTGAGATAAACAGTTGTATG
1 CAAACTTTGTGAGATAAACAGTTGTATG
57103075 CAAACTTTGTGAGATAAACAGTTGTATG
1 CAAACTTTGTGAGATAAACAGTTGTATG
57103103 CAAA
1 CAAA
57103107 GTTTAGTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (28 bp):
CAAACTTTGTGAGATAAACAGTTGTATG
Found at i:57110661 original size:46 final size:46
Alignment explanation
Indices: 57110611--57110757 Score: 165
Period size: 46 Copynumber: 3.3 Consensus size: 46
57110601 TATTCTGCCA
* * *
57110611 GCCTTTATGACGCATTTTGTTAGACTTTGTAGCGTAATCTGATTTG
1 GCCTTTATGGCGCATTTTGTTAGCCTTTGTGGCGTAATCTGATTTG
* * * ** *
57110657 GCCTTTATGGCGTATTTTGCTAGCCTTTGTGGTGTCTTCT-A-TTA
1 GCCTTTATGGCGCATTTTGTTAGCCTTTGTGGCGTAATCTGATTTG
* * *
57110701 GCCTTTGTGGCACATTTT-TTAGCCTTTGCGGCGTAATCTGATTTG
1 GCCTTTATGGCGCATTTTGTTAGCCTTTGTGGCGTAATCTGATTTG
57110746 GCCTTTATGGCG
1 GCCTTTATGGCG
57110758 TATTCTACTA
Statistics
Matches: 79, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
43 16 0.20
44 18 0.23
45 13 0.16
46 32 0.41
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (46 bp):
GCCTTTATGGCGCATTTTGTTAGCCTTTGTGGCGTAATCTGATTTG
Found at i:57110707 original size:68 final size:68
Alignment explanation
Indices: 57110555--57110708 Score: 184
Period size: 68 Copynumber: 2.3 Consensus size: 68
57110545 GTTTGTGGCA
* * * *
57110555 CATTCTATTAACCTTTGTGGTGTAATCTGATTTGGCTTTTATGGCGTATTCTGCCAGCCTTTATG
1 CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTATG
57110620 ACG
66 ACG
* * * * * *
57110623 CATTTTGTTAGACTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTTTGCTAGCCTTTGTG
1 CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTATG
**
57110688 GTG
66 ACG
57110691 TC-TTCTATTAGCCTTTGT
1 -CATTCTATTAGCCTTTGT
57110709 GGCACATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
68 69 0.99
69 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (68 bp):
CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTATG
ACG
Found at i:57116456 original size:22 final size:22
Alignment explanation
Indices: 57116431--57116503 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
57116421 ATAAGTTAGC
*
57116431 AACCTGGTGAACCTTACCATTA
1 AACCTGGTGGACCTTACCATTA
* *
57116453 AACCTGGTGGACCTTACAATTC
1 AACCTGGTGGACCTTACCATTA
*** *
57116475 AACCTAACGGACCTTACCATTT
1 AACCTGGTGGACCTTACCATTA
57116497 AACCTGG
1 AACCTGG
57116504 CAGGCTCTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (22 bp):
AACCTGGTGGACCTTACCATTA
Found at i:57118896 original size:25 final size:24
Alignment explanation
Indices: 57118859--57118927 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
57118849 CAAACCGACC
57118859 CACAACTCGTGTGAGCATTTA-CAGT
1 CACAACTC-TGTGAGCATTTATC-GT
* *
57118884 TACAACTCATGTGATCATTTATCGT
1 CACAACTC-TGTGAGCATTTATCGT
57118909 CACAACTTCTGTGAGCATT
1 CACAAC-TCTGTGAGCATT
57118928 GTTCTCGCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (24 bp):
CACAACTCTGTGAGCATTTATCGT
Found at i:57121146 original size:52 final size:52
Alignment explanation
Indices: 57121068--57121173 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
57121058 GAGCCTATTT
** *
57121068 ATAGGCTAAATTTGTAGGTCAAATAATCTTAAAATAAGCCACACTAATTAGA
1 ATAGGCTAAATTCATAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
* *
57121120 ATAGGTTAAATTCATAGGTCAAATAATCTTAAAATAATCCACACTAATCAGA
1 ATAGGCTAAATTCATAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
57121172 AT
1 AT
57121174 TTGATTGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.29
Consensus pattern (52 bp):
ATAGGCTAAATTCATAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
Found at i:57124756 original size:27 final size:27
Alignment explanation
Indices: 57124705--57124756 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
57124695 ACATATCAAA
*
57124705 TTATAATATTTTTATTTTCATATTACT
1 TTATAATATTTTTATGTTCATATTACT
57124732 TTATAAT-TTATTTAATGTTCA-ATTA
1 TTATAATATT-TTT-ATGTTCATATTA
57124757 TTATAACCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.09
27 14 0.64
28 6 0.27
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATAATATTTTTATGTTCATATTACT
Found at i:57126193 original size:27 final size:27
Alignment explanation
Indices: 57126155--57126210 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
57126145 AAGTCACTTG
57126155 ATGAGAAATGAGAAATTTGTGGGAGGT
1 ATGAGAAATGAGAAATTTGTGGGAGGT
57126182 ATGAGAAATGAGAAATTTGTGGGAGGT
1 ATGAGAAATGAGAAATTTGTGGGAGGT
57126209 AT
1 AT
57126211 TTATAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (27 bp):
ATGAGAAATGAGAAATTTGTGGGAGGT
Found at i:57128435 original size:14 final size:14
Alignment explanation
Indices: 57128416--57128442 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57128406 TAGATTTTAG
57128416 AATTATTTTATTTT
1 AATTATTTTATTTT
57128430 AATTATTTTATTT
1 AATTATTTTATTT
57128443 AAATATTATT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTATTTTATTTT
Found at i:57132457 original size:12 final size:12
Alignment explanation
Indices: 57132440--57132465 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57132430 AATATTATTG
57132440 TTGCCACGTATC
1 TTGCCACGTATC
57132452 TTGCCACGTATC
1 TTGCCACGTATC
57132464 TT
1 TT
57132466 AGACTTAACA
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (12 bp):
TTGCCACGTATC
Found at i:57136741 original size:17 final size:16
Alignment explanation
Indices: 57136721--57136768 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
57136711 CTTAATTAGT
*
57136721 TAATCTATCAAATTAA
1 TAATCTATCAAATCAA
*
57136737 CTAATTTTATCAAATCAA
1 -TAA-TCTATCAAATCAA
57136755 TAATCTATCCAAAT
1 TAATCTAT-CAAAT
57136769 ATTCTACGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATCTATCAAATCAA
Found at i:57142766 original size:50 final size:50
Alignment explanation
Indices: 57142685--57142782 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
57142675 ACCTTATTCT
* * *
57142685 AATCAATGTCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTAC
1 AATCAATATCAAATAGAAAAAGAGAACTTCTATACAGATTCCACTTGTAC
* * **
57142735 AATCAATATCAAATAGAAAAAGTGTACTTCTATATGGATTCCACTTGT
1 AATCAATATCAAATAGAAAAAGAGAACTTCTATACAGATTCCACTTGT
57142783 GCGCCTGTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAAAGAGAACTTCTATACAGATTCCACTTGTAC
Found at i:57144611 original size:19 final size:21
Alignment explanation
Indices: 57144587--57144627 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
57144577 ATTACCTATC
57144587 ACATTTAATT-CATC-TATAT
1 ACATTTAATTCCATCATATAT
*
57144606 ACATTTCATTCCATCATATAT
1 ACATTTAATTCCATCATATAT
57144627 A
1 A
57144628 TATTCCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
ACATTTAATTCCATCATATAT
Found at i:57154375 original size:31 final size:31
Alignment explanation
Indices: 57154337--57154437 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
57154327 TAATCACATT
*
57154337 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
57154368 AATATTAAATT-A-AATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
* * *
57154398 GATATTAAATTAATAAAATACTATTTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
57154429 AATATTAAA
1 AATATTAAA
57154438 ATTATGAGAT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
29 9 0.17
30 14 0.26
31 23 0.43
32 8 0.15
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:57154883 original size:85 final size:85
Alignment explanation
Indices: 57154740--57154909 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
57154730 ATACACTTGG
*
57154740 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAGGTCCAATCTTCGATCTCA
1 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAAGTCCAATCTTCGATCTCA
57154805 GGTCCAATTTTTAAGTTCAA
66 GGTCCAATTTTTAAGTTCAA
*
57154825 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAAGTCCAATCTTCGATCTCG
1 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAAGTCCAATCTTCGATCTCA
57154890 GGTCCAATTTTTAAGTTCAA
66 GGTCCAATTTTTAAGTTCAA
57154910 TTACCCATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (85 bp):
CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAAGTCCAATCTTCGATCTCA
GGTCCAATTTTTAAGTTCAA
Found at i:57158951 original size:41 final size:39
Alignment explanation
Indices: 57158829--57158964 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 39
57158819 ATCAGTTTGG
* * *
57158829 CACCCAGTGCCTCATCGAATAATTCAAAGGAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAA-GAATAAATTGA
* * *
57158869 CACCCAGTGTCTCATC-AGATAAACCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGA-ATAATCCGAAGAATAAATTGA
*
57158906 CACCCATTGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAG-AATAAATTGA
*
57158947 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
57158965 CTCAAAGTCG
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
37 21 0.27
38 10 0.13
39 2 0.03
40 22 0.28
41 23 0.29
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGAATAAATTGA
Found at i:57159853 original size:16 final size:15
Alignment explanation
Indices: 57159832--57159863 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
57159822 ACTTTTCTCC
57159832 TTCTTTCTTTCTCTTT
1 TTCTTTCTTTCT-TTT
57159848 TTCTTTCTTTCTTTT
1 TTCTTTCTTTCTTTT
57159863 T
1 T
57159864 CCTCCCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTCTTTCTTTT
Found at i:57161952 original size:107 final size:108
Alignment explanation
Indices: 57161810--57162049 Score: 311
Period size: 107 Copynumber: 2.2 Consensus size: 108
57161800 GGGTATAACA
* * *
57161810 GTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCTTATGAGGGTATTTCAGTTATTCTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCTTATGAGGGTATTTCAGTCAATCTACC
* * * * *
57161875 CTATGGGGGTACTTCGGTCATTTTATCCTATGGGGGTATTTCG
66 CTATGAGGGTACTTCAGTCATTTAACCCTATGAGGGTATTTCG
* * *
57161918 GTCATTTTACCC-CTGAGGGTATTTCAGTCATTCTACCTTATGGGGGTATTTCGGTCAATCTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCTTATGAGGGTATTTCAGTCAATCTACC
* *
57161982 CTATGAGGGTATTTCAGTCATTTAACCCTATGAGGGTATTTTG
66 CTATGAGGGTACTTCAGTCATTTAACCCTATGAGGGTATTTCG
* * * * *
57162025 ATCATTCTATCTTATGGGGGTATTT
1 GTCATTTTACCCTATGAGGGTATTT
57162050 TGGTCATTTT
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 90 0.80
108 22 0.20
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (108 bp):
GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCTTATGAGGGTATTTCAGTCAATCTACC
CTATGAGGGTACTTCAGTCATTTAACCCTATGAGGGTATTTCG
Found at i:57161997 original size:134 final size:134
Alignment explanation
Indices: 57161808--57162060 Score: 373
Period size: 134 Copynumber: 1.9 Consensus size: 134
57161798 AGGGGTATAA
* * * *
57161808 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCTTATGAGGGTATTTCAGTTATTCT-
1 CAGTCATTCTACCCTATGAGGGTATTTCGGTCAATCTACCCTATGAGGGTATTTCAGTCATT-TA
* * *
57161872 ACCCTATGGGGGTACTTCGGTCATTTTATCCTATGGGGGTATTTCGGTCATTTTACCCCTGAGGG
65 ACCCTATGAGGGTACTTCGATCATTCTATCCTATGGGGGTATTTCGGTCATTTTACCCCTGAGGG
57161937 TATTT
130 TATTT
* *
57161942 CAGTCATTCTACCTTATGGGGGTATTTCGGTCAATCTACCCTATGAGGGTATTTCAGTCATTTAA
1 CAGTCATTCTACCCTATGAGGGTATTTCGGTCAATCTACCCTATGAGGGTATTTCAGTCATTTAA
* * * *
57162007 CCCTATGAGGGTATTTTGATCATTCTATCTTATGGGGGTATTTTGGTCATTTTA
66 CCCTATGAGGGTACTTCGATCATTCTATCCTATGGGGGTATTTCGGTCATTTTA
57162061 TCCTATGGAG
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
133 1 0.01
134 104 0.99
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (134 bp):
CAGTCATTCTACCCTATGAGGGTATTTCGGTCAATCTACCCTATGAGGGTATTTCAGTCATTTAA
CCCTATGAGGGTACTTCGATCATTCTATCCTATGGGGGTATTTCGGTCATTTTACCCCTGAGGGT
ATTT
Found at i:57162077 original size:27 final size:27
Alignment explanation
Indices: 57161810--57162083 Score: 284
Period size: 27 Copynumber: 10.2 Consensus size: 27
57161800 GGGTATAACA
*
57161810 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
* *
57161837 GTCATTCTACCTTATGAGGGTATTTCA
1 GTCATTCTACCCTATGAGGGTATTTCG
* * *
57161864 GTTATTCTACCCTATGGGGGTACTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
* * *
57161891 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
* * *
57161918 GTCATTTTACCC-CTGAGGGTATTTCA
1 GTCATTCTACCCTATGAGGGTATTTCG
* *
57161944 GTCATTCTACCTTATGGGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
* *
57161971 GTCAATCTACCCTATGAGGGTATTTCA
1 GTCATTCTACCCTATGAGGGTATTTCG
*
57161998 GTCATT-TAACCCTATGAGGGTATTTTG
1 GTCATTCT-ACCCTATGAGGGTATTTCG
* * * * *
57162025 ATCATTCTATCTTATGGGGGTATTTTG
1 GTCATTCTACCCTATGAGGGTATTTCG
* * *
57162052 GTCATTTTATCCTATG-GAGGTATTTTG
1 GTCATTCTACCCTATGAG-GGTATTTCG
57162079 GTCAT
1 GTCAT
57162084 AACAGTATAA
Statistics
Matches: 208, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.11
27 184 0.88
28 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GTCATTCTACCCTATGAGGGTATTTCG
Found at i:57162720 original size:24 final size:24
Alignment explanation
Indices: 57162695--57162741 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
57162685 CCAAAACCCC
57162695 AATATTCTCTCATCAAATCTCTCCA
1 AATA-TCTCTCATCAAATCTCTCCA
* *
57162720 AATATCTCTCCTCAATTCTCTC
1 AATATCTCTCATCAAATCTCTC
57162742 TATGACCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATCTCTCATCAAATCTCTCCA
Found at i:57165029 original size:27 final size:27
Alignment explanation
Indices: 57165007--57165247 Score: 258
Period size: 27 Copynumber: 9.0 Consensus size: 27
57164997 GGGGTATAAT
*
57165007 AGTCATTTTACCCTATGGAGGTATTTT
1 AGTCATTTTACCCTATGGAGGTATTTC
*
57165034 GGTCATTTTACCCTAT-GAGGGTATTTC
1 AGTCATTTTACCCTATGGA-GGTATTTC
* * *
57165061 GGTCATTTTACCTTATAGG-GGTATTTT
1 AGTCATTTTACCCTAT-GGAGGTATTTC
* *
57165088 GGTCATTCTACCCTATGG-GGTATTTC
1 AGTCATTTTACCCTATGGAGGTATTTC
* * *
57165114 -GATTATTCTACCCTATAGAGGTATTTC
1 AG-TCATTTTACCCTATGGAGGTATTTC
*
57165141 AATCATTTTACCCTATTGG-GGTATTTC
1 AGTCATTTTACCCTA-TGGAGGTATTTC
*
57165168 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGAGGTATTTC
* * *
57165195 AGTCATTCTACCCAATGGGGGTATTTC
1 AGTCATTTTACCCTATGGAGGTATTTC
* *
57165222 GGTTATTTTACCCTATGGAGGTATTT
1 AGTCATTTTACCCTATGGAGGTATTT
57165248 TGGTCATAAC
Statistics
Matches: 185, Mismatches: 21, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 28 0.15
27 153 0.83
28 2 0.01
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGAGGTATTTC
Found at i:57165056 original size:54 final size:53
Alignment explanation
Indices: 57165007--57165254 Score: 293
Period size: 54 Copynumber: 4.6 Consensus size: 53
57164997 GGGGTATAAT
*
57165007 AGTCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCCTATG-GGGTATTTC
* *
57165061 GGTCATTTTACCTTATAGG-GGTATTTTGGTCATTCTACCCTATGGGGTATTTC
1 AGTCATTTTACCCTAT-GGAGGTATTTTGGTCATTCTACCCTATGGGGTATTTC
* * * *** *
57165114 -GATTATTCTACCCTATAGAGGTATTTCAATCATTTTACCCTATTGGGGTATTTC
1 AG-TCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCCTA-TGGGGTATTTC
* ** *
57165168 AGTCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCAATGGGGGTATTTC
1 AGTCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCCTAT-GGGGTATTTC
* *
57165222 GGTTATTTTACCCTATGGAGGTATTTTGGTCAT
1 AGTCATTTTACCCTATGGAGGTATTTTGGTCAT
57165255 AACAGTGTAA
Statistics
Matches: 165, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.01
53 40 0.24
54 120 0.73
55 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (53 bp):
AGTCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCCTATGGGGTATTTC
Found at i:57165149 original size:107 final size:108
Alignment explanation
Indices: 57165015--57165247 Score: 335
Period size: 107 Copynumber: 2.2 Consensus size: 108
57165005 ATAGTCATTT
*** * *
57165015 TACCCTATGGAGGTATTTTGGTCATTTTACCCTA-TGAGGGTATTTCGGTCATTTTACCTTATAG
1 TACCCTATGGAGGTATTTCAATCATTTTACCCTATTG-GGGTATTTCAGTCATTTTACCCTATAG
** *
57165079 GGGTATTTTGGTCATTCTACCCTAT-GGGGTATTTCGATTATTC
65 GGGTATTTCAGTCATTCTACCCAATGGGGGTATTTCGATTATTC
* *
57165122 TACCCTATAGAGGTATTTCAATCATTTTACCCTATTGGGGTATTTCAGTCATTTTACCCTATGGG
1 TACCCTATGGAGGTATTTCAATCATTTTACCCTATTGGGGTATTTCAGTCATTTTACCCTATAGG
* *
57165187 GGTATTTCAGTCATTCTACCCAATGGGGGTATTTCGGTTATTT
66 GGTATTTCAGTCATTCTACCCAATGGGGGTATTTCGATTATTC
57165230 TACCCTATGGAGGTATTT
1 TACCCTATGGAGGTATTT
57165248 TGGTCATAAC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
107 76 0.68
108 35 0.32
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (108 bp):
TACCCTATGGAGGTATTTCAATCATTTTACCCTATTGGGGTATTTCAGTCATTTTACCCTATAGG
GGTATTTCAGTCATTCTACCCAATGGGGGTATTTCGATTATTC
Found at i:57170732 original size:46 final size:46
Alignment explanation
Indices: 57170659--57170747 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
57170649 TTACTGTATG
* * * *
57170659 ATATCGGTTGTATTGGTTGATATGTATAAGTTCTAAACCAATATCA
1 ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATATCA
*
57170705 ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAATCAATA
1 ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATA
57170748 CTAAGTAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (46 bp):
ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATATCA
Found at i:57171856 original size:16 final size:16
Alignment explanation
Indices: 57171837--57171871 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57171827 TTGAAAAATT
57171837 TTTCAAATATATATGA
1 TTTCAAATATATATGA
* *
57171853 TTTCAAATTTATGTGA
1 TTTCAAATATATATGA
57171869 TTT
1 TTT
57171872 AACATGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (16 bp):
TTTCAAATATATATGA
Found at i:57176066 original size:16 final size:18
Alignment explanation
Indices: 57176039--57176082 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
57176029 TCCTAATCCA
*
57176039 TAAACAACTTCATACC-T
1 TAAACAAATTCATACCTT
*
57176056 T-AACAAATTCATTCCTT
1 TAAACAAATTCATACCTT
57176073 TAAACAAATT
1 TAAACAAATT
57176083 TCATTGCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.52
17 3 0.13
18 8 0.35
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAACAAATTCATACCTT
Found at i:57178815 original size:25 final size:25
Alignment explanation
Indices: 57178749--57178877 Score: 113
Period size: 25 Copynumber: 5.2 Consensus size: 25
57178739 TTCATATTCA
*
57178749 GGAATGCTCATGTGAG-CATATAAACG
1 GGAA-GCTCATGCGAGCCATAT-AACG
* * * *
57178775 GGTAGCTCTTCCGAGCCATGTAACG
1 GGAAGCTCATGCGAGCCATATAACG
* *
57178800 GGAAGCTCATGTGAGCCATATAATG
1 GGAAGCTCATGCGAGCCATATAACG
* *
57178825 GGAAGCTC-TAGAGAGCCA-CTAACG
1 GGAAGCTCAT-GCGAGCCATATAACG
*
57178849 GGAAGCTCATACGAGCCA-ATAACG
1 GGAAGCTCATGCGAGCCATATAACG
57178873 GGAAG
1 GGAAG
57178878 GTTCAAGTGA
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
24 29 0.35
25 47 0.57
26 7 0.08
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCCATATAACG
Found at i:57178832 original size:50 final size:49
Alignment explanation
Indices: 57178749--57178877 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 49
57178739 TTCATATTCA
* * * *
57178749 GGAATGCTCATGTGAG-CATATAAACGGGTAGCTCTTCCGAGCCATGTAACG
1 GGAA-GCTCATGTGAGCCATAT-AACGGGAAGCTCTACAGAGCCA-CTAACG
* *
57178800 GGAAGCTCATGTGAGCCATATAATGGGAAGCTCTAGAGAGCCACTAACG
1 GGAAGCTCATGTGAGCCATATAACGGGAAGCTCTACAGAGCCACTAACG
**
57178849 GGAAGCTCATACGAGCCA-ATAACGGGAAG
1 GGAAGCTCATGTGAGCCATATAACGGGAAG
57178878 GTTCAAGTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 10 0.15
49 21 0.31
50 28 0.41
51 9 0.13
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.19
Consensus pattern (49 bp):
GGAAGCTCATGTGAGCCATATAACGGGAAGCTCTACAGAGCCACTAACG
Found at i:57178856 original size:24 final size:24
Alignment explanation
Indices: 57178795--57178877 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
57178785 CCGAGCCATG
*
57178795 TAACGGGAAGCTC-ATGTGAGCCATA
1 TAACGGGAAGCTCTA-GAGAGCCA-A
* *
57178820 TAATGGGAAGCTCTAGAGAGCCAC
1 TAACGGGAAGCTCTAGAGAGCCAA
*
57178844 TAACGGGAAGCTCATA-CGAGCCAA
1 TAACGGGAAGCTC-TAGAGAGCCAA
57178868 TAACGGGAAG
1 TAACGGGAAG
57178878 GTTCAAGTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 28 0.56
25 21 0.42
26 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (24 bp):
TAACGGGAAGCTCTAGAGAGCCAA
Found at i:57181242 original size:16 final size:17
Alignment explanation
Indices: 57181207--57181244 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
57181197 AATAAACATC
*
57181207 TTAAAATAATTTCCCAAA
1 TTAAAAAAATTT-CCAAA
57181225 TTAAAAAAATTT-CAAA
1 TTAAAAAAATTTCCAAA
57181241 TTAA
1 TTAA
57181245 TTCTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTTCCAAA
Found at i:57188019 original size:19 final size:20
Alignment explanation
Indices: 57187973--57188022 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
57187963 GGGTTTGGAA
*
57187973 AGAAA-TAAAATTTTTGAGG
1 AGAAAGTAAAAGTTTTGAGG
* *
57187992 GGGAAGTAAAAGTTTT-AGG
1 AGAAAGTAAAAGTTTTGAGG
57188011 AGAAAGTAAAAG
1 AGAAAGTAAAAG
57188023 GAAAAAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (20 bp):
AGAAAGTAAAAGTTTTGAGG
Found at i:57188031 original size:74 final size:73
Alignment explanation
Indices: 57187918--57188077 Score: 225
Period size: 74 Copynumber: 2.2 Consensus size: 73
57187908 GAGGTTTGGA
* **
57187918 GGAAGTAAAAGTTTTGGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGGGTTTGGAAA-GAAATAAA
1 GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTT--AAAGGAAATAAA
57187982 ATTTTTGAGGG
64 ATTTTTG-GGG
*
57187993 GGAAGTAAAAGTTTTAGG-AGAAAGTAAAAGGAAAAAAGTTTTGGGAATTTAAAGGGAAGTAAAA
1 GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTTAAA-GGAAATAAAA
57188057 TTTTTGGGG
65 TTTTTGGGG
57188066 GGAAAGTAAAAG
1 GG-AAGTAAAAG
57188078 AGTTTGAGGG
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
72 3 0.04
73 5 0.06
74 53 0.68
75 17 0.22
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (73 bp):
GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTTAAAGGAAATAAAAT
TTTTGGGG
Found at i:57188056 original size:27 final size:27
Alignment explanation
Indices: 57187992--57188064 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
57187982 ATTTTTGAGG
57187992 GGGAAGTAAAAGTTTTAGGAGAAAGTAAA
1 GGGAAGTAAAAGTTTT-GG-GAAAGTAAA
* **
57188021 AGGAA--AAAAGTTTTGGGAATTTAAA
1 GGGAAGTAAAAGTTTTGGGAAAGTAAA
*
57188046 GGGAAGTAAAATTTTTGGG
1 GGGAAGTAAAAGTTTTGGG
57188065 GGGAAAGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 11 0.30
26 2 0.05
27 20 0.54
29 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (27 bp):
GGGAAGTAAAAGTTTTGGGAAAGTAAA
Found at i:57190289 original size:43 final size:43
Alignment explanation
Indices: 57190241--57190488 Score: 327
Period size: 43 Copynumber: 5.8 Consensus size: 43
57190231 GATTTTACAA
* * * *
57190241 AAACGCCGCTAAAGGTCATTACCTTTAGCGGTGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
*
57190284 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTTCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* *
57190327 AAATGCCGCTATAGATCATGA-CTTGTAGTGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTT-TAGCGGCGCTTCTCCCAC
* * * * **
57190370 AAACGCTGCTATAGATAATGACTTTTAGCGACGCTTCTCTTAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * *
57190413 AAATGCTGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
*
57190456 AAACACCGCTATAGATCATGACCTTTAGCGGCG
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCG
57190489 TTTTTTTATA
Statistics
Matches: 178, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 3 0.02
43 173 0.97
44 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
Found at i:57190878 original size:21 final size:21
Alignment explanation
Indices: 57190833--57190878 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57190823 CCTCTGCTCT
* *
57190833 GCTTCTCTCGCTGCAGCCTCT
1 GCTTCTCTCGCTGCAGCATCA
*
57190854 GCTTCTCTCGCTGCTGCATCA
1 GCTTCTCTCGCTGCAGCATCA
57190875 GCTT
1 GCTT
57190879 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.39, G:0.20, T:0.35
Consensus pattern (21 bp):
GCTTCTCTCGCTGCAGCATCA
Found at i:57190950 original size:21 final size:21
Alignment explanation
Indices: 57190920--57190965 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57190910 TTGAACTTCA
* *
57190920 GCTTCTCTCGATGCTGCCTCT
1 GCTTCCCTCGATGCTGCATCT
*
57190941 GCTTCCCTCGCTGCTGCATCT
1 GCTTCCCTCGATGCTGCATCT
57190962 GCTT
1 GCTT
57190966 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.39, G:0.20, T:0.37
Consensus pattern (21 bp):
GCTTCCCTCGATGCTGCATCT
Found at i:57190951 original size:87 final size:87
Alignment explanation
Indices: 57190833--57191031 Score: 290
Period size: 87 Copynumber: 2.3 Consensus size: 87
57190823 CCTCTGCTCT
* * *
57190833 GCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGCTC
1 GCTTCTCTCGATGCTGCCTCTGCTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGCTC
*
57190898 CTCATATTTTCTTTGAACTTCA
66 CTCATATTTTCTTTGAACCTCA
* * *
57190920 GCTTCTCTCGATGCTGCCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGTTGGAGTTC
1 GCTTCTCTCGATGCTGCCTCTGCTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGCTC
* * *
57190985 TTCGTATTTTCTTTGGACCTCA
66 CTCATATTTTCTTTGAACCTCA
* *
57191007 GCTTTTCTCGATGCTGCCTCCGCTT
1 GCTTCTCTCGATGCTGCCTCTGCTT
57191032 TAAGTTGAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 100 1.00
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.40
Consensus pattern (87 bp):
GCTTCTCTCGATGCTGCCTCTGCTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGCTC
CTCATATTTTCTTTGAACCTCA
Found at i:57191836 original size:19 final size:19
Alignment explanation
Indices: 57191812--57191848 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
57191802 TTTGAAAGTG
57191812 CGTAATACCTCTCCTTTTA
1 CGTAATACCTCTCCTTTTA
57191831 CGTAATACCTCTCCTTTT
1 CGTAATACCTCTCCTTTT
57191849 TTTGAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.32, G:0.05, T:0.43
Consensus pattern (19 bp):
CGTAATACCTCTCCTTTTA
Found at i:57194943 original size:27 final size:27
Alignment explanation
Indices: 57194892--57194943 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
57194882 GTTACTAAAA
* *
57194892 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTGAGTTTTATTTTGAAGAAT
57194919 TTCTC-TTGAGTTTTATTTTAGAAGA
1 TTCTCTTTGAGTTTTATTTT-GAAGA
57194944 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTATTTTGAAGAAT
Found at i:57199285 original size:41 final size:41
Alignment explanation
Indices: 57199225--57199381 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 41
57199215 TCTGACCTTT
* * *
57199225 GGGGGTTTAGCGACATTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
57199266 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCAGCGAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
57199307 GGGGTTTTTGCGGCGTTTTTTGAAAAAGCGCTGCTAATGCTC
1 GGGGTTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
57199349 GGGGCTTTAGTGTCGTTTTTGAAAAAGCACCGC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
57199382 AAAAAACATT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
41 65 0.66
42 34 0.34
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:57200849 original size:54 final size:54
Alignment explanation
Indices: 57200767--57200876 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
57200757 GCGTCCACGA
* *
57200767 GGGGGCGATTTGTTGCCACATCAGCAAAGCGCGCTGACGTGACTGCGATTTTCT
1 GGGGGCGATTTGTTGCCACATCAGCAAAGCGCGCTAACGTGACTGCGATTTCCT
* *
57200821 GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGCTAACGTGGCTGCGATTTCCT
1 GGGGGCGATTTGTTGCCACATCAGCAAAGCGCGCTAACGTGACTGCGATTTCCT
57200875 GG
1 GG
57200877 CGCGTGAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.25
Consensus pattern (54 bp):
GGGGGCGATTTGTTGCCACATCAGCAAAGCGCGCTAACGTGACTGCGATTTCCT
Found at i:57201476 original size:9 final size:9
Alignment explanation
Indices: 57201462--57201491 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
57201452 TTTTTTCTCC
57201462 AAAATCCTA
1 AAAATCCTA
57201471 AAAATCCTA
1 AAAATCCTA
*
57201480 AAAACCCTA
1 AAAATCCTA
57201489 AAA
1 AAA
57201492 CCCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATCCTA
Found at i:57209103 original size:26 final size:24
Alignment explanation
Indices: 57209056--57209103 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
57209046 ATTAAAATTG
**
57209056 TAAATATATTGATTTTTGCCTCCT
1 TAAATATATTGATTTTAACCTCCT
57209080 TAAATATATTGATTAATTAACCTC
1 TAAATATATTGATT--TTAACCTC
57209104 AAAAATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
26 6 0.30
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (24 bp):
TAAATATATTGATTTTAACCTCCT
Found at i:57212877 original size:13 final size:13
Alignment explanation
Indices: 57212867--57212914 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
57212857 TAAAAAGTAT
57212867 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
**
57212880 TTTTCTGAAGTGC
1 TTTTGAGAAGTGC
*
57212893 TTTTGAGAAGTGT
1 TTTTGAGAAGTGC
57212906 TTTTGAGAA
1 TTTTGAGAA
57212915 ATTTGAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:57215152 original size:19 final size:19
Alignment explanation
Indices: 57215106--57215154 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
57215096 AACAGCTTCA
* * *
57215106 AAATATTAAACTGAAGAGG
1 AAATATAAAACAGAAGAAG
*
57215125 AACTAATAAAACAGAAGAAG
1 AAAT-ATAAAACAGAAGAAG
57215145 AAATATAAAA
1 AAATATAAAA
57215155 GAAACTCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:57223134 original size:5 final size:6
Alignment explanation
Indices: 57223116--57223142 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57223106 AAAAAAACCA
57223116 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
57223143 CATAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:57227239 original size:14 final size:14
Alignment explanation
Indices: 57227203--57227239 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
57227193 ATATCAATCT
*
57227203 TACCATATTAGGCT
1 TACCATATTAGGCA
57227217 TACCATATTAGGCA
1 TACCATATTAGGCA
57227231 TACCATATT
1 TACCATATT
57227240 TCAATCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (14 bp):
TACCATATTAGGCA
Found at i:57228539 original size:21 final size:21
Alignment explanation
Indices: 57228513--57228574 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
57228503 TGAACACGCC
* *
57228513 AACAGAAGCTTATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTA
*
57228534 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
57228555 AACATAAGCTCATAAGAGCT
1 AACAGAAGCTCATAAGAGCT
57228575 GATTCACCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:57239348 original size:21 final size:21
Alignment explanation
Indices: 57239322--57239362 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57239312 ATCTGCTCAA
* *
57239322 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57239343 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57239363 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57242731 original size:17 final size:16
Alignment explanation
Indices: 57242702--57242747 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
57242692 TAATTATGTG
*
57242702 AAAAATATTTAAAAAT
1 AAAAAAATTTAAAAAT
*
57242718 TAAAAAATTCTAAAAAT
1 AAAAAAATT-TAAAAAT
57242735 AAATAAAATTTAA
1 AAA-AAAATTTAA
57242748 GTAATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAAATTTAAAAAT
Found at i:57243232 original size:10 final size:11
Alignment explanation
Indices: 57243212--57243255 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
57243202 GAAATAGAAT
57243212 ATTATTTAAAA
1 ATTATTTAAAA
57243223 ATTA-TTAAAA
1 ATTATTTAAAA
*
57243233 ACTA--TAAAA
1 ATTATTTAAAA
57243242 A-TATTTAAAA
1 ATTATTTAAAA
57243252 ATTA
1 ATTA
57243256 ATCTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 2 0.07
9 6 0.21
10 15 0.52
11 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTATTTAAAA
Found at i:57243654 original size:20 final size:20
Alignment explanation
Indices: 57243631--57243680 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
57243621 CTTTTTGTTC
57243631 ATTTTTATAACTTTTAAATG
1 ATTTTTATAACTTTTAAATG
* *
57243651 ATTTTTCAT-ACTTTTATATT
1 ATTTTT-ATAACTTTTAAATG
*
57243671 TTTTTTATAA
1 ATTTTTATAA
57243681 TTATTTAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTATAACTTTTAAATG
Found at i:57248294 original size:22 final size:24
Alignment explanation
Indices: 57248263--57248310 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
57248253 TTAGGGTTTT
57248263 TTTTTAC-TTTGGGGTTGTAATAA
1 TTTTTACTTTTGGGGTTGTAATAA
*
57248286 TTTTT-CTTTTGGGTTTGTAATAA
1 TTTTTACTTTTGGGGTTGTAATAA
57248309 TT
1 TT
57248311 ATTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (24 bp):
TTTTTACTTTTGGGGTTGTAATAA
Found at i:57248296 original size:23 final size:24
Alignment explanation
Indices: 57248270--57248319 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
57248260 TTTTTTTTAC
57248270 TTTGGGGTTGTAATAATT-TTTCT
1 TTTGGGGTTGTAATAATTATTTCT
* *
57248293 TTTGGGTTTGTAATAATTATTTTT
1 TTTGGGGTTGTAATAATTATTTCT
57248317 TTT
1 TTT
57248320 ATTTTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (24 bp):
TTTGGGGTTGTAATAATTATTTCT
Found at i:57258560 original size:18 final size:18
Alignment explanation
Indices: 57258534--57258574 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
57258524 AATATTTAAT
57258534 AAAAA-GGAAAACGATGC
1 AAAAATGGAAAACGATGC
57258551 AAAAATGGAAAACGATGC
1 AAAAATGGAAAACGATGC
57258569 AAAAAT
1 AAAAAT
57258575 TTTGGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.61, C:0.10, G:0.20, T:0.10
Consensus pattern (18 bp):
AAAAATGGAAAACGATGC
Done.